Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 100 of 255
Found at i:31227110 original size:53 final size:50
Alignment explanation
Indices: 31226919--31227329 Score: 417
Period size: 46 Copynumber: 8.5 Consensus size: 50
31226909 ACATGTTTCG
* * *
31226919 CATTAGCCATTCGGCCTTACCAC-ATATAT-T-CATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATATACAGGTTCACATTCATCA
* * * * *
31226966 CATCGGCCATTCAGCCTTATCTC---ATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATATACAGGTTCACATTCATCA
* * ** * *
31227013 CATTGGCCATCCGGCCTTATCAC---ACA-ACGCATGTTCACACTCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATATACAGGTTCACATTCATCA
31227059 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--CA-ATATATATACAGGTTCACATTCATCA
31227112 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATATACAGGTTCACATTCATCA
* ** *
31227162 CATTGGCCATTCGGCCTTATCAC---ACATACGCATGTTCACA-TCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATATACAGGTTCACATTCATCA
* * ** *
31227208 CAGTGGCCATTCGGCCTTATCAC---ACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATATACAGGTTCACATTCATCA
* *
31227255 CATTGGCCATTGGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATATACAGGTTCACATTCATCA
*
31227306 CATTGGCAATTCGGCCTTATCACA
1 CATTGGCCATTCGGCCTTATCACA
31227330 CATACGCATG
Statistics
Matches: 316, Mismatches: 33, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
45 4 0.01
46 90 0.28
47 90 0.28
48 1 0.00
50 38 0.12
51 53 0.17
52 2 0.01
53 38 0.12
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (50 bp):
CATTGGCCATTCGGCCTTATCACAATATATATACAGGTTCACATTCATCA
Found at i:31227273 original size:196 final size:193
Alignment explanation
Indices: 31226919--31227333 Score: 631
Period size: 196 Copynumber: 2.1 Consensus size: 193
31226909 ACATGTTTCG
* *
31226919 CATTAGCCATTCGGCCTTA-C-CACATATATTCATGTTCACATTCATCACATCGGCCATTCAGCC
1 CATTGGCCATTCGGCCTTATCACACATATATTCAGGTTCACATTCATCACATCGGCCATTCAGCC
* * * *
31226982 TTATCTCATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACAACGCATGT
66 TTATCACACATACGCATGTTCACATTCATCACAGTGGCCATCCGGCCTTATCACACAACGCATGT
*
31227047 TCACACTCATCACATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
131 TCACACTCATCACATTGGCCATTCGGCCTTATCA--CACATATATATACAGGTTCACATTCATCA
* *
31227112 CATTGGCCATTCGGCCTTATCACACATATATAT-ACGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATAT-TCA-GGTTCACATTCATCACATCGGCCATTCAG
*
31227176 CCTTATCACACATACGCATGTTCACA-TCATCACAGTGGCCATTCGGCCTTATCACACATACGCA
64 CCTTATCACACATACGCATGTTCACATTCATCACAGTGGCCATCCGGCCTTATCACACA-ACGCA
* * *
31227240 TGTTCACATTCATCACATTGGCCATTGGGCCTTATCACACATATATATACGGGTTCACATTCATC
128 TGTTCACACTCATCACATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATC
31227305 A
193 A
*
31227306 CATTGGCAATTCGGCCTTATCACACATA
1 CATTGGCCATTCGGCCTTATCACACATA
31227334 CGCATGTTCA
Statistics
Matches: 203, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
193 18 0.09
194 55 0.27
195 40 0.20
196 90 0.44
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (193 bp):
CATTGGCCATTCGGCCTTATCACACATATATTCAGGTTCACATTCATCACATCGGCCATTCAGCC
TTATCACACATACGCATGTTCACATTCATCACAGTGGCCATCCGGCCTTATCACACAACGCATGT
TCACACTCATCACATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCA
Found at i:31229630 original size:85 final size:85
Alignment explanation
Indices: 31229530--31229708 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
31229520 TATTTTATTG
*
31229530 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
31229595 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31229615 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
31229680 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31229700 CCCATGCTC
1 CCCATGCTC
31229709 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:31231227 original size:57 final size:58
Alignment explanation
Indices: 31231155--31231263 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
31231145 GCCCACTGAT
* *
31231155 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCGCACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
* * * *
31231212 CGATTTCGCACACATAGTGCTCGTTTAAAAGAATTTGCACACACAGTGCCTC
1 CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTC
31231264 TAATCATTCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (58 bp):
CGATCTCGCACACATAGTGCTCGGTTAAAAGAACTCGCACACACAGTGCCTCAATTAC
Found at i:31231507 original size:40 final size:40
Alignment explanation
Indices: 31231474--31231822 Score: 533
Period size: 40 Copynumber: 8.8 Consensus size: 40
31231464 CCAGCATGAT
* * * *
31231474 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* ** *
31231514 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
31231554 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCAC-AA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
31231593 TGCTCCTCGGGACTTAGCCCAGATATATCACTA-CACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
31231632 TGCTCCTCGGGACTTAGCCC-GATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
31231671 TTCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
31231711 TGCTCCTCGGGACTTAGCCCGGATATACCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
31231751 TGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
31231791 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
31231823 CTCAATTCTC
Statistics
Matches: 284, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
38 15 0.05
39 78 0.27
40 191 0.67
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:31233139 original size:37 final size:37
Alignment explanation
Indices: 31233075--31233219 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
31233065 AGCTCAGACG
* * *
31233075 AAATCTCCACATG-AATTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
31233111 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
31233148 TAATCTCCACATGTAGTAATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
31233185 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
31233220 ATATATTTCC
Statistics
Matches: 100, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
36 12 0.12
37 88 0.88
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:31233177 original size:74 final size:73
Alignment explanation
Indices: 31233076--31233219 Score: 252
Period size: 74 Copynumber: 2.0 Consensus size: 73
31233066 GCTCAGACGA
*
31233076 AATCTCCACATGAATTATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
1 AATCTCCACATGAATAATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
31233141 CCGGACAT
66 CCGGACAT
* *
31233149 AATCTCCACATGTAGTAATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACATG-AATAATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
31233214 CCCGGA
65 CCCGGA
31233220 ATATATTTCC
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
73 12 0.18
74 55 0.82
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (73 bp):
AATCTCCACATGAATAATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
CCGGACAT
Found at i:31233530 original size:93 final size:94
Alignment explanation
Indices: 31233428--31233954 Score: 652
Period size: 93 Copynumber: 5.5 Consensus size: 94
31233418 ACACGTTTCG
* * **
31233428 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTC-GCCTT
1 CATTGGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
31233492 ATCTCATATATGCATGTTCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
* *
31233521 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCACATT-GCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
31233585 ATCACACATACGCATGTTCACATTCATCA
66 ATCACACATACGCATGTTCACATTCATCA
* * ** *
31233614 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCC-T-T-AC-C--ACACATACGCATGTTCACATTCATCACATTGGCCATTC
31233679 GGCCTTATCACACATACGCATGTT--CATTCATCA
60 GGCCTTATCACACATACGCATGTTCACATTCATCA
* * ***
31233712 CGTT-GCCATTC-GCCTTATCACACATATATATACGGTTCACATTCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTACCACACATACGCAT---GTTCACATTCATCACATTGGCCATTCGGC
*
31233775 CTTATCACACATACGCATGTTCACATCCATCA
63 CTTATCACACATACGCATGTTCACATTCATCA
* *
31233807 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
***
31233872 ATCACACATATATATACGGGTTCACATTCATCA
66 ATCACACATACGCAT----GTTCACATTCATCA
* *
31233905 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCACAT
1 CATTGGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACAT
31233955 AAAATCCTAA
Statistics
Matches: 381, Mismatches: 34, Indels: 33
0.85 0.08 0.07
Matches are distributed among these distances:
90 8 0.02
92 8 0.02
93 142 0.37
94 46 0.12
95 12 0.03
96 11 0.03
97 25 0.07
98 73 0.19
99 25 0.07
100 31 0.08
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACATACGCATGTTCACATTCATCA
Found at i:31233556 original size:47 final size:47
Alignment explanation
Indices: 31233428--31233954 Score: 688
Period size: 47 Copynumber: 11.1 Consensus size: 47
31233418 ACACGTTTCG
* * * **
31233428 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
31233475 CATTGGCCATTC-GCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
31233521 CATTGGCCATCCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
31233568 CATT-GCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
31233614 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
31233667 CATTGGCCATTCGGCCTTATCACACATACGCATGTT--CATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
31233712 CGTT-GCCATTC-GCCTTATCACACATATATATACGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCA
*
31233760 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
31233807 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
31233854 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
31233905 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
31233952 CAT
1 CAT
31233955 AAAATCCTAA
Statistics
Matches: 425, Mismatches: 36, Indels: 38
0.85 0.07 0.08
Matches are distributed among these distances:
43 17 0.04
44 7 0.02
45 12 0.03
46 90 0.21
47 175 0.41
48 12 0.03
49 8 0.02
50 17 0.04
51 45 0.11
53 42 0.10
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:31233615 original size:23 final size:23
Alignment explanation
Indices: 31233543--31233616 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
31233533 GGCCTTATCA
31233543 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
* * *
31233566 CACAT-TGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
31233587 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
31233612 CACAT
1 CACAT
31233617 TGGCCATTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
21 5 0.14
22 4 0.11
23 19 0.51
24 4 0.11
25 5 0.14
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.30
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:31233691 original size:146 final size:143
Alignment explanation
Indices: 31233428--31233954 Score: 707
Period size: 146 Copynumber: 3.7 Consensus size: 143
31233418 ACACGTTTCG
* * *
31233428 CATTAGCCATTCGGCCTTACCACATATATTCAT-GTTCACATTCATCACATTGGCCATTC-GCCT
1 CATTAGCCATTCGGCCTTATCACACATATACATGGTTCACATTCATCACATTGGCCATTCGGCCT
