Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold58
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: 1582273
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 125418 characters in sequence are not A, C, G, or T
File 1 of 10
Found at i:5163 original size:51 final size:51
Alignment explanation
Indices: 5003--5173 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
4993 GAAATAACGA
* * *
5003 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
5055 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
5108 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
5159 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
5174 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:5219 original size:27 final size:28
Alignment explanation
Indices: 5156--5231 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
5146 AAAATAAAGT
*
5156 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
5184 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
5211 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
5232 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:7712 original size:13 final size:13
Alignment explanation
Indices: 7694--7719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7684 ACAAAGATCC
7694 ATGTATCGATACA
1 ATGTATCGATACA
7707 ATGTATCGATACA
1 ATGTATCGATACA
7720 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:7715 original size:33 final size:33
Alignment explanation
Indices: 7673--7739 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
7663 AAAATTTCCA
***
7673 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
7706 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
7739 A
1 A
7740 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:7783 original size:19 final size:18
Alignment explanation
Indices: 7759--7826 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
7749 CAGTAGCTAA
7759 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
7778 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
7793 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
7810 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
7827 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:7799 original size:13 final size:13
Alignment explanation
Indices: 7781--7805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7771 ACAATACTTA
7781 TGTATCGATACAT
1 TGTATCGATACAT
7794 TGTATCGATACA
1 TGTATCGATACA
7806 AAACTTATGT
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:7803 original size:32 final size:32
Alignment explanation
Indices: 7762--7824 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
7752 TAGCTAATTA
*
7762 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
7794 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
7825 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:7906 original size:21 final size:21
Alignment explanation
Indices: 7882--7938 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
7872 CATTTGTAGG
7882 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
7903 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
7924 ATGTATCGATACATT
1 ATGTATCGATACATT
7939 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:7949 original size:1 final size:1
Alignment explanation
Indices: 7943--7978 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
7933 TACATTTAAA
7943 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7979 CAAACACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11933 original size:1 final size:1
Alignment explanation
Indices: 11929--12013 Score: 80
Period size: 1 Copynumber: 85.0 Consensus size: 1
11919 TTCTTTTTCC
* * * * * * * *
11929 AAAAAAAAAAAACAAAAAAAAACAAACAAAAAAAAACAAACAAAAAAACAAAAAACAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
11994 AAACAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAA
12014 GAAGAATCTG
Statistics
Matches: 64, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:11949 original size:15 final size:14
Alignment explanation
Indices: 11929--12011 Score: 114
Period size: 14 Copynumber: 5.9 Consensus size: 14
11919 TTCTTTTTCC
11929 AAAAAAAAAAAACA
1 AAAAAAAAAAAACA
*
11943 AAAAAAAACAAACA
1 AAAAAAAAAAAACA
*
11957 AAAAAAAACAAACA
1 AAAAAAAAAAAACA
11971 AAAAAACAAAAAAC-
1 AAAAAA-AAAAAACA
*
11985 AAAAAAACAAAACA
1 AAAAAAAAAAAACA
11999 AAAAAAAAGAAAA
1 AAAAAAAA-AAAA
12012 AAGAAGAATC
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
13 6 0.10
14 46 0.74
15 10 0.16
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAACA
Found at i:13291 original size:55 final size:55
Alignment explanation
Indices: 13002--13791 Score: 909
Period size: 55 Copynumber: 14.0 Consensus size: 55
12992 GATGCCTTTT
* * *
13002 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGATGCTTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C----A
* * * * **
13062 CTTTTCAAAGCCCACACAAGTTGGTGGCAATTTCCAGTCCCCAAAGAGCAGGATG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
*
13117 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTTAAAGAGCAGGATGCTTT
1 CC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGA--C---
*
13181 TT
55 -A
* * * * *
13183 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCGGTCC-CCAAGAAGTAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG-AGCAGGACA
*
13238 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
* *
13293 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTT
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA--C----A
* * *
13354 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
*
13409 CCTTTCAAAGCCCACACAAGTTAGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACA
* * *
13464 CCTCTT-AAAGCCCACACGAGTTGGTGGCACCTTTT-AGTCCCCAAAGAGGAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAAGAGCAGGACA
*
13519 CCTTTCAAAGCCCACACAAGTTAGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACA
* *
13574 CCTCTT-AAAGCCCACACGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
13629 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACA
* * *
13684 CCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACG
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
*
13739 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
13792 TGCACTTTAT
Statistics
Matches: 636, Mismatches: 56, Indels: 81
0.82 0.07 0.10
Matches are distributed among these distances:
53 4 0.01
54 13 0.02
55 405 0.64
56 23 0.04
57 5 0.01
59 6 0.01
60 71 0.11
61 100 0.16
62 4 0.01
65 4 0.01
66 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
Found at i:14547 original size:21 final size:21
Alignment explanation
Indices: 14521--14574 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
14511 TATCCAAATG
14521 TATCGATACATTTGTAGAATC
1 TATCGATACATTTGTAGAATC
* *
14542 TATCGATACATTTGTGGAATG
1 TATCGATACATTTGTAGAATC
14563 TATCGATACATT
1 TATCGATACATT
14575 CTACAAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (21 bp):
TATCGATACATTTGTAGAATC
Found at i:14583 original size:21 final size:20
Alignment explanation
Indices: 14515--14593 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 20
14505 CATTTTTATC
*
14515 CAAATGTATCGATACATTTG
1 CAAATGTATCGATACATTTA
* * *
14535 TAGAATCTATCGATACATTTGT
1 CA-AATGTATCGATACATTT-A
**
14557 GGAATGTATCGATACATTCTA
1 CAAATGTATCGATACATT-TA
14578 CAAATGTATCGATACA
1 CAAATGTATCGATACA
14594 AGGTCCCAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 45 0.96
22 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Consensus pattern (20 bp):
CAAATGTATCGATACATTTA
Found at i:14696 original size:32 final size:32
Alignment explanation
Indices: 14650--14725 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
14640 ACATTCAGTA
**
14650 AATGTATCTATACATAAGTGTTGTATCGATAC
1 AATGTATCGCTACATAAGTGTTGTATCGATAC
*
14682 AATGTATCGCTACATAAGTTTTGTATCGATAC
1 AATGTATCGCTACATAAGTGTTGTATCGATAC
14714 AATGTATCGCTA
1 AATGTATCGCTA
14726 GGAAGCTACT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (32 bp):
AATGTATCGCTACATAAGTGTTGTATCGATAC
Found at i:14809 original size:34 final size:33
Alignment explanation
Indices: 14746--14812 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
14736 GCCAAGGAAA
*
14746 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
* *
14779 TGTATCGATACGTCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
14813 CTAGGAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:17209 original size:51 final size:51
Alignment explanation
Indices: 17144--17278 Score: 193
Period size: 53 Copynumber: 2.6 Consensus size: 51
17134 TTAAGTTTCT
* *
17144 CAATTGTT-CATAATCGGGGATACTCTAACCCGATTTTATTTTC-AAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCGATTTTATTTCCAAAAACAC
17194 CAATTTTCCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAAC-CCGATTTTATTTCC-AAAAACAC
*
17248 CAATTTTTCATAATCGGGGATACTCCAACCC
1 CAATTTTCCATAATCGGGGATACTCCAACCC
17279 CTGCTTTATT
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
49 2 0.03
50 6 0.08
51 19 0.25
52 15 0.19
53 20 0.26
54 15 0.19
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCGATTTTATTTCCAAAAACAC
Found at i:17329 original size:51 final size:51
Alignment explanation
Indices: 17151--17382 Score: 218
Period size: 51 Copynumber: 4.5 Consensus size: 51
17141 TCTCAATTGT
* ** * * ***
17151 TCATAATCGGGGATACTCTAA-CCCGATTTTATTTTCAAAACACCAATTT-
1 TCATAATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTC
* ** * *** *
17200 TCCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT
1 T-C-ATAATCGGGGATACTCCAACCCCGGCTTTATTTCC--AAAATATTGATTTC
* *
17255 TCATAATCGGGGATACTCCAACCCCTGCTTTA-TTCTTAAAATATTGATTTC
1 TCATAATCGGGGATACTCCAACCCCGGCTTTATTTC-CAAAATATTGATTTC
17306 TCATAATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTC
1 TCATAATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTC
* *
17357 TCGTAATTGGGGATACTCCAACCCCG
1 TCATAATCGGGGATACTCCAACCCCG
17383 TTATTTTCGA
Statistics
Matches: 158, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 96 0.61
52 19 0.12
53 26 0.16
54 14 0.09
55 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
TCATAATCGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTC
Found at i:17405 original size:28 final size:29
Alignment explanation
Indices: 17365--17419 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
17355 TCTCGTAATT
17365 GGGGATACTCCAACCCCG-TTATTTTCGA
1 GGGGATACTCCAACCCCGATTATTTTCGA
* *
17393 GGGGATACTCCAATCCCGATTTTTTTC
1 GGGGATACTCCAACCCCGATTATTTTC
17420 TAATCATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTTCGA
Found at i:24464 original size:20 final size:20
Alignment explanation
Indices: 24434--24492 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
24424 TCCATTTCAT
