Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 91 of 168
Found at i:27121072 original size:5 final size:5
Alignment explanation
Indices: 27121064--27121111 Score: 60
Period size: 5 Copynumber: 8.8 Consensus size: 5
27121054 GCGTTAGGGT
27121064 TTTTC TTTTC TTTTC TTTTTCC TTTTC TTTTC TTTTTC TTTTC ATTTT
1 TTTTC TTTTC TTTTC -TTTT-C TTTTC TTTTC -TTTTC TTTTC -TTTT
27121112 TAGTTTAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
5 21 0.54
6 17 0.44
7 1 0.03
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:27121077 original size:11 final size:11
Alignment explanation
Indices: 27121063--27121112 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
27121053 AGCGTTAGGG
27121063 TTTTTCTTTTC
1 TTTTTCTTTTC
27121074 -TTTTCTTTTTC
1 TTTTTC-TTTTC
*
27121085 CTTTTCTTTTC
1 TTTTTCTTTTC
27121096 TTTTTCTTTTC
1 TTTTTCTTTTC
27121107 ATTTTT
1 -TTTTT
27121113 AGTTTAGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
10 5 0.14
11 20 0.57
12 10 0.29
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:27121088 original size:17 final size:16
Alignment explanation
Indices: 27121063--27121111 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 16
27121053 AGCGTTAGGG
27121063 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTCTTTTC
27121079 TTTTTCCTTTTCTTTTC
1 TTTTT-CTTTTCTTTTC
27121096 TTTTTCTTTTCATTTT
1 TTTTTCTTTTC-TTTT
27121112 TAGTTTAGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.35
17 20 0.65
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTCTTTTC
Found at i:27121131 original size:7 final size:6
Alignment explanation
Indices: 27121063--27121105 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
27121053 AGCGTTAGGG
*
27121063 TTTTTC -TTTTC -TTTTC TTTTTC CTTTTC -TTTTC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT
27121106 CATTTTTAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:27124430 original size:34 final size:34
Alignment explanation
Indices: 27124387--27124455 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
27124377 CAAGTAAACC
27124387 TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
1 TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
27124421 TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
1 TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
27124455 T
1 T
27124456 TTTCATCTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (34 bp):
TATTGAAATGCCAATTGTATCCTATCCTTTCTTA
Found at i:27124609 original size:50 final size:50
Alignment explanation
Indices: 27124555--27124652 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
27124545 AATACAATCA
*
27124555 CAAGATATAATTTCATAATTTAAATAAATCCAATACATTTACAAACATCT
1 CAAGATATAATTTCATAATTTAAACAAATCCAATACATTTACAAACATCT
27124605 CAAGATATAATTTCATAATTTAAACAAATCCAATACATTTACAAACAT
1 CAAGATATAATTTCATAATTTAAACAAATCCAATACATTTACAAACAT
27124653 AACTACAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (50 bp):
CAAGATATAATTTCATAATTTAAACAAATCCAATACATTTACAAACATCT
Found at i:27146266 original size:26 final size:24
Alignment explanation
Indices: 27146219--27146278 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
27146209 AATGACAAAT
27146219 AATTAATATATTAAATTTTAGAAA
1 AATTAATATATTAAATTTTAGAAA
* * ** *
27146243 AATTTATATATTAATTTTTCTAGA
1 AATTAATATATTAAATTTTAGAAA
27146267 AATTAATATATT
1 AATTAATATATT
27146279 TTAAAATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (24 bp):
AATTAATATATTAAATTTTAGAAA
Found at i:27146637 original size:25 final size:26
Alignment explanation
Indices: 27146591--27146649 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
27146581 TTTTAGAAAA
27146591 TTAAAAAAAAGCATTTTAAAAATATT
1 TTAAAAAAAAGCATTTTAAAAATATT
* *
27146617 TTAAAAAAATGTATTTT-AAAATATT
1 TTAAAAAAAAGCATTTTAAAAATATT
*
27146642 TTTAAAAA
1 TTAAAAAA
27146650 TAAAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 15 0.50
26 15 0.50
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (26 bp):
TTAAAAAAAAGCATTTTAAAAATATT
Found at i:27147229 original size:6 final size:6
Alignment explanation
Indices: 27147220--27147247 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27147210 TGCTATAACC
27147220 TGAAGT TGAAGT TGAAGT TGAAGT TGAA
1 TGAAGT TGAAGT TGAAGT TGAAGT TGAA
27147248 CCCTTGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (6 bp):
TGAAGT
Found at i:27151778 original size:13 final size:13
Alignment explanation
Indices: 27151762--27151806 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
27151752 AATAGTAGGT
27151762 GATGATCAATTGA
1 GATGATCAATTGA
*
27151775 GATGAT-TATATGA
1 GATGATCAAT-TGA
*
27151788 GATAATCAATTGA
1 GATGATCAATTGA
27151801 GATGAT
1 GATGAT
27151807 TGTAGAAGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (13 bp):
GATGATCAATTGA
Found at i:27151821 original size:26 final size:26
Alignment explanation
Indices: 27151762--27151822 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
27151752 AATAGTAGGT
27151762 GATGATCAATTGAGATGATTATATGA
1 GATGATCAATTGAGATGATTATATGA
* *
27151788 GATAATCAATTGAGATGATTGTA-GAA
1 GATGATCAATTGAGATGATTATATG-A
27151814 GATGATCAA
1 GATGATCAA
27151823 CTAGGGTGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.03
26 30 0.97
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (26 bp):
GATGATCAATTGAGATGATTATATGA
Found at i:27156036 original size:102 final size:102
Alignment explanation
Indices: 27155802--27156146 Score: 357
Period size: 102 Copynumber: 3.4 Consensus size: 102
27155792 TATCAATGAA
* * *
27155802 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAACT-A-TGGTCACATGTGTAGTA
* * *
27155867 CTTAAGAGAAGGCTACTATGTG-TACCCGAGAAGTTTTGAG-
64 C-TAAGTGAAGGCTACTATGTGATA-CCGAAAAGCTTTG-GT
* * * *
27155907 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAGCTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAA-CTATGGTCACATGTGTAGTAC
27155972 TAAGTGAAGGCTACTATG-GATACCGAAAAGCTTTGGT
65 TAAGTGAAGGCTACTATGTGATACCGAAAAGCTTTGGT
* * * * * *
27156009 CATGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCTGTAAAACT-TGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT--AACTATGGTCACATGTGTAGTA
* * * *
27156072 CTATGTTAAGGCTACTATGTGA-ACTGTAAAA-C--TGAT
64 CTAAGTGAAGGCTACTATGTGATACCG-AAAAGCTTTGGT
*
27156108 CACGTGTGTAGTACTATGTGAATGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
27156147 AATGATAAAA
Statistics
Matches: 205, Mismatches: 27, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
99 34 0.17
100 2 0.01
101 39 0.19
102 50 0.24
103 21 0.10
104 16 0.08
105 42 0.20
106 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAACTATGGTCACATGTGTAGTACT
AAGTGAAGGCTACTATGTGATACCGAAAAGCTTTGGT
Found at i:27156135 original size:49 final size:50
Alignment explanation
Indices: 27155802--27156141 Score: 242
Period size: 51 Copynumber: 6.7 Consensus size: 50
27155792 TATCAATGAA
* * * *
27155802 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGATAAATAATTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACT-G-TAAA-ACTTGAT
* * * * * * ** *
27155854 CACATGTGTAGTACTTAAGAGAAGGCTACTATGTGTACCCG-AGAAGTTTTGAG
1 CACGTGTGTAGTAC-TATGTGAAGGCTACTACGTG-AACTGTA-AA-ACTTGAT
* * * * * *
27155907 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGT-AAGCTATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTGTAAAACT-TGAT
* * * * * * *
27155958 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGA-ACTGTAAAA-C-TTGAT
* * *
27156009 CATGTATGTAGTACTATGTGAAGGCTACTACGTGAGCTGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
* *
27156059 CACGTGTGTAGTACTATGTTAAGGCTACTATGTGAACTGTAAAAC-TGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
*
27156108 CACGTGTGTAGTACTATGTGAATGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
27156142 TATCGAATGA
Statistics
Matches: 223, Mismatches: 53, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
49 36 0.16
50 50 0.22
51 62 0.28
52 40 0.18
53 34 0.15
54 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAAACTTGAT
Found at i:27162978 original size:51 final size:51
Alignment explanation
Indices: 27162914--27163252 Score: 311
Period size: 51 Copynumber: 6.7 Consensus size: 51
27162904 TATCGATGAA
* * *
27162914 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
* * * * * * *
27162965 CACATGTGTAGTACTAAGTGAAGGCTACTATGTATACCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTG-GT
* * * *
27163016 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TATTGGT
* * * * * *
27163067 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TACC-GATAA-ATATTGGT
* *
27163118 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGATAAATA-TTGGT
* * * *
27163168 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTG-TAAA-ACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
27163217 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
27163253 TCGAATGATA
Statistics
Matches: 232, Mismatches: 43, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
49 39 0.17
50 50 0.22
51 139 0.60
52 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATTGGT
Found at i:27163090 original size:102 final size:101
Alignment explanation
Indices: 27162914--27163255 Score: 394
Period size: 102 Copynumber: 3.4 Consensus size: 101
27162904 TATCGATGAA
* *
27162914 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
27162978 CTAAGTGAAGGCTACTATGTATACCGAGAAGTTTTGAG
65 CTAAGTGAAGGCTACTATGTATACCGAGAAG-TTTGAG
* * * *
27163016 CACGTGTGTAGTACTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACATGTGTGGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
*
27163081 TAAGTGAAGGCTACTATGGATACCG-GAAAGCTTTG-G
66 TAAGTGAAGGCTACTATGTATACCGAG-AAG-TTTGAG
* * * * *
27163117 TCACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGT
* * * ** *
27163180 ACTATGTGAAGGCTACTACGTGA-ACTGTA-AA-ACTGAT
64 ACTAAGTGAAGGCTACTATGT-ATACCG-AGAAGTTTGAG
27163217 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
27163256 AATGATAAAA
Statistics
Matches: 206, Mismatches: 25, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
99 35 0.17
100 2 0.01
101 41 0.20
102 127 0.62
103 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTATACCGAGAAGTTTGAG
Found at i:27170218 original size:49 final size:49
Alignment explanation
Indices: 27170047--27170230 Score: 176
Period size: 51 Copynumber: 3.7 Consensus size: 49
27170037 TATCGATGAA
*
27170047 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGATAAATAATTG-T
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACT-G-T-AA-AATTGAT
* * * * * *
27170098 CACATGTGTAGTTCTAAGTGAAGGCTACTATGTGTACTG-AGAAGTTTTGAG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACTGTA-AA--ATTGAT
* * * * *
27170149 CACTTGTGTAGTACTGTGTGAAAGCTACTACGTGAACTGTAAAACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACTGTAAAATTGAT
27170198 CACGTGTGTAGTACTATGTGAAGGCTACTACGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGT
27170231 CTATCGAATG
Statistics