* *
31233491 TATCTC-ATATATGCATGTTCACATTCATCACATTGGCCATCCGGCCTTATCACACATACGCATG
66 TATCACTATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
31233555 TTCACATTCATCA
131 TTCACATTCATCA
**
31233568 CATT-GCCATTCGGCCTTATCACACATACGCAT-GTTCACATTCATCACATTGGCCATTCGGCCT
1 CATTAGCCATTCGGCCTTATCACACATATACATGGTTCACATTCATCACATTGGCCATTCGGCCT
* *
31233631 TATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
66 TATCA--C---TATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATAC
31233696 GCATGTT--CATTCATCA
126 GCATGTTCACATTCATCA
* *
31233712 CGTT-GCCATTC-GCCTTATCACACATATATATACGGTTCACATTCATCACATTGGCCATTCGGC
1 CATTAGCCATTCGGCCTTATCACACATATACAT--GGTTCACATTCATCACATTGGCCATTCGGC
* * * *
31233775 CTTATCAC-ACATACGCATGTTCACATCCATCACAGTGGCCATTCGGCCTTATCACACATACGCA
64 CTTATCACTATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
31233839 TGTTCACATTCATCA
129 TGTTCACATTCATCA
* *
31233854 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTAGCCATTCGGCCTTATCACACATATACAT---GGTTCACATTCATCACATTGGCCATTCGG
* * *
31233919 CCTTATCAC-ACATACGCATGTTCACATCCATCACAT
63 CCTTATCACTATATATGCATGTTCACATTCATCACAT
31233955 AAAATCCTAA
Statistics
Matches: 350, Mismatches: 22, Indels: 25
0.88 0.06 0.06
Matches are distributed among these distances:
139 50 0.14
140 66 0.19
142 13 0.04
143 24 0.07
144 40 0.11
145 64 0.18
146 93 0.27
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (143 bp):
CATTAGCCATTCGGCCTTATCACACATATACATGGTTCACATTCATCACATTGGCCATTCGGCCT
TATCACTATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATG
TTCACATTCATCA
Found at i:31236262 original size:85 final size:85
Alignment explanation
Indices: 31236133--31236311 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
31236123 TATTTTATTG
*
31236133 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
31236198 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31236218 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
31236283 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
31236303 CCCATGCTC
1 CCCATGCTC
31236312 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:31245758 original size:21 final size:21
Alignment explanation
Indices: 31245732--31245773 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
31245722 GGGTGTGTGA
31245732 CCCCTGTTTATAGAAAAAGTT
1 CCCCTGTTTATAGAAAAAGTT
31245753 CCCCTGTTTATAGAAAAAGTT
1 CCCCTGTTTATAGAAAAAGTT
31245774 TTCTAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
CCCCTGTTTATAGAAAAAGTT
Found at i:31255348 original size:30 final size:29
Alignment explanation
Indices: 31255314--31255373 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
31255304 TCTTTAATAC
31255314 AAACTTTGGCAAAATTACA-TTTTTGCCCCT
1 AAACTTT-GCAAAATTACACTTTTT-CCCCT
* *
31255344 AAACTTTTCATAATTACACTTTTTCCCCT
1 AAACTTTGCAAAATTACACTTTTTCCCCT
31255373 A
1 A
31255374 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (29 bp):
AAACTTTGCAAAATTACACTTTTTCCCCT
Found at i:31265951 original size:30 final size:30
Alignment explanation
Indices: 31265917--31265977 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
31265907 TCCTTAACTC
*
31265917 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
* * *
31265947 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTTACAAAATTACAATTTTGCCCCT
31265977 A
1 A
31265978 GGCTTGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTACAAAATTACAATTTTGCCCCT
Found at i:31281239 original size:40 final size:40
Alignment explanation
Indices: 31281184--31281439 Score: 342
Period size: 40 Copynumber: 6.4 Consensus size: 40
31281174 GATGATAACG
* *
31281184 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
31281224 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* * * *
31281264 GAGCTAAGTCCCGAAGGCATTTGCGCTAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
31281304 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
31281344 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
31281384 AGGCTAAGTCCCGAAGGCATTT-TAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGT-GCGAGTTA-CTATATCC
* *
31281424 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
31281440 TACTTGGTTT
Statistics
Matches: 197, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 17 0.09
40 179 0.91
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:31324949 original size:13 final size:13
Alignment explanation
Indices: 31324931--31324962 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
31324921 CCCTGTGAGA
31324931 CACACGGCTGGGC
1 CACACGGCTGGGC
*
31324944 CACACGGTTGGGC
1 CACACGGCTGGGC
31324957 CACACG
1 CACACG
31324963 AGTGTGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.38, G:0.34, T:0.09
Consensus pattern (13 bp):
CACACGGCTGGGC
Found at i:31328043 original size:53 final size:52
Alignment explanation
Indices: 31327863--31328065 Score: 156
Period size: 55 Copynumber: 3.8 Consensus size: 52
31327853 AGGGTTTAAG
* * * * *
31327863 GATACCACGTAAGACCATGCCAAGGCATGGAAATTGTTAAGGTTTC-TAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-G-TTCATAA-GAAAA
* * * * * * *
31327918 GATATCTTGTAGGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-C-ATAA-GAAAA
* * * *
31327973 GTTCCCATGTAAAACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGAAAA
1 GATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGAAAA
* * *
31328025 TGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 -GATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAG
31328066 GTACCCGTGT
Statistics
Matches: 117, Mismatches: 27, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
52 6 0.05
53 39 0.33
54 8 0.07
55 64 0.55
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (52 bp):
GATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGAAAA
Found at i:31331668 original size:30 final size:30
Alignment explanation
Indices: 31331634--31331694 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
31331624 TTCCCGAGCC
31331634 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
31331664 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
31331694 T
1 T
31331695 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:31332434 original size:64 final size:64
Alignment explanation
Indices: 31332353--31332536 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
31332343 AGACATTATG
* * *
31332353 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
31332417 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACATGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
31332482 AA
63 AA
* * *
31332484 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
31332537 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 25 0.26
66 21 0.22
67 32 0.33
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:31338640 original size:29 final size:29
Alignment explanation
Indices: 31338587--31338643 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
31338577 CCGAGCCTTG
*
31338587 GGGGAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGAAAAGTGTAAATATGCAAAAGTTTA
* * *
31338616 GGGGAAAAGTGTAATTTTGCCAAAGTTT
1 GGGGAAAAGTGTAAATATGCAAAAGTTT
31338644 GAGTCAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.28, T:0.30
Consensus pattern (29 bp):
GGGGAAAAGTGTAAATATGCAAAAGTTTA
Found at i:31339121 original size:54 final size:54
Alignment explanation
Indices: 31338980--31339194 Score: 249
Period size: 54 Copynumber: 4.0 Consensus size: 54
31338970 ATTAGGGTTT
* *
31338980 AAGGATACCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* * *
31339035 AAGGATATCAAGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* * * * *
31339090 AAAGG-T-CCATGTAAGACCATGCCAAGGCATGGAATTGGTGAGTTC-ATAAGGT
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * *
31339142 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTTCTAAAAGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGG
31339195 ATATCACGTA
Statistics
Matches: 134, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
51 4 0.03
52 7 0.05
53 37 0.28
54 43 0.32
55 39 0.29
56 4 0.03
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:31339175 original size:107 final size:108
Alignment explanation
Indices: 31338987--31339235 Score: 298
Period size: 107 Copynumber: 2.4 Consensus size: 108
31338977 TTTAAGGATA
* *
31338987 CCATGTAAGACCATGTCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCAAGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCAAGTAAGA
* *
31339052 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGT
66 CCATGTCAAGACATGGCAATGATAAGTT-CTAAAAGGCAAAGGT
* * *
31339096 CCATGTAAGACCATGCCAAGGCATGG-AATTGGTGA-G-TTCATAAGGTAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCAAGTAAG
* * *
31339158 ACCATGTCGAGACATGGCAATGGTAAGTTCTAAAAGG-ATA--T
65 ACCATGTCAAGACATGGCAATGATAAGTTCTAAAAGGCAAAGGT
* * * *
31339199 -CACGTAAGACCATGACAAGTCAAGGCAA-TGGTAAGGT
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGT
31339236 ACCCATGTAT
Statistics
Matches: 121, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
102 26 0.21
103 4 0.03
105 2 0.02
106 10 0.08
107 46 0.38
108 8 0.07
109 25 0.21
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (108 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCAAGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTCTAAAAGGCAAAGGT
Found at i:31342799 original size:40 final size:40
Alignment explanation
Indices: 31342742--31343003 Score: 436
Period size: 40 Copynumber: 6.6 Consensus size: 40
31342732 TATTCGGATG
* *
31342742 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31342782 ACAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31342822 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31342862 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31342902 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31342942 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
31342982 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
31343004 TTCTTGGTTT
Statistics
Matches: 214, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
39 15 0.07
40 199 0.93
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31350987 original size:40 final size:40
Alignment explanation
Indices: 31350932--31351153 Score: 376
Period size: 40 Copynumber: 5.6 Consensus size: 40
31350922 TATTCGGATG
*
31350932 ATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
31350972 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31351012 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31351052 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31351092 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
31351132 A-AATCC-GGCTAATTCCCGAAGG
1 ATAA-CCGGGCTAAGTCCCGAAGG
31351154 TTCTTGGTTT
Statistics
Matches: 175, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 16 0.09
40 159 0.91
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:31354600 original size:25 final size:24
Alignment explanation
Indices: 31354565--31354616 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
31354555 AAGTTCAAGC