* *
24434 ATTTT-TTTCTTTTTTTTTC
1 ATTTTCTTTCTTTCTTCTTC
*
24453 CTTTTCTTTCTTTCTTCTTC
1 ATTTTCTTTCTTTCTTCTTC
*
24473 ATCTTCTTTCTTTCTATCTT
1 ATTTTCTTTCTTTCT-TCTT
24493 ACCTAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 4 0.12
20 25 0.76
21 4 0.12
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (20 bp):
ATTTTCTTTCTTTCTTCTTC
Found at i:26404 original size:1 final size:1
Alignment explanation
Indices: 26400--26460 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
26390 GGCATCCCAC
** * * * * * *
26400 AAAAAAAAAATGAAAAAAAACAACAAAAAAAAAACAAAAAAAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
26461 GAGAGAAAAG
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.02
Consensus pattern (1 bp):
A
Found at i:26430 original size:27 final size:24
Alignment explanation
Indices: 26400--26460 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
26390 GGCATCCCAC
**
26400 AAAAAAAAAATGAAAAAAAACAACA
1 AAAAAAAAAAAAAAAAAAAACAA-A
*
26425 AAAAAAAAACAAAAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAACAAA
* *
26449 ACAAAGAAAAAA
1 AAAAAAAAAAAA
26461 GAGAGAAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAAAAAACAAA
Found at i:26460 original size:11 final size:11
Alignment explanation
Indices: 26398--26449 Score: 77
Period size: 11 Copynumber: 4.5 Consensus size: 11
26388 AAGGCATCCC
26398 ACAAAAAAAAA
1 ACAAAAAAAAA
*
26409 ATGAAAAAAAACA
1 A-CAAAAAAAA-A
26422 ACAAAAAAAAA
1 ACAAAAAAAAA
26433 ACAAAAAAAAA
1 ACAAAAAAAAA
26444 ACAAAA
1 ACAAAA
26450 CAAAGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
11 19 0.51
12 16 0.43
13 2 0.05
ACGTcount: A:0.87, C:0.10, G:0.02, T:0.02
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:26469 original size:27 final size:27
Alignment explanation
Indices: 26400--26474 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
26390 GGCATCCCAC
*
26400 AAAAAAAA-AATGAAAAAAAACAACAA
1 AAAAAAAACAAAGAAAAAAAACAACAA
*
26426 AAAAAAAACAAA-AAAAAAACAAAACAA
1 AAAAAAAACAAAGAAAAAAA-ACAACAA
* * *
26453 AGAAAAAAGAGAGAAAAGAAAA
1 AAAAAAAACAAAGAAAA-AAAA
26475 GAACCTGCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 15 0.38
27 17 0.43
28 5 0.12
29 3 0.08
ACGTcount: A:0.84, C:0.07, G:0.08, T:0.01
Consensus pattern (27 bp):
AAAAAAAACAAAGAAAAAAAACAACAA
Found at i:27688 original size:117 final size:116
Alignment explanation
Indices: 27545--27790 Score: 341
Period size: 116 Copynumber: 2.1 Consensus size: 116
27535 CTTTTTACCC
* * *
27545 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCACAAACAAGTTGGTGGCAC-TTCCTAGTCCT
**
27610 CAAAGAGCAGGACACCTTTTT-CTTTCAAAGCCCACACAAGTTGGTGGCATTT
65 CAAAGAGCAGGA-ACCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * *
27662 TTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCATAAACAAGTTGGTGGCACTTCCTAGTTCTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCACAAACAAGTTGGTGGCACTTCCTAGTCCTC
* ** * *
27727 AAAGGGCAGGATGCTTTTTCCTTTTAAAGCCCACACATGTTGGTGGCACCT
66 AAAGAGCAGGAACCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
*
27778 TCTAGTCCTCAAA
1 TTTAGTCCTCAAA
27791 AAGCTAGACG
Statistics
Matches: 114, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
115 6 0.05
116 59 0.52
117 49 0.43
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (116 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCACAAACAAGTTGGTGGCACTTCCTAGTCCTC
AAAGAGCAGGAACCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
Found at i:27728 original size:55 final size:55
Alignment explanation
Indices: 27547--27790 Score: 254
Period size: 61 Copynumber: 4.2 Consensus size: 55
27537 TTTTACCCTT
27547 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTC
* * *
27603 TAGTCCTCAAAGAGCAGGACACCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
1 TAGTCCTCAAAGAGCAGGACGCC----T-TTT-AAAGCCCACACAAGTTGGTGGCACTTTC
* ** * *
27664 TAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCATAAACAAGTTGGTGGCACTTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
27719 TAGTTCTCAAAGGGCAGGATGCTTTTTCCTTTTAAAGCCCACACATGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGA--C----GCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
27780 TAGTCCTCAAA
1 TAGTCCTCAAA
27791 AAGCTAGACG
Statistics
Matches: 154, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
55 39 0.25
56 25 0.16
57 1 0.01
60 1 0.01
61 65 0.42
62 23 0.15
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (55 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:27937 original size:266 final size:266
Alignment explanation
Indices: 27449--28077 Score: 882
Period size: 266 Copynumber: 2.3 Consensus size: 266
27439 CACTTTTCAA
**
27449 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGCAGCACCTTCTAGTCCT
1 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT
* * * *
27514 CAAAGAGCAGGACGCTCTCTCCTTTTTACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGC
66 CAAAGAGCA-GACGCTCTCTCC-TTTCACCCTTTAGTCCTAAAAAAACAGGA---C--TTAAAGC
*
27579 CCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTCAAAGCCCA
124 CCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCA
* * * *
27644 CACAAGTTGGTGGCATTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCATAAACAAGTTGG
189 CACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCACAAACAAGTTGG
27709 TGGCACTTCCTAG
254 TGGCACTTCCTAG
* * * *
27722 TTCTCAAAGGGCAGGATGCTTTTTCCTTTTAAAGCCCACACATGTTGGTGGCACCTTCTAGTCCT
1 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT
*
27787 CAAAAAGCTAGACGCTCTCTCCTTTCACCCTTTAGTCCTAAAAAAACAGGA-TTAAAGCCCACAC
66 CAAAGAGC-AGACGCTCTCTCCTTTCACCCTTTAGTCCTAAAAAAACAGGACTTAAAGCCCACAC
*
27851 AAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAG
130 AAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAG
* * * *
27916 TTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCATACAAGTTGGTGGTAT
195 TTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCACAAACAAGTTGGTGGCAC
**
27981 TTTTTAG
260 TTCCTAG
* * * * ** *
27988 TCCTCAAAGAGTAGGATGCCCTTTCCTTTTAAAGCCTACAAAAGTTGGTGGCATTTTCCAGTCCT
1 TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT
* *
28053 CAAAGAGCAAGATGCTTTCTCCTTT
66 CAAAGAGC-AGACGCTCTCTCCTTT
28078 TAAAGACCAC
Statistics
Matches: 317, Mismatches: 38, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
266 213 0.67
272 25 0.08
273 78 0.25
274 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (266 bp):
TCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT
CAAAGAGCAGACGCTCTCTCCTTTCACCCTTTAGTCCTAAAAAAACAGGACTTAAAGCCCACACA
AGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCAAAGCCCACACAAGT
TGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCACAAACAAGTTGGTGGCACT
TCCTAG
Found at i:28023 original size:61 final size:60
Alignment explanation
Indices: 27838--28260 Score: 434
Period size: 61 Copynumber: 7.0 Consensus size: 60
27828 AAAAACAGGA
*
27838 TTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTT
1 TTAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACGCC-TTTCCTT
27900 TTAAAGCCCACACAAGTTGGTGGCATTTT-TCAGTCCTCAAAGAGCAGGACGCCTTT-C--
1 TTAAAGCCCACACAAGTTGGTGGCATTTTCT-AGTCCTCAAAGAGCAGGACGCCTTTCCTT
* * * * *
27957 --AAAGCCCATACAAGTTGGTGGTATTTTTTAGTCCTCAAAGAGTAGGATGCCCTTTCCTT
1 TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACG-CCTTTCCTT
* * * * * *
28016 TTAAAGCCTACAAAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGCTTTCTCCTT
1 TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTT-TCCTT
* * * ** * * *
28077 TTAAAGACCACTCGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAAGATG-CTTTCTCTT
1 TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTC-CTT
* ** * *
28137 TGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTT
1 T-TAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTT
* *
28198 TTCAAAGCCCACAC--GTTTGGTGGCACTTTT-TAGTCTTCAAAGAGCAGGACGGCTTTTCCTT
1 TT-AAAGCCCACACAAG-TTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGAC-GCCTTTCCTT
28259 TT
1 TT
28261 CTCCTTTGTC
Statistics
Matches: 305, Mismatches: 40, Indels: 33
0.81 0.11 0.09
Matches are distributed among these distances:
55 43 0.14
56 6 0.02
57 1 0.00
59 4 0.01
60 40 0.13
61 182 0.60
62 29 0.10
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (60 bp):
TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACGCCTTTCCTT
Found at i:28599 original size:28 final size:28
Alignment explanation
Indices: 28567--28632 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
28557 CTAAAGTCTG
28567 CACAAGTTGGCAGCACCCAAAAAGCCCA
1 CACAAGTTGGCAGCACCCAAAAAGCCCA
*
28595 CACAAGTTGGTAGCACCCAAAAAGCCCA
1 CACAAGTTGGCAGCACCCAAAAAGCCCA
* *
28623 TAAAAGTTGG
1 CACAAGTTGG
28633 TGGCAAACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.39, C:0.29, G:0.20, T:0.12
Consensus pattern (28 bp):
CACAAGTTGGCAGCACCCAAAAAGCCCA
Found at i:32039 original size:79 final size:78
Alignment explanation
Indices: 31753--32080 Score: 304
Period size: 79 Copynumber: 4.1 Consensus size: 78
31743 TATGTCATCG
* * * * * *
31753 GGGATACTCCAATCCCGTTATTTCCGAAGGGATACTTCGACTCTAATTTTATTTCCAAAACA-CA
1 GGGATACTCCAA-CCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCA
* *
31817 AATTTCTCACAATCG
65 ATTTTCT-ACAATCA
* **** *
31832 GGGATACTCCAACTCCGTTATTTTCACGA--GGATACTCTAACCCCGGCCTTA-TTTCTAAAGCA
1 GGGATACTCCAAC-CCGTTA-TTTC-CGAGGGGATACTCCAACCCCAATTTTATTTTC-AAAACA
* * *
31894 TCGATTTTCTACAATCG
62 CCAATTTTCTACAATCA
*
31911 GGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCA
1 GGGATACTCCAA-CCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCA
*
31976 ATTTTCTATAATCA
65 ATTTTCTACAATCA
*** * * *
31990 GGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAACCTTGATTTTATTTTCAGAATACCG
1 GGGATACTCCAACCC-GTTATTTCCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCA
* *
32055 ATTTTCCATAATCAA
65 ATTTTCTACAATC-A
32070 GGGATACTCCA
1 GGGATACTCCA
32081 GCTCCATTGT
Statistics
Matches: 206, Mismatches: 32, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
77 3 0.01
78 10 0.05
79 162 0.79
80 28 0.14
81 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAA
TTTTCTACAATCA
Found at i:33282 original size:17 final size:18
Alignment explanation
Indices: 33260--33293 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33250 TAGGTTCTTT
33260 ATGTAT-TTTTCATTTTC
1 ATGTATATTTTCATTTTC
*
33277 ATGTATATTTTCCTTTT
1 ATGTATATTTTCATTTT
33294 ATAGGAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (18 bp):
ATGTATATTTTCATTTTC
Found at i:34784 original size:35 final size:35
Alignment explanation
Indices: 34738--34809 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
34728 AGTGCAAATT
*
34738 ATCATTAACAAAAGAAACGTGTTAGTAAGGCATAC
1 ATCATCAACAAAAGAAACGTGTTAGTAAGGCATAC