Matches: 107, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
48 2 0.02
49 34 0.32
50 3 0.03
51 66 0.62
52 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (49 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACTGTAAAATTGAT
Found at i:27171178 original size:3 final size:3
Alignment explanation
Indices: 27171159--27171204 Score: 67
Period size: 3 Copynumber: 15.3 Consensus size: 3
27171149 GGAGTCAGGA
*
27171159 CAT CAT CCT CA- CTAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT C-AT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
27171204 C
1 C
27171205 TTTTTGGTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 1 0.03
3 37 0.95
4 1 0.03
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:27176352 original size:350 final size:353
Alignment explanation
Indices: 27175397--27176436 Score: 1505
Period size: 357 Copynumber: 2.9 Consensus size: 353
27175387 TCAAGTTCCC
* * * *
27175397 TTTTAAATCTGTATATGATTTCTTTCAGTCCTGTGTAGTTTTTAATTGACTATGGATGATGGAAA
1 TTTTAAATCTGTATATGATTTTTTTCAGTCCTGTGCAGTTTTTAAGTGACTATGGATGATGGCAA
* * * ** *
27175462 ATTTCTCTTCTATTTCACGTACCAAGTTTGGACCCACTATCTTTTTTTTGCTTAATTACATCCAA
66 CTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCAA
* *
27175527 CAGGTAGGTATCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTGAGGCTGACGTG
131 CAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGTG
* *
27175592 GTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGGTTATTCCAAAATCAC
196 GTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCAA
* *
27175657 TCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACCTTTTCTGATTGGCCATCAGTAGAG
261 TCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTCTGATTGGCCATCAGTCGAG
* *
27175722 GGTGAAATGCAATGCTAAAATTTTATTGGTCCT
326 GGTGAAA--C-AT-CT-AAATGTTATCGGTCCT
* * *
27175755 TTTTAAATCTATATATGATTTTTGTCGGTCCTGTGCA-TTTTTAAGTGACTATGGATGATGGCAA
1 TTTTAAATCTGTATATGATTTTTTTCAGTCCTGTGCAGTTTTTAAGTGACTATGGATGATGGCAA
* *
27175819 CTTTCTCCTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCAG
66 CTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCAA
*
27175884 CAGGCAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGTG
131 CAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGTG
* * * *
27175949 GTAACTATTATTATAGGAGAATTCAACCAGAGGGACTTTCTTTTCCCAGTTTATTCCAAAATCAA
196 GTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCAA
* * * *
27176014 TCACACAGAAATGCATTATATCTTCTAAGACCTGAATAACTTTTTTTGATTGGCCATTAGTCGAG
261 TCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTCTGATTGGCCATCAGTCGAG
* *
27176079 GGTGAAAC-T-T-AGTGTTGTCGGTCCT
326 GGTGAAACATCTAAATGTTATCGGTCCT
* *
27176104 TTTTAAATCTGTATATGATTTTTTTTCAGTTCTATGCAGTTTTTAAGTGACTATGGATGATGGCA
1 TTTTAAATCTGTATATGA-TTTTTTTCAGTCCTGTGCAGTTTTTAAGTGACTATGGATGATGGCA
* ** * * *
27176169 ACTTTCTCTTCTGTTTTACAAACCAAGTTTGGACCCAC-ATATTTCTTTCACTCAATTCCATCAA
65 ACTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCA
* * * **
27176233 ATAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCAAATGGAGACATCTTCAGGCTCAAAT
130 ACAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGT
27176298 GGTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCA
195 GGTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCA
* * * ** **
27176363 ATCACACAAAAACACATTATATCCCCTAAGACCAAAATAACTCCTTCTGATTGGCCATCAGTCGA
260 ATCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTCTGATTGGCCATCAGTCGA
27176428 GGGTGAAAC
325 GGGTGAAAC
27176437 GCAGTGCTAA
Statistics
Matches: 612, Mismatches: 68, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
349 28 0.05
350 220 0.36
351 61 0.10
353 1 0.00
355 1 0.00
357 269 0.44
358 32 0.05
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (353 bp):
TTTTAAATCTGTATATGATTTTTTTCAGTCCTGTGCAGTTTTTAAGTGACTATGGATGATGGCAA
CTTTCTCTTCTGTTTCACGTACCAAGTTTGGACCCACTATCTTTCTTTCACTCAATTACATCCAA
CAGGTAGGTGTCCTACACCTTCTACCATACAAGGCTTCGAATGGAGACATCTTCAGGCTGACGTG
GTAACTATTATTATAGGAGAATTCAACCAGAGGGACATACTTCTCCTAGTTTATTCCAAAATCAA
TCACACAGAAACGCATTATATCCTCTAAGACCTGAATAACTTTTTCTGATTGGCCATCAGTCGAG
GGTGAAACATCTAAATGTTATCGGTCCT
Found at i:27189311 original size:34 final size:34
Alignment explanation
Indices: 27189268--27189334 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
27189258 TGCAATTTGA
* *
27189268 TACTGTACTGAGATGGGCT-AAGGCCCAA-ACTGT
1 TACTGTACTGAAAAGGGCTCAA-GCCCAAGACTGT
27189301 TACTGATACTGAAAAGGGCTCAAGCCCAAGACTG
1 TACTG-TACTGAAAAGGGCTCAAGCCCAAGACTG
27189335 CTTTAACTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 5 0.17
34 18 0.62
35 6 0.21
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.21
Consensus pattern (34 bp):
TACTGTACTGAAAAGGGCTCAAGCCCAAGACTGT
Found at i:27199961 original size:23 final size:24
Alignment explanation
Indices: 27199905--27199967 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
27199895 GTTAAAACCA
*
27199905 CCAATAATAACATGCAGAAAATTCTG
1 CCAATAA-AA-ATGCAGAAAATGCTG
* *
27199931 CCAGTAAAAATGCAGACAA-GCTG
1 CCAATAAAAATGCAGAAAATGCTG
27199954 CCAATAAAAATGCA
1 CCAATAAAAATGCA
27199968 ATAAATTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 16 0.48
24 9 0.27
25 2 0.06
26 6 0.18
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (24 bp):
CCAATAAAAATGCAGAAAATGCTG
Found at i:27203269 original size:8 final size:8
Alignment explanation
Indices: 27203256--27203280 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27203246 AGGACAACAA
27203256 ATTATTTT
1 ATTATTTT
27203264 ATTATTTT
1 ATTATTTT
27203272 ATTATTTT
1 ATTATTTT
27203280 A
1 A
27203281 ATGTTTACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTATTTT
Found at i:27204568 original size:5 final size:5
Alignment explanation
Indices: 27204560--27204636 Score: 104
Period size: 5 Copynumber: 15.4 Consensus size: 5
27204550 ATAATTTTGT
*
27204560 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTCT- GTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTTTA
*
27204610 TTTCA TTTTA TTTCTA -TTTA TTTTA TT
1 TTTTA TTTTA TTT-TA TTTTA TTTTA TT
27204637 CTCTTTATCA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.05
5 58 0.91
6 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:27209327 original size:35 final size:35
Alignment explanation
Indices: 27209282--27209418 Score: 166
Period size: 35 Copynumber: 3.9 Consensus size: 35
27209272 TAGCACAGTG
* * * * * *
27209282 GCATGTTTAACATGCGAATCAGAATCAGATTTATG
1 GCATGCTTAACATGCGAATCATAAGCAGAATAATA
* *
27209317 GCATGCTTAACATGCGAATCATAGGCAGAACAATA
1 GCATGCTTAACATGCGAATCATAAGCAGAATAATA
*
27209352 GCATGCTTAACATGTGAATCATAAGCAGAATAATA
1 GCATGCTTAACATGCGAATCATAAGCAGAATAATA
* * *
27209387 ACACGCTTAACATGCGAATCATAATCAGAATA
1 GCATGCTTAACATGCGAATCATAAGCAGAATA
27209419 TTCACAATCA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 87 1.00
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (35 bp):
GCATGCTTAACATGCGAATCATAAGCAGAATAATA
Found at i:27217122 original size:10 final size:10
Alignment explanation
Indices: 27217107--27217132 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
27217097 TAATGTATTA
27217107 ATTATTGTTT
1 ATTATTGTTT
27217117 ATTATTGTTT
1 ATTATTGTTT
27217127 ATTATT
1 ATTATT
27217133 ATATTGGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (10 bp):
ATTATTGTTT
Found at i:27218085 original size:19 final size:19
Alignment explanation
Indices: 27218063--27218116 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
27218053 ATTACAAAAT
*
27218063 AATTCAAAATAATTT-TTAA
1 AATTCAAAAT-ATTTATAAA
27218082 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
*
27218101 AATTCTAAA-ATTTATA
1 AATTCAAAATATTTATA
27218117 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 11 0.34
19 21 0.66
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:27218139 original size:11 final size:11
Alignment explanation
Indices: 27218123--27218147 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27218113 TATATTTTTT
27218123 AAAATTTAAAA
1 AAAATTTAAAA
27218134 AAAATTTAAAA
1 AAAATTTAAAA
27218145 AAA
1 AAA
27218148 CTAAAGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTTAAAA
Found at i:27221994 original size:15 final size:15
Alignment explanation
Indices: 27221974--27222008 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
27221964 TTCTTTTAAC
27221974 GCAAATATCTAGAAT
1 GCAAATATCTAGAAT
27221989 GCAAATATCTAGAAT
1 GCAAATATCTAGAAT
27222004 GCAAA
1 GCAAA
27222009 GTTTGCAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.23
Consensus pattern (15 bp):
GCAAATATCTAGAAT
Found at i:27225228 original size:63 final size:62
Alignment explanation
Indices: 27225156--27225366 Score: 377
Period size: 62 Copynumber: 3.4 Consensus size: 62
27225146 TGCTTCTGTT
27225156 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTTCTTCTCC
1 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAA-TTCTTCTCC
* *
27225219 TTTCTTTCTTTGTTTTCTGTAACATACTGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCA
1 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
*
27225281 TTTCTTTCTTTGTTTTCTGTAACATATCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
1 TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
*
27225343 TTTCTTTCTTTGTTTTCGGTAACA
1 TTTCTTTCTTTGTTTTCTGTAACA
27225367 GACCCAGAAG
Statistics
Matches: 142, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
62 90 0.63
63 52 0.37
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.44
Consensus pattern (62 bp):
TTTCTTTCTTTGTTTTCTGTAACATACCGAAGTTTTAACCCAGAAGCCCCAAATTCTTCTCC
Found at i:27228047 original size:9 final size:9
Alignment explanation
Indices: 27228027--27228060 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
27228017 CCACTCTTCT
27228027 AAATTTTT-
1 AAATTTTTA
27228035 AAATTTTTA
1 AAATTTTTA
27228044 AAATTTTTA
1 AAATTTTTA
27228053 AAATTTTT
1 AAATTTTT
27228061 GTTGTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
AAATTTTTA
Found at i:27230024 original size:29 final size:28
Alignment explanation
Indices: 27229991--27230077 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
27229981 TCATAAGAAC
27229991 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
27230020 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
27230044 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
27230074 ATTT
1 ATTT
27230078 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:27230177 original size:18 final size:17
Alignment explanation
Indices: 27230149--27230183 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27230139 AATTATAAGA
*
27230149 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27230166 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27230184 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:27230238 original size:137 final size:145
Alignment explanation
Indices: 27230089--27230422 Score: 380
Period size: 156 Copynumber: 2.3 Consensus size: 145
27230079 AAATTTTCAT
* * *