31354565 GAGCCATATCAGGAAGCTCACAAA
1 GAGCCATATCAGGAAGCTCACAAA
* *
31354589 GAGCCTATATCAGGATGCTCATAAA
1 GAGCC-ATATCAGGAAGCTCACAAA
31354614 GAG
1 GAG
31354617 TTGCATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCTCACAAA
Found at i:31361565 original size:48 final size:48
Alignment explanation
Indices: 31361463--31361692 Score: 174
Period size: 48 Copynumber: 4.8 Consensus size: 48
31361453 TGTGAGTATT
* * ** * * * * * *
31361463 GAGATCCCGTATAAGATGATATCTGGGGTATGGCATCAAAATTGAGAT
1 GAGATCCCATGTAAGACCATATCTGGGATATGGCATCGACATCGATAA
* * *
31361511 GAGATCCCTTGTAAGATCATATATGGGATATGGCATCGACATCGATAA
1 GAGATCCCATGTAAGACCATATCTGGGATATGGCATCGACATCGATAA
* * ** * *
31361559 GTGATCCCATATAAGACCACGTCTGGGACATGGCATCGACATC-AGTAT
1 GAGATCCCATGTAAGACCATATCTGGGATATGGCATCGACATCGA-TAA
* * * * *
31361607 GAGATCCCATGTAAAACCATATCTGGAATATGGCATTGGCATCGATAT
1 GAGATCCCATGTAAGACCATATCTGGGATATGGCATCGACATCGATAA
* * * * * *
31361655 GAGGTCCCGTATAAGACCATGTCTAGGACATGGCATCG
1 GAGATCCCATGTAAGACCATATCTGGGATATGGCATCG
31361693 GCACCGTTAT
Statistics
Matches: 143, Mismatches: 37, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
47 1 0.01
48 141 0.99
49 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (48 bp):
GAGATCCCATGTAAGACCATATCTGGGATATGGCATCGACATCGATAA
Found at i:31361704 original size:48 final size:46
Alignment explanation
Indices: 31361561--31361707 Score: 141
Period size: 48 Copynumber: 3.1 Consensus size: 46
31361551 ATCGATAAGT
* * *
31361561 GATCCCATATAAGACCACGTCTGGGACATGGCATCGACATCAGTATGA
1 GATCCCATATAAGACCATGTCT-GGACATGGCATCGGCA-CCGTATGA
* * * * * *
31361609 GATCCCATGTAAAACCATATCTGGAATATGGCATTGGCATCGATATGA
1 GATCCCATATAAGACCATGTCTGG-ACATGGCATCGGCACCG-TATGA
* *
31361657 GGTCCCGTATAAGACCATGTCTAGGACATGGCATCGGCACCGTTATGA
1 GATCCCATATAAGACCATGTCT-GGACATGGCATCGGCACCG-TATGA
31361705 GAT
1 GAT
31361708 TTCGTGAAAG
Statistics
Matches: 77, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
47 3 0.04
48 72 0.94
49 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (46 bp):
GATCCCATATAAGACCATGTCTGGACATGGCATCGGCACCGTATGA
Found at i:31361707 original size:96 final size:96
Alignment explanation
Indices: 31361509--31361692 Score: 251
Period size: 96 Copynumber: 1.9 Consensus size: 96
31361499 CAAAATTGAG
* * * * *
31361509 ATGAGATCCCTTGTAAGATCATATATGGGATATGGCATCGACATCGATAAGTGATCCCATATAAG
1 ATGAGATCCCATGTAAAACCATATATGGAATATGGCATCGACATCGATAAGAGATCCCATATAAG
*
31361574 ACCACGTCTGGGACATGGCATCGACATCAGT
66 ACCACGTCTAGGACATGGCATCGACATCAGT
* * * * * *
31361605 ATGAGATCCCATGTAAAACCATATCTGGAATATGGCATTGGCATCGATATGAGGTCCCGTATAAG
1 ATGAGATCCCATGTAAAACCATATATGGAATATGGCATCGACATCGATAAGAGATCCCATATAAG
*
31361670 ACCATGTCTAGGACATGGCATCG
66 ACCACGTCTAGGACATGGCATCG
31361693 GCACCGTTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 75 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (96 bp):
ATGAGATCCCATGTAAAACCATATATGGAATATGGCATCGACATCGATAAGAGATCCCATATAAG
ACCACGTCTAGGACATGGCATCGACATCAGT
Found at i:31368609 original size:46 final size:46
Alignment explanation
Indices: 31368542--31368803 Score: 218
Period size: 46 Copynumber: 5.7 Consensus size: 46
31368532 GCATCTAAAG
*
31368542 TCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAAC
* * * *
31368588 TCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCTGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--CTGAAC
*
31368635 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAAC
* * * *
31368681 TCGTTGAGTTGAGTCTGAGTTCA-TGA--GATG-TAACTAGGCATCCGAAC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--CTGAAC
* ** * *
31368728 TTGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACG-CTCGAGC
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCT-GAAC
*
31368774 TCGTTGAGTTGTGTCCGAGTTCACTTATGG
1 TCGTTGAGTTGAGTCCGAGTTCACTTATGG
31368804 GCGGGTTACA
Statistics
Matches: 173, Mismatches: 24, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
42 4 0.02
43 10 0.06
45 9 0.05
46 76 0.44
47 54 0.31
48 7 0.04
50 9 0.05
51 4 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
TCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAAC
Found at i:31368641 original size:47 final size:47
Alignment explanation
Indices: 31368584--31368750 Score: 200
Period size: 47 Copynumber: 3.6 Consensus size: 47
31368574 GCGAATGCCT
* *
31368584 GAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTAGGCATCC
* * *
31368631 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--CC
1 GAACTCGTTGAGTTGAGTCTGAGTTCA-TGA--GATG-TAACTAGGCATCC
31368677 GAACTCGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTAGGCATCC
* *
31368724 GAACTTGTTGAGTTGAGTTTGAGTTCA
1 GAACTCGTTGAGTTGAGTCTGAGTTCA
31368751 CTTATGGATG
Statistics
Matches: 101, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 27 0.27
47 52 0.51
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCTGAGTTCATGAGATGTAACTAGGCATCC
Found at i:31368690 original size:93 final size:93
Alignment explanation
Indices: 31368531--31368796 Score: 406
Period size: 93 Copynumber: 2.9 Consensus size: 93
31368521 AGGATATTTG
* * * *
31368531 GGCATCTAAAGTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAATGCCTGAACTCGTTGAG
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
*
31368596 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCTGAGTTCATGAGATGTAACTA
31368624 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
31368689 TTGAGTCTGAGTTCATGAGATGTAACTA
66 TTGAGTCTGAGTTCATGAGATGTAACTA
* * ** * * *
31368717 GGCATCCGAACTTGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACGCTCGAGCTCGTTGAG
1 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
* *
31368782 TTGTGTCCGAGTTCA
66 TTGAGTCTGAGTTCA
31368797 CTTATGGGCG
Statistics
Matches: 159, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 159 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (93 bp):
GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCTGAGTTCATGAGATGTAACTA
Found at i:31379137 original size:39 final size:40
Alignment explanation
Indices: 31379092--31379259 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
31379082 CGGGGTTTAG
* * *
31379092 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
31379131 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
31379171 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
31379211 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
31379252 CCGGATAT
1 CCGGATAT
31379260 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:31379242 original size:41 final size:40
Alignment explanation
Indices: 31379115--31379259 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
31379105 CTCGCACAAG
* * * * *
31379115 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
31379155 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
31379195 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
31379236 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
31379260 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:31380490 original size:38 final size:38
Alignment explanation
Indices: 31380448--31380523 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
31380438 CAAGAACTCC
*
31380448 TTCCTCCTTCCTTAGAATTTTCGTCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
31380486 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
31380524 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.33
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:31386864 original size:39 final size:40
Alignment explanation
Indices: 31386821--31386988 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
31386811 CTCGTTCAAG
* * * *
31386821 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
31386860 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
31386900 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
31386940 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
31386980 TGCCTTCGG
1 TGCCTTCGG
31386989 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:31386972 original size:80 final size:80
Alignment explanation
Indices: 31386856--31387041 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
31386846 AGTAACTCAT
* * *
31386856 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
31386920 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
31386935 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
31386999 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
31387016 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
31387042 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:31387001 original size:40 final size:40
Alignment explanation
Indices: 31386858--31387041 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
31386848 TAACTCATAC
* *
31386858 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
31386898 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
31386938 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
31386978 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
31387019 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31387042 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:31390348 original size:39 final size:40
Alignment explanation
Indices: 31390303--31390470 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
31390293 CGGGGTTTAG
* * *
31390303 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
31390342 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
31390382 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
31390422 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
31390463 CCGGATAT
1 CCGGATAT
31390471 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:31390453 original size:41 final size:40
Alignment explanation
Indices: 31390326--31390470 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
31390316 CTCGCACAAG
* * * * *
31390326 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
31390366 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
31390406 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
31390447 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
31390471 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:31409721 original size:47 final size:47
Alignment explanation
Indices: 31409593--31409726 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 47
31409583 ATAATCTCAC
* * *
31409593 CCATAATGAACTCAGAACGCAACTCAACGAGCTCGGGTGTTCGCATCT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCGCA-CT
* * * *
31409641 CCATAATGAACTCGAAACACAACTGAACGAGTTCGGAT-TCTTGCA-T
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGT-TCGCACT
* * *
31409687 CCATAGGTGAACTCGGAACGCAACTCAACAAGTTCAGATG
1 CCATA-ATGAACTCGGAACGCAACTCAACGAGTTCGGATG
31409727 CCTCATAATT
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
46 6 0.09
47 28 0.40
48 36 0.51
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCGCACT
Found at i:31412457 original size:40 final size:40
Alignment explanation
Indices: 31412399--31412556 Score: 158
Period size: 40 Copynumber: 4.0 Consensus size: 40