34773 ATCATCAACAAAAGAAACGTGTTAGTAAGGCATAC
1 ATCATCAACAAAAGAAACGTGTTAGTAAGGCATAC
34808 AT
1 AT
34810 AAAATGTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (35 bp):
ATCATCAACAAAAGAAACGTGTTAGTAAGGCATAC
Found at i:37734 original size:20 final size:20
Alignment explanation
Indices: 37709--37746 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
37699 AAAAACTTAG
*
37709 ATGTATCGATGCATTTTGCA
1 ATGTATCGATACATTTTGCA
37729 ATGTATCGATACATTTTG
1 ATGTATCGATACATTTTG
37747 AAAAAATCCA
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:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTGCA
Found at i:37831 original size:11 final size:11
Alignment explanation
Indices: 37815--37841 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
37805 ACCAACAACT
37815 AATCACAATTC
1 AATCACAATTC
37826 AATCACAATTC
1 AATCACAATTC
37837 AATCA
1 AATCA
37842 AGAATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (11 bp):
AATCACAATTC
Found at i:46953 original size:20 final size:20
Alignment explanation
Indices: 46928--47004 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
46918 GTAAAAAGAC
46928 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
46948 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
46968 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
46988 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
47005 CTAGGTAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 49 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:47025 original size:71 final size:71
Alignment explanation
Indices: 46950--47086 Score: 229
Period size: 71 Copynumber: 1.9 Consensus size: 71
46940 TACATTGAAG
* *
46950 AATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTAGGTAAAA
1 AATGTATCGATACATTCATACATGTATCAATACATTGAAAAATGCATCGATACATCTAGGTAAAA
47015 AGACAA
66 AGACAA
* * *
47021 AATGTATCGATACATTCATACATTTATCAATACATTGAGAAATGCATCGATACATCTGGGTAAAA
1 AATGTATCGATACATTCATACATGTATCAATACATTGAAAAATGCATCGATACATCTAGGTAAAA
47086 A
66 A
47087 TGTGACTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (71 bp):
AATGTATCGATACATTCATACATGTATCAATACATTGAAAAATGCATCGATACATCTAGGTAAAA
AGACAA
Found at i:47054 original size:91 final size:91
Alignment explanation
Indices: 46880--47075 Score: 252
Period size: 91 Copynumber: 2.2 Consensus size: 91
46870 TTTTAACTAG
** * *
46880 ATGTATCGATACATTATTCAATGTATCGATACATCTGGGTAAAAAGACAGAATGTATCGATACAT
1 ATGTATCGATACATTATAAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACAT
* * * *
46945 TGAAGAATGTATCGATACATTCATAC
66 TCAAGAATGTATCAATACATTCAGAA
46971 ATGTATCGATACATTGA-AAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACA
1 ATGTATCGATACATT-ATAAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACA
* * *
47035 TTCATA-CATTTATCAATACATTGAGAA
65 TTCA-AGAATGTATCAATACATTCAGAA
*
47062 ATGCATCGATACAT
1 ATGTATCGATACAT
47076 CTGGGTAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
91 89 0.98
92 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (91 bp):
ATGTATCGATACATTATAAAATGTATCGATACATCTAGGTAAAAAGACAAAATGTATCGATACAT
TCAAGAATGTATCAATACATTCAGAA
Found at i:49034 original size:28 final size:28
Alignment explanation
Indices: 48986--49053 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
48976 TTTCATCTCG
* * *
48986 GGGATACTCTAATCCCATTATTTTTG-A
1 GGGATACTCCAACCCCATTATTTCTGAA
*
49013 GAGGATACTCCAACCCCGTTATTTCTGAA
1 G-GGATACTCCAACCCCATTATTTCTGAA
49042 GGGATACTCCAA
1 GGGATACTCCAA
49054 ACCTGTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.03
28 32 0.91
29 2 0.06
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (28 bp):
GGGATACTCCAACCCCATTATTTCTGAA
Found at i:49202 original size:80 final size:79
Alignment explanation
Indices: 49014--49214 Score: 217
Period size: 79 Copynumber: 2.5 Consensus size: 79
49004 TATTTTTGAG
* * * *
49014 AGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAAACCTGTTTTTATTTCAAAAATATTA
1 AGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCTATTTTTATTTCAAAAATATTA
*
49079 AATTTCTCACCTCA
66 AATTTCTAACCTCA
* * * *
49093 AGGGTACTCTAACCCCATTAATTCTGAGGGGATACTCTAACCCTATTTTTATGTTC-AAAATATT
1 AGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCTATTTTTAT-TTCAAAAATATT
**
49157 AAAATTT-TAACCATTG
65 -AAATTTCTAACC-TCA
* * * * *
49173 ATGATACTCCAACCCAATCATTTCCGAGGGGATACTCGAACC
1 AGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACC
49215 TCGATTTCAC
Statistics
Matches: 100, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 56 0.56
80 44 0.44
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.32
Consensus pattern (79 bp):
AGGATACTCCAACCCCATTATTTCTGAGGGGATACTCCAACCCTATTTTTATTTCAAAAATATTA
AATTTCTAACCTCA
Found at i:49589 original size:22 final size:22
Alignment explanation
Indices: 49561--49608 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
49551 CATCCATCAC
**
49561 TTTTATGTATTTTTGTGT-GTTA
1 TTTTATGTAAATTTGT-TCGTTA
49583 TTTTATGTAAATTTGTTCGTTA
1 TTTTATGTAAATTTGTTCGTTA
49605 TTTT
1 TTTT
49609 CTTTTCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.67
Consensus pattern (22 bp):
TTTTATGTAAATTTGTTCGTTA
Found at i:52134 original size:20 final size:20
Alignment explanation
Indices: 52109--52184 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
52099 GATAAAATTG
52109 TCGATACACAATTCAAAGTA
1 TCGATACACAATTCAAAGTA
52129 TCGATACACAATTCAACCCTTAAAAGTA
1 TCGATACACAATT-----C---AAAGTA
52157 TCGATACACAATTCAAAGTA
1 TCGATACACAATTCAAAGTA
52177 TCGATACA
1 TCGATACA
52185 TGTTGCAATG
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
20 27 0.56
23 1 0.02
25 1 0.02
28 19 0.40
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.25
Consensus pattern (20 bp):
TCGATACACAATTCAAAGTA
Found at i:52283 original size:20 final size:20
Alignment explanation
Indices: 52257--52309 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
52247 GTAGCCAAAC
* *
52257 TTGTATCGATACAC-CAAAG
1 TTGTATCGATACACAAAAAA
52276 TATGTATCGATACACAAAAAA
1 T-TGTATCGATACACAAAAAA
52297 TTGTATCGATACA
1 TTGTATCGATACA
52310 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:53127 original size:20 final size:20
Alignment explanation
Indices: 53102--53177 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
53092 GATAAAATTG
53102 TCGATACACAATTCAAAGTA
1 TCGATACACAATTCAAAGTA
53122 TCGATACACAATTCAACCCTTAAAAGTA
1 TCGATACACAATT-----C---AAAGTA
53150 TCGATACACAATTCAAAGTA
1 TCGATACACAATTCAAAGTA
53170 TCGATACA
1 TCGATACA
53178 TGTTGCAATG
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
20 27 0.56
23 1 0.02
25 1 0.02
28 19 0.40
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.25
Consensus pattern (20 bp):
TCGATACACAATTCAAAGTA
Found at i:57383 original size:15 final size:15
Alignment explanation
Indices: 57363--57393 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57353 TAAAAATGTC
*
57363 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
57378 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
57393 C
1 C
57394 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:59490 original size:13 final size:13
Alignment explanation
Indices: 59472--59509 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
59462 CATTTTTCTT
59472 TGTATCGATACAA
1 TGTATCGATACAA
*
59485 TGTATCGATACAC
1 TGTATCGATACAA
59498 TGTATCGATACA
1 TGTATCGATACA
59510 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:61170 original size:23 final size:21
Alignment explanation
Indices: 61128--61170 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
61118 GTTTAATGTT
**
61128 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
61149 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
61171 TAATCTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:62080 original size:19 final size:19
Alignment explanation
Indices: 62056--62118 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
62046 TAGCCAAACC
62056 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
62075 TGTATCGAT--AC--A--A
1 TGTATCGATACACAAAGTA
62088 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
62107 TGTATCGATACA
1 TGTATCGATACA
62119 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
15 3 0.08
17 3 0.08
19 22 0.58
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (19 bp):
TGTATCGATACACAAAGTA
Found at i:62092 original size:13 final size:13
Alignment explanation
Indices: 62074--62131 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
62064 TACACAAAGT
62074 ATGTATCGATACA
1 ATGTATCGATACA
62087 ATGTATCGATACACAAA
1 ATGTATCGAT--AC--A
62104 GTATGTATCGATACA
1 --ATGTATCGATACA
*
62119 TTGTATCGATACA
1 ATGTATCGATACA
62132 CAAAAAATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 22 0.58
15 3 0.08
17 3 0.08
19 10 0.26
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:62097 original size:32 final size:32
Alignment explanation
Indices: 62056--62151 Score: 156
Period size: 32 Copynumber: 3.0 Consensus size: 32
62046 TAGCCAAACC
62056 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGTATGTATCGATACAA
*
62088 TGTATCGATACACAAAGTATGTATCGATACAT
1 TGTATCGATACACAAAGTATGTATCGATACAA
**
62120 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAGTA-TGTATCGATACA
62152 TTGGCTTGTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 48 0.80
33 12 0.20
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (32 bp):
TGTATCGATACACAAAGTATGTATCGATACAA
Found at i:66455 original size:10 final size:10
Alignment explanation
Indices: 66443--66493 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
66433 AAAAGTGATG
*
66443 AAAAAAAAAG
1 AAAAAAAAAC
*
66453 AAAAACAAAC
1 AAAAAAAAAC
66463 AAAAAAAACAC
1 AAAAAAAA-AC
66474 AAAAAAAAAC
1 AAAAAAAAAC
66484 ACAAAAAAAA
1 A-AAAAAAAA
66494 AATGCAAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
10 18 0.50
11 18 0.50
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:66478 original size:12 final size:12
Alignment explanation
Indices: 66448--66494 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
66438 TGATGAAAAA
*
66448 AAAAGAAAAACAA
1 AAAA-AAAAACAC
66461 ACAAAAAAAACAC
1 A-AAAAAAAACAC
66474 AAAAAAAAACAC
1 AAAAAAAAACAC
66486 AAAAAAAAA
1 AAAAAAAAA
66495 ATGCAAAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 20 0.62
13 9 0.28
14 3 0.09
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAC
Found at i:66501 original size:13 final size:13
Alignment explanation
Indices: 66447--66495 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
66437 GTGATGAAAA
66447 AAAAAGAAAAACA-
1 AAAAA-AAAAACAC
66460 AACAAAAAAAACAC
1 AA-AAAAAAAACAC
66474 -AAAAAAAAACAC
1 AAAAAAAAAACAC
66486 AAAAAAAAAA
1 AAAAAAAAAA
66496 TGCAAAGGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.33
13 19 0.58
14 3 0.09
