Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 192 of 335
Found at i:57853806 original size:40 final size:40
Alignment explanation
Indices: 57853723--57853811 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
57853713 GTGCTAAGTG
* * * *
57853723 ACTAAATCCGGACTAAGATCCGACGGCATACGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATACGAGCAAGCT
* *
57853763 ACTAAATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCT
1 ACTAAATCCGGACTAAGATCCGAAGGCATACGAGCAAGCT
57853803 ACTAAATCC
1 ACTAAATCC
57853812 AGGTTGAGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (40 bp):
ACTAAATCCGGACTAAGATCCGAAGGCATACGAGCAAGCT
Found at i:57855288 original size:50 final size:50
Alignment explanation
Indices: 57855207--57855460 Score: 269
Period size: 50 Copynumber: 5.1 Consensus size: 50
57855197 GCCAATTATA
* * * * * *
57855207 CAAGGTCAAATATAATATCAAATATGAGCTTACCTATATGGCTGATTTTG
1 CAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAATATG
* *
57855257 CAAGATCAAATTTAATATCACATATGTGCTTACCTATATGGTCGAATATG
1 CAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAATATG
* * * * *
57855307 CAAGATCAAATTTAACATCACATATGTACTTACTTATATGGCCGAATATA
1 CAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAATATG
* * *
57855357 CAA-ATTCAAATATAATATCACATTTGTGCATACCT-TCATGGCCGAATATT
1 CAAGA-TCAAATATAATATCACATATGTGCTTACCTAT-ATGGCCGAATATG
* * * * * * *
57855407 CAAGATCCAATACAACATCACATATGTACATACCTATGTGGCCGAATATA
1 CAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAATATG
57855457 CAAG
1 CAAG
57855461 GTCATTTAGC
Statistics
Matches: 173, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.01
50 169 0.98
51 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (50 bp):
CAAGATCAAATATAATATCACATATGTGCTTACCTATATGGCCGAATATG
Found at i:57867323 original size:42 final size:42
Alignment explanation
Indices: 57867232--57867386 Score: 211
Period size: 43 Copynumber: 3.6 Consensus size: 42
57867222 CAATGTCATA
* * * * *
57867232 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTA
1 TCCCAGACATGGTCTTACATGTAATCAAATA-CGATGCCAATG
* *
57867275 TCCCAGACATGGTCTTACATGAAATCAAATACGATGGCAATG
1 TCCCAGACATGGTCTTACATGTAATCAAATACGATGCCAATG
* *
57867317 TCCCAGACATGGTCTTACACGTAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCA-AATACGATGCCAATG
57867360 TCCCAGACATGGTCTTACATGTAATCA
1 TCCCAGACATGGTCTTACATGTAATCA
57867387 CATTTCAGTA
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 33 0.33
43 66 0.67
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGTAATCAAATACGATGCCAATG
Found at i:57871131 original size:29 final size:29
Alignment explanation
Indices: 57871069--57871171 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
57871059 GTGACGAGAT
* * *
57871069 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
57871098 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * **
57871127 TGGCACTATGTGTGCGGGCTT-GAATCACG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
57871156 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57871172 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
28 3 0.05
29 56 0.95
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:57874784 original size:31 final size:30
Alignment explanation
Indices: 57874735--57874822 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 30
57874725 AAAACCTATA
*
57874735 AACACATATATA--TCATATATAATAAAACC
1 AACACATATATATTTTATATATAA-AAAACC
* *
57874764 CACACATATATATTTTATATA-AAAACACC
1 AACACATATATATTTTATATATAAAAAACC
* *
57874793 AAAAC-TCATATATTATATATATAACAAAAC
1 AACACAT-ATATATTTTATATATAA-AAAAC
57874823 TTCTATACGT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
28 1 0.02
29 32 0.68
30 4 0.09
31 10 0.21
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (30 bp):
AACACATATATATTTTATATATAAAAAACC
Found at i:57878508 original size:25 final size:25
Alignment explanation
Indices: 57878474--57878543 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
57878464 GAGGAAGTGC
*
57878474 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
57878499 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
57878524 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
57878544 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:57878556 original size:24 final size:24
Alignment explanation
Indices: 57878473--57878556 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 24
57878463 GGAGGAAGTG
*
57878473 CAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
57878497 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
57878522 CAAAAAGGGCTTTGCCCCAG-TTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
57878546 TAAAAGAGGCT
1 CAAAAG-GGCT
57878557 AGGCCTCCAG
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
23 5 0.09
24 9 0.16
25 41 0.75
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:57878567 original size:50 final size:50
Alignment explanation
Indices: 57878474--57878568 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
57878464 GAGGAAGTGC
**
57878474 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
57878524 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
57878569 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 24 0.62
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:57887787 original size:39 final size:39
Alignment explanation
Indices: 57887717--57887801 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
57887707 ATTTGATGTG
* *
57887717 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAATTA
1 TATCCGGACTTAGGGTCCACAGGCTATGTGCTAGAAATA
* *
57887756 TATCCGGACTTAGGGTCCACAGGCT-TCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCCACAGGCTAT-GTGCTAGAAATA
57887795 TATCCGG
1 TATCCGG
57887802 GCCAAAGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.02
39 40 0.98
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCACAGGCTATGTGCTAGAAATA
Found at i:57887818 original size:39 final size:39
Alignment explanation
Indices: 57887775--57887866 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 39
57887765 TTAGGGTCCA
57887775 CAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCG
1 CAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCG
**
57887814 CAGGCTTCGTGCTGGAAATGTATCCGGGTTAAAGTCCCG
1 CAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCG
* *
57887853 TAGGCTTTGTGCTG
1 CAGGCTTCGTGCTG
57887867 ATAATATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.18, C:0.24, G:0.32, T:0.26
Consensus pattern (39 bp):
CAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCG
Found at i:57890612 original size:4 final size:4
Alignment explanation
Indices: 57890596--57890631 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
57890586 GGAGCTTAGT
*
57890596 AGAA A-AA AAAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
57890632 AACGGAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:57894165 original size:39 final size:39
Alignment explanation
Indices: 57894111--57894195 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 39
57894101 ATTTGATGTG
*
57894111 TATCCGGACTTAGGGTCCGCAGGCTAT-GTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCT-TCGTGCTGGAAATA
* *
57894150 TATCCGGACTTAGGGTCTGCAGGCTTCGTGCTGGAAATG
1 TATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAATA
57894189 TATCCGG
1 TATCCGG
57894196 GTTAAACTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