31412389 TGAATATGCC
* * *
31412399 TTCAAGAGTACTAGAGTACTAA-CAAGGGCACGTATGTGCT
1 TTCAAGGGTACTAAAGTAC-AACCAAGGGCACGTATGTGCA
* *
31412439 TTCAAGGGTACTAAAGTACAAGCAGGGGCACGTATGTGCA
1 TTCAAGGGTACTAAAGTACAACCAAGGGCACGTATGTGCA
* ** * *
31412479 TTCAGGGGTACCGAAGTACAACCAGGGGCACGTATATGCA
1 TTCAAGGGTACTAAAGTACAACCAAGGGCACGTATGTGCA
* * * *
31412519 TTC-AGGGGATCTAAAGTACAAACAAGGGAACATATGTG
1 TTCAAGGGTA-CTAAAGTACAACCAAGGGCACGTATGTG
31412557 AATTTAGGGG
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 6 0.06
40 92 0.94
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.21
Consensus pattern (40 bp):
TTCAAGGGTACTAAAGTACAACCAAGGGCACGTATGTGCA
Found at i:31412486 original size:20 final size:20
Alignment explanation
Indices: 31412461--31412526 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
31412451 AAAGTACAAG
31412461 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * **
31412481 CAGGGGTACCG-AAGTACAAC
1 CAGGGGCA-CGTATGTGCATT
*
31412501 CAGGGGCACGTATATGCATT
1 CAGGGGCACGTATGTGCATT
31412521 CAGGGG
1 CAGGGG
31412527 ATCTAAAGTA
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.26, C:0.21, G:0.35, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:31412576 original size:20 final size:20
Alignment explanation
Indices: 31412548--31412586 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31412538 AAACAAGGGA
31412548 ACATATGTGAATTTAGGGGC
1 ACATATGTGAATTTAGGGGC
* *
31412568 ACATGTGTGCATTTAGGGG
1 ACATATGTGAATTTAGGGG
31412587 TACCGAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.10, G:0.33, T:0.31
Consensus pattern (20 bp):
ACATATGTGAATTTAGGGGC
Found at i:31412617 original size:40 final size:40
Alignment explanation
Indices: 31412562--31413104 Score: 564
Period size: 40 Copynumber: 13.6 Consensus size: 40
31412552 ATGTGAATTT
* * *
31412562 AGGGGCACATGTGTGCATTTAGGGGTACCGAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* *
31412602 AGGGGCACATGTGTGCATTCAGGGGTACTAAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * * * *
31412642 AAGTGCACGTCTGTGCATTCAGCGATACCAAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
** * * **
31412682 AGGGGCACGCATGTGCATTTAGTGGTACTGAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * *
31412722 AGGGGCATGTGTGTGCATTTAGGGGTACCAAAGTACAAAT
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * * * * *
31412762 AGGGGTATGTGTGTGTATTCAGGGGTATCGAAGTACAAAT
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * * *
31412802 AAGGGCACGTGTGTTCATTCAGGGGTACCAAAGTGCAAAT
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * *
31412842 AGGGGCACGTGTGTGCATTTAGGGGTACCGAAGTATAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * *
31412882 AGGAGCACATGTGTGCATTCAGGGGTACCAAAGTACAACC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * *
31412922 AGGGGCACGTGTATGCATTTAGGGGTATCAAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * *
31412962 AGGGGCACGTGTATGCATTTAGGGGTACTAAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* ** * * *
31413002 AGGTGCGTGTATGTGCATTCAGGGGTATCTAAGTACAAAC
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* ** * ** * *
31413042 AGGGGCATGCATGTGCATTCAAGGGTACTGAAGTAGAAAT
1 AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
* * *
31413082 AAGGGCATGTATGTGCATTCAGG
1 AGGGGCACGTGTGTGCATTCAGG
31413105 CAATAATTAT
Statistics
Matches: 422, Mismatches: 81, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 422 1.00
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.23
Consensus pattern (40 bp):
AGGGGCACGTGTGTGCATTCAGGGGTACCAAAGTACAAAC
Found at i:31412619 original size:100 final size:100
Alignment explanation
Indices: 31412462--31412644 Score: 287
Period size: 100 Copynumber: 1.8 Consensus size: 100
31412452 AAGTACAAGC
* * *
31412462 AGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAACCAGGGGCACGTATATGCATTCAGGGG
1 AGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATATATGCATTCAGGGG
31412527 -ATCTAAAGTACAAACAAGGGAACATATGTGAATTT
66 TA-CTAAAGTACAAACAAGGGAACATATGTGAATTT
* * * *
31412562 AGGGGCACATGTGTGCATTTAGGGGTACCGAAGTACAAACAGGGGCACATGTGTGCATTCAGGGG
1 AGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATATATGCATTCAGGGG
31412627 TACTAAAGTACAAACAAG
66 TACTAAAGTACAAACAAG
31412645 TGCACGTCTG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 74 0.99
101 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (100 bp):
AGGGGCACATATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACATATATGCATTCAGGGG
TACTAAAGTACAAACAAGGGAACATATGTGAATTT
Found at i:31412767 original size:180 final size:180
Alignment explanation
Indices: 31412413--31412768 Score: 401
Period size: 180 Copynumber: 2.0 Consensus size: 180
31412403 AGAGTACTAG
* * * * *
31412413 AGTACTAACAAGGGCACGTATGTGCTTTCAAGGGTACTAAAGTACAAGCAGGGGCACGTATGTGC
1 AGTACAAACAAGGGCACATATGTGCATTCAAGGGTACTAAAGTACAAACAAGGGCACGTATGTGC
* * * * *
31412478 ATTCAGGGGTACCGAAGTACAACCAGGGGCACGTATATGCATTCAGGGGATCTAAAGTACAAACA
66 ATTCAGCGATACCAAAGTACAAACAGGGGCACGCATATGCATTCAGGGGATCTAAAGTACAAACA
** * **
31412543 AGGGAACATATGTGAATTTAGGGGCACATGTGTGCATTTAGGGGTACCGA
131 AGGGAACATATGTGAATTTAGGGGCACATAAGTACAAATAGGGGTACCGA
* * * * *
31412593 AGTACAAACAGGGGCACATGTGTGCATTCAGGGGTACTAAAGTACAAACAAGTGCACGTCTGTGC
1 AGTACAAACAAGGGCACATATGTGCATTCAAGGGTACTAAAGTACAAACAAGGGCACGTATGTGC
* * * *
31412658 ATTCAGCGATACCAAAGTACAAACAGGGGCACGCATGTGCATTTAGTGG-TACTGAAGTACAAAC
66 ATTCAGCGATACCAAAGTACAAACAGGGGCACGCATATGCATTCAGGGGAT-CTAAAGTACAAAC
* * ** * * *
31412722 AGGGGCATGTGTGTGCATTTAGGGGTACCA-AAGTACAAATAGGGGTA
130 AAGGGAACATATGTGAATTTAGGGGCA-CATAAGTACAAATAGGGGTA
31412769 TGTGTGTGTA
Statistics
Matches: 143, Mismatches: 31, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
179 1 0.01
180 140 0.98
181 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (180 bp):
AGTACAAACAAGGGCACATATGTGCATTCAAGGGTACTAAAGTACAAACAAGGGCACGTATGTGC
ATTCAGCGATACCAAAGTACAAACAGGGGCACGCATATGCATTCAGGGGATCTAAAGTACAAACA
AGGGAACATATGTGAATTTAGGGGCACATAAGTACAAATAGGGGTACCGA
Found at i:31413646 original size:47 final size:45
Alignment explanation
Indices: 31413565--31413820 Score: 234
Period size: 46 Copynumber: 5.5 Consensus size: 45
31413555 GCCAATGCTG
*
31413565 TGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCATGTCGATGCCA
1 TGTCCCAGACAT-GTCTTACACTGGCT-ATCATCTCATGTCGATG-CA
* * * *
31413612 TGTCCCAGACATGGTCTTACAGTGGCTATCATCTCGTAGCCAATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTATCATCTCAT-GTCGATGCA
*
31413659 TGTCCCAGACATGTCTTACACTGGCT-TACATCTCGAGGTCGATGCA
1 TGTCCCAGACATGTCTTACACTGGCTAT-CATCTC-ATGTCGATGCA
* * * *
31413705 TGTCCCAGACATGTCTTGCACTAGC-ACTCGTCTCGATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTGGCTA-TCATCTC-ATGTCGATG-CA
* * *
31413752 TGTCCTAGACATGGTCTTACACTGGCTCTCA--TAATGTGGCTGATGCA
1 TGTCCCAGACAT-GTCTTACACTGGCTATCATCTCATGT--C-GATGCA
31413799 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
31413821 AGCCCACAAT
Statistics
Matches: 174, Mismatches: 23, Indels: 25
0.78 0.10 0.11
Matches are distributed among these distances:
45 4 0.02
46 75 0.43
47 73 0.42
48 22 0.13
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGGCTATCATCTCATGTCGATGCA
Found at i:31413807 original size:94 final size:92
Alignment explanation
Indices: 31413555--31413823 Score: 273
Period size: 94 Copynumber: 2.9 Consensus size: 92
31413545 TGGGTAAGAT
* * * *
31413555 GCCAATGCTGTGTCCCAGACATGGTCTTACACTAGC-T-CATATCTCATGTCGATGCCATGTCCC
1 GCCAATGC-ATGTCCCAGACAT-GTCTTACACTGGCTTACATATC-GAGGTCGATG-CATGTCCC
* *
31413618 AGACATGGTCTTACAGTGGCTATCATCTCGTA
62 AGACAT-GTCTTACACTAGCTATCATCTCGTA
*
31413650 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGTCGATGCATGTCCCAGAC
1 GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGTCGATGCATGTCCCAGAC
* *
31413715 ATGTCTTGCACTAGC-ACTCGTCTCG-A
66 ATGTCTTACACTAGCTA-TCATCTCGTA
* * *
31413741 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-GTGG-CTGATGCATGTC
1 -GCCAATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGTC-GATGCATGTC
31413803 CCAGACATGTCTTACACTAGC
60 CCAGACATGTCTTACACTAGC
31413824 CCACAATAAC
Statistics
Matches: 151, Mismatches: 14, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
91 2 0.01
92 23 0.15
93 40 0.26
94 71 0.47
95 15 0.10
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (92 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGTCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTATCATCTCGTA
Found at i:31413817 original size:140 final size:140
Alignment explanation
Indices: 31413565--31413820 Score: 365
Period size: 140 Copynumber: 1.8 Consensus size: 140
31413555 GCCAATGCTG
* *
31413565 TGTCCCAGACATGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAGACATGGTCTT
1 TGTCCCAGACATGGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAGACATGGTCTT
* *
31413630 ACAGTGGCTATCATCTCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
66 ACACTGGCTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
31413695 GGTCGATGCA
131 GGTCGATGCA
* * *
31413705 TGTCCCAGACAT-GTCTTGCACTAGCAC-TCGTCTCGATGCCGATGCCATGTCCTAGACATGGTC
1 TGTCCCAGACATGGTCTTACACTAGCACAT-ATCTC-ATGCCGATGCCATGTCCCAGACATGGTC
* * **
31413768 TTACACTGGCTCTCATAAT-GTGGCTGATGCATGTCCCAGACATGTCTTACACT
64 TTACACTGGCTATCAT-ATCGTAGCCAATGCATGTCCCAGACATGTCTTACACT
31413821 AGCCCACAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.17
140 83 0.81
141 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (140 bp):
TGTCCCAGACATGGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAGACATGGTCTT
ACACTGGCTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA
GGTCGATGCA
Found at i:31417763 original size:20 final size:20
Alignment explanation
Indices: 31417738--31417778 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
31417728 AAGTTTGGTT
31417738 TAATGTAATGGCACTAAGTG
1 TAATGTAATGGCACTAAGTG
31417758 TAATGTAATGGCACTAAGTG
1 TAATGTAATGGCACTAAGTG
31417778 T
1 T
31417779 GCGATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (20 bp):
TAATGTAATGGCACTAAGTG
Found at i:31423550 original size:27 final size:28
Alignment explanation
Indices: 31423518--31423571 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
31423508 CTAATACTAA
*
31423518 TTCTG-TAATAGGCTTAGGCCCACCTGG
1 TTCTGTTAATAGGCTAAGGCCCACCTGG
*
31423545 TTCTGTTAATGGGCTAAGGCCCACCTG
1 TTCTGTTAATAGGCTAAGGCCCACCTG
31423572 ATACTGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.30
Consensus pattern (28 bp):
TTCTGTTAATAGGCTAAGGCCCACCTGG
Found at i:31423578 original size:28 final size:28
Alignment explanation
Indices: 31423523--31423579 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
31423513 ACTAATTCTG
* * *
31423523 TAATAGGCTTAGGCCCACCTGGTTCTGT
1 TAATAGGCTAAGGCCCACCTGATACTGT
*
31423551 TAATGGGCTAAGGCCCACCTGATACTGT
1 TAATAGGCTAAGGCCCACCTGATACTGT
31423579 T
1 T
31423580 TCTGTGATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (28 bp):
TAATAGGCTAAGGCCCACCTGATACTGT
Found at i:31428055 original size:46 final size:46
Alignment explanation
Indices: 31427991--31428140 Score: 131