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAC
Found at i:66753 original size:14 final size:13
Alignment explanation
Indices: 66732--66789 Score: 62
Period size: 14 Copynumber: 4.2 Consensus size: 13
66722 GTTCTTTTCC
66732 AAAAAAAAAACAA
1 AAAAAAAAAACAA
*
66745 AACAAAAAAAAGAA
1 AA-AAAAAAAACAA
*
66759 AAAAAAGAAAAGAA
1 AAAAAA-AAAACAA
*
66773 AAAAACAAAACAGA
1 AAAAAAAAAACA-A
66787 AAA
1 AAA
66790 GCTCGATAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
13 11 0.28
14 28 0.72
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:67866 original size:31 final size:30
Alignment explanation
Indices: 67828--68003 Score: 196
Period size: 31 Copynumber: 5.7 Consensus size: 30
67818 AAAAAAAAAA
67828 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTCTC
*
67859 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTCTTCTC
67890 AAAGTCCACGA-TGCAGTGGCATC-CTTCTC
1 AAAGTCCACGACT-CAGTGGCATCTCTTCTC
*
67919 TTTAAAGTCCACGACTCAGTGGCAT-TTTGTCTC
1 ---AAAGTCCACGACTCAGTGGCATCTCT-TCTC
* * *
67952 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTCTTC-TC
* *
67983 AAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
68004 CCCGTTTAAG
Statistics
Matches: 130, Mismatches: 6, Indels: 18
0.84 0.04 0.12
Matches are distributed among these distances:
29 5 0.04
30 28 0.22
31 71 0.55
32 21 0.16
33 5 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTCTTCTC
Found at i:68054 original size:34 final size:34
Alignment explanation
Indices: 68011--68204 Score: 302
Period size: 34 Copynumber: 5.7 Consensus size: 34
68001 GCACCCGTTT
68011 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
68045 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
1 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
68079 AAGCCCACAACTCCGTGGCACCTTCTTCTTTT-A
1 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
** *
68112 AAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTTCA
1 AAGCCCACAACTCCGTGGCAC-C-TTCTT-CTTTTCA
*
68149 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT-A
1 AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
*
68182 AAGCCCACAACTCTGTGGCACCT
1 AAGCCCACAACTCCGTGGCACCT
68205 ACAACTTTGT
Statistics
Matches: 150, Mismatches: 6, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
33 43 0.29
34 72 0.48
35 9 0.06
36 6 0.04
37 20 0.13
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.31
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACCTTCTTCTTTTCA
Found at i:68264 original size:87 final size:88
Alignment explanation
Indices: 68118--68290 Score: 296
Period size: 87 Copynumber: 2.0 Consensus size: 88
68108 TTTAAAGCCC
* *
68118 ACAACTTTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTA
1 ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
*
68182 AAGCCCACAACTCTGTGGCACCT
66 AAGCCCACAACTCCGTGGCACCT
68205 ACAACTTTGTGGCACTCTCTTTCCCGTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 ACAACTTTGTGGCACTCTCTTTCCC-TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
68269 AAAGCCCACAACTCCGTGGCAC
65 AAAGCCCACAACTCCGTGGCAC
68291 TCTTTTTCCC
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
87 53 0.65
88 28 0.35
ACGTcount: A:0.21, C:0.33, G:0.14, T:0.32
Consensus pattern (88 bp):
ACAACTTTGTGGCACTCTCTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTA
AAGCCCACAACTCCGTGGCACCT
Found at i:68275 original size:34 final size:33
Alignment explanation
Indices: 68231--68759 Score: 517
Period size: 34 Copynumber: 16.0 Consensus size: 33
68221 CTCTTTCCCG
68231 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
68264 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
*
68301 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
* *
68335 TTTTAAAGCCCACAATTCCGTGGCACTTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
68368 ATCTTT-AAGTCCACAACTCCGTGGCACC-----C
1 -T-TTTAAAGCCCACAACTCCGTGGCACCTTTTTC
* *
68397 TTTTAAAGCCCACAATTCCGTGGCACTTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
68430 ATCTTT-AAGTCCACAACTCCGTGGCACC-----C
1 -T-TTTAAAGCCCACAACTCCGTGGCACCTTTTTC
* *
68459 TTTTAAAGCCCACAATTCCGTGGCACTTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
68492 ATCTTT-AAGTCCACAACTCCGTGGCACC-----C
1 -T-TTTAAAGCCCACAACTCCGTGGCACCTTTTTC
* *
68521 GTTT-AAGCCCACAACTCCGTGGCA-CTTTCT-
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
68551 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
68584 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTTCC
1 TTTTAAAGCCCACAACTCCGTGGCAC-C--TTTTT-C
**
68621 TTTTCAAAGCCCACAACTTTGTGGCACTCTTTTTCCC
1 TTTT-AAAGCCCACAACTCCGTGGCAC-CTTTTT--C
**
68658 TTTTCAAAGCCCACAACTCTATGGCACCTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
68692 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
* * *
68728 TTTT-AAGTCCACAATTCCGTGGCATCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
68760 CCTTTCCAAA
Statistics
Matches: 426, Mismatches: 30, Indels: 81
0.79 0.06 0.15
Matches are distributed among these distances:
26 1 0.00
27 28 0.07
28 40 0.09
29 3 0.01
30 3 0.01
31 20 0.05
32 6 0.01
33 76 0.18
34 108 0.25
35 33 0.08
36 29 0.07
37 56 0.13
38 23 0.05
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.34
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
Found at i:68292 original size:158 final size:156
Alignment explanation
Indices: 68072--68686 Score: 571
Period size: 158 Copynumber: 3.8 Consensus size: 156
68062 GCACCTTCTT
* **
68072 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTT
*
68137 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCA
65 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
68202 CCTACAACTTTGTGGCACTCTCTTTCCC
130 CCTACAACTTTGTGGCAC-CTCTTTCCC
*
68230 GTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTT
* * *
68295 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAATTCCGTGGCA
65 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCA
* * * * **
68360 CTTTTTTCATCTTTAAGT-CCACAACTCCGTGGCACC
130 C---CTACAACTTT--GTGGCAC--CT-C-TTTC-CC
* * *
68396 CTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA--C-
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGCCCACAACTCCGTGGCACTCT
* * *
68457 -----CCTTTT-AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTG
64 TTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGCCCACAACTCCGTG
**
68515 GCACCCGTTTAAGCCCACAACTCCGTGGCA---CTTT--C
127 GCA-CC---T------ACAACTTTGTGGCACCTCTTTCCC
* *
68550 TTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 CTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTC-TT
** **
68615 TTTTCCTTTTCAAAGCCCACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTAT
65 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGT
68680 GGCACCT
126 GGCACCT
68687 TTTTCTTTTA
Statistics
Matches: 374, Mismatches: 43, Indels: 76
0.76 0.09 0.15
Matches are distributed among these distances:
152 3 0.01
153 19 0.05
154 32 0.09
155 1 0.00
157 58 0.16
158 119 0.32
159 5 0.01
161 7 0.02
162 10 0.03
163 25 0.07
164 12 0.03
165 9 0.02
166 70 0.19
167 4 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (156 bp):
CTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTT
TTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
CTACAACTTTGTGGCACCTCTTTCCC
Found at i:68406 original size:62 final size:62
Alignment explanation
Indices: 68266--68616 Score: 433
Period size: 62 Copynumber: 5.5 Consensus size: 62
68256 CCTTTTTCTG
* *
68266 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTCAAAGCCCACAACTCCGTGGCACTT
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTT--AAGTCCACAACTCCGTGGCAC--
*
68330 TTTTCT
60 ---CCT
*
68336 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
*
68398 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
* *
68460 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
* * *
68522 TTT-AAGCCCACAACTCCGTGGCACTTTCTT--T-TTAAAGCCCACAACTCCGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACC-----
68583 CT
61 CT
*
68585 TTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTT
68617 TTCCTTTTCA
Statistics
Matches: 261, Mismatches: 12, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
58 23 0.09
59 1 0.00
61 25 0.10
62 128 0.49
63 4 0.02
64 21 0.08
65 4 0.02
67 20 0.08
69 9 0.03
70 26 0.10
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.33
Consensus pattern (62 bp):
TTTAAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCCT
Found at i:68533 original size:89 final size:89
Alignment explanation
Indices: 68433--68717 Score: 250
Period size: 108 Copynumber: 3.0 Consensus size: 89
68423 TTTTTTCATC
* * *
68433 TTTAAGTCCACAACTCCGTGGCAC-CCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTT
1 TTTAAGCCCACAACTCCGTGGCACTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TT
*
68497 T-AAGTCCACAACTCCGTGGCACCCG
64 TAAAGCCCACAACTCCGTGGCACCCG
*
68522 TTTAAGCCCACAACTCCGTGGCACTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TTTAAGCCCACAACTCCGTGGCAC--TCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* *
68587 TAAAGCCCACAACTCTGTGGCACTCTTTTTTTCCT
64 TAAAGCCCACAACTCCGTGGCA--C-------CCG
** **
68622 TTTCAAAGCCCACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTATGGCACCT
1 TTT--AAGCCCACAACTCCGTGGCA--C----T-CCTTTT-AAAGCCCACAACTCCGTGGCACCT
68687 TTTTCTTTTAAAGCCCACAACTCCGTGGCAC
56 TTTTCTTTTAAAGCCCACAACTCCGTGGCAC
68718 TCTTTTTCCC
Statistics
Matches: 162, Mismatches: 13, Indels: 25
0.81 0.06 0.12
Matches are distributed among these distances:
89 23 0.14
90 3 0.02
91 19 0.12
92 32 0.20
93 1 0.01
100 5 0.03
102 18 0.11
104 1 0.01
106 4 0.02
107 5 0.03
108 51 0.31
ACGTcount: A:0.22, C:0.33, G:0.13, T:0.33
Consensus pattern (89 bp):
TTTAAGCCCACAACTCCGTGGCACTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTA
AAGCCCACAACTCCGTGGCACCCG
Found at i:68574 original size:92 final size:88
Alignment explanation
Indices: 68433--68609 Score: 248
Period size: 92 Copynumber: 2.0 Consensus size: 88
68423 TTTTTTCATC
* * *
68433 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT
1 TTTAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTT
*
68498 -AAGTCCACAACTCCGTGGCACCCG
64 AAAGCCCACAACTCCGTGGCACCCG
*
68522 TTTAAGCCCACAACTCCGTGGCACTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
1 TTTAAGCCCACAACTCCGTGGCAC---CCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
*
68587 TAAAGCCCACAACTCTGTGGCAC
63 TAAAGCCCACAACTCCGTGGCAC
68610 TCTTTTTTTC
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
89 23 0.29
90 3 0.04
91 20 0.26
92 32 0.41
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (88 bp):
TTTAAGCCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAA
AGCCCACAACTCCGTGGCACCCG
Found at i:68708 original size:108 final size:104