38 1 0.02
39 41 0.98
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTTCGTGCTGGAAATA
Found at i:57896072 original size:58 final size:58
Alignment explanation
Indices: 57895950--57896084 Score: 202
Period size: 58 Copynumber: 2.3 Consensus size: 58
57895940 TACGGTGACG
*
57895950 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAA
*
57896007 ATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGC-ATGCTCGAA
* * *
57896065 GGGTATGGCACTATGTGTGC
1 AGATATGGCACTAAGTGTGC
57896085 GGGCTTAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
57 3 0.04
58 66 0.94
59 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTCGAA
Found at i:57896077 original size:29 final size:29
Alignment explanation
Indices: 57895954--57896055 Score: 204
Period size: 29 Copynumber: 3.5 Consensus size: 29
57895944 GTGACGAGAT
57895954 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57895983 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57896012 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57896041 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
57896056 GAGCTCGAAG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57904441 original size:40 final size:39
Alignment explanation
Indices: 57904377--57904564 Score: 214
Period size: 39 Copynumber: 4.8 Consensus size: 39
57904367 GCTACTCGTT
* * * ** *
57904377 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
57904417 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
57904457 CAATTGCCTTCCGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * * * *
57904496 CAATTGCCTTCGGGCTTAGCCCGGATGTCACAATTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
57904535 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
57904565 CTCGAACATT
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 86 0.66
40 44 0.34
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:57904492 original size:39 final size:39
Alignment explanation
Indices: 57904413--57904565 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
57904403 TATGGTAACC
* *
57904413 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
57904453 CGCACAATTGCCTTCCGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
57904492 CGCACAATTGCCTTCGGGCTTAGCCCGGATGTCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57904531 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
57904566 TCGAACATTT
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 87 0.84
40 16 0.16
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:57904543 original size:78 final size:79
Alignment explanation
Indices: 57904394--57904564 Score: 245
Period size: 78 Copynumber: 2.2 Consensus size: 79
57904384 CTTCGGGACA
* **
57904394 TAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACA
1 TAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACA
57904459 ATTGCCTTCCGGCT
66 ATTGCCTTCCGGCT
* * * * * *
57904473 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATGTCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACA
*
57904537 ATTGCCTTCGGGCT
66 ATTGCCTTCCGGCT
57904551 TAGCCCGGATATCA
1 TAGCCCGGATATCA
57904565 CTCGAACATT
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 50 0.61
79 32 0.39
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (79 bp):
TAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACA
ATTGCCTTCCGGCT
Found at i:57906339 original size:29 final size:29
Alignment explanation
Indices: 57906306--57906378 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
57906296 GTGACGAGAT
57906306 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* *
57906335 TGGCACTAAGTGAGCTTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
57906364 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
57906379 GAGCTCGAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:57906474 original size:2 final size:2
Alignment explanation
Indices: 57906469--57906493 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57906459 GTGTGCGTAC
57906469 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
57906494 CCGATCGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57910103 original size:20 final size:21
Alignment explanation
Indices: 57910067--57910114 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
57910057 ATTTTGATAT
*
57910067 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
57910088 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
57910108 ACATGAT
1 ACATGAT
57910115 GTATTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:57910196 original size:25 final size:25
Alignment explanation
Indices: 57910162--57910228 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
57910152 GAGGAAGTGC
*
57910162 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
57910187 AAAAGGGCTTTGCCACAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
57910212 AAAAGGGCTTTACCCCA
1 AAAAGGGCTTTGCCCCA
57910229 ATTATTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:57910514 original size:30 final size:32
Alignment explanation
Indices: 57910478--57910542 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
57910468 TGATATGAGT
*
57910478 TGTGAATTAT-AAAATGCTTCGGCCCAGTA-A
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
* *
57910508 TGTGAATTATGAAGAGGCTTCGGCCTAGTATA
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
57910540 TGT
1 TGT
57910543 TGAGATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 10 0.33
31 16 0.53
32 4 0.13
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
Found at i:57920380 original size:20 final size:20
Alignment explanation
Indices: 57920324--57920380 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
57920314 AAGTTTATGC
* *
57920324 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGGAATGGTAAG
*
57920344 TAAGTAAATTGAATGGTAAG
1 TAAGTAAATGGAATGGTAAG
*
57920364 TAAGTAAATGGAGTGGT
1 TAAGTAAATGGAATGGT
57920381 TTATAATCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (20 bp):
TAAGTAAATGGAATGGTAAG
Found at i:57931587 original size:29 final size:29
Alignment explanation
Indices: 57931525--57931627 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
57931515 GTGATGAGAT
* * *
57931525 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
57931554 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * ***
57931583 TGGCACTATGTGTGCGGGCTT-GAATCGCG
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
57931612 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
57931628 TGATTGAGTA
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 3 0.05
29 55 0.95
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:57938990 original size:24 final size:23
Alignment explanation
Indices: 57938963--57939024 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
57938953 TGAGCTAAAT
57938963 AGGAAACTCATAAGAGTTTTAATC
1 AGGAAACTCATAAGAGTTTTAA-C
* *
57938987 AGGAAGCTTAT-AGAG-TTTAAC
1 AGGAAACTCATAAGAGTTTTAAC
*
57939008 AGGTAACTC-TGAAGAGT
1 AGGAAACTCAT-AAGAGT
57939025 CATTATCAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
20 1 0.03
21 7 0.23
22 9 0.30
23 4 0.13
24 9 0.30
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (23 bp):
AGGAAACTCATAAGAGTTTTAAC
Found at i:57941850 original size:29 final size:29
Alignment explanation
Indices: 57941817--57941881 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