Period size: 46 Copynumber: 3.1 Consensus size: 46
31427981 ACACACCATA
***
31427991 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAAATATGGTCTTACACGAATCACATATCACACTGAT
* * * *
31428037 GCCATATCCCAAATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAAATATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
** *
31428090 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAAATATGGTCTTACACGA-ATCACATATCACACTGAT
31428136 GCCAT
1 GCCAT
31428141 GGTCCAACCA
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
46 30 0.37
47 7 0.09
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.07
52 5 0.06
53 27 0.33
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (46 bp):
GCCATAGCCCAAATATGGTCTTACACGAATCACATATCACACTGAT
Found at i:31429259 original size:21 final size:21
Alignment explanation
Indices: 31429235--31429316 Score: 101
Period size: 21 Copynumber: 3.8 Consensus size: 21
31429225 CGACACATAA
*
31429235 GTGCCTGAAACGTCACACGAG
1 GTGCCTGAAACGACACACGAG
*
31429256 GTGCTTGAAACGACACACGAG
1 GTGCCTGAAACGACACACGAG
* *
31429277 GTGCCTGATACGACACACAAG
1 GTGCCTGAAACGACACACGAG
*
31429298 TTGCCTGAAATACGACACA
1 GTGCCTG-AA-ACGACACA
31429317 TAAAGTGCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
21 43 0.83
22 1 0.02
23 8 0.15
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (21 bp):
GTGCCTGAAACGACACACGAG
Found at i:31429325 original size:23 final size:22
Alignment explanation
Indices: 31429222--31429328 Score: 98
Period size: 21 Copynumber: 5.0 Consensus size: 22
31429212 CCTGATCAGT
*
31429222 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACGAAGTGCCTGA
* * *
31429243 A-ACGTCACACGAGGTGCTTGA
1 ATACGACACACGAAGTGCCTGA
*
31429264 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACGAAGTGCCTGA
31429284 ATACGACACAC-AAGTTGCCTGAA
1 ATACGACACACGAAG-TGCCTG-A
**
31429307 ATACGACACATAAAGTGCCTGA
1 ATACGACACACGAAGTGCCTGA
31429329 TCAGTATAGC
Statistics
Matches: 72, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.14
21 42 0.58
22 1 0.01
23 16 0.22
24 3 0.04
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (22 bp):
ATACGACACACGAAGTGCCTGA
Found at i:31429615 original size:29 final size:28
Alignment explanation
Indices: 31429533--31429616 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
31429523 AACACACTAG
* *
31429533 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
31429561 TATAATCCTCCCAAACTCACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
31429589 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
31429617 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:31432521 original size:42 final size:42
Alignment explanation
Indices: 31432413--31432608 Score: 227
Period size: 42 Copynumber: 4.6 Consensus size: 42
31432403 TACCATACCA
* * *
31432413 ATGCTATATCCTAGATATGGTCTTACATGTAA-TCTCGTA-TCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AAGTCTCATACT-G
* * *
31432455 ATGGCAATAGCCCAGGTATGGTCTTACATGAAGTCTCATACTG
1 AT-GCCATATCCCAGATATGGTCTTACATGAAGTCTCATACTG
* *
31432498 ATGCCATATCCCAGATATGGTCTTACACGAGGTCTCATACTG
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATACTG
* * * *
31432540 AAGCCATATCCCAGATATAGTCTTAC-TCAAAGTCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACAT-GAAGTCTCATACTG
31432582 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
31432609 CGTAATCTCA
Statistics
Matches: 131, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
42 98 0.75
43 32 0.24
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATACTG
Found at i:31434477 original size:27 final size:27
Alignment explanation
Indices: 31434447--31434624 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
31434437 ATATTGAGTC
* *
31434447 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
31434474 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
31434501 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
31434529 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
31434556 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
31434583 TGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
31434610 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31434625 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31441335 original size:27 final size:28
Alignment explanation
Indices: 31441297--31441371 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 28
31441287 GACGTTTCCT
31441297 TTTA-GAGATTTGCCACAAAGGCAT-TC
1 TTTATGAGATTTGCCACAAAGGCATATC
*
31441323 TTTATGAGGTTTGCCACAAAGGCATATC
1 TTTATGAGATTTGCCACAAAGGCATATC
* * *
31441351 TTTCTAGAGTTTTTCCACAAA
1 TTTAT-GAGATTTGCCACAAA
31441372 TGTTTCCTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.10
27 19 0.45
28 6 0.14
29 13 0.31
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (28 bp):
TTTATGAGATTTGCCACAAAGGCATATC
Found at i:31441759 original size:52 final size:53
Alignment explanation
Indices: 31441677--31441883 Score: 240
Period size: 52 Copynumber: 3.9 Consensus size: 53
31441667 AAACTTCCCC
* * *
31441677 ATATGATGTCATAACCCACCAGTTATGGTCTTACATG-TATGGTCTTCTTTCT
1 ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTTTCT
* * *
31441729 ATATGATGTCATAACCCACTAGTTACGGTCTTACACGATGTGGTCTTCTTTCT
1 ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTTTCT
* ** * * *
31441782 ATATGATGCCAT-ACCCACCAATTATAGTCTTACACGATATAGACTT-TTTCCC
1 ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTTT-CT
* * * *
31441834 ATATGATGTTATAACCCATCAATTACTGTCTTACAAGATATGGTCTTCTT
1 ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTT
31441884 CAGTGCTATG
Statistics
Matches: 130, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
51 3 0.02
52 72 0.55
53 53 0.41
54 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (53 bp):
ATATGATGTCATAACCCACCAATTACGGTCTTACACGATATGGTCTTCTTTCT
Found at i:31441865 original size:105 final size:105
Alignment explanation
Indices: 31441677--31441883 Score: 258
Period size: 105 Copynumber: 2.0 Consensus size: 105
31441667 AAACTTCCCC
* * * * * * *
31441677 ATATGATGTCATAACCCACCAGTTATGGTCTTACATGTATGGTCTTCTTTCTATATGATGTCATA
1 ATATGATGCCATAACCCACCAATTATAGTCTTACACGTATAGACTTCTTTCCATATGATGTCATA
* * *
31441742 ACCCACTAGTTACGGTCTTACACGATGTGGTCTTCTTTCT
66 ACCCACTAATTACGGTCTTACAAGATATGGTCTTCTTTCT
*
31441782 ATATGATGCCAT-ACCCACCAATTATAGTCTTACACGATATAGACTT-TTTCCCATATGATGTTA
1 ATATGATGCCATAACCCACCAATTATAGTCTTACACG-TATAGACTTCTTT-CCATATGATGTCA
*
31441845 TAACCCA-TCAATTACTGTCTTACAAGATATGGTCTTCTT
64 TAACCCACT-AATTACGGTCTTACAAGATATGGTCTTCTT
31441884 CAGTGCTATG
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
104 25 0.29
105 62 0.71
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (105 bp):
ATATGATGCCATAACCCACCAATTATAGTCTTACACGTATAGACTTCTTTCCATATGATGTCATA
ACCCACTAATTACGGTCTTACAAGATATGGTCTTCTTTCT
Found at i:31443819 original size:43 final size:43
Alignment explanation
Indices: 31443649--31443820 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
31443639 CATAGGATTC
* * * *
31443649 CGATATGTGATTTCGTGTAAAACCACGTCTGGGATGTTGGCAT
1 CGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT
* * * * *
31443692 CGAT-TTGAGATTT-ATGTGCAAGACCATGTCTGGGACATCGGTAT
1 CGATATT-TGATTTCATGT--AAGACCACGTCTGGGACGTTGGCAT
*
31443736 CG-TATTTGATTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTTCATGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* *
31443778 CGATATTTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT
31443821 TGTATGAGTT
Statistics
Matches: 101, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
42 26 0.26
43 48 0.48
44 27 0.27
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:31454378 original size:43 final size:42
Alignment explanation
Indices: 31454224--31454379 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 42
31454214 GTGATTTCGT
* * *
31454224 GTAAAACCACGTCTGGGATGTTGGCATCGAT-TTGAGATTTAC
1 GTAAGACCACGTCTGGGACGTTGGCATCGATATT-TGATTTAC
* * * *
31454266 GTGCAAGACCATGTCTGGGACATCGGCATCG-TATTTGATTTCAT
1 GT--AAGACCACGTCTGGGACGTTGGCATCGATATTTGATTT-AC
* **
31454310 GTAAGACCATGTCTAAGACAG-TGGCATCGATATTTGATTATAC
1 GTAAGACCACGTCTGGGAC-GTTGGCATCGATATTTGATT-TAC
31454353 GTAAGACCACGTCTGGGACGTTGGCAT
1 GTAAGACCACGTCTGGGACGTTGGCAT
31454380 TGTATGAGTT
Statistics
Matches: 91, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
42 25 0.27
43 38 0.42
44 28 0.31
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
GTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTTAC
Found at i:31455068 original size:23 final size:22
Alignment explanation
Indices: 31455037--31455079 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
31455027 TTGTGAAACA
*
31455037 TATGTTTTGGTATGACTTTGGCT
1 TATGATTTGGTATGA-TTTGGCT
31455060 TATGATTTGGTATGATTTGG
1 TATGATTTGGTATGATTTGG
31455080 TATGAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.16, C:0.05, G:0.28, T:0.51
Consensus pattern (22 bp):
TATGATTTGGTATGATTTGGCT
Found at i:31455075 original size:10 final size:10
Alignment explanation
Indices: 31455037--31455084 Score: 60
Period size: 10 Copynumber: 4.5 Consensus size: 10
31455027 TTGTGAAACA
*
31455037 TATGTTTTGG
1 TATGATTTGG
31455047 TATGACTTTGG
1 TATGA-TTTGG
31455058 CTTATGATTTGG
1 --TATGATTTGG
31455070 TATGATTTGG
1 TATGATTTGG
31455080 TATGA
1 TATGA
31455085 ATTATAAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 19 0.56
11 5 0.15
12 5 0.15
13 5 0.15
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (10 bp):
TATGATTTGG
Found at i:31465216 original size:28 final size:27
Alignment explanation
Indices: 31465178--31465234 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
31465168 ATATATTCTT
31465178 AATAAATTTATCTAAATAATTATCTAAAC
1 AATAAATTTATCTAAATAATT-T-TAAAC
*
31465207 AATAAA-TTATCTAAGTAATTTTAAAC
1 AATAAATTTATCTAAATAATTTTAAAC
31465233 AA
1 AA
31465235 ATTATCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.26
27 1 0.04
28 13 0.48
29 6 0.22
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.37
Consensus pattern (27 bp):
AATAAATTTATCTAAATAATTTTAAAC
Found at i:31466894 original size:9 final size:9
Alignment explanation
Indices: 31466882--31466933 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
31466872 TTTAATTATT
31466882 TTTTTACAA
1 TTTTTACAA
*
31466891 TTTTTTTGATAA
1 --TTTTT-ACAA
*
31466903 TTTTTATAA
1 TTTTTACAA
31466912 TTTTTACAA
1 TTTTTACAA
31466921 TATTTTACAA
1 T-TTTTACAA
31466931 TTT
1 TTT
31466934 CTAGTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
9 15 0.41
10 14 0.38
11 5 0.14
12 3 0.08
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTACAA
Found at i:31466894 original size:10 final size:10
Alignment explanation
Indices: 31466881--31466983 Score: 63
Period size: 10 Copynumber: 10.5 Consensus size: 10
31466871 TTTTAATTAT
*
31466881 TTTTTTACAA
1 TTTTTTATAA
31466891 TTTTTTTGATAA
1 -TTTTTT-ATAA
31466903 -TTTTTATAA
1 TTTTTTATAA
*
31466912 -TTTTTACAA
1 TTTTTTATAA
* *
31466921 TATTTTACAA
1 TTTTTTATAA
* *
31466931 ---TTTCTAG
1 TTTTTTATAA
31466938 TTTTTTATAA
1 TTTTTTATAA
*
31466948 TTTTTTGATAG