Alignment explanation
Indices: 68213--68776 Score: 468
Period size: 104 Copynumber: 5.6 Consensus size: 104
68203 CTACAACTTT
* * *
68213 GTGGCACTCTCTTTCCCGTTTTAAAGCCCACAACTCCGTGGCACCTTTTT--CTGTTT-AAAGCC
1 GTGGCACTCTTTTTCCC-TTTT-AAGCCCACAATTCCGTGGCATCTTTTTCCCT-TTTCAAAGCC
*
68275 CACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
63 CACAACTCCATGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCC
* * *
68321 GTGGCACT-TTTTT--CTTTTAAAGCCCACAATTCCGTGGCA-CTTTTTTCATCTTT--AAGTCC
1 GTGGCACTCTTTTTCCCTTTT-AAGCCCACAATTCCGTGGCATCTTTTTCCCT-TTTCAAAGCCC
* *
68380 ACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCC
64 ACAACTCCATGGCACCTTTTTCTTTTAAAGCCCACAACTCC
* * *
68416 GTGGCACT-TTTTT-CATCTTTAAGTCCACAACTCCGTGGCA-------CCCTTTT-AAAGCCCA
1 GTGGCACTCTTTTTCCCT-TTTAAGCCCACAATTCCGTGGCATCTTTTTCCCTTTTCAAAGCCCA
* * * *
68471 CAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCC
65 CAACTCCATGGCACCTTTTTC-T-TTTAAAGCCCACAACTCC
* * *
68512 GTGGCA--------CCCGTTTAAGCCCACAACTCCGTGGCA-C--TTT--CTTTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCCTTTTAAGCCCACAATTCCGTGGCATCTTTTTCCCTTTTCAAAGCCCAC
* *
68564 AACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCT
66 AACTCCATGGCACCTTTTTCTTTTAAAGCCCACAACTCC
* *
68603 GTGGCACTCTTTTTTTCCTTTTCAAAGCCCACAACTT-TGTGGCACTCTTTTTCCCTTTTCAAAG
1 GTGGCACTC-TTTTTCCCTTTT--AAGCCCACAA-TTCCGTGGCA-TCTTTTTCCCTTTTCAAAG
*
68667 CCCACAACTCTATGGCACCTTTTTCTTTTAAAGCCCACAACTCC
61 CCCACAACTCCATGGCACCTTTTTCTTTTAAAGCCCACAACTCC
* *
68711 GTGGCACTCTTTTTCCCTTTTAAGTCCACAATTCCGTGGCATCTTTTTCCCTTTCCAAAGCCCAC
1 GTGGCACTCTTTTTCCCTTTTAAGCCCACAATTCCGTGGCATCTTTTTCCCTTTTCAAAGCCCAC
68776 A
66 A
68777 CAAGTCGGTG
Statistics
Matches: 383, Mismatches: 35, Indels: 80
0.77 0.07 0.16
Matches are distributed among these distances:
89 25 0.07
90 25 0.07
91 24 0.06
92 27 0.07
95 28 0.07
96 43 0.11
97 6 0.02
100 5 0.01
102 16 0.04
103 8 0.02
104 71 0.19
105 20 0.05
106 3 0.01
107 15 0.04
108 67 0.17
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (104 bp):
GTGGCACTCTTTTTCCCTTTTAAGCCCACAATTCCGTGGCATCTTTTTCCCTTTTCAAAGCCCAC
AACTCCATGGCACCTTTTTCTTTTAAAGCCCACAACTCC
Found at i:68758 original size:141 final size:139
Alignment explanation
Indices: 67950--68776 Score: 344
Period size: 158 Copynumber: 6.1 Consensus size: 139
67940 GCATTTTGTC
* * * * *
67950 TCAAAGTCCACGACT-CAGTGGCA-TTTTTTCTTTAAAGTCCACAACTCCGTGGCACC-----CG
1 TCAAAGCCCACAACTCCA-TGGCACTTTCTT-TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
* * **
68008 TTT-AAGCCCACAACTCCGTGGCAC-C-TTCTT--CTTTTCAAAGCCCACAACTCCGTGGCAC-C
64 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTCCAAAGCCCACAACTTTGTGGCACTC
*
68067 TTCTT--CTTT
129 TTTTTCCCTTT
* * **
68076 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGCCCACAACTCCATGGCACTTTC-T-TTTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT
* *
68141 CCTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTTTT--CTTT-TAAAGCCCACAACTCTGTGGC
62 -CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTCCAAAGCCCACAACTTTGTGGC
*
68201 ACCTACAACTTTGTGGCACTCTCTT
125 A-CT----CTTT-T-TC-C-CT-TT
* *
68226 TCCCGTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
1 T--C-----AAAGCCCACAACTCCATGGCA-C--TTTCTTTTTAAAGCCCACAACTCCGTGGCAC
*
68291 TCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCA--CTTTTTT--CTTT-TAAAGCCCACAA-
56 -CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTCCAAAGCCCACAAC
* *
68350 TTCCGTGGCACT-TTTTT-CATCTT
117 TT-TGTGGCACTCTTTTTCCCT-TT
* * * * *
68373 T--AAGTCCACAACTCCGTGGCAC---CCTTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATC
1 TCAAAGCCCACAACTCCATGGCACTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-T-
* * *
68433 TTT-AAGTCCACAACTCCGTGGCA---------CCCTTT-TAAAGCCCACAA-TTCCGTGGCACT
64 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTCCAAAGCCCACAACTT-TGTGGCACT
*
68486 -TTTTT-CATCTT
128 CTTTTTCCCT-TT
* * ** *
68497 T--AAGTCCACAACTCCGTGGCAC---CCGTTT-AAGCCCACAACTCCGTGGCA-CTTTCT-TTT
1 TCAAAGCCCACAACTCCATGGCACTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
* *
68554 TAAAGCCCACAACTCCGTGGCAC-C-TTTTT--CTTT-TAAAGCCCACAACTCTGTGGCACTCTT
66 TAAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTCCAAAGCCCACAACTTTGTGGCACTC-T
*
68614 TTTTTCCTTT
130 TTTTCCCTTT
*** * **
68624 TCAAAGCCCACAACTTTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCTATGGCACCTTT
1 TCAAAGCCCACAACTCCATGGCA--C--TTT--CTTTTTAAAGCCCACAACTCCGTGGCACCTTT
* * *
68689 TTCTTTTAAAGCCCACAACTCCGTGGCACTC-TTTTTCCCTTT--TAAGTCCACAA-TTCCGTGG
60 TTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTCCAAAGCCCACAACTT-TGTGG
68750 CA-TCTTTTTCCCTTT
124 CACTCTTTTTCCCTTT
*
68765 CCAAAGCCCACA
1 TCAAAGCCCACA
68777 CAAGTCGGTG
Statistics
Matches: 576, Mismatches: 51, Indels: 133
0.76 0.07 0.17
Matches are distributed among these distances:
119 3 0.01
120 20 0.03
122 4 0.01
123 19 0.03
124 66 0.11
125 24 0.04
126 19 0.03
127 11 0.02
128 25 0.04
129 39 0.07
130 1 0.00
131 9 0.02
132 25 0.04
136 4 0.01
137 21 0.04
138 53 0.09
139 18 0.03
140 5 0.01
141 47 0.08
142 9 0.02
143 18 0.03
144 5 0.01
147 5 0.01
148 1 0.00
149 2 0.00
150 3 0.01
151 1 0.00
152 4 0.01
157 30 0.05
158 81 0.14
159 1 0.00
160 3 0.01
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (139 bp):
TCAAAGCCCACAACTCCATGGCACTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTT
TAAAGCCCACAACTCCGTGGCACTCTTTTTTCCCTTTCCAAAGCCCACAACTTTGTGGCACTCTT
TTTCCCTTT
Found at i:68888 original size:21 final size:21
Alignment explanation
Indices: 68864--68928 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
68854 ATGTAGCTGG
68864 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* *
68885 CCTTTAAGTC--CAATATCTGG--
1 CCTTGAA-TCAGC-ACAT-TGGCA
68905 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
68926 CCT
1 CCT
68929 CACCTTTAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
19 5 0.15
20 10 0.30
21 13 0.39
22 5 0.15
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:68956 original size:89 final size:90
Alignment explanation
Indices: 68792--69074 Score: 415
Period size: 89 Copynumber: 3.1 Consensus size: 90
68782 CGGTGGCAAC
* *
68792 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATAT-GCTGGCCTTGAATCAGCATATTGGCA-CCTCATCTTTAAGTCCAATG
68857 TAGCTGGCCTTGAATCAGCACATTGGCA
63 TAGCTGGCCTTGAATCAGCACATTGGCA
* * *
68885 CCTTTAAGTCCAATAT-CTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAACGTAG
1 CCTTTAAGTCCAATATGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTAG
68949 CTGGCCTTGAATCAGCACATTGGCA
66 CTGGCCTTGAATCAGCACATTGGCA
*
68974 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATAT-GCTGGCCTTGAATCAGCATATTGGCACC---T-CATCTTTAAGTCCAA
*
69039 TGTAGCTGGCCTTGAATCAGCACATTGACA
61 TGTAGCTGGCCTTGAATCAGCACATTGGCA
69069 TCCTTT
1 -CCTTT
69075 TTCTCATCTT
Statistics
Matches: 173, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
89 61 0.35
90 24 0.14
91 26 0.15
92 11 0.06
93 4 0.02
94 1 0.01
95 41 0.24
96 5 0.03
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (90 bp):
CCTTTAAGTCCAATATGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCA
Found at i:68986 original size:43 final size:43
Alignment explanation
Indices: 68792--69021 Score: 266
Period size: 43 Copynumber: 5.1 Consensus size: 43
68782 CGGTGGCAAC
* * * *
68792 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
68836 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
68885 CCTTTAAGTCCAA--TATCTGGCCTTGAATCAGCACATTGGCACCTCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CA
*
68931 CCTTTAAGTCCAACGTAGCTGGCCTTGAATCAGCACATTGGCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
68974 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
69017 CCTTT
1 CCTTT
69022 TCCATCTTTA
Statistics
Matches: 164, Mismatches: 9, Indels: 23
0.84 0.05 0.12
Matches are distributed among these distances:
41 25 0.15
43 59 0.36
45 1 0.01
46 15 0.09
48 26 0.16
49 35 0.21
50 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (43 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:69053 original size:52 final size:52
Alignment explanation
Indices: 68975--69128 Score: 177
Period size: 52 Copynumber: 2.9 Consensus size: 52
68965 ACATTGGCAC
68975 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAAT-TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * *
69027 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAAT-TAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * *
69082 CTTTAAGCCCAA-TAGCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATTAGC--TGGCCTTGAATCAGCATATTGGCACCTTT
69129 ATCACTTTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
52 38 0.44
53 9 0.10
54 6 0.07
55 33 0.38
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:69186 original size:67 final size:68
Alignment explanation
Indices: 69078--69204 Score: 175
Period size: 67 Copynumber: 1.9 Consensus size: 68
69068 ATCCTTTTTC
* * *
69078 TCATCTTTAAGCCCAATAGCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATAGCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
69142 TCT
66 TCT
* ** * *
69145 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATAGCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
69205 AAAACCCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
67 47 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATAGCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:70036 original size:33 final size:33
Alignment explanation
Indices: 69999--70065 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
69989 TTCAACGATT
69999 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
70032 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
70065 T
1 T
70066 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:70037 original size:13 final size:13
Alignment explanation
Indices: 70019--70043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70009 CATAAAATGT
70019 TGTATCGATACAA
1 TGTATCGATACAA
70032 TGTATCGATACA
1 TGTATCGATACA
70044 TATTTTTTTG
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:70124 original size:13 final size:13
Alignment explanation
Indices: 70106--70130 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70096 ATTACTCAAA
70106 TGTATCGATACAT
1 TGTATCGATACAT
70119 TGTATCGATACA
1 TGTATCGATACA
70131 CTGATCTTTG
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:70232 original size:52 final size:52
Alignment explanation
Indices: 70139--70268 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
70129 CACTGATCTT
* *
70139 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATT-AAA
70190 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
* *
70242 TGTATCGATACATGCAAGCAACTTTTC