27230089 TGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAAT-TTCT-GC-TAATTATAAG-AA
1 TGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAATATT-TACCACAATTATAAGCAA
* *
27230150 TT-T-TATTAAATT-A-TATAT-TTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGA
65 TTATAAATTAAATTAATTATATATTAAATTAAAATATATTTAATAATAATTATGTTTAAATATGA
27230210 TTAAAATATTTATTAC
130 TTAAAATATTTATTAC
* * *
27230226 TGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATAATCATTTACCAAAACAATTTTC
1 TGATAATAATAATCTTATTAAAATTTAAATAACAATAAC-A-AAT-ATTTACC---ACAATTATA
* ** * *
27230291 TGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTATAATTATGT
60 AGC-AATTAT-A-AATTAAATT-AATTATATA-TTAAATTAAAATATATTTAATAATAATTATGT
27230356 TTAAATATGATTAAAATATTTATTAC
120 TTAAATATGATTAAAATATTTATTAC
27230382 TGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
1 TGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
27230423 TAATCATTTA
Statistics
Matches: 165, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
137 37 0.22
138 1 0.01
139 3 0.02
140 1 0.01
141 3 0.02
145 6 0.04
147 4 0.02
148 1 0.01
151 6 0.04
153 1 0.01
154 6 0.04
155 1 0.01
156 95 0.58
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (145 bp):
TGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAATATTTACCACAATTATAAGCAAT
TATAAATTAAATTAATTATATATTAAATTAAAATATATTTAATAATAATTATGTTTAAATATGAT
TAAAATATTTATTAC
Found at i:27230297 original size:156 final size:156
Alignment explanation
Indices: 27230125--27230452 Score: 620
Period size: 156 Copynumber: 2.1 Consensus size: 156
27230115 AAATAACAAT
*
27230125 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
27230190 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
27230255 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
27230281 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
27230346 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
27230411 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
27230437 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
27230453 GGGTATTCTA
Statistics
Matches: 168, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
156 168 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:27230333 original size:18 final size:18
Alignment explanation
Indices: 27230305--27230353 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
27230295 AATTATAAGA
27230305 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
27230322 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
27230338 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
27230354 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:27230339 original size:16 final size:16
Alignment explanation
Indices: 27230305--27230359 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
27230295 AATTATAAGA
27230305 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
27230322 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
27230338 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
27230352 ATGTTTAA
1 AT-TTTAA
27230360 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:27230596 original size:16 final size:16
Alignment explanation
Indices: 27230575--27230610 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
27230565 GATTAGCTAT
27230575 TACACCTCTAACCCAA
1 TACACCTCTAACCCAA
*
27230591 TACACCTCTAATCCAA
1 TACACCTCTAACCCAA
27230607 TACA
1 TACA
27230611 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (16 bp):
TACACCTCTAACCCAA
Found at i:27248307 original size:24 final size:23
Alignment explanation
Indices: 27248265--27248309 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
27248255 TTTCTTATTA
*
27248265 TAGTATTTTTCGGGGTATTACAG
1 TAGTATTTTTCGGGATATTACAG
*
27248288 TAGTAATTTTTTGGGATATTAC
1 TAGT-ATTTTTCGGGATATTAC
27248310 CTGTATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (23 bp):
TAGTATTTTTCGGGATATTACAG
Found at i:27249179 original size:40 final size:40
Alignment explanation
Indices: 27249124--27249287 Score: 161
Period size: 40 Copynumber: 4.1 Consensus size: 40
27249114 CGTTTGGATA
* * * * *
27249124 AAAAACACCACTATAGATCAAGCATTAGCGGCGCTTTCTG
1 AAAAACGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
* * * * *
27249164 GAATACGCCGCTATAGGTCAACCATTAGTGGTGCTTTTTG
1 AAAAACGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
* *
27249204 AAAAACGTCGCTATAGGTCGACCATTAGCGGAGCTTTC--
1 AAAAACGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
** * *
27249242 AAAAAGCGCCGCTATAGGTTGACCATTAGCGGCGCTTTTTG
1 AAAAA-CGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
27249283 AAAAA
1 AAAAA
27249288 TGCTGCAAAA
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
38 5 0.05
39 29 0.29
40 62 0.61
41 5 0.05
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (40 bp):
AAAAACGCCGCTATAGGTCAACCATTAGCGGAGCTTTCTG
Found at i:27249266 original size:39 final size:38
Alignment explanation
Indices: 27249168--27249279 Score: 134
Period size: 39 Copynumber: 2.9 Consensus size: 38
27249158 TTTCTGGAAT
* * * *
27249168 ACGCCGCTATAGGTCAACCATTAGTGGTGCTTTTTGAAAA
1 ACGCCGCTATAGGTCGACCATTAGCGGAGC--TTTCAAAA
*
27249208 ACGTCGCTATAGGTCGACCATTAGCGGAGCTTTCAAAA
1 ACGCCGCTATAGGTCGACCATTAGCGGAGCTTTCAAAA
* *
27249246 AGCGCCGCTATAGGTTGACCATTAGCGGCGCTTT
1 A-CGCCGCTATAGGTCGACCATTAGCGGAGCTTT
27249280 TTGAAAAATG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 8 0.13
39 29 0.46
40 26 0.41
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (38 bp):
ACGCCGCTATAGGTCGACCATTAGCGGAGCTTTCAAAA
Found at i:27249741 original size:7 final size:7
Alignment explanation
Indices: 27249704--27249900 Score: 55
Period size: 7 Copynumber: 27.9 Consensus size: 7
27249694 TATCATTATA
27249704 GTTTAGG
1 GTTTAGG
**
27249711 GTTTATT
1 GTTTAGG
27249718 GTTTAGG
1 GTTTAGG
* *
27249725 GTATATG
1 GTTTAGG
27249732 GTTTAGG
1 GTTTAGG
*
27249739 GTTTAAG
1 GTTTAGG
*
27249746 GTTTAAGA
1 GTTT-AGG
27249754 GTTACTA--
1 GTT--TAGG
* *
27249761 TTTTAAG
1 GTTTAGG
*
27249768 GTTTATG
1 GTTTAGG
* *
27249775 GATTATG
1 GTTTAGG
*
27249782 GTTTATG
1 GTTTAGG
27249789 GTTTAAGG
1 GTTT-AGG
*
27249797 G-TTGGG
1 GTTTAGG
*
27249803 GTTTAAG
1 GTTTAGG
27249810 GTTTAGG
1 GTTTAGG
* *
27249817 GGTTACGA
1 GTTTA-GG
*
27249825 GTTAAGG
1 GTTTAGG
27249832 G-TTAGGG
1 GTTTA-GG
*
27249839 GTTTATG
1 GTTTAGG
*
27249846 G-TTATG
1 GTTTAGG
* *
27249852 TTTTATG
1 GTTTAGG
*
27249859 ATTTAGG
1 GTTTAGG
27249866 GTTTAAGG
1 GTTT-AGG
*
27249874 G-ATAGGG
1 GTTTA-GG
* *
27249881 GTTAAAG
1 GTTTAGG
27249888 GTTTAGG
1 GTTTAGG
27249895 GTTTAG
1 GTTTAG
27249901 ATTAATTAGT
Statistics
Matches: 138, Mismatches: 38, Indels: 28
0.68 0.19 0.14
Matches are distributed among these distances:
5 2 0.01
6 11 0.08
7 104 0.75
8 19 0.14
9 1 0.01
10 1 0.01
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:27249748 original size:14 final size:14
Alignment explanation
Indices: 27249699--27249899 Score: 88
Period size: 14 Copynumber: 14.2 Consensus size: 14
27249689 TTAATTATCA
*
27249699 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
27249713 TTATTGTTTAGGGT
1 TTATGGTTTAGGGT
*
27249727 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
27249741 TTAAGGTTTAAGAGT
1 TTATGGTTT-AGGGT
*
27249756 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
* *
27249770 TTATGGATTATGGT
1 TTATGGTTTAGGGT
27249784 TTATGGTTTAAGGG-
1 TTATGGTTT-AGGGT
** *
27249798 TTGGGGTTTAAGGT
1 TTATGGTTTAGGGT
* * *
27249812 TTAGGGGTTACGAG-
1 TTATGGTTTA-GGGT
* *
27249826 TTAAGGGTTAGGGGT
1 TTATGGTTTA-GGGT
* *
27249841 TTATGG-TTATGTT
1 TTATGGTTTAGGGT
*
27249854 TTATGATTTAGGGT
1 TTATGGTTTAGGGT
* **
27249868 TTAAGGGATAGGGGT
1 TTATGGTTTA-GGGT
* *
27249883 TAAAGGTTTAGGGT
1 TTATGGTTTAGGGT
27249897 TTA
1 TTA
27249900 GATTAATTAG
Statistics
Matches: 139, Mismatches: 37, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
12 3 0.02
13 10 0.07
14 96 0.69
15 28 0.20
17 2 0.01
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.44
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:27249805 original size:21 final size:21
Alignment explanation
Indices: 27249762--27249820 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
27249752 GAGTTACTAT
* * **
27249762 TTTAAGGTTTATGGATTATGG
1 TTTAAGGTTTAAGGGTTGGGG
*
27249783 TTTATGGTTTAAGGGTTGGGG
1 TTTAAGGTTTAAGGGTTGGGG
*
27249804 TTTAAGGTTTAGGGGTT
1 TTTAAGGTTTAAGGGTT
27249821 ACGAGTTAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.46
Consensus pattern (21 bp):
TTTAAGGTTTAAGGGTTGGGG
Found at i:27252095 original size:328 final size:323
Alignment explanation
Indices: 27251501--27252156 Score: 1188
Period size: 328 Copynumber: 2.0 Consensus size: 323
27251491 GCAGTTTTCT
*
27251501 TTTTACAGATAGTATGTAACTATGTTTCTTTGCTTTTAAAGGTTGGTGATGTTGGGATTGGTGAG
1 TTTTACAGATAGTATGTAACTATGTTTCTTTGCTTTTAAAGGTTGGTGATGTGGGGATTGGTGAG
* *
27251566 TTCGCAATTTTGACAGTGTAGTTAACTATGTTTTATAGTTGGAAAGTTGGTATAATTAGGAGATG
66 TTCCCAATTTTGACAGGGTAGTTAACTATGTTTTATAGTTGGAAAGTTGGTATAATTAGGAGATG
27251631 GACCGTTTGATTCTGAATTTAAGCAATTTCCTTACTCTTTAATTTTTGGTATATTGGATAATGGT
131 GACCGTTTGATTCTGAATTTAAGCAATTTCCTTACTCTTTAATTTTTGGTATATTGGATAATGGT
27251696 TTGTTTATTGAAAATGTGTTCTGGAAATGACAAGGTGTATAAAAGTTTTGGGTTTTAAGTTTTGT
196 TTGTTTATTGAAAATGTGTTCTGGAAATGACAAGGTGTATAAAAGTTTTGGGTTTTAAGTTTTGT
27251761 TGGCTTGCAGTTGGCAAAAGCAATTTATTTTTGGTTTGTTGGGGGGGGGGGGGAGGGGGCTGAG-
261 TGGCTTGCAGTTGGCAAAAGCAATTTATTTTTGGTTTGTT---GGGGGGGGGGAGGGGGCTGAGT
27251825 A
323 A
*
27251826 TTTTACAGATAGTATGTAACTATGTTTCTTTGCTTTTAAAGGTTGGTGATGTGGGGGTTGGTGAG
1 TTTTACAGATAGTATGTAACTATGTTTCTTTGCTTTTAAAGGTTGGTGATGTGGGGATTGGTGAG
** *
27251891 TTCCCAATTTTGAGGGGGGTAGTTAACTATGTTTTATATTTGGAAAGTTGGTATAATTAGGAGAG
66 TTCCCAATTTTGA-CAGGGTAGTTAACTATGTTTTATAGTTGGAAAGTTGGTATAATTA-G-GAG
27251956 ATGGACCGTTTGATTCTGAATTTAAGCAATTTCCTTACTCTTTAATTTTTGGTATATTGGATAAT
128 ATGGACCGTTTGATTCTGAATTTAAGCAATTTCCTTACTCTTTAATTTTTGGTATATTGGATAAT
27252021 GGTTTGTTTATTGAAAATGTGTTCTGGAAATGACAAGGTGTATAAAAGTTTTGGGTTTTAAGTTT
193 GGTTTGTTTATTGAAAATGTGTTCTGGAAATGACAAGGTGTATAAAAGTTTTGGGTTTTAAGTTT
27252086 TGTTGGCTTGCAGTTGGCAAAAGCAATTTATTTTTGGTTTGTTGGGGGGGGGGAGGGGGCTGAGT
258 TGTTGGCTTGCAGTTGGCAAAAGCAATTTATTTTTGGTTTGTTGGGGGGGGGGAGGGGGCTGAGT
27252151 A
323 A
27252152 TTTTA
1 TTTTA
27252157 GCTTTGAAAT
Statistics
Matches: 320, Mismatches: 7, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
325 96 0.30
326 47 0.15
327 1 0.00
328 176 0.55
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (323 bp):
TTTTACAGATAGTATGTAACTATGTTTCTTTGCTTTTAAAGGTTGGTGATGTGGGGATTGGTGAG
TTCCCAATTTTGACAGGGTAGTTAACTATGTTTTATAGTTGGAAAGTTGGTATAATTAGGAGATG
GACCGTTTGATTCTGAATTTAAGCAATTTCCTTACTCTTTAATTTTTGGTATATTGGATAATGGT
TTGTTTATTGAAAATGTGTTCTGGAAATGACAAGGTGTATAAAAGTTTTGGGTTTTAAGTTTTGT
TGGCTTGCAGTTGGCAAAAGCAATTTATTTTTGGTTTGTTGGGGGGGGGGAGGGGGCTGAGTA
Found at i:27254002 original size:43 final size:43
Alignment explanation
Indices: 27253941--27254125 Score: 228