1 TTTTTT-ATAA
*
31466959 TTTTTTATTA
1 TTTTTTATAA
*
31466969 TTTTTTACAA
1 TTTTTTATAA
31466979 TTTTT
1 TTTTT
31466984 AAAAATTCTA
Statistics
Matches: 73, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
7 4 0.05
9 12 0.16
10 39 0.53
11 15 0.21
12 3 0.04
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.65
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:31466950 original size:57 final size:57
Alignment explanation
Indices: 31466881--31466993 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 57
31466871 TTTTAATTAT
* *
31466881 TTTTTTACAATTTTTTTGATA-ATTTTTA-TAATTTTTACAATATTTTACAATTTCTAG
1 TTTTTTACAA-TTTTTTGATAGATTTTTATTAATTTTTACAAT-TTTTAAAAATTCTAG
* * *
31466938 TTTTTTATAATTTTTTGATAGTTTTTTATTATTTTTTACAATTTTTAAAAATTCTA
1 TTTTTTACAATTTTTTGATAGATTTTTATTAATTTTTACAATTTTTAAAAATTCTA
31466994 ACATATTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 10 0.20
57 27 0.55
58 12 0.24
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (57 bp):
TTTTTTACAATTTTTTGATAGATTTTTATTAATTTTTACAATTTTTAAAAATTCTAG
Found at i:31466961 original size:21 final size:21
Alignment explanation
Indices: 31466935--31466974 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
31466925 TTACAATTTC
31466935 TAGTTTTTTATAATTTTTTGA
1 TAGTTTTTTATAATTTTTTGA
*
31466956 TAGTTTTTTATTATTTTTT
1 TAGTTTTTTATAATTTTTT
31466975 ACAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.72
Consensus pattern (21 bp):
TAGTTTTTTATAATTTTTTGA
Found at i:31467030 original size:29 final size:30
Alignment explanation
Indices: 31466967--31467023 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
31466957 AGTTTTTTAT
* *
31466967 TATTTTTTACAATTTTTAAAAATTCTAACA
1 TATTTTTTACAATTTTCAAAAATTATAACA
31466997 TATTTTTTA-AATTTTCAAACAATTATA
1 TATTTTTTACAATTTTCAAA-AATTATA
31467024 TATATTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (30 bp):
TATTTTTTACAATTTTCAAAAATTATAACA
Found at i:31467620 original size:16 final size:15
Alignment explanation
Indices: 31467587--31467622 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
31467577 AAGTAGAGTT
*
31467587 TAAATAATTATTTAA
1 TAAATAATTATATAA
31467602 TAAATAATATATATAA
1 TAAATAAT-TATATAA
31467618 TAAAT
1 TAAAT
31467623 TACTAGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATAATTATATAA
Found at i:31468124 original size:18 final size:20
Alignment explanation
Indices: 31468091--31468139 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
31468081 ATATGTTATA
*
31468091 TGACAAAATAATTCAGAGTG
1 TGACAAATTAATTCAGAGTG
31468111 T-ACAAATTAA-TCAGAGTG
1 TGACAAATTAATTCAGAGTG
31468129 TGACATAATTA
1 TGACA-AATTA
31468140 TCACTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 9 0.35
19 11 0.42
20 6 0.23
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (20 bp):
TGACAAATTAATTCAGAGTG
Found at i:31469156 original size:9 final size:9
Alignment explanation
Indices: 31469142--31469204 Score: 63
Period size: 9 Copynumber: 6.8 Consensus size: 9
31469132 TTCACATCCT
31469142 TCTCTCAAC
1 TCTCTCAAC
*
31469151 TCTCTCAAT
1 TCTCTCAAC
*
31469160 TCTCTCAAAT
1 TCTCTC-AAC
31469170 TCTCTCAAAC
1 TCTCTC-AAC
* *
31469180 CCTCTCAAG
1 TCTCTCAAC
*
31469189 TCTCTCATC
1 TCTCTCAAC
31469198 TCTCTCA
1 TCTCTCA
31469205 TTTCTAATAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
9 29 0.63
10 17 0.37
ACGTcount: A:0.22, C:0.40, G:0.02, T:0.37
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:31469192 original size:29 final size:28
Alignment explanation
Indices: 31469141--31469195 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
31469131 TTTCACATCC
* *
31469141 TTCTCTCAACTCTCTCAATTCTCTCAAA
1 TTCTCTCAACCCTCTCAAGTCTCTCAAA
31469169 TTCTCTCAAACCCTCTCAAGTCTCTCA
1 TTCTCTC-AACCCTCTCAAGTCTCTCA
31469196 TCTCTCTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.24, C:0.38, G:0.02, T:0.36
Consensus pattern (28 bp):
TTCTCTCAACCCTCTCAAGTCTCTCAAA
Found at i:31476490 original size:24 final size:24
Alignment explanation
Indices: 31476455--31476503 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
31476445 AATAAAAACC
31476455 ATAATAAAAAAAACCCTAACCTTA
1 ATAATAAAAAAAACCCTAACCTTA
31476479 ATAA-AAATAAAAACCCTAACCTTA
1 ATAATAAA-AAAAACCCTAACCTTA
31476503 A
1 A
31476504 GAGAGAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.59, C:0.20, G:0.00, T:0.20
Consensus pattern (24 bp):
ATAATAAAAAAAACCCTAACCTTA
Found at i:31481297 original size:46 final size:46
Alignment explanation
Indices: 31481137--31481305 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 46
31481127 CGAGGTCAAT
* * * * *
31481137 GCATGTCCCGGACATGTCTTACTCTGGCACTTATAATATGGCTGAA
1 GCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCGAA
** * * * * * *
31481183 TTATGTCCCAAACATGTCTTACACTAGCCCTCGT-CTG-GATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTG--GCCGAA
* * *
31481229 GCCATGTCTCAGACATGGCTTACACTGGCTCTCATAATGTGGCCGAA
1 G-CATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCGAA
31481276 GCATGTCCCAGACATGTCTTACACTGGCAC
1 GCATGTCCCAGACATGTCTTACACTGGCAC
31481306 ACAAATCACC
Statistics
Matches: 92, Mismatches: 26, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 55 0.60
47 32 0.35
48 2 0.02
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGGCACTCATAATGTGGCCGAA
Found at i:31484058 original size:67 final size:67
Alignment explanation
Indices: 31483976--31484112 Score: 274
Period size: 67 Copynumber: 2.0 Consensus size: 67
31483966 ATAAGAAAAG
31483976 ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGAACCGAAGAAAAGAAAATTCATTTTC
1 ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGAACCGAAGAAAAGAAAATTCATTTTC
31484041 TA
66 TA
31484043 ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGAACCGAAGAAAAGAAAATTCATTTTC
1 ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGAACCGAAGAAAAGAAAATTCATTTTC
31484108 TA
66 TA
31484110 ATT
1 ATT
31484113 CACGCCAAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.31
Consensus pattern (67 bp):
ATTGCTCAAAGGAAATGTTTTGGTTCAAAAAATAAATTGAACCGAAGAAAAGAAAATTCATTTTC
TA
Found at i:31486455 original size:29 final size:28
Alignment explanation
Indices: 31486406--31486476 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
31486396 ACAATGATAT
* * *
31486406 TAGTGAATCATAATGTTAACATGCATAA-A
1 TAGT-AATAATAATGTGAACACG-ATAATA
31486435 TAGTAATAATAATGATGAACACGATAATA
1 TAGTAATAATAATG-TGAACACGATAATA
*
31486464 TAATAATAATAAT
1 TAGTAATAATAAT
31486477 AATAATAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 13 0.36
29 23 0.64
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (28 bp):
TAGTAATAATAATGTGAACACGATAATA
Found at i:31486469 original size:3 final size:3
Alignment explanation
Indices: 31486458--31486525 Score: 120
Period size: 3 Copynumber: 22.7 Consensus size: 3
31486448 GATGAACACG
31486458 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
31486505 ATA ATA ATA ATA ATGA ATA AT
1 ATA ATA ATA ATA AT-A ATA AT
31486526 CTAAATTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:31488495 original size:44 final size:44
Alignment explanation
Indices: 31488440--31488978 Score: 232
Period size: 44 Copynumber: 11.9 Consensus size: 44
31488430 CTCGCATCTA
* * *
31488440 CAATCTGCTCCACTGTAACCTCAGGGAGATGAGATTTGTAACTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
* * * ***
31488484 CAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGTTTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-AACTT
* * * * **
31488529 C-ATCTACTCCACTGTAACTTTAGGGAGATAAGATTAGTGGCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
* * * *
31488572 CAATTTGCTCTACTGTAACTTCAAGGAGATAAGATTTGCTATA-TT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-ACTT
* * * * *
31488617 CGATATGCTCCACTGCAACTTCAGGGAGATGAGACTTGTACCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
* **
31488661 CAA-CTTGCTCCATTGCAACTTCAGGGAGATAA-AGTTTGCTATTTT
1 CAATC-TGCTCCACTGCAACTTCAGGGAGATAAGA-TTTG-TAACTT
* * *
31488706 CAATCTATTCTACACT--AACTTTAGGGAGATAAGATTTGTAGCTCGTAGCTT
1 CAATC--TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTA------A-CTT
* * ** * * * * *
31488757 TAGTCTATTCTACTGTAACTTCAGGGAGATAATACTTGCTATAGTGGATT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TA-A----CTT
* * * * **
31488807 TAATCCGAC-CCACTGTAACTTCAGAGG-TATAAGATTTGTCGCTT
1 CAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAACTT
* * * **
31488851 CAATCTGCTGCACTACAACTTCAGGGAGATAAGGTTTGCTATTTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAACTT
* ** * * * *
31488896 CAATCTGCTCCATTATAACTTTAGGGAGATGAGACTTGTATCTT
1 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
* * * * *
31488940 CAATC-GTCTTCACTACAACTTTAGGAAGATAAAATTTGT
1 CAATCTG-CTCCACTGCAACTTCAGGGAGATAAGATTTGT
31488979 GGTTTGTAGC
Statistics
Matches: 373, Mismatches: 92, Indels: 60
0.71 0.18 0.11
Matches are distributed among these distances:
43 9 0.02
44 194 0.52
45 97 0.26
46 2 0.01
47 8 0.02
49 6 0.02
50 29 0.08
51 26 0.07
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (44 bp):
CAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTT
Found at i:31488958 original size:89 final size:90
Alignment explanation
Indices: 31488440--31488971 Score: 357
Period size: 89 Copynumber: 5.9 Consensus size: 90
31488430 CTCGCATCTA
* * * * * *
31488440 CAATCTGCTCCACTGTAACCTCAGGGAGATGAGATTTGTAACTTCAA-CCTACTCCACTGCAACT
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTGCAACT
*
31488504 TCAGGGAGATAAGGTTTG-TGGTTTT
66 TCAGGGAGATAAGGTTTGCT-ATTTT
* * * * * *
31488529 C-ATCTACTCCACTGTAACTTTAGGGAGATAAGATTAGTGGCTTCAAT-TTGC-TCTACTGTAAC
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTC-ACTGCAAC
* * *
31488591 TTCAAGGAGATAAGATTTGCTATATT
65 TTCAGGGAGATAAGGTTTGCTATTTT
* * * * * * * * *
31488617 CGATATGCTCCACTGCAACTTCAGGGAGATGAGACTTGTACCTTCAA-CTTGCTCCATTGCAACT
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTGCAACT
*
31488681 TCAGGGAGATAAAGTTTGCTATTTT
66 TCAGGGAGATAAGGTTTGCTATTTT
** * ** * * * *
31488706 CAATCTATTCTACACTAACTTTAGGGAGATAAGATTTGTAGC-TCGTAGCTTTAGTCTATTCTAC
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTC-AATC-GT-G-C--TTC-AC
* ***
31488770 TGTAACTTCAGGGAGATAATACTTGCTATAGTGGATT
59 TGCAACTTCAGGGAGATAAGGTTTGCTAT--T---TT
* * * * * *
31488807 TAATCCGAC-CCACTGTAACTTCAGAGG-TATAAGATTTGTCGCTTCAATC-TGCTGCACTACAA
1 CAATCTG-CTCCACTGTAACTTCAG-GGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTGCAA
31488869 CTTCAGGGAGATAAGGTTTGCTATTTT
64 CTTCAGGGAGATAAGGTTTGCTATTTT
* * * * * * *
31488896 CAATCTGCTCCATTATAACTTTAGGGAGATGAGACTTGTATCTTCAATCGT-CTTCACTACAACT
1 CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTGCAACT
* *
31488960 TTAGGAAGATAA
66 TCAGGGAGATAA
31488972 AATTTGTGGT
Statistics
Matches: 337, Mismatches: 81, Indels: 50
0.72 0.17 0.11
Matches are distributed among these distances:
87 1 0.00
88 73 0.22
89 159 0.47
90 3 0.01
91 2 0.01
92 2 0.01
93 1 0.00
94 26 0.08
95 4 0.01
96 26 0.08
97 1 0.00
98 2 0.01
99 1 0.00
101 32 0.09
102 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (90 bp):
CAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGCTTCAATCGTGCTTCACTGCAACT
TCAGGGAGATAAGGTTTGCTATTTT
Found at i:31489046 original size:24 final size:24
Alignment explanation
Indices: 31489009--31489062 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
31488999 TCCACTGTAA
*
31489009 CTTCAGAGAAATAAGATTCGCTAT
1 CTTCAAAGAAATAAGATTCGCTAT
* * *
31489033 CTTCAAAGAGATAAGATTTGCTTT
1 CTTCAAAGAAATAAGATTCGCTAT
31489057 CTTCAA
1 CTTCAA
31489063 TCTACTCCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (24 bp):
CTTCAAAGAAATAAGATTCGCTAT
Found at i:31489088 original size:45 final size:45
Alignment explanation
Indices: 31489040--31489328 Score: 183
Period size: 44 Copynumber: 6.3 Consensus size: 45
31489030 TATCTTCAAA
* * *
31489040 GAGATAAGATTTGCTTTCTTCAATCTACTCCATTGCAACTTCAGA
1 GAGATAAGATTTGCTTTCTTCAATCTGCTCCACTGCAACTTCAGG
* * * ** **
31489085 GAGATCAGATTTGTAATTTGTAGCTTTAATCTATTCCACTAAAACTTCAGG
1 GAGATAAGATTTG---CTT-T--CTTCAATCTGCTCCACTGCAACTTCAGG
* * * *
31489136 GAAATAAGA-TCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
1 GAGATAAGATTTGCTTTCTTCAATCTGCTCCACTGCAACTTCAGG
* * * *
31489180 GAGATAAAACTTG-TTGTAACTTCAACCTGCTCCACTACAACTTCAGG
1 GAGATAAGATTTGCTT-T--CTTCAATCTGCTCCACTGCAACTTCAGG
* * *
31489227 GAGATAAGGTTTACTATT-TTCAATCTGCTTCACTGCAACTTCAGG
1 GAGATAAGATTTGCT-TTCTTCAATCTGCTCCACTGCAACTTCAGG
* * * * * *
31489272 GAGATGAGACTCG-TATT-TTTAATCTTCTTCACTGCAACTTCAGG
1 GAGATAAGATTTGCT-TTCTTCAATCTGCTCCACTGCAACTTCAGG
* *
31489316 AAGATAAGCTTTG
1 GAGATAAGATTTG
31489329 TGGTTTGTAG
Statistics
Matches: 187, Mismatches: 45, Indels: 25
0.73 0.18 0.10
Matches are distributed among these distances:
44 67 0.36
45 47 0.25
46 1 0.01
47 35 0.19
48 4 0.02
49 2 0.01
50 2 0.01
51 29 0.16
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (45 bp):
GAGATAAGATTTGCTTTCTTCAATCTGCTCCACTGCAACTTCAGG
Found at i:31489212 original size:47 final size:45
Alignment explanation
Indices: 31489159--31489276 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
31489149 TATCTTCAGT
**
31489159 CTGCTCCACTGCAACTTCAGGGAGATAAAACTTGTTGTAACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGAT-AAACTT-TACTAACTTCAAC
* ** ** *
31489206 CTGCTCCACTACAACTTCAGGGAGATAAGGTTTACTATTTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAACTTTACTAACTTCAAC
*
31489251 CTGCTTCACTGCAACTTCAGGGAGAT
1 CTGCTCCACTGCAACTTCAGGGAGAT
31489277 GAGACTCGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
45 32 0.52
46 4 0.07
47 25 0.41
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAACTTTACTAACTTCAAC
Found at i:31489332 original size:351 final size:351
Alignment explanation
Indices: 31488848--31489550 Score: 1093
Period size: 351 Copynumber: 2.0 Consensus size: 351
31488838 AGATTTGTCG
* * * * *
31488848 CTTCAATCTGCTGCACTACAACTTCAGGGAGATAAGGTTTGCTATTTTCAATCTGCTCCATTATA
1 CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTACTATTTTCAATCTGCTCCACTACA
* * *
31488913 ACTTTAGGGAGATGAGACTTGTATCTTCAATCGTCTTCACTACAACTTTAGGAAGATAAAATTTG
66 ACTTCAGGGAGATGAGACTCGTATCTTCAATCGTCTTCACTACAACTTCAGGAAGATAAAATTTG
*
31488978 TGGTTTGTAGCTTTAATCTGTTCCACTGTAACTTCAGAGAAATAAGATTCGCTATCTTCAAAGAG
131 TGGTTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAAAGAG
* *
31489043 ATAAGATTTGCTTTCTTCAATCTACTCCATTGCAACTTCAGAGAGATCAGATTTGTAATTTGTAG
196 ATAA-ATTTGCTTTCTTCAATCTACTCCACTGCAACTTCAGAGAGATCAGATTTGTAATTTATAG
*
31489108 CTTTAATCTATTCCACTAAAACTTCAGGGAAATAAGAT-CGCTATCTTCAGTCTGCTCCACTGCA
260 CTTTAATCTATTCCACTAAAACTTCAGAGAAATAAGATCCGCTATCTTCAGTCTGCTCCACTGCA
31489172 ACTTCAGGGAGATAAAACTTGTTGTAA
325 ACTTCAGGGAGATAAAACTTGTTGTAA
* *
31489199 CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTACTATTTTCAATCTGCTTCACTGCA
1 CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTACTATTTTCAATCTGCTCCACTACA
* * * * **
31489264 ACTTCAGGGAGATGAGACTCGTATTTTTAATCTTCTTCACTGCAACTTCAGGAAGATAAGCTTTG
66 ACTTCAGGGAGATGAGACTCGTATCTTCAATCGTCTTCACTACAACTTCAGGAAGATAAAATTTG
* *
31489329 TGGTTTGTAGCTTTAATCTGTTCTATTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAAAGAG
131 TGGTTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAAAGAG
** * * *
31489394 ATAAATTTTTTTTCTTCAATCTACTCTACTGCAACTTCAGGGAGATCAGATTTGTATTTTATAGC
196 ATAAATTTGCTTTCTTCAATCTACTCCACTGCAACTTCAGAGAGATCAGATTTGTAATTTATAGC
* * * * *
31489459 TTTAATTTGTTCCACTGAAACTTTAGAGAAATAAGATCCGCTATCTTCAGTCTGCTCCATTGCAA
261 TTTAATCTATTCCACTAAAACTTCAGAGAAATAAGATCCGCTATCTTCAGTCTGCTCCACTGCAA
*
31489524 CTTCAGGGAGATAAGACTTGTTGTAA
326 CTTCAGGGAGATAAAACTTGTTGTAA
31489550 C
1 C
31489551 AATACCCACC
Statistics
Matches: 318, Mismatches: 33, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
350 86 0.27
351 232 0.73
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (351 bp):
CTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTACTATTTTCAATCTGCTCCACTACA
ACTTCAGGGAGATGAGACTCGTATCTTCAATCGTCTTCACTACAACTTCAGGAAGATAAAATTTG
TGGTTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTCGCTATCTTCAAAGAG
ATAAATTTGCTTTCTTCAATCTACTCCACTGCAACTTCAGAGAGATCAGATTTGTAATTTATAGC
TTTAATCTATTCCACTAAAACTTCAGAGAAATAAGATCCGCTATCTTCAGTCTGCTCCACTGCAA
CTTCAGGGAGATAAAACTTGTTGTAA
Found at i:31491274 original size:12 final size:12
Alignment explanation
Indices: 31491259--31491291 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
31491249 TTTAAAAATG
31491259 TTTTATTTAATA
1 TTTTATTTAATA
*
31491271 TTTTCTTTAATA
1 TTTTATTTAATA
31491283 TTTTATTTA
1 TTTTATTTA
31491292 TTTATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTATTTAATA
Found at i:31491403 original size:23 final size:22
Alignment explanation
Indices: 31491377--31491431 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
31491367 TTGGCTCGTT
* *
31491377 TTATTTATTTAATTTTTTTGCCC
1 TTATTTATTTAATTTTATT-CCA
*
31491400 TTA-TTATTGTTATTTTATTCCA
1 TTATTTATT-TAATTTTATTCCA
31491422 TTATTTATTT
1 TTATTTATTT
31491432 GTTTATTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.20, C:0.09, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATTTATTTAATTTTATTCCA
Found at i:31491532 original size:3 final size:3
Alignment explanation
Indices: 31491465--31491512 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
31491455 CAAACTTTAG
31491465 ATT ATT CATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
31491511 AT
1 AT
31491513 CGTGTTCATC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:31493835 original size:31 final size:32
Alignment explanation
Indices: 31493791--31493882 Score: 89
Period size: 31 Copynumber: 2.8 Consensus size: 32
31493781 TATTTAATTA
**
31493791 ATTTTTTAAAATTTTAAAAA-TAATT-TTAATG
1 ATTTTTTTTAATTTTAAAAAGTAATTCTT-ATG
* *
31493822 ATTTTTTTTAATTTCAAAAAGTTAGTTCTTATG
1 ATTTTTTTTAATTTTAAAAAG-TAATTCTTATG
*
31493855 GTTTTTCTTTGAATTTTAAAAAGTAATT
1 ATTTTT-TTT-AATTTTAAAAAGTAATT
31493883 AAGTCATCCA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
31 17 0.35
33 12 0.24
34 9 0.18
35 11 0.22
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (32 bp):
ATTTTTTTTAATTTTAAAAAGTAATTCTTATG
Found at i:31494271 original size:17 final size:17
Alignment explanation
Indices: 31494215--31494272 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
31494205 CTTTCACCAT
*
31494215 ATTAATGAAAAA-TAAA
1 ATTAATAAAAAATTAAA
* *
31494231 ATTATATAATAAATT--T
1 ATTA-ATAAAAAATTAAA
*
31494247 ATTTATAAAAAATTAAA
1 ATTAATAAAAAATTAAA
31494264 ATTAATAAA
1 ATTAATAAA
31494273 TAAAGTTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
15 9 0.29
16 7 0.23
17 14 0.45
18 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATTAATAAAAAATTAAA
Found at i:31494573 original size:14 final size:14
Alignment explanation
Indices: 31494563--31494592 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31494553 TGAAAATGTC
31494563 TTTC-GGAAAATGA
1 TTTCTGGAAAATGA
31494576 TTTCTGGAAAATGA
1 TTTCTGGAAAATGA
31494590 TTT
1 TTT
31494593 ATTTTTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
TTTCTGGAAAATGA
Found at i:31495068 original size:15 final size:15
Alignment explanation
Indices: 31495048--31495101 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
31495038 ATGCTAAAAA
31495048 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
31495063 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
31495080 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
31495097 ATATT
1 ATATT
31495102 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:31495151 original size:15 final size:16
Alignment explanation
Indices: 31495131--31495160 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31495121 AATAAAATTA
31495131 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
31495146 TTTAAAATTTATTAT
1 TTTAAAATTTATTAT
31495161 GAAAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:31496180 original size:22 final size:23
Alignment explanation
Indices: 31496155--31496199 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
31496145 TTAAGAAGTA
*
31496155 TATTTTTT-AATTATTTTAATTT
1 TATTTTTTAAATAATTTTAATTT
31496177 TATTTTTTAAATAATTTTAATTT
1 TATTTTTTAAATAATTTTAATTT
31496200 ACTTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
TATTTTTTAAATAATTTTAATTT
Found at i:31496205 original size:22 final size:23
Alignment explanation
Indices: 31496157--31496206 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
31496147 AAGAAGTATA
* * *
31496157 TTTTTTAATTATTTTAATTTTAT
1 TTTTTAAATAATTTTAATTTTAC
31496180 TTTTTAAATAATTTTAA-TTTAC
1 TTTTTAAATAATTTTAATTTTAC
31496202 TTTTT
1 TTTTT
31496207 CTTTTACATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTAAATAATTTTAATTTTAC
Found at i:31502304 original size:35 final size:35
Alignment explanation
Indices: 31502258--31502324 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
31502248 ATCTGAACTT
*
31502258 AAATGAGTAAACTAAGTGTTACTTCAAATGGTGAA
1 AAATGAGTAAACTAAATGTTACTTCAAATGGTGAA
31502293 AAATGAGTAAACTAAATGTTACTTCAAATGGT
1 AAATGAGTAAACTAAATGTTACTTCAAATGGT
31502325 AAAGTGTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (35 bp):
AAATGAGTAAACTAAATGTTACTTCAAATGGTGAA
Found at i:31504246 original size:13 final size:13
Alignment explanation
Indices: 31504228--31504253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31504218 GCATTTCAAA
31504228 TGCTTAGTAAGTT
1 TGCTTAGTAAGTT
31504241 TGCTTAGTAAGTT
1 TGCTTAGTAAGTT
31504254 CGTATAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
TGCTTAGTAAGTT
Found at i:31505092 original size:20 final size:20
Alignment explanation
Indices: 31505043--31505092 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
31505033 TACAAATTAA
31505043 ATTATAGCTGAATTAAATTT
1 ATTATAGCTGAATTAAATTT
* * *
31505063 GTCATAGCTGAATTAAGTTT
1 ATTATAGCTGAATTAAATTT
*
31505083 ATTATGGCTG
1 ATTATAGCTG
31505093 CCGAATTTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTATAGCTGAATTAAATTT
Found at i:31508502 original size:93 final size:93
Alignment explanation
Indices: 31508389--31508560 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
31508379 CGCCCATAAG
* * *
31508389 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31508454 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