1 TGTATCGATACATGCAGGCAAATTTTC
70269 ATATTTCGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.26
52 51 0.70
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
Found at i:70883 original size:8 final size:8
Alignment explanation
Indices: 70870--70895 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
70860 TTGGCCACTC
70870 CAAATCAG
1 CAAATCAG
70878 CAAATCAG
1 CAAATCAG
70886 CAAATCAG
1 CAAATCAG
70894 CA
1 CA
70896 TAGTGGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.12, T:0.12
Consensus pattern (8 bp):
CAAATCAG
Found at i:73906 original size:212 final size:212
Alignment explanation
Indices: 73527--73951 Score: 796
Period size: 212 Copynumber: 2.0 Consensus size: 212
73517 AAAGGTAATC
* * *
73527 AATTTGGTTAGTGAATTGGGTAATCACTCGACAAGGAAGTGTCGAGGAGAGAGGATGTAGGTGTC
1 AATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAGTGTCGAGGAGAGAGGACGTAGGTGCC
73592 GTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAATCTCTTTTCATTT
66 GTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAATCTCTTTTCATTT
73657 CGAATTGTGTTGTTTCAAAACCCGAAAATTCGAAAAGAACCAATTCACCCCCCCTCTTGGTTCGT
131 CGAATTGTGTTGTTTCAAAACCCGAAAATTCGAAAAGAACCAATTCACCCCCCCTCTTGGTTCGT
73722 TACTTGATAAGCTTTCA
196 TACTTGATAAGCTTTCA
73739 AATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAGTGTCGAGGAGAGAGGACGTAGGTGCC
1 AATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAGTGTCGAGGAGAGAGGACGTAGGTGCC
**
73804 GTGTTTGGATTGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAATCTCTTTTCATTT
66 GTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAATCTCTTTTCATTT
*
73869 CGAATTGTGTTGTTTCAAAACCCGAAAATTTGAAAAGAACCAATTCACCCCCCCTCTTGGTTCGT
131 CGAATTGTGTTGTTTCAAAACCCGAAAATTCGAAAAGAACCAATTCACCCCCCCTCTTGGTTCGT
73934 TACTTGATAAGCTTTCA
196 TACTTGATAAGCTTTCA
73951 A
1 A
73952 TTGGTATCAG
Statistics
Matches: 207, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
212 207 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (212 bp):
AATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAGTGTCGAGGAGAGAGGACGTAGGTGCC
GTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAATCTCTTTTCATTT
CGAATTGTGTTGTTTCAAAACCCGAAAATTCGAAAAGAACCAATTCACCCCCCCTCTTGGTTCGT
TACTTGATAAGCTTTCA
Found at i:76571 original size:21 final size:21
Alignment explanation
Indices: 76547--76624 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
76537 AAAAAATTTC
76547 GAATGTATCGATACATTTGTA
1 GAATGTATCGATACATTTGTA
*
76568 GAATGTATCGATACATTTGTG
1 GAATGTATCGATACATTTGTA
*
76589 GAATGTATCGATACA-TTCTA
1 GAATGTATCGATACATTTGTA
*
76609 CAATTGTATCGATACA
1 GAA-TGTATCGATACA
76625 GGGTCCCAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 5 0.10
21 47 0.90
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (21 bp):
GAATGTATCGATACATTTGTA
Found at i:76684 original size:19 final size:19
Alignment explanation
Indices: 76660--76727 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
76650 AATTCAACAA
76660 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
76679 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
76694 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
76711 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
76728 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:76699 original size:13 final size:13
Alignment explanation
Indices: 76681--76705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76671 ACATAAGTTT
76681 TGTATCGATACAA
1 TGTATCGATACAA
76694 TGTATCGATACA
1 TGTATCGATACA
76706 TAAGTATTGT
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:76703 original size:32 final size:32
Alignment explanation
Indices: 76662--76724 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
76652 TTCAACAATT
*
76662 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
76694 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
76725 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:76791 original size:33 final size:33
Alignment explanation
Indices: 76749--76813 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
76739 CAAGGAAATG
***
76749 TATCGATACATTTTTCTGTGTATCGATACATTA
1 TATCGATACATGGATCTGTGTATCGATACATTA
*
76782 TATCGATACATGGATCTTTGTATCGATACATT
1 TATCGATACATGGATCTGTGTATCGATACATT
76814 TGGAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (33 bp):
TATCGATACATGGATCTGTGTATCGATACATTA
Found at i:79287 original size:27 final size:28
Alignment explanation
Indices: 79257--79332 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
79247 AATTCTCACA
79257 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
79284 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
79312 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
79333 ATTTTATTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:79494 original size:53 final size:52
Alignment explanation
Indices: 79315--79537 Score: 234
Period size: 52 Copynumber: 4.3 Consensus size: 52
79305 TTATTTCCGA
* * *** *
79315 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATTGACTTTT-CATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
* * * *
79366 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
* *
79418 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCC-ATAATC
** * * * * *
79471 GGGGATACTCCAATTCTGATTTTATTTCCAAAAATACCAAGTTTT-CACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTTCCATAATC
*
79523 GAGGATACTCCAACC
1 GGGGATACTCCAACC
79538 TCGTTATCTC
Statistics
Matches: 143, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
51 37 0.26
52 64 0.45
53 29 0.20
54 13 0.09
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
Found at i:79529 original size:105 final size:103
Alignment explanation
Indices: 79317--79537 Score: 246
Period size: 105 Copynumber: 2.1 Consensus size: 103
79307 ATTTCCGAGG
* ***
79317 GGATACTCCAACCCCGATTTTATTTCCAAAATATTGACTTTTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAACTTTTCATAATCGGGGATACTCCAACCC
* * * * * *
79382 CGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGG
66 CGATTTTATTCCAAAAACACCAAGTTTTCCACAATCGA
* * * * *
79420 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGGGATACTCCAAT
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAACTTTT-C-ATAATCGGGGATACTCCAAC
* * *
79485 TCTGATTTTATTTCCAAAAATACCAAGTTTT-CACAATCGA
64 CCCGATTTTA-TTCCAAAAACACCAAGTTTTCCACAATCGA
79525 GGATACTCCAACC
1 GGATACTCCAACC
79538 TCGTTATCTC
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
103 35 0.36
104 1 0.01
105 46 0.47
106 15 0.15
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (103 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAACTTTTCATAATCGGGGATACTCCAACCC
CGATTTTATTCCAAAAACACCAAGTTTTCCACAATCGA
Found at i:79556 original size:28 final size:27
Alignment explanation
Indices: 79520--79600 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 27
79510 AGTTTTCACA
* *
79520 ATCGAGGATACTCCAACCTCGTTATCT
1 ATCGGGGATACTCCAACCCCGTTATCT
79547 CATCGGGGATACTCCAACCCCGTTA-CT
1 -ATCGGGGATACTCCAACCCCGTTATCT
*
79574 TTCGAGGGGATACTCCAACCCCGTTAT
1 ATC--GGGGATACTCCAACCCCGTTAT
79601 TTTTGAAAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 43 0.91
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATCT
Found at i:79612 original size:28 final size:28
Alignment explanation
Indices: 79553--79624 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
79543 ATCTCATCGG
**
79553 GGATACTCCAACCCCGTTACTTTCGAGG
1 GGATACTCCAACCCCGTTACTTTCGAAA
* *
79581 GGATACTCCAACCCCGTTATTTTTGAAA
1 GGATACTCCAACCCCGTTACTTTCGAAA
*
79609 GGATACTCCAATCCCG
1 GGATACTCCAACCCCG
79625 AAATTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTTCGAAA
Found at i:82718 original size:31 final size:28
Alignment explanation
Indices: 82635--82707 Score: 103
Period size: 27 Copynumber: 2.6 Consensus size: 28
82625 TCTCACAATT
* ***
82635 GGGGATACTCCAACCCCGTTA-ATCATC
1 GGGGATACTCCAACCCCGTTATTTCCGA
82662 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTATTTCCGA
82690 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
82708 ATTTTATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCGA
Found at i:82869 original size:53 final size:52
Alignment explanation
Indices: 82690--82912 Score: 243
Period size: 52 Copynumber: 4.3 Consensus size: 52
82680 TTATTTCCGA
* * ***
82690 GGGGATACTCCAACCCCGATTTTATTTCCAAAATATTGATTTTT-CATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
* * * *
82741 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
* *
82793 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCC-ATAATC
** * * * * *
82846 GGGGATACTCCAATTCTGATTTTATTTCCAAAAATACCAAGTTTT-CACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCC-AAAACACCAATTTTTCCATAATC
*
82898 GAGGATACTCCAACC
1 GGGGATACTCCAACC
82913 TCGTTATCTC
Statistics
Matches: 144, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
51 38 0.26
52 64 0.44
53 29 0.20
54 13 0.09
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTCCATAATC
Found at i:82904 original size:105 final size:103
Alignment explanation
Indices: 82692--82912 Score: 255
Period size: 105 Copynumber: 2.1 Consensus size: 103
82682 ATTTCCGAGG
* ***
82692 GGATACTCCAACCCCGATTTTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCC
* * * * * *
82757 CGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGG
66 CGATTTTATTCCAAAAACACCAAGTTTTCCACAATCGA
* * * *
82795 GGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATCGGGGATACTCCAAT
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTT-C-ATAATCGGGGATACTCCAAC
* * *
82860 TCTGATTTTATTTCCAAAAATACCAAGTTTT-CACAATCGA
64 CCCGATTTTA-TTCCAAAAACACCAAGTTTTCCACAATCGA
82900 GGATACTCCAACC
1 GGATACTCCAACC
82913 TCGTTATCTC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
103 36 0.37
104 1 0.01
105 46 0.47
106 15 0.15
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (103 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCATAATCGGGGATACTCCAACCC
CGATTTTATTCCAAAAACACCAAGTTTTCCACAATCGA
Found at i:82932 original size:28 final size:29
Alignment explanation
Indices: 82900--82999 Score: 109
Period size: 28 Copynumber: 3.6 Consensus size: 29
82890 TCACAATCGA
*
82900 GGATACTCCAACCTCGTTATCTCATC-A-G
1 GGATACTCCAACCCCGTTATCT-ATCGAGG
*
82928 GGATACTCCAACCCCGTTA-CTTTCGAGG
1 GGATACTCCAACCCCGTTATCTATCGAGG
* * *
82956 GGATACTCCAACCCCGTTAT-TTTTGAAG
1 GGATACTCCAACCCCGTTATCTATCGAGG
*
82984 GGATACTCCAATCCCG
1 GGATACTCCAACCCCG
83000 AATTTTTTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 2 0.03
27 3 0.05
28 59 0.92
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (29 bp):
GGATACTCCAACCCCGTTATCTATCGAGG
Found at i:87230 original size:20 final size:20
Alignment explanation