Period size: 43 Copynumber: 4.3 Consensus size: 43
27253931 GAACGGTACT
* *
27253941 TTTAGCGGTGTTTGTCATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGCTC
27253984 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGCTC
1 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGCTC
* * ** * * *
27254027 TGTAACGATGTTTGTACGT-AAAGCGCTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-CATAAAAGCGCCGCTAAAGGTCATGCTC
* * * *
27254070 TTTAGCGGCATTTTTTATAAAAGCGCCGCTAAAGCTCATGCTC
1 TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGCTC
*
27254113 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
27254126 TTTCACATAA
Statistics
Matches: 118, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.01
43 115 0.97
44 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTCATAAAAGCGCCGCTAAAGGTCATGCTC
Found at i:27255593 original size:96 final size:94
Alignment explanation
Indices: 27255431--27255742 Score: 351
Period size: 96 Copynumber: 3.3 Consensus size: 94
27255421 GCTCTTTGCA
** * * * * * *
27255431 AAGAATATGTGAACTGTCAATGTATTATATGCGTGAATTATCTCTACAAAGTATGTACGAACTGT
1 AAGAATATGCAAACTGTCAATGTATTGTATGTGTGAACTGTCTCTGCAAAGTATGTGCGAACTGT
27255496 CATTGTATTGTATGCATGAGTTGTCTTTATG
66 CATTGTATTGTATGCATGA-TTGTCTTT-TG
* * *
27255527 AAGAATATGCAAACTGTCCATGTATTGTATGTGTGAACCGTCTCTGCAAAGTATGTGCGAATTGT
1 AAGAATATGCAAACTGTCAATGTATTGTATGTGTGAACTGTCTCTGCAAAGTATGTGCGAACTGT
*
27255592 CATTGTATTGTATGCATGATCTATC-TTTG
66 CATTGTATTGTATGCATGAT-TGTCTTTTG
* * * *
27255621 CAAAGAATATGCAAATTGTCAATGTATTGTATATGTCAACTGTCT-TAGCGAAGTATGTGCGAAC
1 --AAGAATATGCAAACTGTCAATGTATTGTATGTGTGAACTGTCTCT-GCAAAGTATGTGCGAAC
* *
27255685 TGTCACTGTATTGTATGCATGAACTGTC-TTTG
63 TGTCATTGTATTGTATGCATG-ATTGTCTTTTG
*
27255717 CACAGAATATGCAAACTGTCATTGTA
1 -A-AGAATATGCAAACTGTCAATGTA
27255743 AAGTATGAGT
Statistics
Matches: 185, Mismatches: 25, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
94 2 0.01
95 5 0.03
96 177 0.96
97 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (94 bp):
AAGAATATGCAAACTGTCAATGTATTGTATGTGTGAACTGTCTCTGCAAAGTATGTGCGAACTGT
CATTGTATTGTATGCATGATTGTCTTTTG
Found at i:27255749 original size:48 final size:47
Alignment explanation
Indices: 27255423--27255742 Score: 227
Period size: 48 Copynumber: 6.7 Consensus size: 47
27255413 ATATGTGAGC
** * * * * *
27255423 TCTTTGCAAAGAATATGTGAACTGTCAATGTATTATATGCGTGAATTA
1 TCTTTGC-AAGAATATGCAAACTGTCATTGTATTGTATGCATGAACTG
* * * * **
27255471 TCTCTACAA-AGTATGTACGAACTGTCATTGTATTGTATGCATGAGTTG
1 TCTTTGCAAGAATATG--CAAACTGTCATTGTATTGTATGCATGAACTG
** *
27255519 TCTTTATG-AAGAATATGCAAACTGTCCA-TGTATTGTATGTGTGAACCG
1 TC-TT-TGCAAGAATATGCAAACTGT-CATTGTATTGTATGCATGAACTG
* * * * * * *
27255567 TCTCTGCAAAGTATGTGCGAATTGTCATTGTATTGTATGCATGATCTA
1 TCTTTGC-AAGAATATGCAAACTGTCATTGTATTGTATGCATGAACTG
* *
27255615 TCTTTGCAAAGAATATGCAAATTGTCAATGTATTGTAT--ATGTCAACTG
1 TCTTTGC-AAGAATATGCAAACTGTCATTGTATTGTATGCATG--AACTG
* * * * *
27255663 TCTTAGCGAAGTATGTGCGAACTGTCACTGTATTGTATGCATGAACTG
1 TCTTTGC-AAGAATATGCAAACTGTCATTGTATTGTATGCATGAACTG
27255711 TCTTTGCACAGAATATGCAAACTGTCATTGTA
1 TCTTTGCA-AGAATATGCAAACTGTCATTGTA
27255743 AAGTATGAGT
Statistics
Matches: 211, Mismatches: 47, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
46 10 0.05
47 6 0.03
48 181 0.86
49 5 0.02
50 9 0.04
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (47 bp):
TCTTTGCAAGAATATGCAAACTGTCATTGTATTGTATGCATGAACTG
Found at i:27264070 original size:14 final size:14
Alignment explanation
Indices: 27264032--27264074 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
27264022 CAAAATAAGC
27264032 ATTAAAATAAATTT
1 ATTAAAATAAATTT
* *
27264046 A--ATATTAAATTT
1 ATTAAAATAAATTT
27264058 ATTAAAATAAATTT
1 ATTAAAATAAATTT
27264072 ATT
1 ATT
27264075 TTTGGAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTAAAATAAATTT
Found at i:27264167 original size:25 final size:24
Alignment explanation
Indices: 27264136--27264196 Score: 104
Period size: 25 Copynumber: 2.5 Consensus size: 24
27264126 TGTAATTGTT
27264136 CCACTGCTCAACTATTGAAGAACCA
1 CCACTGC-CAACTATTGAAGAACCA
27264161 CCACTGCCCAACTATTGAAGAACCA
1 CCACTG-CCAACTATTGAAGAACCA
27264186 CCACTGCCAAC
1 CCACTGCCAAC
27264197 CATTTTTCGG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.14
25 29 0.83
26 1 0.03
ACGTcount: A:0.34, C:0.38, G:0.11, T:0.16
Consensus pattern (24 bp):
CCACTGCCAACTATTGAAGAACCA
Found at i:27268552 original size:19 final size:19
Alignment explanation
Indices: 27268528--27268600 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
27268518 AATCTTCAGG
27268528 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27268547 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
27268566 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27268585 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
27268601 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27268626 original size:22 final size:21
Alignment explanation
Indices: 27268528--27268626 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 21
27268518 AATCTTCAGG
*
27268528 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27268547 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27268566 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27268585 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
27268607 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
27268627 TTAATTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
19 47 0.67
22 12 0.17
23 11 0.16
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:27274281 original size:42 final size:42
Alignment explanation
Indices: 27274220--27274303 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
27274210 AAACCCGAAA
*
27274220 AGAGCAGCTCAAATATTGATCAAAATGGGGCATGAGGTGATC
1 AGAGCAACTCAAATATTGATCAAAATGGGGCATGAGGTGATC
* * * *
27274262 AGAGCAACTCAAATCTTGATCAGATTGGGGCATGTGGTGATC
1 AGAGCAACTCAAATATTGATCAAAATGGGGCATGAGGTGATC
27274304 TAGTTATATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (42 bp):
AGAGCAACTCAAATATTGATCAAAATGGGGCATGAGGTGATC
Found at i:27275646 original size:132 final size:132
Alignment explanation
Indices: 27275465--27276491 Score: 1743
Period size: 132 Copynumber: 7.8 Consensus size: 132
27275455 TTGACAGCGA
*
27275465 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
27275530 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
27275595 GG
131 GG
* **
27275597 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTAAAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
27275662 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
27275727 GG
131 GG
*
27275729 AGCAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
27275794 TCTACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
27275859 GG
131 GG
* *
27275861 AGCAGATTGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
27275926 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
27275991 GG
131 GG
*
27275993 AGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
27276058 TTTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
27276123 GG
131 GG
* * * ** * *
27276125 AGCAGATTGAATATGGTGGATTTTACCTCTATGTGGTTATAGTGGAGTACATTGAAGTCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
27276190 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
27276255 GG
131 GG
* * *
27276257 AGCAGATCGAAGATGACGGATTTTACCTCCTTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
27276322 TCTACTTCCCTGGACAATAGTGGAACAGATTGAAGATTTCAGATCTTATCTCCCTAAGTAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
27276387 GG
131 GG
27276389 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
27276453 TCATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
27276492 GTAAGTCCTA
Statistics
Matches: 843, Mismatches: 50, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
131 3 0.00
132 840 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:27275716 original size:44 final size:44
Alignment explanation
Indices: 27275536--27276135 Score: 167
Period size: 44 Copynumber: 13.6 Consensus size: 44
27275526 TAATTCTACT
* *
27275536 TCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** ** * * ** * * *
27275580 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
1 TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** * ** * *
27275624 TCCCTGTGGTTATAGTAAAGTACATTGAAG---CCAGTAAT-TCTA-C
1 TCCCTG-GGCAACAGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC
*
27275667 TTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 -TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** ** * * ** * * *
27275712 TCCCTAAGCAGTAGTGGAGCAGATCGAAGATAGCGGATTTTACC
1 TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** * *
27275756 TCCCTGTGGTTACAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-C
1 TCCCTG-GGCAACAGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC
** *
27275799 TTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATC
1 -TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** ** * ** * * *
27275844 TCCCTAAGCAGTAGTGGAGCAGATTGAAGATGGCGGATTTTACC
1 TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** * * *
27275888 TCCCTGTGGTTATAGTGGAGTACATTGAAG---CCAGTAAT-TCTA-C
1 TCCCTG-GGCAACAGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC
* * *
27275931 TTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATC
1 -TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** ** * ** * * *
27275976 TCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCGGATTTTACC
1 TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** * * *
27276020 TCCCTGTGGTTACAGTGGAGTACATTGAAG---CCAGTAATTTTA-C
1 TCCCTG-GGCAACAGTGGAGTAGATTGAAGATTTCAG--ATCTTATC
* * * *
27276063 TTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGGTCTTATC
1 -TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
** ** *
27276108 TCCCTAAGCAGTAGTGGAGCAGATTGAA
1 TCCCTGGGCAACAGTGGAGTAGATTGAA
27276136 TATGGTGGAT
Statistics
Matches: 389, Mismatches: 129, Indels: 76
0.65 0.22 0.13
Matches are distributed among these distances:
42 8 0.02
43 74 0.19
44 226 0.58
45 69 0.18
46 12 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
TCCCTGGGCAACAGTGGAGTAGATTGAAGATTTCAGATCTTATC
Found at i:27276842 original size:19 final size:19
Alignment explanation
Indices: 27276818--27276928 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
27276808 AATCTTCAGG
27276818 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27276837 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
27276856 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27276875 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
27276894 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27276913 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
27276929 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27276868 original size:38 final size:38
Alignment explanation