31508482 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31508547 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
31508561 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:31508557 original size:46 final size:46
Alignment explanation
Indices: 31508382--31508557 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
31508372 TGTAACCCGC
* * * *
31508382 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
31508428 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
31508478 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31508521 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
31508558 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31513540 original size:47 final size:44
Alignment explanation
Indices: 31513444--31513540 Score: 106
Period size: 47 Copynumber: 2.1 Consensus size: 44
31513434 AAAATGTAAA
*
31513444 AGAAAAGAAAAGTGAGAAAAAAGAGGAAAAACAATAAAAGAGAG
1 AGAAAAGAAAAGTGAGAAAAAAGAGGAAAAACAACAAAAGAGAG
* * * *
31513488 TGAAAAGAAAA-TGAGAAAAGAAAAGGGTGAAAAAGAACAAAAGAGTG
1 AGAAAAGAAAAGTGAG--AA-AAAAGAG-GAAAAACAACAAAAGAGAG
31513535 AGAAAA
1 AGAAAA
31513541 TGAGTGTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 4 0.09
44 10 0.23
45 2 0.05
46 6 0.14
47 21 0.49
ACGTcount: A:0.66, C:0.02, G:0.26, T:0.06
Consensus pattern (44 bp):
AGAAAAGAAAAGTGAGAAAAAAGAGGAAAAACAACAAAAGAGAG
Found at i:31523022 original size:47 final size:47
Alignment explanation
Indices: 31522968--31523158 Score: 247
Period size: 47 Copynumber: 4.1 Consensus size: 47
31522958 TTAGGATTTT
* ** * * *
31522968 ATGTGATGAATTTGAATGTGTATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
31523015 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
31523062 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
31523109 ATGTGGTGAATATGAACATGTATATATGTGGTAAAGCTGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
31523156 ATG
1 ATG
31523159 CGAAATATGT
Statistics
Matches: 127, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 127 1.00
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:31523117 original size:25 final size:25
Alignment explanation
Indices: 31523042--31523117 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
31523032 ATGCATATAT
31523042 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
31523067 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
31523089 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
31523114 GTGA
1 GTGA
31523118 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:31523292 original size:98 final size:96
Alignment explanation
Indices: 31523132--31523315 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
31523122 GAACATGTAT
* *
31523132 ATATGTGGTAAAGCTGAATGGCTAATGCGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
31523197 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
*
31523228 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGCG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
31523292 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
31523316 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 25 0.31
97 2 0.02
98 53 0.65
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:31523331 original size:50 final size:48
Alignment explanation
Indices: 31523131--31523315 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
31523121 TGAACATGTA
* *
31523131 TATATGTGGTAAAGCTGAATGGCTAATGCGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
31523179 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
31523227 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
31523277 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
31523316 GGCGATGTGC
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 41 0.33
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:31523570 original size:37 final size:37
Alignment explanation
Indices: 31523462--31523570 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
31523452 GGAAATATAT
* * *
31523462 TCCGGGTAAGGCCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
31523499 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
31523536 TCCGGGTAAGACTCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
31523571 CGTCTGAGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:31528432 original size:20 final size:20
Alignment explanation
Indices: 31528404--31528442 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31528394 CATGAACATT
31528404 ACTAAGTCACAAACATATTC
1 ACTAAGTCACAAACATATTC
* *
31528424 ACTAGGTCACAAATATATT
1 ACTAAGTCACAAACATATT
31528443 TCACATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (20 bp):
ACTAAGTCACAAACATATTC
Found at i:31532878 original size:25 final size:25
Alignment explanation
Indices: 31532850--31532899 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
31532840 TAAAGGGGGG
*
31532850 TAAGGCATTTCAC-ATGAATTTTTAA
1 TAAGCCATTTC-CTATGAATTTTTAA
31532875 TAAGCCATTTCCTATGAATTTTTAA
1 TAAGCCATTTCCTATGAATTTTTAA
31532900 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.04
25 22 0.96
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (25 bp):
TAAGCCATTTCCTATGAATTTTTAA
Found at i:31534230 original size:8 final size:8
Alignment explanation
Indices: 31534201--31534260 Score: 74
Period size: 7 Copynumber: 8.0 Consensus size: 8
31534191 TTAGGATGTC
31534201 TAGGG-TT
1 TAGGGTTT
31534208 TAGGG-TT
1 TAGGGTTT
31534215 TAGGGTTT
1 TAGGGTTT
*
31534223 TAGAGTTT
1 TAGGGTTT
31534231 TAGGGTTT
1 TAGGGTTT
31534239 TA-GGTTT
1 TAGGGTTT
*
31534246 TAAGG-TT
1 TAGGGTTT
31534253 TAGGGTTT
1 TAGGGTTT
31534261 AATGTTGCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
7 25 0.53
8 22 0.47
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (8 bp):
TAGGGTTT
Found at i:31534259 original size:15 final size:16
Alignment explanation
Indices: 31534201--31534260 Score: 74
Period size: 15 Copynumber: 4.0 Consensus size: 16
31534191 TTAGGATGTC
31534201 TAGGG-TTTAGGG-TT
1 TAGGGTTTTAGGGTTT
*
31534215 TAGGGTTTTAGAGTTT
1 TAGGGTTTTAGGGTTT
31534231 TAGGGTTTTA-GGTTT
1 TAGGGTTTTAGGGTTT
*
31534246 TAAGG-TTTAGGGTTT
1 TAGGGTTTTAGGGTTT
31534261 AATGTTGCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
14 9 0.22
15 19 0.47
16 12 0.30
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (16 bp):
TAGGGTTTTAGGGTTT
Found at i:31534943 original size:25 final size:25
Alignment explanation
Indices: 31534915--31534964 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31534905 TAAAGGGGGG
*
31534915 TAAGGCATTTCACATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
*
31534940 TAAGCCATTTCCCATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
31534965 AGAATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (25 bp):
TAAGCCATTTCACATGAATTTTTAA
Found at i:31536969 original size:25 final size:25
Alignment explanation
Indices: 31536941--31536990 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31536931 TAAAGGGGGG
*
31536941 TAAGGCATTTCACATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
*
31536966 TAAGCCATTTCCCATGAATTTTTAA
1 TAAGCCATTTCACATGAATTTTTAA
31536991 AGTATGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (25 bp):
TAAGCCATTTCACATGAATTTTTAA
Found at i:31538308 original size:8 final size:7
Alignment explanation
Indices: 31538286--31538339 Score: 63
Period size: 7 Copynumber: 7.3 Consensus size: 7
31538276 TTAGCATGTC
*
31538286 TAGGGTT
1 TAGGTTT
31538293 TAGGGTTT
1 TA-GGTTT
31538301 TAGAGTTT
1 TAG-GTTT
31538309 TAGGGTTT
1 TA-GGTTT
31538317 TAGGTTT
1 TAGGTTT
*
31538324 TAGGGTT
1 TAGGTTT
31538331 TAGGTTT
1 TAGGTTT
31538338 TA
1 TA
31538340 ATGTTGCCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
7 22 0.54
8 18 0.44
9 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (7 bp):
TAGGTTT
Found at i:31538323 original size:15 final size:15
Alignment explanation
Indices: 31538286--31538339 Score: 83
Period size: 16 Copynumber: 3.6 Consensus size: 15
31538276 TTAGCATGTC
*
31538286 TAGGGTTTAGGGTTT
1 TAGGTTTTAGGGTTT
31538301 TAGAGTTTTAGGGTTT
1 TAG-GTTTTAGGGTTT
31538317 TAGGTTTTAGGG-TT
1 TAGGTTTTAGGGTTT
31538331 TAGGTTTTA
1 TAGGTTTTA
31538340 ATGTTGCCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
14 11 0.30
15 12 0.32
16 14 0.38
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (15 bp):
TAGGTTTTAGGGTTT
Found at i:31539168 original size:6 final size:6
Alignment explanation
Indices: 31539157--31539329 Score: 178
Period size: 6 Copynumber: 28.7 Consensus size: 6
31539147 ACCAAAATGC
* *
31539157 GAATCA GAATCA AAATCA GTAAT-A GAATCA GAATCA GAATCA -ATATTA
1 GAATCA GAATCA GAATCA G-AATCA GAATCA GAATCA GAATCA GA-ATCA
*
31539205 GTAA-CA GAATCA GAATCA GAATCA GAATCA GAATCA TTAA-CA GAATCA
1 G-AATCA GAATCA GAATCA GAATCA GAATCA GAATCA -GAATCA GAATCA
* *
31539253 GAATCA GAATCA GAATCA GTATTA GTAA-CA GAATCA GAATCA GAATCA
1 GAATCA GAATCA GAATCA GAATCA G-AATCA GAATCA GAATCA GAATCA
* *
31539301 GAATTA CGTGA-CA GAATCA GAATCA GAAT
1 GAATCA -G-AATCA GAATCA GAATCA GAAT
31539330 GTGAATGCAA
Statistics
Matches: 140, Mismatches: 14, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
5 11 0.08
6 118 0.84
7 9 0.06
8 2 0.01
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.21
Consensus pattern (6 bp):
GAATCA
Found at i:31539197 original size:36 final size:36
Alignment explanation
Indices: 31539158--31539304 Score: 201
Period size: 36 Copynumber: 4.1 Consensus size: 36
31539148 CCAAAATGCG
*
31539158 AATCAGAATCA-AAATCAGTAAT-AGAATCAGAATCAG
1 AATCAGAATCAGTAA-CAG-AATCAGAATCAGAATCAG
*
31539194 AATCA-ATATTAGTAACAGAATCAGAATCAGAATCAG
1 AATCAGA-ATCAGTAACAGAATCAGAATCAGAATCAG
*
31539230 AATCAGAATCATTAACAGAATCAGAATCAGAATCAG
1 AATCAGAATCAGTAACAGAATCAGAATCAGAATCAG
* *
31539266 AATCAGTATTAGTAACAGAATCAGAATCAGAATCAG
1 AATCAGAATCAGTAACAGAATCAGAATCAGAATCAG
31539302 AAT
1 AAT
31539305 TACGTGACAG
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
35 4 0.04
36 93 0.93
37 3 0.03
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (36 bp):
AATCAGAATCAGTAACAGAATCAGAATCAGAATCAG
Found at i:31539727 original size:22 final size:22
Alignment explanation
Indices: 31539679--31539737 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
31539669 GTAAATAAGT
*
31539679 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
31539701 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
31539723 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
31539738 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:31539904 original size:27 final size:26
Alignment explanation
Indices: 31539828--31539907 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
31539818 ATTGGTCAAT
* * *
31539828 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGGCAGAGCCACCAGA-AC
31539855 AGATATTGTGGCAGAGCCACCAGAAC
1 AGATATTGTGGCAGAGCCACCAGAAC
*
31539881 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGGCAGAGCCACCAGAAC
31539908 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAC
Done.