57941807 GTGACGAGAT
*
57941817 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATAGA
57941846 TGGCACTAAGTGTGCATGCTGGAAATAGA
1 TGGCACTAAGTGTGCATGCTGGAAATAGA
*
57941875 CGGCACT
1 TGGCACT
57941882 GGGTGTGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATAGA
Found at i:57946430 original size:49 final size:49
Alignment explanation
Indices: 57946374--57946620 Score: 440
Period size: 49 Copynumber: 5.0 Consensus size: 49
57946364 TACATATATG
* * *
57946374 TGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
57946423 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
57946472 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
57946521 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
57946570 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
57946619 TG
1 TG
57946621 GCCGATGTGG
Statistics
Matches: 193, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 193 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:57946623 original size:34 final size:34
Alignment explanation
Indices: 57946584--57946654 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
57946574 ATAAGGCCTA
57946584 ATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
1 ATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
57946618 ATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
1 ATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
57946652 ATG
1 ATG
57946655 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.27, C:0.06, G:0.35, T:0.32
Consensus pattern (34 bp):
ATGGCCGATGTGGTGAATGTGAAAGTGTATGTAT
Found at i:57946823 original size:37 final size:37
Alignment explanation
Indices: 57946773--57946857 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
57946763 GGAATATGTT
*
57946773 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
57946810 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
57946847 CCGGGTAAGAC
1 CCGGGTAAGAC
57946858 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:57959270 original size:27 final size:26
Alignment explanation
Indices: 57959232--57959490 Score: 259
Period size: 27 Copynumber: 9.6 Consensus size: 26
57959222 TTAGTTTACC
* *
57959232 AAATTACTAAAATACCCCTGGTTTGT
1 AAATTACCAAAATACCCCTAGTTTGT
* *
57959258 AAAGTTATCAAAATACCCCTGGTTTGT
1 AAA-TTACCAAAATACCCCTAGTTTGT
57959285 AAAATTACCAAAATACCCCTAGTTTGT
1 -AAATTACCAAAATACCCCTAGTTTGT
*
57959312 GAAATTAACAAAATACCCCTAGTTTGT
1 -AAATTACCAAAATACCCCTAGTTTGT
*
57959339 GAAATTACCAAAATACCCCTAATTTGT
1 -AAATTACCAAAATACCCCTAGTTTGT
** **
57959366 GAAATTACTGAAATA-CCCTCAACTTGT
1 -AAATTACCAAAATACCCCT-AGTTTGT
* * **
57959393 AACATTACCAAAATACCCTTGGTTTACA
1 AA-ATTACCAAAATACCCCTAGTTT-GT
*
57959421 AAATTACCAAAATACCCCTGGTTTGT
1 AAATTACCAAAATACCCCTAGTTTGT
*
57959447 AAAATTACCAAAATACCCCTAATTTGT
1 -AAATTACCAAAATACCCCTAGTTTGT
* *
57959474 GAAATTATCGAAATACC
1 -AAATTACCAAAATACC
57959491 TTCAGTTTGC
Statistics
Matches: 199, Mismatches: 27, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
26 9 0.05
27 182 0.91
28 8 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTAGTTTGT
Found at i:57959298 original size:54 final size:54
Alignment explanation
Indices: 57959232--57959518 Score: 303
Period size: 54 Copynumber: 5.3 Consensus size: 54
57959222 TTAGTTTACC
* * *
57959232 AAATTACTAAAATACCCCTGGTTTGT-AAAGTTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTGAAA-TTATCAAAATACCCCTAGTTTGTA
* *
57959286 AAATTACCAAAATACCCCTAGTTTGTGAAATTAACAAAATACCCCTAGTTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTGAAATTATCAAAATACCCCTAGTTTGTA
* * **
57959340 AAATTACCAAAATACCCCTAATTTGTGAAATTA-CTGAAATA-CCCTCAACTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTGAAATTATC-AAAATACCCCT-AGTTTGTA
* * * *** * *
57959394 ACATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTGAAATTATCAAAATACCCCTAGTTTGTA
* * * *
57959448 AAATTACCAAAATACCCCTAATTTGTGAAATTATCGAAATA-CCTTCAGTTTGCA
1 AAATTACCAAAATACCCCTAGTTTGTGAAATTATCAAAATACCCCT-AGTTTGTA
**
57959502 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
57959519 TCGACTTGTT
Statistics
Matches: 192, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
53 8 0.04
54 176 0.92
55 8 0.04
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTGAAATTATCAAAATACCCCTAGTTTGTA
Found at i:57959358 original size:81 final size:81
Alignment explanation
Indices: 57959232--57959547 Score: 318
Period size: 81 Copynumber: 3.9 Consensus size: 81
57959222 TTAGTTTACC
* * * * *
57959232 AAATT-ACTAAAATACCCCTGGTTTGTAAAGTTATCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAATTAAC-AAAATACCCCTAGTTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
*
57959296 AATACCCCTAGTTTGTG
65 AATACCCCTAATTTGTG
** * * **
57959313 AAATTAACAAAATACCCCTAGTTTGTGAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAA
1 AAATTAACAAAATACCCCTAGTTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
*
57959378 ATA-CCCTCAACTTGT-
66 ATACCCCT-AATTTGTG
* * * * *
57959393 AACATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AA-ATTAACAAAATACCCCTAGTTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAA
57959458 AATACCCCTAATTTGTG
65 AATACCCCTAATTTGTG
* * * ** *
57959475 AAATTATCGAAATA-CCTTCAGTTTGCAAAATTACTGAAATA-CCCTCGACTTGTTAAAATTACC
1 AAATTAACAAAATACCCCT-AGTTTGCAAAATTACCAAAATACCCCT-GATTTG-TAAAATTACC
*
57959538 AAAGTACCCC
63 AAAATACCCC
57959548 CGATTTACAA
Statistics
Matches: 195, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
80 14 0.07
81 154 0.79
82 27 0.14
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTAACAAAATACCCCTAGTTTGCAAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAA
ATACCCCTAATTTGTG
Found at i:57959599 original size:27 final size:28
Alignment explanation
Indices: 57959367--57959600 Score: 103
Period size: 27 Copynumber: 8.6 Consensus size: 28
57959357 CTAATTTGTG
* *
57959367 AAATTACTGAAATACCCTCAACTTGT--A
1 AAATTACCGAAATACCCTCGACTT-TACA
* * * *
57959394 ACATTACCAAAATACCCTTG-GTTTACA
1 AAATTACCGAAATACCCTCGACTTTACA
* * **
57959421 AAATTACCAAAATACCC-CTG-GTTTGTA
1 AAATTACCGAAATACCCTC-GACTTTACA
* * * ***
57959448 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCGAAATACCCTCGACTTTACA
* * * *
57959475 AAATTATCGAAATACCTTC-AGTTTGCA
1 AAATTACCGAAATACCCTCGACTTTACA
* *
57959502 AAATTACTGAAATACCCTCGACTTGT-TA
1 AAATTACCGAAATACCCTCGACTT-TACA
*
57959530 AAATTACC-AAAGTACCCCCGA-TTTACA
1 AAATTACCGAAA-TACCCTCGACTTTACA
***
57959557 AAATTACCGTTTTACCCTCGA-TTTACA
1 AAATTACCGAAATACCCTCGACTTTACA
**
57959584 AAATTATTGAAATACCC
1 AAATTACCGAAATACCC
57959601 CTATAGGGTA
Statistics
Matches: 161, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
25 1 0.01
26 3 0.02
27 136 0.84
28 20 0.12
29 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (28 bp):
AAATTACCGAAATACCCTCGACTTTACA
Found at i:57959752 original size:27 final size:27
Alignment explanation
Indices: 57959592--57959752 Score: 234
Period size: 27 Copynumber: 6.0 Consensus size: 27
57959582 CAAAATTATT
*
57959592 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
57959619 GAAATA-CCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
57959645 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
57959672 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
57959699 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* ** *
57959726 GAGATACCTTTGTAGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