Indices: 27276825--27276928 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
27276815 AGGGATATGC
27276825 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
27276863 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
27276901 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
27276929 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:27276954 original size:22 final size:21
Alignment explanation
Indices: 27276818--27276954 Score: 114
Period size: 19 Copynumber: 6.9 Consensus size: 21
27276808 AATCTTCAGG
*
27276818 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27276837 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
27276856 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27276875 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27276894 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27276913 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
27276935 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
27276955 TTAATTTGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
19 79 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:27281579 original size:2 final size:2
Alignment explanation
Indices: 27281572--27281604 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27281562 AATTTTAAGG
27281572 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
27281605 TTTGTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27282025 original size:7 final size:7
Alignment explanation
Indices: 27282013--27282037 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27282003 CCCTATTGCT
27282013 TTCTTTA
1 TTCTTTA
27282020 TTCTTTA
1 TTCTTTA
27282027 TTCTTTA
1 TTCTTTA
27282034 TTCT
1 TTCT
27282038 CTCCATCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (7 bp):
TTCTTTA
Found at i:27287736 original size:36 final size:37
Alignment explanation
Indices: 27287657--27287761 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 37
27287647 TTTTTCTTTT
*
27287657 TTTGAAACAC--AATTTTTTTAAAAAA-A-TAAAAGAA
1 TTTGAAACACGAAATTTTTTTAAAAAACACGAAAAG-A
27287691 TTTTAGAAACACGAAATTTTTTTAAAAAACACGAAAAG-
1 -TTT-GAAACACGAAATTTTTTTAAAAAACACGAAAAGA
* **
27287729 TTTGAAACACGAGATTTTTTTTTAAAACACGAA
1 TTTGAAACACGAAATTTTTTTAAAAAACACGAA
27287762 TTTTCTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
35 3 0.05
36 34 0.56
37 3 0.05
38 15 0.25
39 1 0.02
40 5 0.08
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.32
Consensus pattern (37 bp):
TTTGAAACACGAAATTTTTTTAAAAAACACGAAAAGA
Found at i:27287757 original size:56 final size:58
Alignment explanation
Indices: 27287691--27287815 Score: 139
Period size: 56 Copynumber: 2.2 Consensus size: 58
27287681 AATAAAAGAA
* * *
27287691 TTTTAGAAACACGAAATTTT-TTTAAAAAACACGAAAA-GTTTGAAACACGAGATTT-TT
1 TTTTA-AAACACG-AATTTTCTTTAAAAAACACGAAAATGTTTAAAACACAAAATTTGTT
*** *
27287748 TTTTAAAACACGAATTTTCTTTTTGAAACACGAAAATTTTTAAAACACAAAATTTGTT
1 TTTTAAAACACGAATTTTCTTTAAAAAACACGAAAATGTTTAAAACACAAAATTTGTT
*
27287806 TTTGAAAACA
1 TTTTAAAACA
27287816 TAAAAATTTG
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
55 6 0.11
56 21 0.37
57 19 0.33
58 11 0.19
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (58 bp):
TTTTAAAACACGAATTTTCTTTAAAAAACACGAAAATGTTTAAAACACAAAATTTGTT
Found at i:27287758 original size:20 final size:20
Alignment explanation
Indices: 27287733--27287781 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
27287723 GAAAAGTTTG
27287733 AAACACGAGATTTT-TTTTTA
1 AAACACGA-ATTTTCTTTTTA
*
27287753 AAACACGAATTTTCTTTTTG
1 AAACACGAATTTTCTTTTTA
27287773 AAACACGAA
1 AAACACGAA
27287782 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (20 bp):
AAACACGAATTTTCTTTTTA
Found at i:27287799 original size:16 final size:17
Alignment explanation
Indices: 27287767--27287802 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27287757 ACGAATTTTC
*
27287767 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
27287784 TTTTTAAAACAC-AAAA
1 TTTTTAAAACACGAAAA
27287800 TTT
1 TTT
27287803 GTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:27287813 original size:21 final size:21
Alignment explanation
Indices: 27287784--27287825 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
27287774 AACACGAAAA
*
27287784 TTTTTAAAACA-CAAAATTTG
1 TTTTTAAAACATAAAAATTTG
27287804 TTTTTGAAAACATAAAAATTTG
1 TTTTT-AAAACATAAAAATTTG
27287826 GATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTTTAAAACATAAAAATTTG
Found at i:27287815 original size:38 final size:37
Alignment explanation
Indices: 27287747--27287824 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
27287737 ACGAGATTTT
* * *
27287747 TTTTTAAAACACGAATTTTCTTTTTGAAACACGAAAA
1 TTTTTAAAACACAAAATTTCTTTTTGAAACACAAAAA
* *
27287784 TTTTTAAAACACAAAATTTGTTTTTGAAAACATAAAAA
1 TTTTTAAAACACAAAATTTCTTTTTG-AAACACAAAAA
27287822 TTT
1 TTT
27287825 GGATAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 23 0.66
38 12 0.34
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (37 bp):
TTTTTAAAACACAAAATTTCTTTTTGAAACACAAAAA
Found at i:27287878 original size:37 final size:39
Alignment explanation
Indices: 27287848--27287984 Score: 113
Period size: 37 Copynumber: 3.6 Consensus size: 39
27287838 AAACACGAGG
*
27287848 ATTTTTTTT-CAAACATGAAAATTTAGGAAACACGATCA
1 ATTTTTTTTGAAAACATGAAAATTTAGGAAACACGATCA
** * **
27287886 ATTTTTTTTGAAAACATGAAAATTTTTGAAAGACG-GGA
1 ATTTTTTTTGAAAACATGAAAATTTAGGAAACACGATCA
* * * * * *
27287924 A-ATTTTTTGAAAACACGGAAATTTATGAAATACAAT--
1 ATTTTTTTTGAAAACATGAAAATTTAGGAAACACGATCA
* *
27287960 TTTTTTTTTGAAAACAAGAAAATTT
1 ATTTTTTTTGAAAACATGAAAATTT
27287985 TCAAAATACG
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
37 47 0.59
38 11 0.14
39 21 0.27
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.37
Consensus pattern (39 bp):
ATTTTTTTTGAAAACATGAAAATTTAGGAAACACGATCA
Found at i:27287913 original size:18 final size:18
Alignment explanation
Indices: 27287890--27288186 Score: 202
Period size: 18 Copynumber: 16.7 Consensus size: 18
27287880 CGATCAATTT
*
27287890 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
** *
27287908 TTTTTGAAAGACGGGAAAT
1 TTTTTGAAA-ACACGAAAA
*
27287927 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
* ******
27287945 TTTATGAAATACAATTTTT
1 TTTTTGAAA-ACACGAAAA
*
27287964 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACGAAAA
* * **
27287982 -TTTTCAAAATACGGGAA
1 TTTTTGAAAACACGAAAA
* *
27287999 TTTTTGAAAACAAGGGAAAT
1 TTTTTGAAAAC-A-CGAAAA
27288019 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
27288037 TTTTTG-AAACACCG-GAA
1 TTTTTGAAAACA-CGAAAA
*
27288054 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
27288071 TTTTT-AAAACATGAGAA
1 TTTTTGAAAACACGAAAA
27288088 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
27288106 TTTTTAAAAACCCGGAAA
1 TTTTTGAAAACACGAAAA
* *
27288124 TTTTTGAAACACAAGAAAT
1 TTTTTGAAA-ACACGAAAA
27288143 TTTTCTGAAAACAC--AAA
1 TTTT-TGAAAACACGAAAA
27288160 TTTTTG-AAACACG---A
1 TTTTTGAAAACACGAAAA
27288174 TTTTTGAAAACAC
1 TTTTTGAAAACAC
27288187 CGTATTCAAC
Statistics
Matches: 214, Mismatches: 51, Indels: 31
0.72 0.17 0.10
Matches are distributed among these distances:
14 7 0.03
15 12 0.06
16 9 0.04
17 45 0.21
18 83 0.39
19 40 0.19
20 18 0.08
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:27288003 original size:37 final size:36
Alignment explanation
Indices: 27287888--27288021 Score: 110
Period size: 37 Copynumber: 3.7 Consensus size: 36
27287878 CACGATCAAT
* *
27287888 TTTTTTTGAAAACATGAAAATTTTTGAAAGACGGGAA
1 TTTTTTTGAAAACAAGAAAA-TTTTGAAATACGGGAA
* * * *****
27287925 ATTTTTTGAAAACACGGAAATTTATGAAATACAATTT
1 TTTTTTTGAAAACAAGAAAATTT-TGAAATACGGGAA
*
27287962 TTTTTTTGAAAACAAGAAAATTTTCAAAATACGGGAA
1 TTTTTTTGAAAACAAGAAAATTTT-GAAATACGGGAA
*
27287999 --TTTTTGAAAACAAGGGAAATTTT
1 TTTTTTTGAAAACAA-GAAAATTTT
27288022 TTGAAAACAC
Statistics
Matches: 75, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
35 13 0.17
36 12 0.16
37 50 0.67
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.36
Consensus pattern (36 bp):
TTTTTTTGAAAACAAGAAAATTTTGAAATACGGGAA
Found at i:27288315 original size:20 final size:20
Alignment explanation
Indices: 27288286--27288323 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27288276 GGGATTCTAA
27288286 TAAAACACGAGAATTTTTAT
1 TAAAACACGAGAATTTTTAT
* *
27288306 TAAAATACGAGGATTTTT
1 TAAAACACGAGAATTTTT
27288324 GAATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (20 bp):
TAAAACACGAGAATTTTTAT
Found at i:27288881 original size:11 final size:11
Alignment explanation
Indices: 27288882--27288941 Score: 66
Period size: 11 Copynumber: 5.2 Consensus size: 11
27288872 TTTTTTTCTT
27288882 TTTTCTTTTTC
1 TTTTCTTTTTC
27288893 TTTTCTTTTTC
1 TTTTCTTTTTC
*
27288904 TTCCCTCTTTTTC
1 TT--TTCTTTTTC
*
27288917 TTTTCTTTTTT
1 TTTTCTTTTTC
*
27288928 TCTTTCTTTCTC
1 T-TTTCTTTTTC
27288940 TT
1 TT
27288942 CCTCTTCTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
11 22 0.54
12 9 0.22
13 10 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:27288888 original size:18 final size:18
Alignment explanation
Indices: 27288865--27288936 Score: 62
Period size: 17 Copynumber: 4.0 Consensus size: 18
27288855 GCCTGCTGTC
27288865 TTTCTTATTT-TTTTCTTT
1 TTTCTT-TTTCTTTTCTTT
27288883 TTTCTTTTTCTTTTC-TT
1 TTTCTTTTTCTTTTCTTT
**
27288900 TTTCTTCCCTCTTTTTCTTT
1 TTTCTT-TTTC-TTTTCTTT
27288920 TCTT-TTTTTC-TTTCTTT
1 T-TTCTTTTTCTTTTCTTT
27288937 CTCTTCCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
17 18 0.40
18 13 0.29
19 7 0.16
20 5 0.11
21 2 0.04
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTTCTTTTCTTT
Found at i:27288892 original size:13 final size:13
Alignment explanation
Indices: 27288874--27288938 Score: 64
Period size: 13 Copynumber: 5.1 Consensus size: 13
27288864 CTTTCTTATT
27288874 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
27288887 TTTTTC--TTTTC
1 TTTTTCTTTTTTC
***
27288898 TTTTTCTTCCCTC
1 TTTTTCTTTTTTC
27288911 TTTTTCTTTTCTT-
1 TTTTTCTTTT-TTC
27288924 TTTTTCTTTCTTTC
1 TTTTTCTTT-TTTC
27288938 T
1 T
27288939 CTTCCTCTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 11 0.27
13 27 0.66
14 3 0.07
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:27288893 original size:24 final size:24
Alignment explanation
Indices: 27288865--27288941 Score: 95
Period size: 24 Copynumber: 3.2 Consensus size: 24
27288855 GCCTGCTGTC
*
27288865 TTTCTTATT-TTTTTCTTTTTTCTT
1 TTTCTT-TTCTTTTTCTTCTTTCTT
**
27288889 TTTCTTTTCTTTTTCTTCCCTCTT
1 TTTCTTTTCTTTTTCTTCTTTCTT
27288913 TTTCTTTTCTTTTT-TTCTTTCTT
1 TTTCTTTTCTTTTTCTTCTTTCTT
*
27288936 TCTCTT
1 TTTCTT
27288942 CCTCTTCTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 14 0.30
24 32 0.70
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTCTTTTCTTTTTCTTCTTTCTT
Found at i:27288948 original size:42 final size:42
Alignment explanation
Indices: 27288867--27288948 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