Indices: 87187--87232 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
87177 AAATCTTTTG
87187 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
87208 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
87228 CAAAA
1 CAAAA
87233 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:89649 original size:13 final size:13
Alignment explanation
Indices: 89631--89656 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89621 ACACCAAAGT
89631 ATGTATCGATACA
1 ATGTATCGATACA
89644 ATGTATCGATACA
1 ATGTATCGATACA
89657 CAAAAAATTG
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:89654 original size:33 final size:33
Alignment explanation
Indices: 89612--89676 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
89602 TAGCCAAACT
* *
89612 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
89645 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
89677 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:97518 original size:14 final size:14
Alignment explanation
Indices: 97499--97527 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
97489 GAAAATGATG
97499 AATGATGCCTCTGT
1 AATGATGCCTCTGT
97513 AATGATGCCTCTGT
1 AATGATGCCTCTGT
97527 A
1 A
97528 GAGGTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (14 bp):
AATGATGCCTCTGT
Found at i:99691 original size:20 final size:21
Alignment explanation
Indices: 99660--99700 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
99650 ATGTCAAAAC
*
99660 CCTAGAATGTATTGATACATA
1 CCTAGAATGTATCGATACATA
99681 CCTAG-ATGTATCGATACATA
1 CCTAGAATGTATCGATACATA
99701 TTGCTTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.32
Consensus pattern (21 bp):
CCTAGAATGTATCGATACATA
Found at i:99711 original size:20 final size:19
Alignment explanation
Indices: 99688--99757 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
99678 ATACCTAGAT
99688 GTATCGATACATATTGCTTA
1 GTATCGATACAT-TTGCTTA
*
99708 GTATCGATACATTATGAATT-
1 GTATCGATACATT-TG-CTTA
99728 GTATCGATACATGTT-CATTA
1 GTATCGATACAT-TTGC-TTA
99748 -TATCGATACA
1 GTATCGATACA
99758 ATATAAATTG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
19 13 0.30
20 27 0.63
21 3 0.07
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (19 bp):
GTATCGATACATTTGCTTA
Found at i:99767 original size:39 final size:40
Alignment explanation
Indices: 99687--99771 Score: 120
Period size: 39 Copynumber: 2.1 Consensus size: 40
99677 CATACCTAGA
* *
99687 TGTATCGATACATATTGCTTAGTATCGATACATTATGAAT
1 TGTATCGATACATATTGCTTAGTATCGATACAATATAAAT
*
99727 TGTATCGATACATGTT-CATTA-TATCGATACAATATAAAT
1 TGTATCGATACATATTGC-TTAGTATCGATACAATATAAAT
99766 TGTATC
1 TGTATC
99772 TCACTTTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
39 23 0.56
40 18 0.44
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (40 bp):
TGTATCGATACATATTGCTTAGTATCGATACAATATAAAT
Found at i:100367 original size:36 final size:32
Alignment explanation
Indices: 100320--100409 Score: 110
Period size: 32 Copynumber: 2.7 Consensus size: 32
100310 AGTGATTGAG
100320 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAA
1 AGGTTCTATCTTAGCC-TTGAAAAAGATA-GG-G-A
*
100356 AGGTTCTATCTTAGCCCGTG-AAAAGATAGGGA
1 AGGTTCTATCTTAG-CCTTGAAAAAGATAGGGA
*
100388 AGATTCTATCTTAGCCTTGAAA
1 AGGTTCTATCTTAGCCTTGAAA
100410 GATAGTGTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
31 4 0.08
32 16 0.33
33 1 0.02
34 2 0.04
35 8 0.16
36 16 0.33
37 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (32 bp):
AGGTTCTATCTTAGCCTTGAAAAAGATAGGGA
Found at i:104625 original size:20 final size:20
Alignment explanation
Indices: 104600--104717 Score: 74
Period size: 20 Copynumber: 5.3 Consensus size: 20
104590 TTTTAACCAG
104600 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
104620 ATGTATCGATACATTTGGGTAAAAAGACAGA
1 ATGTATCGATACA-TT--G-----A-A-A-A
* * *
104651 ATGTATTGAGACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
104671 ATATATCGATACATTCATAC
1 ATGTATCGATACATTGAAAA
104691 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
104711 ATGTATC
1 ATGTATC
104718 AATAAATCTG
Statistics
Matches: 73, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
20 50 0.68
21 2 0.03
22 1 0.01
23 2 0.03
28 2 0.03
29 1 0.01
30 3 0.04
31 12 0.16
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:105553 original size:28 final size:28
Alignment explanation
Indices: 105518--106315 Score: 941
Period size: 28 Copynumber: 28.5 Consensus size: 28
105508 CACCGACTTG
*
105518 TGTGGGCTTTGAAACGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
105546 TGTGGGCTTTGAAATGG-TGCCACTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
105574 TGTGGGTTTTTGAGAGGATGCCACTGACT
1 TGTGGG-CTTTGAAAGGATGCCACTGACT
* *
105603 TGTGGGCATT-AAACGGATGCTACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
105631 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
105659 TGTAGGCTTTGACAAGG-TGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
** * * *
105687 TGTGACCTTGGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
105715 TTTGGGTTTTGAAA-AAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
105743 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
105771 TGTGGGCGTT-AAACGGATGCTACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
105799 TGTGGGCTATGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
105827 TGTAGGCTTTGACATGG-TGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
** * * *
105855 TGTGACCTTGGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
105883 TTTGGGTTTTGAAA-AAGTGCCATTGACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
105911 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
105939 TGTGGGCTTTG-AAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
*
105967 TATGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
105995 TGTGGGCTTTG-AAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
*
106023 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
106051 TGTGGGCTTTGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
106079 TATGGGATTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
106107 TGTGGGCTTTGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
106135 TGTGGGATTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
106163 TGTGGGCTTTGAAAAGATGCCATTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
106191 TGTGGGATTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
106219 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
106247 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
106275 TGTGGGCTTTG-AAGAGATGCCACTGACT
1 TGTGGGCTTTGAAAG-GATGCCACTGACT
106303 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
106316 GAGATGAATG
Statistics
Matches: 650, Mismatches: 99, Indels: 41
0.82 0.13 0.05
Matches are distributed among these distances:
27 20 0.03
28 587 0.90
29 43 0.07
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:107552 original size:11 final size:12
Alignment explanation
Indices: 107536--107565 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
107526 TAGACCCTTC
107536 TTTTTTGTATTT
1 TTTTTTGTATTT
107548 TTTTTTGT-TTT
1 TTTTTTGTATTT
107559 TTTTTTG
1 TTTTTTG
107566 GTACGAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (12 bp):
TTTTTTGTATTT
Found at i:145227 original size:19 final size:20
Alignment explanation
Indices: 145183--145234 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
145173 TACAAAACCA
145183 ATGTATCGATACATTTGGTC
1 ATGTATCGATACATTTGGTC
145203 ATGTATCGATACATCTT-GT-
1 ATGTATCGATACAT-TTGGTC
145222 ATGTATCGATACA
1 ATGTATCGATACA
145235 AACAGTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTGGTC
Found at i:145333 original size:13 final size:13
Alignment explanation
Indices: 145315--145339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
145305 TACAGTGGTC
145315 ATGTATCGATACA
1 ATGTATCGATACA
145328 ATGTATCGATAC
1 ATGTATCGATAC
145340 TGTGCATTAT
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):
ATGTATCGATACA
Found at i:145357 original size:33 final size:32
Alignment explanation
Indices: 145298--145360 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
145288 TTCTTTGCAA
*
145298 GTATCGATACAGTGGTCATGTATCGATACAAT
1 GTATCGATACAGTGATCATGTATCGATACAAT
* *
145330 GTATCGATACTGTGCATTATGTATCGATACA
1 GTATCGATACAGTG-ATCATGTATCGATACA
145361 TCTGAAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (32 bp):
GTATCGATACAGTGATCATGTATCGATACAAT
Found at i:148575 original size:17 final size:18
Alignment explanation
Indices: 148540--148577 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
148530 ATTATAATAT
* *
148540 TTATTTTTTATATTCAAA
1 TTATTATTTATATTAAAA
148558 TTATTATTT-TATTAAAA
1 TTATTATTTATATTAAAA
148575 TTA
1 TTA
148578 ATTTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATTATTTATATTAAAA
Found at i:149320 original size:15 final size:15
Alignment explanation
Indices: 149300--149363 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
149290 TACTTATACT
149300 ATTTTTTATAATTTA
1 ATTTTTTATAATTTA
*
149315 A--TTTT-TAATAT-
1 ATTTTTTATAATTTA
* *
149326 ATTTTTAAAAATTTA
1 ATTTTTTATAATTTA
*
149341 ATTTTTAATAATTTA
1 ATTTTTTATAATTTA
149356 ATATTTTT
1 AT-TTTTT
149364 TATTAAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
11 1 0.03
12 5 0.13
13 7 0.18
14 4 0.11
15 17 0.45
16 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTTTTATAATTTA
Found at i:149330 original size:26 final size:26
Alignment explanation
Indices: 149299--149354 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
149289 TTACTTATAC
* *
149299 TATTTTTTATAATTTAATTTTTAATA
1 TATTTTTAAAAATTTAATTTTTAATA
149325 TATTTTTAAAAATTTAATTTTTAATA
1 TATTTTTAAAAATTTAATTTTTAATA
149351 -ATTT
1 TATTT
149355 AATATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (26 bp):
TATTTTTAAAAATTTAATTTTTAATA
Found at i:149370 original size:36 final size:36
Alignment explanation
Indices: 149318--149403 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
149308 TAATTTAATT
* *
149318 TTTAATATATTTTTA--AAAATTT-AATTTTTAATAA
1 TTTAATAT-TTTTTATTAAAATTTAAAATTTAAATAA
*
149352 TTTAATATTTTTTATTAAATTTTAAAATTTAAATAA
1 TTTAATATTTTTTATTAAAATTTAAAATTTAAATAA
149388 TTTAACATATTTTTTA
1 TTT-A-ATATTTTTTA
149404 ATGTTTATAC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.14
34 8 0.18
35 6 0.14
36 13 0.30
37 1 0.02
38 10 0.23
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (36 bp):
TTTAATATTTTTTATTAAAATTTAAAATTTAAATAA
Found at i:152933 original size:22 final size:20
Alignment explanation
Indices: 152882--152935 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
152872 GATTTTCAAC
152882 ATAAAAAAATAATAATATAA
1 ATAAAAAAATAATAATATAA
*
152902 AAAATCAAAAATAATAATATATTA
1 ATAA--AAAAATAATAATATA--A
152926 ATAAAAAAAT
1 ATAAAAAAAT