57959753 ATTTTGCCCC
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
26 25 0.20
27 97 0.80
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:57959985 original size:25 final size:25
Alignment explanation
Indices: 57959951--57960018 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
57959941 AGGAAGTGCT
*
57959951 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
57959976 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
57960001 AAAAGGGTTTTGCCCCAG
1 AAAAGGGCTTTGCCCCAG
57960019 ATATTAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:57960028 original size:25 final size:24
Alignment explanation
Indices: 57959951--57960031 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 24
57959941 AGGAAGTGCT
*
57959951 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-CA
57959976 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTA-CA
*
57960001 AAAAGGGTTTTGCCCCAGATATTA-A
1 AAAAGGGCTTTGCCCCAG-T-TTACA
57960026 AAAAGG
1 AAAAGG
57960032 CTAGGCCTCC
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 47 0.92
26 1 0.02
27 3 0.06
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACA
Found at i:57963608 original size:40 final size:40
Alignment explanation
Indices: 57963553--57963759 Score: 364
Period size: 40 Copynumber: 5.2 Consensus size: 40
57963543 CGGATGATAA
57963553 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
57963593 CCGGGCTAAGACCCGAAGGCATTT-TGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
57963632 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
57963672 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
57963712 CCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
57963752 CC-GGCTAA
1 CCGGGCTAA
57963760 ATCTCGAAGA
Statistics
Matches: 159, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 43 0.27
40 116 0.73
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:57963768 original size:79 final size:79
Alignment explanation
Indices: 57963553--57963759 Score: 362
Period size: 79 Copynumber: 2.6 Consensus size: 79
57963543 CGGATGATAA
57963553 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTT
57963618 GCGAGTTGCTATAT
66 GCGAGTTGCTATAT
*
57963632 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTT-
*
57963697 TGCGAGTTGCTGTAT
65 TGCGAGTTGCTATAT
* *
57963712 CCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAA
57963760 ATCTCGAAGA
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
79 69 0.57
80 53 0.43
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTT
GCGAGTTGCTATAT
Found at i:57964006 original size:22 final size:22
Alignment explanation
Indices: 57963964--57964007 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
57963954 AAAATGTGCA
* *
57963964 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
57963986 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
57964008 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:57971720 original size:47 final size:47
Alignment explanation
Indices: 57971612--57971726 Score: 167
Period size: 47 Copynumber: 2.4 Consensus size: 47
57971602 ATACTATGAG
* *
57971612 TTGGCTTCGGGCCATGATATAGCACTTTGGGTGCGAGATAAACTAAT
1 TTGGCTTCGGGCCATGATATAGCACTTCGAGTGCGAGATAAACTAAT
** * *
57971659 TTGGCTTCAAGCCATGATATAGCACTTCGAGTGGGAGATAAACTGAT
1 TTGGCTTCGGGCCATGATATAGCACTTCGAGTGCGAGATAAACTAAT
57971706 TTGGCTTCGGGCCATGCATAT
1 TTGGCTTCGGGCCATG-ATAT
57971727 CGACTGATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 55 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (47 bp):
TTGGCTTCGGGCCATGATATAGCACTTCGAGTGCGAGATAAACTAAT
Found at i:57971748 original size:29 final size:28
Alignment explanation
Indices: 57971700--57971755 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
57971690 TGGGAGATAA
* **
57971700 ACTGATTTGGCTTCGGGCCATGCATATCG
1 ACTGATTTGGCTACAAGCCATG-ATATCG
57971729 ACTGATTTGGCTACAAGCCATGATATC
1 ACTGATTTGGCTACAAGCCATGATATC
57971756 AGTATTTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (28 bp):
ACTGATTTGGCTACAAGCCATGATATCG
Found at i:57973057 original size:21 final size:18
Alignment explanation
Indices: 57973031--57973074 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
57973021 TTTTAAAATT
57973031 ATAAAAAGATATAAATGAATA
1 ATAAAAAGATA-AAAT-AA-A
*
57973052 ATAAAATGATAAAATAAA
1 ATAAAAAGATAAAATAAA
57973070 ATAAA
1 ATAAA
57973075 TAATAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 4 0.18
21 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
ATAAAAAGATAAAATAAA
Found at i:57973073 original size:29 final size:28
Alignment explanation
Indices: 57973024--57973079 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
57973014 TCTAAAGTTT
* *
57973024 TAAAATTATAAAAAGATATAAATGAATAA
1 TAAAATGATAAAAAGAAATAAAT-AATAA
57973053 TAAAATGATAAAATA-AAATAAATAATA
1 TAAAATGATAAAA-AGAAATAAATAATA
57973080 GTTAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 19 0.79
30 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (28 bp):
TAAAATGATAAAAAGAAATAAATAATAA
Found at i:57973085 original size:29 final size:29
Alignment explanation
Indices: 57973023--57973085 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
57973013 ATCTAAAGTT
* *
57973023 TTAAAATTATAAAAAGATATAAATGAATA
1 TTAAAATGATAAAAAGAAATAAATGAATA
*
57973052 ATAAAATGATAAAATA-AAATAAAT-AATA
1 TTAAAATGATAAAA-AGAAATAAATGAATA
57973080 GTTAAA
1 -TTAAA
57973086 TATTAGGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 4 0.14
29 23 0.82
30 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (29 bp):
TTAAAATGATAAAAAGAAATAAATGAATA
Found at i:57978218 original size:40 final size:40
Alignment explanation
Indices: 57978133--57978333 Score: 293
Period size: 40 Copynumber: 5.1 Consensus size: 40
57978123 CGGGCTTTAA
** * *
57978133 CCGGATATAGCCAGTCGCTCAAATGCCTTC--GACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
**
57978171 CCGGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
57978211 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
57978250 CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
57978290 CCGGA-ATTAGTAACTCGCACAAATGCCTTTGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
57978330 CCGG
1 CCGG
57978334 TTATCATCCG
Statistics
Matches: 149, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 25 0.17
39 38 0.26
40 86 0.58
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57978261 original size:79 final size:79
Alignment explanation
Indices: 57978133--57978333 Score: 291
Period size: 79 Copynumber: 2.5 Consensus size: 79
57978123 CGGGCTTTAA
* * * ** *
57978133 CCGGATATAGCCAGTCGCTCAAATGCCTTC--GACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
57978196 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
57978211 CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
1 CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
57978276 CTTCGGGACTTAGC
66 CTTCGGGACTTAGC
*
57978290 CCGGA-ATTAGTAACTCGCACAAATGCCTTTGGGACTTAGCCCGG
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
57978334 TTATCATCCG
Statistics
Matches: 112, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
77 16 0.14
78 11 0.10
79 54 0.48
80 31 0.28
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGC
CTTCGGGACTTAGC
Found at i:57986713 original size:2 final size:2
Alignment explanation
Indices: 57986706--57986740 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