27288857 CTGCTGTCTT
* **
27288867 TCTTATTTTTTTCTTTTTTCTTTTTCTTTTCTTTTTCTTCCC
1 TCTTATTTTTTTCTTTTTTCTCTTTCTTTTCTTCCTCTTCCC
27288909 TCTT-TTTCTTTTCTTTTTT-TCTTTCTTTCTCTTCCTCTTC
1 TCTTATTT-TTTTCTTTTTTCTCTTTCTTT-TCTTCCTCTTC
27288949 TTCGGGCCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 11 0.31
42 24 0.69
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.74
Consensus pattern (42 bp):
TCTTATTTTTTTCTTTTTTCTCTTTCTTTTCTTCCTCTTCCC
Found at i:27289539 original size:29 final size:28
Alignment explanation
Indices: 27289497--27289657 Score: 135
Period size: 30 Copynumber: 5.5 Consensus size: 28
27289487 TTTTGGGGTA
* * *
27289497 AAAATGCAATTTTAGGAAAATATGGGGGCT
1 AAAATGTAA-TTTA-GAAAATTTAGGGGCT
* *
27289527 AAAATGTAATTTATAGAAATTTTAGGGGCC
1 AAAATGTAA-TT-TAGAAAATTTAGGGGCT
* *
27289557 CAAATGCAATTTAGAAAAGTTTAGGGG-T
1 AAAATGTAATTTAGAAAA-TTTAGGGGCT
* *
27289585 AGAAATGTAATTTTGAGAAAGTTTAGGGGTT
1 A-AAATGTAA-TTT-AGAAAATTTAGGGGCT
* *
27289616 AAAATGTAATTTAGAAAAGTTCAGGGGCG
1 AAAATGTAATTTAGAAAA-TTTAGGGGCT
27289645 AAAATGTAATTTA
1 AAAATGTAATTTA
27289658 TATTTTTTTT
Statistics
Matches: 108, Mismatches: 16, Indels: 15
0.78 0.12 0.11
Matches are distributed among these distances:
28 11 0.10
29 40 0.37
30 48 0.44
31 9 0.08
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.30
Consensus pattern (28 bp):
AAAATGTAATTTAGAAAATTTAGGGGCT
Found at i:27289555 original size:30 final size:29
Alignment explanation
Indices: 27289521--27289659 Score: 147
Period size: 29 Copynumber: 4.7 Consensus size: 29
27289511 GGAAAATATG
*
27289521 GGGGCTAAAATGTAATTTATAGAAATTTTA
1 GGGGCTAAAATGTAATTTATA-AAAGTTTA
** * *
27289551 GGGGCCCAAATGCAATTTAGAAAAGTTTA
1 GGGGCTAAAATGTAATTTATAAAAGTTTA
27289580 GGGG-TAGAAATGTAATTT-TGAGAAAGTTTA
1 GGGGCTA-AAATGTAATTTAT-A-AAAGTTTA
* * *
27289610 GGGGTTAAAATGTAATTTAGAAAAGTTCA
1 GGGGCTAAAATGTAATTTATAAAAGTTTA
*
27289639 GGGGCGAAAATGTAATTTATA
1 GGGGCTAAAATGTAATTTATA
27289660 TTTTTTTTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
29 47 0.52
30 41 0.46
31 2 0.02
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (29 bp):
GGGGCTAAAATGTAATTTATAAAAGTTTA
Found at i:27289592 original size:59 final size:59
Alignment explanation
Indices: 27289497--27289659 Score: 172
Period size: 59 Copynumber: 2.7 Consensus size: 59
27289487 TTTTGGGGTA
* * *
27289497 AAAATGCAATTTTAGGAAAA-TATGGGGGCTA-AAATGTAATTTATAGAAATTTTAGGGGCC
1 AAAATGCAA-TTTA-GAAAAGTTTAGGGG-TAGAAATGTAATTTATAGAAAGTTTAGGGGCC
* **
27289557 CAAATGCAATTTAGAAAAGTTTAGGGGTAGAAATGTAATTT-TGAGAAAGTTTAGGGGTT
1 AAAATGCAATTTAGAAAAGTTTAGGGGTAGAAATGTAATTTAT-AGAAAGTTTAGGGGCC
* * *
27289616 AAAATGTAATTTAGAAAAGTTCAGGGG-CGAAAATGTAATTTATA
1 AAAATGCAATTTAGAAAAGTTTAGGGGTAG-AAATGTAATTTATA
27289660 TTTTTTTTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
58 9 0.10
59 70 0.80
60 9 0.10
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (59 bp):
AAAATGCAATTTAGAAAAGTTTAGGGGTAGAAATGTAATTTATAGAAAGTTTAGGGGCC
Found at i:27290370 original size:163 final size:163
Alignment explanation
Indices: 27290021--27290497 Score: 735
Period size: 162 Copynumber: 3.0 Consensus size: 163
27290011 TAGATATTGA
* * *
27290021 AAATACCTCAGCGT--AACCCGAGGCTCAACTCACTTCTAGCATTATGAGTTGATTTTTTTTTGA
1 AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTTTGA
*
27290084 AAAAAC--AG------AAATTGAAAATACCTCAGCGTGACCCGAGGCTCAAAC-CATCTCTCGCA
64 AAAAACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGCTC-AACTCACCTCTCGCA
*
27290140 TTATGAATTGATTTTTTTTGAAAAAAGAAATTTAAAAG
128 TTATGAGTTGA--TTTTTTGAAAAAAGAAATTTAAAAG
*
27290178 AAATACCTTAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
*
27290243 AAACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACATTA
66 AAACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTA
*
27290308 TGAGTTGATTTTTTGAAAAGAGAAATTTAAAAG
131 TGAGTTGATTTTTTGAAAAAAGAAATTTAAAAG
*
27290341 AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTG-CA
1 AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
*
27290405 AAACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTCGCATTA
66 AAACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTA
27290470 TGAGTTGATTTTTTGAAAAAAGAAATTT
131 TGAGTTGATTTTTTGAAAAAAGAAATTT
27290498 GCGACTCGAG
Statistics
Matches: 296, Mismatches: 13, Indels: 17
0.91 0.04 0.05
Matches are distributed among these distances:
157 28 0.09
159 37 0.12
162 91 0.31
163 85 0.29
164 3 0.01
165 52 0.18
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (163 bp):
AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
AAACAGAGAAACATAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCATTA
TGAGTTGATTTTTTGAAAAAAGAAATTTAAAAG
Found at i:27290389 original size:79 final size:79
Alignment explanation
Indices: 27290021--27290497 Score: 544
Period size: 79 Copynumber: 5.9 Consensus size: 79
27290011 TAGATATTGA
* *
27290021 AAATACCTCAGCGTAACCCGAGGCTCAACTCACTTCTAGCATTATGAGTTGATTTTTTTTTGAAA
1 AAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGA--TTTTTTTG-AA
* *
27290086 AAACAGAAA-TT--GA-
63 AAAGAGAAATTTAAAAG
*
27290099 AAATACCTCAGCGTGACCCGAGGCTCAAAC-CA-TCTCTCGCATTATGAATTGATTTTTTTTGAA
1 AAATACCTCAGCGTGACCCGAGGCTC-AACTCACT-TCTCGCATTATGAGTTGA-TTTTTTTGAA
27290162 AAA-AGAAATTTAAAAG
63 AAAGAGAAATTTAAAAG
* *
27290178 AAATACCTTAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AAATACCTCAGCGT--GACCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTG--A
** *
27290243 AAACAGAGAAACATAAATTG
62 AAA-AGAGAAATTTAAA-AG
* *
27290263 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGA-TTTTTTG-AAA
1 -AAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTGAAAA
27290326 AGAGAAATTTAAAAG
65 AGAGAAATTTAAAAG
*
27290341 AAATACCTCAGCGTGCGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGCAA
1 AAATACCTCAGCGT--GACCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTG-AA
** *
27290406 AACAGAGAAACATAAATTG
63 AA-AGAGAAATTTAAA-AG
* *
27290425 AAAATACCTCAGCGTGACCCGAGGTTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTGAAAA
1 -AAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTGAAAA
27290489 A-AGAAATTT
65 AGAGAAATTT
27290498 GCGACTCGAG
Statistics
Matches: 347, Mismatches: 28, Indels: 47
0.82 0.07 0.11
Matches are distributed among these distances:
75 5 0.01
76 7 0.02
77 24 0.07
78 45 0.13
79 68 0.20
80 22 0.06
81 34 0.10
82 15 0.04
83 54 0.16
84 45 0.13
85 15 0.04
86 13 0.04
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (79 bp):
AAATACCTCAGCGTGACCCGAGGCTCAACTCACTTCTCGCATTATGAGTTGATTTTTTTGAAAAA
GAGAAATTTAAAAG
Found at i:27290516 original size:60 final size:62
Alignment explanation
Indices: 27290444--27290558 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 62
27290434 CAGCGTGACC
* * *
27290444 CGAGGTTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTTGAAAAA-AGAAATTTGCGACT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTCAAAAACAGAAATTTGCGACT
*
27290504 CGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTCAAAAACAGAAATT
1 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTCAAAAACAGAAATT
27290559 GAAAAATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 31 0.63
61 11 0.22
62 7 0.14
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (62 bp):
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTCAAAAACAGAAATTTGCGACT
Found at i:27291450 original size:15 final size:15
Alignment explanation
Indices: 27291426--27291466 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
27291416 TTCATCTTGA
27291426 TTTTTC-TTTTTCTT
1 TTTTTCTTTTTTCTT
*
27291440 TTTTTCTTTTTTGTT
1 TTTTTCTTTTTTCTT
*
27291455 TTTTTGTTTTTT
1 TTTTTCTTTTTT
27291467 TTATTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:27291466 original size:17 final size:16
Alignment explanation
Indices: 27291426--27291500 Score: 62
Period size: 17 Copynumber: 4.4 Consensus size: 16
27291416 TTCATCTTGA
27291426 TTTTTCTTTTTCTTTTT-
1 TTTTT-TTTTT-TTTTTG
27291443 TTCTTTTTTGTTTTTTTG
1 TT-TTTTTT-TTTTTTTG
*
27291461 TTTTTTTTATTTGTTTG
1 TTTTTTTT-TTTTTTTG
* *
27291478 TTTGTTTTTTGTTGTTG
1 TTT-TTTTTTTTTTTTG
27291495 TTTTTT
1 TTTTTT
27291501 CTAGGCATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.06
17 34 0.69
18 12 0.24
ACGTcount: A:0.01, C:0.04, G:0.11, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTG
Found at i:27291473 original size:21 final size:23
Alignment explanation
Indices: 27291439--27291487 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
27291429 TTCTTTTTCT
*
27291439 TTTTTTCTTTTTTGTTT-TTT-TG
1 TTTTTT-TTATTTGTTTGTTTGTG
27291461 TTTTTTTTATTTGTTTGTTTGT-
1 TTTTTTTTATTTGTTTGTTTGTG
27291483 TTTTT
1 TTTTT
27291488 GTTGTTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 9 0.38
22 14 0.58
23 1 0.04
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (23 bp):
TTTTTTTTATTTGTTTGTTTGTG
Found at i:27291495 original size:13 final size:13
Alignment explanation
Indices: 27291454--27291500 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
27291444 TCTTTTTTGT
*
27291454 TTTTTTGTT-TTT
1 TTTTTTGTTGTTG
27291466 TTTATTTGTTTGTTTG
1 TTT-TTTG-TTG-TTG
27291482 TTTTTTGTTGTTG
1 TTTTTTGTTGTTG
27291495 TTTTTT
1 TTTTTT
27291501 CTAGGCATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 3 0.10
13 13 0.43
14 5 0.17
15 4 0.13
16 5 0.17
ACGTcount: A:0.02, C:0.00, G:0.15, T:0.83
Consensus pattern (13 bp):
TTTTTTGTTGTTG
Found at i:27291495 original size:21 final size:21
Alignment explanation
Indices: 27291450--27291497 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
27291440 TTTTTCTTTT
* *
27291450 TTGTTTTTTTGTTTTTTTTAT
1 TTGTTTGTTTGTTTTTTTTAG
27291471 TTGTTTGTTTGTTTTTTGTT-G
1 TTGTTTGTTTGTTTTTT-TTAG
27291492 TTGTTT
1 TTGTTT
27291498 TTTCTAGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.02, C:0.00, G:0.17, T:0.81
Consensus pattern (21 bp):
TTGTTTGTTTGTTTTTTTTAG
Found at i:27302577 original size:38 final size:37
Alignment explanation
Indices: 27302520--27302616 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 37
27302510 CTTTTTCTTT
*
27302520 TTTTGAAACAC-AAATTTTTTTTAAAAAAATA-AAAGAA
1 TTTTGAAACACGAAA-TTTTTTTAAAAAAACACAAA-AA
*
27302557 TTTTAGAAACACGAAATTTTTTTAAAAAAACACGAAAA
1 TTTT-GAAACACGAAATTTTTTTAAAAAAACACAAAAA
* *
27302595 GTTTGAAACACGAGATTTTTTT
1 TTTTGAAACACGAAATTTTTTT
27302617 TTAAAACACG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
37 21 0.40
38 27 0.51
39 5 0.09
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.35
Consensus pattern (37 bp):
TTTTGAAACACGAAATTTTTTTAAAAAAACACAAAAA
Found at i:27302625 original size:20 final size:20
Alignment explanation
Indices: 27302600--27302648 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
27302590 GAAAAGTTTG
27302600 AAACACGAGATTTT-TTTTTA
1 AAACACGA-ATTTTCTTTTTA
*
27302620 AAACACGAATTTTCTTTTTG
1 AAACACGAATTTTCTTTTTA
27302640 AAACACGAA
1 AAACACGAA
27302649 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (20 bp):