152936 CAAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
22 21 0.75
24 4 0.14
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAAAAAATAATAATATAA
Found at i:153317 original size:28 final size:28
Alignment explanation
Indices: 153277--153344 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
153267 ATGAAATCTA
* *
153277 AAGCAGCCACATGGACACGTGAAGAAAC
1 AAGCAGCTACATGGACACATGAAGAAAC
*
153305 AAGTAGCTACATGGACACATGAAGAAAC
1 AAGCAGCTACATGGACACATGAAGAAAC
153333 AAGCAGCTACAT
1 AAGCAGCTACAT
153345 CGAAACAGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (28 bp):
AAGCAGCTACATGGACACATGAAGAAAC
Found at i:154192 original size:3 final size:3
Alignment explanation
Indices: 154186--154228 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
154176 AAAAAAAATA
154186 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
154229 ATAAAAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:154197 original size:12 final size:11
Alignment explanation
Indices: 154180--154229 Score: 73
Period size: 12 Copynumber: 4.3 Consensus size: 11
154170 CAAAGCAAAA
154180 AAAATAAATAAT
1 AAAAT-AATAAT
154192 AAAATAATAAT
1 AAAATAATAAT
154203 AATAATAATAAT
1 AA-AATAATAAT
154215 AATAATAATAAT
1 AA-AATAATAAT
154227 AAA
1 AAA
154230 TAAAAAATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
11 9 0.24
12 28 0.76
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:154931 original size:13 final size:14
Alignment explanation
Indices: 154910--154938 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
154900 AAATTTTCGT
154910 AAATAAAAATAATA
1 AAATAAAAATAATA
154924 AAAT-AAAATAATA
1 AAATAAAAATAATA
154937 AA
1 AA
154939 TAGATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAATAAAAATAATA
Found at i:166336 original size:14 final size:14
Alignment explanation
Indices: 166307--166365 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
166297 ACCGGTGCTA
* *
166307 AAAGTACCTGTACC
1 AAAGTGCCTGTGCC
* *
166321 AAAGTGTCTATGCC
1 AAAGTGCCTGTGCC
*
166335 -AAGTACCTGTGCC
1 AAAGTGCCTGTGCC
166348 AAAGTGCCTGTGCC
1 AAAGTGCCTGTGCC
166362 AAAG
1 AAAG
166366 CAATTGTGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
13 10 0.28
14 26 0.72
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (14 bp):
AAAGTGCCTGTGCC
Found at i:166349 original size:27 final size:27
Alignment explanation
Indices: 166308--166363 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
166298 CCGGTGCTAA
*
166308 AAGTACCTGTACCAAAGTGTCTATGCC
1 AAGTACCTGTACCAAAGTGCCTATGCC
* *
166335 AAGTACCTGTGCCAAAGTGCCTGTGCC
1 AAGTACCTGTACCAAAGTGCCTATGCC
166362 AA
1 AA
166364 AGCAATTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (27 bp):
AAGTACCTGTACCAAAGTGCCTATGCC
Found at i:166577 original size:18 final size:17
Alignment explanation
Indices: 166554--166589 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
166544 TTCAATAAAT
*
166554 AAAAATAAAATAAATATA
1 AAAAAT-AAAGAAATATA
166572 AAAAATAAAGAAATATA
1 AAAAATAAAGAAATATA
166589 A
1 A
166590 TTAATTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAAATAAAGAAATATA
Found at i:166920 original size:14 final size:14
Alignment explanation
Indices: 166903--166953 Score: 93
Period size: 14 Copynumber: 3.6 Consensus size: 14
166893 TACCTACGAG
166903 GTATTATTCGCAAT
1 GTATTATTCGCAAT
166917 GTATTATTCGCAAT
1 GTATTATTCGCAAT
*
166931 GTATTAGTCGCAAT
1 GTATTATTCGCAAT
166945 GTATTATTC
1 GTATTATTC
166954 AATATAAGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (14 bp):
GTATTATTCGCAAT
Found at i:167762 original size:14 final size:14
Alignment explanation
Indices: 167708--167818 Score: 63
Period size: 14 Copynumber: 8.1 Consensus size: 14
167698 AACACTTTAA
167708 CACAGTCACTTTGG
1 CACAGTCACTTTGG
** **
167722 CACAAACACTTTAA
1 CACAGTCACTTTGG
167736 CACAGGT-AC-TTGG
1 CACA-GTCACTTTGG
167749 CACAGTCACTTTGG
1 CACAGTCACTTTGG
*
167763 CATAGGT-AC-TTGG
1 CACA-GTCACTTTGG
* ** **
167776 CATAAACACTTTAA
1 CACAGTCACTTTGG
167790 CACACGT-AC-TTGG
1 CACA-GTCACTTTGG
167803 CACAGTCACTTTGG
1 CACAGTCACTTTGG
167817 CA
1 CA
167819 TAGGTATTTT
Statistics
Matches: 70, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
12 4 0.06
13 26 0.37
14 38 0.54
15 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (14 bp):
CACAGTCACTTTGG
Found at i:167777 original size:54 final size:54
Alignment explanation
Indices: 167718--167824 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
167708 CACAGTCACT
*
167718 TTGGCACAAACACTTTAACACAGGTACTTGGCACAGTCACTTTGGCATAGGTAC
1 TTGGCACAAACACTTTAACACACGTACTTGGCACAGTCACTTTGGCATAGGTAC
*
167772 TTGGCATAAACACTTTAACACACGTACTTGGCACAGTCACTTTGGCATAGGTA
1 TTGGCACAAACACTTTAACACACGTACTTGGCACAGTCACTTTGGCATAGGTA
167825 TTTTTGGTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (54 bp):
TTGGCACAAACACTTTAACACACGTACTTGGCACAGTCACTTTGGCATAGGTAC
Found at i:167814 original size:27 final size:27
Alignment explanation
Indices: 167698--167806 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
167688 CAGTCATTTT
167698 AACACTTTAACACA-GTCACTTTGGCACA
1 AACACTTTAACACAGGT-AC-TTGGCACA
167726 AACACTTTAACACAGGTACTTGGCACA
1 AACACTTTAACACAGGTACTTGGCACA
** ** * *
167753 GTCACTTTGGCATAGGTACTTGGCATA
1 AACACTTTAACACAGGTACTTGGCACA
*
167780 AACACTTTAACACACGTACTTGGCACA
1 AACACTTTAACACAGGTACTTGGCACA
167807 GTCACTTTGG
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
27 49 0.73
28 16 0.24
29 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (27 bp):
AACACTTTAACACAGGTACTTGGCACA
Found at i:168148 original size:42 final size:42
Alignment explanation
Indices: 168089--168211 Score: 183
Period size: 42 Copynumber: 2.9 Consensus size: 42
168079 CAACGTGTTG
168089 TTATATAATAAGTATCAATCCCTTGTTACCAAAATATTTATA
1 TTATATAATAAGTATCAATCCCTTGTTACCAAAATATTTATA
* * * * *
168131 TTATATAATAAGTATCAACCCCTTGTTATCAAAACATTTTTG
1 TTATATAATAAGTATCAATCCCTTGTTACCAAAATATTTATA
* *
168173 TTATATAATAAGTATCAATCCTTTGTTACCAGAATATTT
1 TTATATAATAAGTATCAATCCCTTGTTACCAAAATATTT
168212 CTAATAGCAT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (42 bp):
TTATATAATAAGTATCAATCCCTTGTTACCAAAATATTTATA
Found at i:170922 original size:42 final size:42
Alignment explanation
Indices: 170861--172289 Score: 1005
Period size: 42 Copynumber: 33.9 Consensus size: 42
170851 AAACTTTTGA
** * *
170861 AGACTTTCCATCCCTTAGTCTACCTATCGGCTTTGACCCTAG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * *
170903 AAACTTT-TTTCCTCTTAGTCTGCTTGTCGGCTTTGACCTTAG
1 AGACTTTCTTTCC-CTTAGTCTGCCTGTCGGCTTTGACCCTAG
*
170945 AGACTTTCTTATCCCTTAGTCTGCCTGTAGGCTTTGACCCT-G
1 AGACTTTCTT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * *
170987 AAGACTTTCTTTCCTTTAGTCTGCCTATCGACTTTGACCCTAG
1 -AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * ** *
171030 AGACTTTCCTATCCCTTAGTCTACCTGTCGGCTTTGACTTTGG
1 AGACTTT-CTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * *
171073 AGACTTTCTTATCCCTTAGTCTGCCCGTCAGCTTTGACCCTGG
1 AGACTTTCTT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * *
171116 AGACTTTCCTTCCCTTAGTCTGCTTGTTGGCTTTGATCCTAG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* *
171158 AGACTTT-TCTACCCTTAGGT-TGCCTGTTGGCTTTGACCCT-G
1 AGACTTTCT-TTCCCTTA-GTCTGCCTGTCGGCTTTGACCCTAG
* *
171199 AAGTCTTTCCTAT-CCTTGAGTCTGCCTGTCGGCTTTGACCCT-G
1 -AGACTTT-CTTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTAG
* * * * * *
171242 AAGACTTTCCTATCCCTCAGTTTACCTGTCGACTTTGACCCTGG
1 -AGACTTT-CTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * *
171286 AGACTTTCCTATCTCTTAGTCTGCCGGTCAGCTTTAACCCTAG
1 AGACTTT-CTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* ** * * * ** *
171329 AGACTTTCCTTCCCAAAGTCTACTTATCAACTTTAACCCTAG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * *
171371 AGACTTTTTTTCTCTTAGTCTGCCTATCAGCTTTGACCCTAG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * *
171413 AGACTTT-TCTGCCTTTAGTTTGCCTGTCGGGTTTAACCCT-G
1 AGACTTTCT-TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * *
171454 AAGACTTTCCTATCCCTTAGTTTACTTGTCGTCTTTGACCCTAG
1 -AGACTTT-CTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * *
171498 AGAC--TCTATCCCTCAGTATGCCTATCGGCTTTGACCCT-G
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * * * * *
171537 AAAACTTTCTAT-CTTTCAGTCTGCCTATTGACTTTAACTCTAG
1 -AGACTTTCTTTCCCTT-AGTCTGCCTGTCGGCTTTGACCCTAG
* * *
171580 AGAC-TT-TTTCCCTAAGTCTGCCTGTCGACTTTGACCCTGG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * ** *
171620 AGACTTT-TCTTCCCTAATTCTGCCTATCAGCTTTGACTTTGG
1 AGACTTTCT-TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * * *
171662 AGATTTTTTTTCCCTAAGT-TGCCTGCCGACTTTGACCCTGG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
** * *
171703 AGACTTT-TCTTCCCTTAGTCTGCCTGTCAACTTTGACCTTGG
1 AGACTTTCT-TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * ** * * *
171745 AGACTTT-TTTCCTTTACTCTATCTGTC-ACTTTTGACCTTTG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGC-TTTGACCCTAG
* * ** ** * *
171786 AGACTTTCCTATCCCTTAGTTTATCTGTTAGCTTTGACCTTGG
1 AGACTTT-CTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* ** * *
171829 AGACTTTCCTTCCCTTAGTCTATCTGTCGACTTTGACCCTAC
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * * * *
171871 AGACTTTTCTATCCCTTAGTTTGCTTATCGACTTCGACCTTAG
1 AGAC-TTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * *
171914 AGACTTTCCTTCCCTTAGTCTTCCTGTCGGCTTTGA-CCTTG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * *
171955 TAGACTTTCCTTCCCTTAGTCTACCTGTCGGCTTTGACTCTAG
1 -AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * * *
171998 AGAATTTCCTTCCCTTAGACTACTTGTCAGCTTTGACCCTAG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * *
172040 AAACTTTCCTATT-CCTTAGTCTGCCTGTCGGCTTTGACCTTGG
1 AGACTTT-CT-TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* ** *
172083 AAACTTTCTTTCCCTTAGTCTGCCTGTCAACTTTGACCTTAG
1 AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * *
172125 AGATTTTCCTATCCCTTAGTTTACCTATCGGCTTTGACCCTAG
1 AGACTTT-CTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * *
172168 AGACTTT-TCTTCTCTTAGTCTGCTTGTCAGCTTTGACCTTAA
1 AGACTTTCT-TTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * * * * *
172210 AGACTTTTTTATCCCTTAGTCTGCTTGTTGGCTTTGTCCTTGG
1 AGACTTTCTT-TCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
* * *
172253 AGACTTTCCTATCCCTTAGTCTGCTTGTCAGCTTTGA
1 AGACTTT-CTTTCCCTTAGTCTGCCTGTCGGCTTTGA
172290 TCTTGAAGAC
Statistics
Matches: 1114, Mismatches: 226, Indels: 93
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.00
40 60 0.05
41 85 0.08
42 531 0.48
43 423 0.38
44 14 0.01
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.40
Consensus pattern (42 bp):
AGACTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTAG
Done.