57986696 TCATGACATG
57986706 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57986741 GACTAGTCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:57986913 original size:53 final size:53
Alignment explanation
Indices: 57986848--57986956 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 53
57986838 AGATATGGTC
* *
57986848 TAACTTTAAATATGAATGCTTGATGATTAAGTTGAAGATATTTGGTAAGATGA
1 TAACTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTGGTAAGATAA
57986901 TAACTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTGGTAAGATAA
1 TAACTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTGGTAAGATAA
57986954 TAA
1 TAA
57986957 TCTTGGTATA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.39, C:0.05, G:0.19, T:0.37
Consensus pattern (53 bp):
TAACTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTGGTAAGATAA
Found at i:57989873 original size:64 final size:64
Alignment explanation
Indices: 57989799--57989928 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
57989789 CTCAGATAAT
57989799 TTTTCTATCACTCATTGCTTTTCGTATTACCGTCCTCTTTCTCTGTTAGACAAGTAATGCAACA
1 TTTTCTATCACTCATTGCTTTTCGTATTACCGTCCTCTTTCTCTGTTAGACAAGTAATGCAACA
57989863 TTTTCTATCACTCATTGCTTTTCGTATTACCGTCCTCTTTCTCTGTTAGACAAGTAATGCAACA
1 TTTTCTATCACTCATTGCTTTTCGTATTACCGTCCTCTTTCTCTGTTAGACAAGTAATGCAACA
57989927 TT
1 TT
57989929 GATTTCATGT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.22, C:0.25, G:0.11, T:0.43
Consensus pattern (64 bp):
TTTTCTATCACTCATTGCTTTTCGTATTACCGTCCTCTTTCTCTGTTAGACAAGTAATGCAACA
Found at i:57991724 original size:46 final size:46
Alignment explanation
Indices: 57991654--57991746 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
57991644 CTTAATTGCA
* *
57991654 ATTAAGAGTTTTAGTTTTATTTATTTTCTTTATTATATCAGGTTTT
1 ATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
* *
57991700 ATTAAGAGTTTTGGTTTTACTTATTTTCTCTATTATATTAGGTTTT
1 ATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
57991746 A
1 A
57991747 ATTTCCTTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.59
Consensus pattern (46 bp):
ATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
Found at i:57993936 original size:19 final size:19
Alignment explanation
Indices: 57993891--57993955 Score: 87
Period size: 20 Copynumber: 3.4 Consensus size: 19
57993881 CACCAAAAAC
* *
57993891 ATTTAAACTAATTTTCAAA
1 ATTTAAAATAATTTTTAAA
57993910 ATTTTAAAATAATTTTTAAA
1 A-TTTAAAATAATTTTTAAA
*
57993930 ATTTAAAAT-ATTTATAAA
1 ATTTAAAATAATTTTTAAA
57993948 ATTTAAAA
1 ATTTAAAA
57993956 ATTCTAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
18 16 0.38
19 9 0.21
20 17 0.40
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAAATAATTTTTAAA
Found at i:57993957 original size:19 final size:19
Alignment explanation
Indices: 57993891--57993955 Score: 80
Period size: 18 Copynumber: 3.4 Consensus size: 19
57993881 CACCAAAAAC
*
57993891 ATTTAAACTAATTT-TCAAA
1 ATTTAAAATAATTTAT-AAA
*
57993910 ATTTTAAAATAATTTTTAAA
1 A-TTTAAAATAATTTATAAA
57993930 ATTTAAAAT-ATTTATAAA
1 ATTTAAAATAATTTATAAA
57993948 ATTTAAAA
1 ATTTAAAA
57993956 ATTCTAAAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 16 0.38
19 9 0.21
20 16 0.38
21 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAAATAATTTATAAA
Found at i:57995451 original size:20 final size:20
Alignment explanation
Indices: 57995414--57995453 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57995404 TAAAAAATAC
*
57995414 TTTTAAAAATATTTTTAAAT
1 TTTTAAAAATATTATTAAAT
57995434 TTTTAAAAA-ATTGATTAAAT
1 TTTTAAAAATATT-ATTAAAT
57995454 GTTATGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTAAAAATATTATTAAAT
Found at i:57998516 original size:32 final size:32
Alignment explanation
Indices: 57998469--57998534 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
57998459 TTTACTTTCC
* *
57998469 ATTTAGCTCTCACGAGCTTCTATTTAACTCAT
1 ATTTAGCACTCACGAGCTTCGATTTAACTCAT
* *
57998501 ATTTAGCACTTACGAGCTTCGGTTTAACTCAT
1 ATTTAGCACTCACGAGCTTCGATTTAACTCAT
57998533 AT
1 AT
57998535 GAGTTTCCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (32 bp):
ATTTAGCACTCACGAGCTTCGATTTAACTCAT
Found at i:57998619 original size:21 final size:21
Alignment explanation
Indices: 57998593--57998653 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
57998583 CTGTTTAACC
57998593 CTTATGGGTTT-TCATTCACCT
1 CTTATGGGTTTCT-ATTCACCT
*
57998614 CTTATGGGCTTCTATTCAACCT
1 CTTATGGGTTTCTATTC-ACCT
57998636 -TTATGGGTTTCTATTCAC
1 CTTATGGGTTTCTATTCAC
57998654 TTATGTGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 2 0.06
21 29 0.81
22 5 0.14
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (21 bp):
CTTATGGGTTTCTATTCACCT
Found at i:57998626 original size:42 final size:39
Alignment explanation
Indices: 57998580--57998670 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 39
57998570 CTTTTTTGAA
*
57998580 CTTCTGTTTAACCCTTATGGGTTT-TCATTCACCTCTTATGGG
1 CTTCTGTTCAACCCTTATGGGTTTCT-ATTCA---CTTATGGG
* * *
57998622 CTTCTATTCAACCTTTATGGGTTTCTATTCACTTATGTG
1 CTTCTGTTCAACCCTTATGGGTTTCTATTCACTTATGGG
57998661 CTTCTGTTCA
1 CTTCTGTTCA
57998671 GCCTTTGGGC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
39 16 0.37
42 26 0.60
43 1 0.02
ACGTcount: A:0.15, C:0.23, G:0.14, T:0.47
Consensus pattern (39 bp):
CTTCTGTTCAACCCTTATGGGTTTCTATTCACTTATGGG
Found at i:58001698 original size:2 final size:2
Alignment explanation
Indices: 58001691--58001718 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
58001681 GGATAGGGAA
58001691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58001719 TTTATATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58002307 original size:16 final size:16
Alignment explanation
Indices: 58002286--58002329 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
58002276 ATATTGATAA
58002286 ATTAAAAAATTAAAAC
1 ATTAAAAAATTAAAAC
** *
58002302 ATTAAATCATTAAATC
1 ATTAAAAAATTAAAAC
58002318 ATTAAAACAATT
1 ATTAAAA-AATT
58002330 TTATAAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTAAAAAATTAAAAC
Found at i:58002312 original size:8 final size:8
Alignment explanation
Indices: 58002294--58002323 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
58002284 AAATTAAAAA
*
58002294 ATTAAAAC
1 ATTAAATC
58002302 ATTAAATC
1 ATTAAATC
58002310 ATTAAATC
1 ATTAAATC
58002318 ATTAAA
1 ATTAAA
58002324 ACAATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (8 bp):
ATTAAATC
Found at i:58002525 original size:20 final size:20
Alignment explanation
Indices: 58002500--58002537 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58002490 TTACTTTCAA
58002500 AATTAAGTTTTGGCATAAGG
1 AATTAAGTTTTGGCATAAGG
* *
58002520 AATTAATTTTTGGTATAA
1 AATTAAGTTTTGGCATAA
58002538 AAAGATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (20 bp):
AATTAAGTTTTGGCATAAGG
Found at i:58003362 original size:2 final size:2
Alignment explanation
Indices: 58003355--58003379 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58003345 GAGGAAATAA
58003355 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
58003380 CATTTACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58003528 original size:106 final size:106
Alignment explanation
Indices: 58003418--58003630 Score: 381
Period size: 106 Copynumber: 2.0 Consensus size: 106
58003408 TATGAGGGAA
*
58003418 TACGAAAAAATATTTGAAAGTACAAAAAATGATGAGCGAATAACAAACAACATAAGAGGATAACA