AAACACGAATTTTCTTTTTA
Found at i:27302666 original size:16 final size:17
Alignment explanation
Indices: 27302634--27302669 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
27302624 ACGAATTTTC
*
27302634 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
27302651 TTTTTAAAACAC-AAAA
1 TTTTTAAAACACGAAAA
27302667 TTT
1 TTT
27302670 GTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.36
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:27302680 original size:21 final size:21
Alignment explanation
Indices: 27302651--27302692 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
27302641 AACACGAAAA
*
27302651 TTTTTAAAACA-CAAAATTTG
1 TTTTTAAAACATAAAAATTTG
27302671 TTTTTGAAAACATAAAAATTTG
1 TTTTT-AAAACATAAAAATTTG
27302693 GATAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTTTAAAACATAAAAATTTG
Found at i:27302682 original size:38 final size:37
Alignment explanation
Indices: 27302614--27302857 Score: 118
Period size: 37 Copynumber: 6.2 Consensus size: 37
27302604 ACGAGATTTT
* *
27302614 TTTTTAAAACACGAATTTTCTTTTTG-AAACACGAAAA
1 TTTTTAAAACACAAAATTT-TTTTTGAAAACACGAAAA
**
27302651 TTTTTAAAACACAAAATTTGTTTTTGAAAACATAAAAA
1 TTTTTAAAACACAAAATTT-TTTTTGAAAACACGAAAA
* *
27302689 TTTGGATAAAAATACGAAACATGAGGATTTTTTTTG-AAACACGAAAA
1 TTT---T-TAAA-AC---ACA--A-AATTTTTTTTGAAAACACGAAAA
** * *
27302736 TTTAGAAAACACGATCAATTTTTTTTGAAAACATGAAAA
1 TTTTTAAAACAC-A-AAATTTTTTTTGAAAACACGAAAA
*** *
27302775 TTTTTGAAAGACGGGAAA--TTTTTTGAAAACACGGAAA
1 TTTTT-AAA-ACACAAAATTTTTTTTGAAAACACGAAAA
** * * * *
27302812 TTAATGAAATACAAATTTTTTTTTGAAAACAAGAAAA
1 TTTTTAAAACACAAAATTTTTTTTGAAAACACGAAAA
*
27302849 TTTTCAAAA
1 TTTTTAAAA
27302858 TATGGGAATT
Statistics
Matches: 152, Mismatches: 37, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
35 3 0.02
36 2 0.01
37 65 0.43
38 22 0.14
39 17 0.11
40 4 0.03
41 3 0.02
42 5 0.03
43 5 0.03
46 3 0.02
47 12 0.08
48 7 0.05
49 4 0.03
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (37 bp):
TTTTTAAAACACAAAATTTTTTTTGAAAACACGAAAA
Found at i:27302780 original size:18 final size:18
Alignment explanation
Indices: 27302719--27303038 Score: 180
Period size: 18 Copynumber: 17.7 Consensus size: 18
27302709 ATGAGGATTT
27302719 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
27302736 -TTTAGAAAACACGATCAATTT
1 TTTTTGAAAACACGA--AA--A
*
27302757 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
** *
27302775 TTTTTGAAAGACGGGAAAT
1 TTTTTGAAA-ACACGAAAA
*
27302794 TTTTTGAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
** **
27302812 TTAATGAAATACA--AATTTT
1 TTTTTGAAA-ACACGAA--AA
*
27302831 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACGAAAA
* * * **
27302849 -TTTTCAAAATATGGGAA
1 TTTTTGAAAACACGAAAA
* *
27302866 TTTTTGAAAACAAGGGAAAT
1 TTTTTGAAAAC-A-CGAAAA
*
27302886 TTTTTGAAAACACCG-GAA
1 TTTTTGAAAACA-CGAAAA
*
27302904 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
27302921 TTTTT-AAAACATGAGAA
1 TTTTTGAAAACACGAAAA
27302938 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
27302956 TTTTTAAAAACCCTG-AAA
1 TTTTTGAAAACAC-GAAAA
* *
27302974 TTTTTGAAACACAAGAAAT
1 TTTTTGAAA-ACACGAAAA
27302993 TTTTCTGAAAACACGAAAA
1 TTTT-TGAAAACACGAAAA
27303012 TTTTTG-AAACACG---A
1 TTTTTGAAAACACGAAAA
27303026 TTTTTGAAAACAC
1 TTTTTGAAAACAC
27303039 CGTATTTAAC
Statistics
Matches: 229, Mismatches: 51, Indels: 48
0.70 0.16 0.15
Matches are distributed among these distances:
14 7 0.03
15 6 0.03
16 6 0.03
17 54 0.24
18 72 0.31
19 50 0.22
20 22 0.10
22 12 0.05
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:27302813 original size:37 final size:36
Alignment explanation
Indices: 27302757--27303025 Score: 137
Period size: 37 Copynumber: 7.4 Consensus size: 36
27302747 CGATCAATTT
* *
27302757 TTTTTGAAAACATGAAAATTTTTGAAAGACGGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAATACGGGAAA
* **
27302793 TTTTTTGAAAACACGGAAATTAATGAAATAC---AAA
1 -TTTTTGAAAACACGAAAATTTTTGAAATACGGGAAA
* ** *
27302827 TTTTTTTTTGAAAACAAGAAAATTTTCAAAATATGGG-AA
1 ----TTTTTGAAAACACGAAAATTTTTGAAATACGGGAAA
* * * *
27302866 TTTTTGAAAACAAGGGAAATTTTTTGAAAACACCGG-AA
1 TTTTTGAAAAC-A-CGAAAATTTTTG-AAATACGGGAAA
* **
27302904 -TTTTGAAAACACGAAGATTTTT-AAA-ACATGAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAATACGGGA-AA
* **
27302938 TTTTTGAAAACACGAAAATTTTT-AAAAACCCTGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAATA-CGGGAAA
* * * *
27302974 TTTTTGAAACACAAGAAATTTTTCTGAAA-ACACGAAAA
1 TTTTTGAAA-ACACGAAAATTTT-TGAAATAC-GGGAAA
27303012 TTTTTG-AAACACGA
1 TTTTTGAAAACACGA
27303026 TTTTTGAAAA
Statistics
Matches: 183, Mismatches: 31, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
32 3 0.02
33 3 0.02
34 5 0.03
35 43 0.23
36 19 0.10
37 85 0.46
38 20 0.11
39 5 0.03
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (36 bp):
TTTTTGAAAACACGAAAATTTTTGAAATACGGGAAA
Found at i:27302877 original size:35 final size:35
Alignment explanation
Indices: 27302831--27303020 Score: 159
Period size: 35 Copynumber: 5.3 Consensus size: 35
27302821 TACAAATTTT
* *
27302831 TTTTTGAAAACAAGAAAATTTTCAAAATATGGGAA
1 TTTTTGAAAACAAGAAAATTTTTAAAACATGGGAA
* **
27302866 TTTTTGAAAACAAGGGAAATTTTTTGAAAACACCGGAA
1 TTTTTGAAAACAA--GAAAATTTTT-AAAACATGGGAA
* * *
27302904 -TTTTGAAAACACGAAGATTTTTAAAACATGAGAA
1 TTTTTGAAAACAAGAAAATTTTTAAAACATGGGAA
* * *
27302938 TTTTTGAAAACACGAAAATTTTTAAAAACCCT-GAAA
1 TTTTTGAAAACAAGAAAATTTTT-AAAA-CATGGGAA
* * **
27302974 TTTTTGAAACACAAGAAATTTTTCTGAAAACACGAAAA
1 TTTTTGAAA-ACAAGAAAATTTT-T-AAAACATGGGAA
27303012 TTTTTGAAA
1 TTTTTGAAA
27303021 CACGATTTTT
Statistics
Matches: 125, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
34 9 0.07
35 42 0.34
36 15 0.12
37 33 0.26
38 26 0.21
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (35 bp):
TTTTTGAAAACAAGAAAATTTTTAAAACATGGGAA
Found at i:27302909 original size:17 final size:16
Alignment explanation
Indices: 27302887--27302951 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 16
27302877 AAGGGAAATT
27302887 TTTTGAAAACACCGGAA
1 TTTTGAAAACA-CGGAA
*
27302904 TTTTGAAAACACGAAGA
1 TTTTGAAAACACGGA-A
* *
27302921 TTTTTAAAACATGAGAA
1 TTTTGAAAACACG-GAA
27302938 TTTTTGAAAACACG
1 -TTTTGAAAACACG
27302952 AAAATTTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
16 3 0.08
17 24 0.62
18 12 0.31
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (16 bp):
TTTTGAAAACACGGAA
Found at i:27303167 original size:20 final size:20
Alignment explanation
Indices: 27303138--27303175 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27303128 GGGATTCTAA
27303138 TAAAACACGAGAATTTTTAT
1 TAAAACACGAGAATTTTTAT
* *
27303158 TAAAATACGAGGATTTTT
1 TAAAACACGAGAATTTTT
27303176 GAATATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (20 bp):
TAAAACACGAGAATTTTTAT
Found at i:27303734 original size:11 final size:11
Alignment explanation
Indices: 27303718--27303774 Score: 55
Period size: 11 Copynumber: 5.1 Consensus size: 11
27303708 GCCTGCTGTC
27303718 TTTCTTATTT-T
1 TTTCTT-TTTCT
27303729 TTTCTTTTTCT
1 TTTCTTTTTCT
27303740 TTTCTTTTTCT
1 TTTCTTTTTCT
*
27303751 TCTCCTTTTT-T
1 T-TTCTTTTTCT
*
27303762 CTTTCTTTCTCT
1 -TTTCTTTTTCT
27303774 T
1 T
27303775 CCTCTTCTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 3 0.08
11 27 0.69
12 9 0.23
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:27303740 original size:17 final size:16
Alignment explanation
Indices: 27303718--27303774 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
27303708 GCCTGCTGTC
27303718 TTTCTTATTTTTTTCTT
1 TTTCTT-TTTTTTTCTT
27303735 TTTCTTTTCTTTTTCTT
1 TTTCTTTT-TTTTTCTT
* *
27303752 CTCCTTTTTTCTTTCTT
1 TTTCTTTTTT-TTTCTT
*
27303769 TCTCTT
1 TTTCTT
27303775 CCTCTTCTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 4 0.12
17 29 0.88
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTTTTTTTTTCTT
Found at i:27304375 original size:29 final size:29
Alignment explanation
Indices: 27304328--27304486 Score: 137
Period size: 29 Copynumber: 5.4 Consensus size: 29
27304318 TTTTGGGGTA
* *
27304328 AAAACGTAATTTTAGGAAAATAT-GGGGCT
1 AAAATGTAATTTTA-GAAAATTTAGGGGCT
* *
27304357 AAAATGTAATTTATAGAAAGTTTAGGGGCC
1 AAAATGTAATTT-TAGAAAATTTAGGGGCT
* * *
27304387 CAAATGCAA-TTTAAAAAAGTTTAGGGG-T
1 AAAATGTAATTTTAGAAAA-TTTAGGGGCT
* *
27304415 AGAAATGTAATTTTGAGAAAGTTTAGGGGTT
1 A-AAATGTAATTTT-AGAAAATTTAGGGGCT
* *
27304446 GAAATGTAA-TTTAGAAAAGTTTAGGGGCC
1 AAAATGTAATTTTAGAAAA-TTTAGGGGCT
27304475 AAAATGTAATTT
1 AAAATGTAATTT
27304487 ATATTTTTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
28 10 0.10
29 53 0.51
30 35 0.34
31 5 0.05
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (29 bp):
AAAATGTAATTTTAGAAAATTTAGGGGCT
Found at i:27304423 original size:59 final size:59
Alignment explanation
Indices: 27304351--27304489 Score: 183
Period size: 59 Copynumber: 2.4 Consensus size: 59
27304341 AGGAAAATAT
*
27304351 GGGGCTAAAATGTAATTTATAGAAAGTTTAGGGGCCCAAATGCAATTTAAAAAAGTTTA
1 GGGGCCAAAATGTAATTTATAGAAAGTTTAGGGGCCCAAATGCAATTTAAAAAAGTTTA
* *** * *
27304410 GGGG-TAGAAATGTAATTT-TGAGAAAGTTTAGGGGTTGAAATGTAATTTAGAAAAGTTTA
1 GGGGCCA-AAATGTAATTTAT-AGAAAGTTTAGGGGCCCAAATGCAATTTAAAAAAGTTTA
27304469 GGGGCCAAAATGTAATTTATA
1 GGGGCCAAAATGTAATTTATA
27304490 TTTTTTTGTA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
58 3 0.04
59 65 0.93
60 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (59 bp):
GGGGCCAAAATGTAATTTATAGAAAGTTTAGGGGCCCAAATGCAATTTAAAAAAGTTTA
Found at i:27304487 original size:29 final size:30
Alignment explanation
Indices: 27304351--27304487 Score: 163
Period size: 29 Copynumber: 4.6 Consensus size: 30
27304341 AGGAAAATAT
*
27304351 GGGGCTAAAATGTAATTTATAGAAAGTTTA
1 GGGGCTAAAATGTAATTTAGAGAAAGTTTA
** * *
27304381 GGGGCCCAAATGCAATTTA-AAAAAGTTTA
1 GGGGCTAAAATGTAATTTAGAGAAAGTTTA
*
27304410 GGGG-TAGAAATGTAATTTTGAGAAAGTTTA
1 GGGGCTA-AAATGTAATTTAGAGAAAGTTTA
* *
27304440 GGGGTTGAAATGTAATTTAGA-AAAGTTTA
1 GGGGCTAAAATGTAATTTAGAGAAAGTTTA
*
27304469 GGGGCCAAAATGTAATTTA
1 GGGGCTAAAATGTAATTTA
27304488 TATTTTTTTG
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
29 47 0.52
30 42 0.47
31 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.31
Consensus pattern (30 bp):
GGGGCTAAAATGTAATTTAGAGAAAGTTTA
Found at i:27305107 original size:14 final size:14
Alignment explanation
Indices: 27305088--27305118 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
27305078 TTAGATTTTA
27305088 TTTTTTTCTAGAAT
1 TTTTTTTCTAGAAT
27305102 TTTTTTTCTAGAAT
1 TTTTTTTCTAGAAT
27305116 TTT
1 TTT
27305119 CTATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTTTTCTAGAAT
Found at i:27306184 original size:6 final size:6
Alignment explanation
Indices: 27306173--27306200 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27306163 CACTGATCTT
27306173 CCCTTC CCCTTC CCCTTC CCCTTC CCCT
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCT
27306201 ATCCTTGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCTTC
Found at i:27306472 original size:6 final size:6
Alignment explanation
Indices: 27306461--27306488 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
27306451 CTACCAGGTC
27306461 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
27306489 TCCCGCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:27308782 original size:22 final size:24
Alignment explanation
Indices: 27308732--27308782 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
27308722 TTGCAATGCT
27308732 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
27308757 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
27308778 TTTAT
1 TTTAT
27308783 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:27308996 original size:34 final size:35
Alignment explanation
Indices: 27308938--27309004 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
27308928 CAAACACCAG
27308938 AAAATATTTTCCAGCAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGCAAATCATTTTACAGAAAAGT
*
27308973 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGCAAATCATTTTACAGAAAA
27309005 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAATATTTTCCAGCAAATCATTTTACAGAAAAGT
Found at i:27313049 original size:11 final size:11
Alignment explanation
Indices: 27313029--27313125 Score: 50
Period size: 12 Copynumber: 9.4 Consensus size: 11
27313019 CAAAAATTAA
27313029 AAAAAGTATTTT
1 AAAAA-TATTTT
27313041 AAAAATATTTT
1 AAAAATATTTT
27313052 --AAA-A--TT
1 AAAAATATTTT
**
27313058 AAAAA-AACTT
1 AAAAATATTTT
27313068 AAAAAGTATTTT
1 AAAAA-TATTTT
*
27313080 AAAAA-A-ATT
1 AAAAATATTTT
**
27313089 AAAAAT-TTAA
1 AAAAATATTTT
27313099 AAAAAGTATTTT
1 AAAAA-TATTTT
*
27313111 AAAAGTATTTT
1 AAAAATATTTT
27313122 AAAA
1 AAAA
27313126 TAAAAAAATA
Statistics
Matches: 66, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
6 2 0.03
8 5 0.08
9 10 0.15
10 13 0.20
11 17 0.26
12 19 0.29
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:27313072 original size:39 final size:40
Alignment explanation
Indices: 27313002--27313125 Score: 126
Period size: 39 Copynumber: 3.0 Consensus size: 40
27312992 ACCAAAAATT
27313002 TATTTTGAAAATTAAAACAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT-AAA-AAAAATT-AAAAAAGTATTTTAAAAA
*
27313046 TATTTTAAAATTAAAAAAACTT-AAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAAATTAAAAAAGTATTTTAAAAA
* * **
27313085 -AATTAAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAA
1 TATTTTAAAA-TTAAAAAAA--ATTAAAAAAGTATTTTAAAA
27313126 TAAAAAAATA
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
38 7 0.10
39 26 0.37
41 8 0.11
42 18 0.25
43 6 0.08
44 6 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:27313077 original size:28 final size:28
Alignment explanation
Indices: 27313039--27313114 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 28
27313029 AAAAAGTATT
*
27313039 TTAAAAA-TATTTTAAAATTAA-AAAAAC
1 TTAAAAAGTATTTTAAAA-AAATAAAAAC
*
27313066 TTAAAAAGTATTTTAAAAAAATTAAAAAT
1 TTAAAAAGTATTTTAAAAAAA-TAAAAAC
27313095 TTAAAAAAAGTATTTTAAAA
1 TT--AAAAAGTATTTTAAAA
27313115 GTATTTTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 9 0.21
28 10 0.24
29 7 0.17
31 16 0.38
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (28 bp):
TTAAAAAGTATTTTAAAAAAATAAAAAC
Found at i:27313430 original size:21 final size:21
Alignment explanation
Indices: 27313394--27313436 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27313384 TTCGGGTGGA
* *
27313394 TTAGCTCTTATGAGCTTCTGT
1 TTAGCTCTTATAAGCTTATGT
*
27313415 TTAGCTCTTTTAAGCTTATGT
1 TTAGCTCTTATAAGCTTATGT
27313436 T
1 T
27313437 GGCATGTTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.51
Consensus pattern (21 bp):
TTAGCTCTTATAAGCTTATGT
Found at i:27319667 original size:16 final size:16
Alignment explanation
Indices: 27319642--27319675 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27319632 GAGCTCTGTA
*
27319642 CCTAGCAGGCTTTATG
1 CCTAGCAGGCTTCATG
*
27319658 CCTAGTAGGCTTCATG
1 CCTAGCAGGCTTCATG
27319674 CC
1 CC
27319676 GGTGTACCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (16 bp):
CCTAGCAGGCTTCATG
Found at i:27319764 original size:41 final size:41
Alignment explanation
Indices: 27319647--27319764 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
27319637 CTGTACCTAG
* *
27319647 CAGGCTTTATGCCTAGTAGGCTTCATGCCGGTGTACCATAT
1 CAGGCTTTATGCCTAGAAGGCTTCATGCCGGTGTATCATAT
* *
27319688 CAGGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCATAT
1 CAGGCTTTATGCCTAGAAGGCTTCATGCCGGTGTATCATAT
* * * * *
27319729 CTGGCTTTGTGCCTAGAAGGTTTTATACCGGTGTAT
1 CAGGCTTTATGCCTAGAAGGCTTCATGCCGGTGTAT
27319765 TTTAATAAGC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 67 1.00
ACGTcount: A:0.18, C:0.22, G:0.26, T:0.34
Consensus pattern (41 bp):
CAGGCTTTATGCCTAGAAGGCTTCATGCCGGTGTATCATAT
Found at i:27323278 original size:16 final size:16
Alignment explanation
Indices: 27323238--27323278 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
27323228 AGATCTCTAA
* *
27323238 CAAGCTTCCAATCGAT
1 CAAGCTTCTAATCAAT
27323254 CAAGCTTCTAATCAAT
1 CAAGCTTCTAATCAAT
27323270 CAAGCTTCT
1 CAAGCTTCT
27323279 GATAATCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (16 bp):
CAAGCTTCTAATCAAT
Found at i:27326653 original size:61 final size:60
Alignment explanation
Indices: 27326588--27326778 Score: 201
Period size: 61 Copynumber: 3.2 Consensus size: 60
27326578 GTATTGTAGT
27326588 ATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAA-AATTTTATTAA
* * * ** * * * * * *
27326649 ATTATGTATTTTTATTAAATTATATTTA-ATAATAATTATGTTAA-ATT-ATATTTTA-TAGT
1 ATTATATATTATGATTTTAGTAAATTCATATAA-AAATAT-TTAATATTAAAATTTTATTA-A
*
27326708 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAA-AATTTTATTAA
27326769 ATTATATATT
1 ATTATATATT
27326779 TTTATTAAAT
Statistics
Matches: 99, Mismatches: 23, Indels: 16
0.72 0.17 0.12
Matches are distributed among these distances:
58 6 0.06
59 33 0.33
60 10 0.10
61 44 0.44
62 6 0.06
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (60 bp):
ATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAAATTTTATTAA
Found at i:27326708 original size:120 final size:120
Alignment explanation
Indices: 27326584--27326813 Score: 433
Period size: 120 Copynumber: 1.9 Consensus size: 120
27326574 GTAAGTATTG
27326584 TAGTATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
*
27326649 ATTATGTATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTA
66 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTA
* *
27326704 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
1 TAGTATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
27326769 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
66 ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
27326814 ATATGATTAA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 107 1.00
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TAGTATTATATATTATGATTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTA
Found at i:27326781 original size:18 final size:18
Alignment explanation
Indices: 27326747--27326793 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
27326737 ATAAGAATAT
27326747 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
27326765 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
27326783 TTAAATTATAT
1 TTAAATTATAT
27326794 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:27326857 original size:44 final size:40
Alignment explanation
Indices: 27326744--27326860 Score: 101
Period size: 41 Copynumber: 2.7 Consensus size: 40
27326734 CATATAAGAA
* *
27326744 TATTTAATATTAATAATTTTATT-AAATTATATATTTTTAT
1 TATTT-ATATTAATAATATTATTAAAATTATAAATTTTTAT
*
27326784 TAAATTATATTTAATAATAATTATGTTAAAATATGATTAAATTATTTAT
1 T-ATTTATA-TTAATAAT-ATTA--TTAAAAT-T-A-TAAATT-TTTAT
*
27326833 TATTTATATTAATAATCTTATTAAAATT
1 TATTTATATTAATAATATTATTAAAATT
27326861 TAATAACAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
40 4 0.06
41 11 0.18
42 3 0.05
43 1 0.02
44 9 0.15
45 4 0.06
46 4 0.06
47 9 0.15
48 11 0.18
49 6 0.10
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (40 bp):
TATTTATATTAATAATATTATTAAAATTATAAATTTTTAT
Found at i:27329151 original size:19 final size:18
Alignment explanation
Indices: 27329115--27329169 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
27329105 AGGTCTTGGA
*
27329115 AAAATAATAAAACAAAAAT
1 AAAATAATAAAA-TAAAAT
*
27329134 GAAATAATAATAATAAAAT
1 AAAATAATAA-AATAAAAT
27329153 AAAATAA-AAGAATAAAA
1 AAAATAATAA-AATAAAA
27329170 GGTGGAGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 9 0.29
19 20 0.65
20 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (18 bp):
AAAATAATAAAATAAAAT
Found at i:27329166 original size:13 final size:13
Alignment explanation
Indices: 27329115--27329169 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
27329105 AGGTCTTGGA
27329115 AAAATAATAAAA-
1 AAAATAATAAAAT
* *
27329127 CAAA-AATGAAAT
1 AAAATAATAAAAT
27329139 AATAATAATAAAAT
1 AA-AATAATAAAAT
27329153 AAAATAA-AAGAAT
1 AAAATAATAA-AAT
27329166 AAAA
1 AAAA
27329170 GGTGGAGGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
11 6 0.17
12 6 0.17
13 14 0.40
14 9 0.26
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (13 bp):
AAAATAATAAAAT
Found at i:27331389 original size:18 final size:18
Alignment explanation
Indices: 27331362--27331401 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
27331352 CAGGTGCATT
* *
27331362 TCCTAGCCCTTATGTGTA
1 TCCTAACCCTTATATGTA
27331380 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
27331398 TCCT
1 TCCT
27331402 TTTCCGAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.10, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:27331899 original size:25 final size:25
Alignment explanation
Indices: 27331871--27331928 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
27331861 TATTTTGATA
*
27331871 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAAT
27331896 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
*
27331921 TTTTTTGA
1 TTATTTGA
27331929 GTTATTTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAAT
Found at i:27331907 original size:68 final size:69
Alignment explanation
Indices: 27331828--27331956 Score: 215
Period size: 70 Copynumber: 1.9 Consensus size: 69
27331818 TATTTTGATA
* * *
27331828 TTATTTTATGTAATAAAAT-AATTTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATAAAATTTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAATAG
27331892 AAGT
66 AAGT
27331896 TTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTCGATGTAATAA
1 TTATTTGATGTAATAAAATA-AAATTTTTTTGAGTTATTTTGATATTATTCGATGTAATAA
27331957 CATGAGCTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
68 18 0.32
70 38 0.68
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.50
Consensus pattern (69 bp):
TTATTTGATGTAATAAAATAAAATTTTTTTGAGTTATTTTGATATTATTCGATGTAATAAAATAG
AAGT
Done.