1 TACGAAAAAATATTTGAAAGTACAAAAAATGATGAGAGAATAACAAACAACATAAGAGGATAACA
58003483 AAAATGATGAGGGATACCAATTTTTGGTTCTTCTAAATAAT
66 AAAATGATGAGGGATACCAATTTTTGGTTCTTCTAAATAAT
* *
58003524 TACGAAAAAATATTTGAAAGTACAAAAAATTATGAGAGAATAACAAACAACATGAGAGGATAACA
1 TACGAAAAAATATTTGAAAGTACAAAAAATGATGAGAGAATAACAAACAACATAAGAGGATAACA
* *
58003589 AAAATGGTGAGGGGTACCAATTTTTGGTTCTTCTAAATAAT
66 AAAATGATGAGGGATACCAATTTTTGGTTCTTCTAAATAAT
58003630 T
1 T
58003631 TTTCCATTTA
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 102 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (106 bp):
TACGAAAAAATATTTGAAAGTACAAAAAATGATGAGAGAATAACAAACAACATAAGAGGATAACA
AAAATGATGAGGGATACCAATTTTTGGTTCTTCTAAATAAT
Found at i:58003792 original size:22 final size:21
Alignment explanation
Indices: 58003759--58003799 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
58003749 CTTATTGCAA
*
58003759 TTTTTTAATATTTAAAAATAT
1 TTTTTTAATATTCAAAAATAT
*
58003780 TTTTTTATTTATTCAAAAAT
1 TTTTTTA-ATATTCAAAAAT
58003800 TATAAGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTTTAATATTCAAAAATAT
Found at i:58006403 original size:43 final size:44
Alignment explanation
Indices: 58006336--58006440 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 44
58006326 TCTCAGACGT
* * *
58006336 GGTCTTACATGTAAT-TCAATATCGAAGCCTCTATCCCAGATAG
1 GGTCTTACATGAAATCTCAATATCGAAGCCTCTATCCCAGACAC
* * * *
58006379 GGTCTTACACGAAATCTCAA-ATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACATGAAATCTCAATATCGAAGCCTCTATCCCAGACAC
*
58006422 GGTCTTACATGATATCTCA
1 GGTCTTACATGAAATCTCA
58006441 GATCAAATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 48 0.92
44 4 0.08
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
GGTCTTACATGAAATCTCAATATCGAAGCCTCTATCCCAGACAC
Found at i:58009432 original size:25 final size:25
Alignment explanation
Indices: 58009404--58009453 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
58009394 AGATAGTTCT
58009404 TTTCATGTGGCTTCAACTGTCTTGA
1 TTTCATGTGGCTTCAACTGTCTTGA
58009429 TTTCATGTGGCTTCAACTGTCTTGA
1 TTTCATGTGGCTTCAACTGTCTTGA
58009454 AGCATAAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.16, C:0.20, G:0.20, T:0.44
Consensus pattern (25 bp):
TTTCATGTGGCTTCAACTGTCTTGA
Found at i:58013551 original size:42 final size:43
Alignment explanation
Indices: 58013504--58013587 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
58013494 GTAATTCGAT
58013504 ATCGAAGCCTCTGT-CCAGACAAGGTCTTACACGAAATCTCAA
1 ATCGAAGCCTCTGTCCCAGACAAGGTCTTACACGAAATCTCAA
* * *
58013546 ATCGAAGCCTGTGTCCCAGACACGGTCTTACACGATATCTCA
1 ATCGAAGCCTCTGTCCCAGACAAGGTCTTACACGAAATCTCA
58013588 GATCAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 13 0.34
43 25 0.66
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
ATCGAAGCCTCTGTCCCAGACAAGGTCTTACACGAAATCTCAA
Found at i:58020687 original size:19 final size:19
Alignment explanation
Indices: 58020646--58020895 Score: 71
Period size: 20 Copynumber: 12.6 Consensus size: 19
58020636 GTTTCAACAA
**
58020646 GAATACCAAAAAAAAATGAAG
1 GAATACC-AAAAATTATG-AG
*
58020667 GAATACCAAAAATTCTGAG
1 GAATACCAAAAATTATGAG
* *
58020686 GAAGTTCCAAATATTATGAG
1 GAA-TACCAAAAATTATGAG
* * *
58020706 AGAATATCAAAAAAATCTGCA-
1 -GAATA-CCAAAAATTATG-AG
* * * *
58020727 AAATTACCAAAAATGAGGAT
1 GAA-TACCAAAAATTATGAG
*
58020747 GTATA--AAAAATTATGAG
1 GAATACCAAAAATTATGAG
* *
58020764 AGAATACAAAAAAATATGAGG
1 -GAATACCAAAAATTATGA-G
* **
58020785 GAATACCAAAAACTCCGAG
1 GAATACCAAAAATTATGAG
* *
58020804 GAAGTACTAAAAGTTATGAGG
1 GAA-TACCAAAAATTATGA-G
* * * *
58020825 GAATA-TAAGAAAATCTGAA
1 GAATACCAA-AAATTATGAG
*
58020844 AAATTACCAAAAA-TATGAG
1 GAA-TACCAAAAATTATGAG
* *
58020863 GATGTACCAAAAAATTATAAG
1 GA-ATACC-AAAAATTATGAG
58020884 AGAATA-CAAAAA
1 -GAATACCAAAAA
58020896 AAAAAATAGT
Statistics
Matches: 165, Mismatches: 45, Indels: 40
0.66 0.18 0.16
Matches are distributed among these distances:
17 9 0.05
18 4 0.02
19 31 0.19
20 84 0.51
21 34 0.21
22 3 0.02
ACGTcount: A:0.54, C:0.10, G:0.16, T:0.20
Consensus pattern (19 bp):
GAATACCAAAAATTATGAG
Found at i:58020774 original size:20 final size:20
Alignment explanation
Indices: 58020751--58020896 Score: 77
Period size: 20 Copynumber: 7.3 Consensus size: 20
58020741 GAGGATGTAT
58020751 AAAAAATTATGAGAGAATAC
1 AAAAAATTATGAGAGAATAC
* *
58020771 AAAAAAATATGAGGGAATAC
1 AAAAAATTATGAGAGAATAC
* * **
58020791 CAAAAACTCCGAG-GAAGTAC
1 AAAAAATTATGAGAGAA-TAC
* * * *
58020811 TAAAAGTTATGAGGGAATAT
1 AAAAAATTATGAGAGAATAC
* *
58020831 AAGAAAA-TCTGA-AAAATTAC
1 AA-AAAATTATGAGAGAA-TAC
* *
58020851 CAAAAA-TATGAG-GATGTACC
1 AAAAAATTATGAGAGA-ATA-C
*
58020871 AAAAAATTATAAGAGAATAC
1 AAAAAATTATGAGAGAATAC
58020891 AAAAAA
1 AAAAAA
58020897 AAAAATAGTG
Statistics
Matches: 92, Mismatches: 25, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
19 16 0.17
20 61 0.66
21 13 0.14
22 2 0.02
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAAATTATGAGAGAATAC
Found at i:58020796 original size:40 final size:41
Alignment explanation
Indices: 58020752--58020897 Score: 90
Period size: 40 Copynumber: 3.7 Consensus size: 41
58020742 AGGATGTATA
58020752 AAAAATTATGAGAGAA-TACAAAAAAATATGAGGGAATACC
1 AAAAATTATGAGAGAAGTACAAAAAAATATGAGGGAATACC
* ** * ** *
58020792 AAAAACTCCGAG-GAAGTACTAAAAGTTATGAGGGAATA-T
1 AAAAATTATGAGAGAAGTACAAAAAAATATGAGGGAATACC
* * * * * *
58020831 AAGAAAATCTGA-AAAATTAC-CAAAAATATGA-GGATGTACC
1 AA-AAATTATGAGAGAAGTACAAAAAAATATGAGGGA-ATACC
*
58020871 AAAAAATTATAAGAGAA-TACAAAAAAA
1 -AAAAATTATGAGAGAAGTACAAAAAAA
58020898 AAAATAGTGA
Statistics
Matches: 77, Mismatches: 21, Indels: 15
0.68 0.19 0.13
Matches are distributed among these distances:
38 3 0.04
39 15 0.19
40 49 0.64
41 10 0.13
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.18
Consensus pattern (41 bp):
AAAAATTATGAGAGAAGTACAAAAAAATATGAGGGAATACC
Found at i:58020852 original size:60 final size:57
Alignment explanation
Indices: 58020670--58020897 Score: 183
Period size: 60 Copynumber: 3.8 Consensus size: 57
58020660 AATGAAGGAA
* * *
58020670 TACCAAAAATTCTGAGGAAGTTCCAAATATTATGAGAGAATATCAAAAAAATCTGCAAAAT
1 TACCAAAAA-TC-GAGGAAGTACTAAA-ATTATGAGAGAATAT-AAAAAAATCTGAAAAAT
* * * **
58020731 TACCAAAAAT-GAGGATGTA-TAAAAAATTATGAGAGAATACAAAAAAATATGAGGGAA-
1 TACCAAAAATCGAGGAAGTACT--AAAATTATGAGAGAATATAAAAAAATCTGA-AAAAT
* *
58020788 TACCAAAAACTCCGAGGAAGTACTAAAAGTTATGAGGGAATATAAGAAAATCTGAAAAAT
1 TACCAAAAA-T-CGAGGAAGTACTAAAA-TTATGAGAGAATATAAAAAAATCTGAAAAAT
* * * * *
58020848 TACCAAAAATATGAGGATGTACCAAAAAATTATAAGAGAATACAAAAAAA
1 TACCAAAAAT-CGAGGAAGTA-C-TAAAATTATGAGAGAATATAAAAAAA
58020898 AAAATAGTGA
Statistics
Matches: 133, Mismatches: 23, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
57 19 0.14
58 24 0.18
59 18 0.14
60 58 0.44
61 14 0.11
ACGTcount: A:0.54, C:0.10, G:0.16, T:0.21
Consensus pattern (57 bp):
TACCAAAAATCGAGGAAGTACTAAAATTATGAGAGAATATAAAAAAATCTGAAAAAT
Found at i:58021397 original size:20 final size:20
Alignment explanation
Indices: 58021372--58021424 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
58021362 AACTGTGAGG
* *
58021372 AAATACCACAAATTTTAAGA
1 AAATACCAAAAATTCTAAGA
58021392 AAATACCAAAAATTCTAAGA
1 AAATACCAAAAATTCTAAGA
*
58021412 AAATATCAAAAAT
1 AAATACCAAAAAT
58021425 ATTTGAGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (20 bp):
AAATACCAAAAATTCTAAGA
Found at i:58021760 original size:20 final size:20
Alignment explanation
Indices: 58021731--58021868 Score: 86
Period size: 20 Copynumber: 6.8 Consensus size: 20
58021721 TTTTTAAAAC
* *
58021731 AATACCAAAAATTATAAGGG
1 AATACAAAAAATTATGAGGG
*
58021751 AATACAAAAAA-TGTGA-GG
1 AATACAAAAAATTATGAGGG
* * *
58021769 AAGCACCAAAAAAATATGAGGT
1 AA-TA-CAAAAAATTATGAGGG
* *
58021791 AATATAAAAAATTATGATGG
1 AATACAAAAAATTATGAGGG
* *
58021811 AATATCAAAAAATGCA--AGGA
1 AATA-CAAAAAAT-TATGAGGG
* *
58021831 AATACTAAAAATTATGAGTGA
1 AATACAAAAAATTATGAG-GG
*
58021852 AATACCAAAAATTATGA
1 AATACAAAAAATTATGA
58021869 ATAAGTACCA
Statistics
Matches: 91, Mismatches: 18, Indels: 17
0.72 0.14 0.13
Matches are distributed among these distances:
18 5 0.05
19 11 0.12
20 41 0.45
21 30 0.33
22 4 0.04
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (20 bp):
AATACAAAAAATTATGAGGG
Found at i:58021821 original size:40 final size:41
Alignment explanation
Indices: 58021731--58021868 Score: 104
Period size: 40 Copynumber: 3.4 Consensus size: 41
58021721 TTTTTAAAAC
* * * * *
58021731 AATACCAAAAATTATAAGGGAATAC-AAAAAATGTGAG-GA
1 AATACCAAAAAATATGAGGAAATACTAAAAATTATGAGTGA
** * *
58021770 AGCACCAAAAAAATATGAGGTAATA-TAAAAAATTATGA-TGG
1 AATACC-AAAAAATATGAGGAAATACT-AAAAATTATGAGTGA
* ***
58021811 AATATCAAAAAATGCAAGGAAATACTAAAAATTATGAGTGA
1 AATACCAAAAAATATGAGGAAATACTAAAAATTATGAGTGA
*
58021852 AATACCAAAAATTATGA
1 AATACCAAAAAATATGA
58021869 ATAAGTACCA
Statistics
Matches: 72, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
39 4 0.06
40 40 0.56
41 28 0.39
ACGTcount: A:0.56, C:0.08, G:0.15, T:0.21
Consensus pattern (41 bp):
AATACCAAAAAATATGAGGAAATACTAAAAATTATGAGTGA
Found at i:58021853 original size:21 final size:21
Alignment explanation
Indices: 58021731--58021906 Score: 81
Period size: 20 Copynumber: 8.8 Consensus size: 21
58021721 TTTTTAAAAC
* *
58021731 AATACCAAAAATTATAAG-GG
1 AATACCAAAAATTATGAGTGA
* *
58021751 AATA-CAAAAAATGTGAG-GA
1 AATACCAAAAATTATGAGTGA
** * *
58021770 AGCACCAAAAAAATATGAG-GT
1 AATACC-AAAAATTATGAGTGA
** *
58021791 AATATAAAAAATTATGA-TGG
1 AATACCAAAAATTATGAGTGA
*
58021811 AATATCAAAAA--ATGCAAG-GA
1 AATACCAAAAATTATG--AGTGA
*
58021831 AATACTAAAAATTATGAGTGA
1 AATACCAAAAATTATGAGTGA
*
58021852 AATACCAAAAATTATGAAT-A
1 AATACCAAAAATTATGAGTGA
* *
58021872 AGTACCAAAAA--A--AGAGA
1 AATACCAAAAATTATGAGTGA
58021889 TAATACCAAAAATTATGA
1 -AATACCAAAAATTATGA
58021907 TAGGTTATCA
Statistics
Matches: 117, Mismatches: 24, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
16 1 0.01
17 1 0.01
18 14 0.12
19 13 0.11
20 51 0.44
21 33 0.28
22 4 0.03
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (21 bp):
AATACCAAAAATTATGAGTGA
Found at i:58021877 original size:20 final size:19
Alignment explanation
Indices: 58021831--58021906 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 19
58021821 AATGCAAGGA
* *
58021831 AATACTAAAAATTATGAGT
1 AATACCAAAAATTATGAAT
58021850 GAAATACCAAAAATTATGAAT
1 --AATACCAAAAATTATGAAT
*
58021871 AAGTACCAAAAA--AAGAGAT
1 AA-TACCAAAAATTATGA-AT
58021890 AATACCAAAAATTATGA
1 AATACCAAAAATTATGA
58021907 TAGGTTATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 12 0.26
19 6 0.13
20 12 0.26
21 17 0.36
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.22
Consensus pattern (19 bp):
AATACCAAAAATTATGAAT
Found at i:58022255 original size:19 final size:18
Alignment explanation
Indices: 58022217--58022269 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
58022207 TTCTAAAAAT
*
58022217 ATATAAAAAAAATTTATGAA
1 ATATAATAAAAA--TATGAA
58022237 GATATAATAAAAATATGAA
1 -ATATAATAAAAATATGAA
* *
58022256 AAATACTAAAAATA
1 ATATAATAAAAATA
58022270 AGAGAGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 12 0.41
19 6 0.21
21 11 0.38
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (18 bp):
ATATAATAAAAATATGAA
Found at i:58022315 original size:19 final size:20
Alignment explanation
Indices: 58022293--58022346 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
58022283 AGATTATAAG
*
58022293 ATATATTAATTATTATG-AA
1 ATATATAAATTATTATGAAA
**
58022312 ATATATAAAAAATTATGAAA
1 ATATATAAATTATTATGAAA
*
58022332 ATATATCAATTATTA
1 ATATATAAATTATTA
58022347 ACTTATAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (20 bp):
ATATATAAATTATTATGAAA
Found at i:58024274 original size:71 final size:71
Alignment explanation
Indices: 58024173--58024337 Score: 195
Period size: 71 Copynumber: 2.3 Consensus size: 71
58024163 TGAGCTAGCT
* * ** * *
58024173 GGTAAAACTAACAAATGAGTGTACCAAGCACTAATTGGTATAACTGACAAATAAATGCGCCTTGC
1 GGTAAAACCAA-AAATGAGTGTACCAAGCACTAATTGATATAACCAACAAATAAATGCGCCCTAC
58024238 GCTAGTC
65 GCTAGTC
** * **
58024245 GGTAAAACCAAAAATGAGTGTGTCTAGCACTGGTTGATATAACCAACAAATAAATGCGCCCTACG
1 GGTAAAACCAAAAATGAGTGTACCAAGCACTAATTGATATAACCAACAAATAAATGCGCCCTACG
*
58024310 CTGGTC
66 CTAGTC
*
58024316 GGTAAAACTGAAAAATGAGTGT
1 GGTAAAAC-CAAAAATGAGTGT
58024338 TCATTCATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
71 57 0.72
72 22 0.28
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (71 bp):
GGTAAAACCAAAAATGAGTGTACCAAGCACTAATTGATATAACCAACAAATAAATGCGCCCTACG
CTAGTC
Found at i:58024861 original size:107 final size:107
Alignment explanation
Indices: 58024733--58024935 Score: 352
Period size: 107 Copynumber: 1.9 Consensus size: 107
58024723 TCAGCTATAG
*
58024733 AAAAACACTTATTCGCCTATAATATCAACATTAAAATCGACATAAACACTTATTTAATCCGAACA
1 AAAAACACTTATTCACCTATAATATCAACATTAAAATCGACATAAACACTTATTTAATCCGAACA
58024798 TTTAATTTAACAAAAACATAATAGAAATGTCTAGCTTTGGAA
66 TTTAATTTAACAAAAACATAATAGAAATGTCTAGCTTTGGAA
** *
58024840 AAAAACACTTATTCACCTATAATATCAACATTAAAATTTACATAAACACTTATTTAATCCTAACA
1 AAAAACACTTATTCACCTATAATATCAACATTAAAATCGACATAAACACTTATTTAATCCGAACA
* *
58024905 TTTAATTTAACATAAACATTATAGAAATGTC
66 TTTAATTTAACAAAAACATAATAGAAATGTC
58024936 CTCAACTTTA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (107 bp):
AAAAACACTTATTCACCTATAATATCAACATTAAAATCGACATAAACACTTATTTAATCCGAACA
TTTAATTTAACAAAAACATAATAGAAATGTCTAGCTTTGGAA
Found at i:58024922 original size:18 final size:18
Alignment explanation
Indices: 58024874--58024924 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
58024864 TCAACATTAA
*
58024874 AATTT-ACATAAACACTT
1 AATTTAACATAAACATTT
*
58024891 -ATTTAATCCT-AACATTT
1 AATTTAA-CATAAACATTT
58024908 AATTTAACATAAACATT
1 AATTTAACATAAACATT
58024925 ATAGAAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 4 0.15
17 9 0.33
18 14 0.52
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTTAACATAAACATTT
Found at i:58025255 original size:2 final size:2
Alignment explanation
Indices: 58025248--58025291 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
58025238 ATAACTAAGC
* *
58025248 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58025290 AT
1 AT
58025292 GCTAATCCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:58028171 original size:71 final size:71
Alignment explanation
Indices: 58028085--58028248 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58028075 CGATTTGTCT
58028085 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
58028150 CTTTCA
66 CTTTCA
58028156 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
58028221 CTTTCA
66 CTTTCA
58028227 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
58028249 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:58028286 original size:71 final size:70
Alignment explanation
Indices: 58028085--58028282 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
58028075 CGATTTGTCT
* * * *
58028085 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
58028150 CTTTCA
65 CTTTCA
* * * *
58028156 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
58028221 CTTTCA
65 CTTTCA
* *
58028227 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
58028283 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:58035778 original size:71 final size:71
Alignment explanation
Indices: 58035662--58035825 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
58035652 CCATTTGTCT
58035662 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
58035727 CTTTCA
66 CTTTCA
58035733 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
58035798 CTTTCA
66 CTTTCA
58035804 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
58035826 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:58035863 original size:71 final size:70
Alignment explanation
Indices: 58035662--58035859 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
58035652 CCATTTGTCT
* * * *
58035662 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
58035727 CTTTCA
65 CTTTCA
* * * *
58035733 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
58035798 CTTTCA
65 CTTTCA
* *
58035804 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
58035860 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:58044123 original size:28 final size:28
Alignment explanation
Indices: 58044054--58044154 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
58044044 GACAAGATTG
* * * *
58044054 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
58044084 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
** *
58044112 GCACTAAGTGTGATAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
58044141 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58044155 GATTCACTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.37
29 18 0.30
30 18 0.30
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58048525 original size:40 final size:40
Alignment explanation
Indices: 58048481--58048570 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
58048471 GGACTCAACT
* * * *
58048481 CGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGTC
1 CGGATTTAGTAACTCGCACGAAAGCCGTCGGATCTTAGTC
* *
58048521 CGGATTTAGTAACTCGCACGTATGCCGTCGGATCTTAGTC
1 CGGATTTAGTAACTCGCACGAAAGCCGTCGGATCTTAGTC
58048561 CGGATTTAGT
1 CGGATTTAGT
58048571 CACTTAGCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (40 bp):
CGGATTTAGTAACTCGCACGAAAGCCGTCGGATCTTAGTC
Found at i:58049924 original size:46 final size:46
Alignment explanation
Indices: 58049871--58050046 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
58049861 TATTTGGGCA
58049871 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
58049917 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
58049964 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
58050010 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58050047 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:58050026 original size:93 final size:93
Alignment explanation
Indices: 58049867--58050038 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
58049857 GGGATATTTG
* *
58049867 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
58049932 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
58049960 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
58050025 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
58050039 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:58053911 original size:6 final size:6
Alignment explanation
Indices: 58053900--58054086 Score: 181
Period size: 6 Copynumber: 30.8 Consensus size: 6
58053890 AACCAAAATG
* *
58053900 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC
* *
58053948 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
58053997 AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC
* *
58054045 AGAATC AGAATC AGAATT AGGTGAT- AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
58054087 GTGAATGCAA
Statistics
Matches: 152, Mismatches: 13, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
5 12 0.08
6 126 0.83
7 10 0.07
8 4 0.03
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:58053915 original size:30 final size:30
Alignment explanation
Indices: 58053879--58054086 Score: 234
Period size: 30 Copynumber: 7.1 Consensus size: 30
58053869 AAGAAACATT
* *
58053879 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
58053909 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
58053939 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
58053969 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
58054000 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
58054024 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
* *
58054054 ATCAGAATTAGGTGATAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
58054085 AT
1 AT
58054087 GTGAATGCAA
Statistics
Matches: 154, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
24 21 0.14
27 1 0.01
28 1 0.01
30 87 0.56
31 44 0.29
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:58054000 original size:85 final size:85
Alignment explanation
Indices: 58053900--58054086 Score: 356
Period size: 85 Copynumber: 2.2 Consensus size: 85
58053890 AACCAAAATG
*
58053900 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
58053965 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
58053985 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
*
58054050 CAGAATCAGAATTAGGTGAT
66 CAGAATCAGAATTAGGTGAC
58054070 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
58054087 GTGAATGCAA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:58054241 original size:27 final size:26
Alignment explanation
Indices: 58054204--58054269 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
58054194 AGCATGGCTG
*
58054204 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
58054230 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
58054257 CCAGAATCAGATA
1 CCAGAA-CAGATA
58054270 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:58054274 original size:27 final size:27
Alignment explanation
Indices: 58054204--58054277 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
58054194 AGCATGGCTG
* *
58054204 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
58054230 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
58054257 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
58054278 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:58054284 original size:27 final size:27
Alignment explanation
Indices: 58054228--58054285 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
58054218 GTGACAGAGT
* * *
58054228 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
58054255 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
58054282 CACC
1 CACC
58054286 TAATAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:58054475 original size:22 final size:22
Alignment explanation
Indices: 58054443--58054500 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
58054433 TAAATACGTT
*
58054443 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
58054465 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
58054487 TGGCACAAAGCCAT
1 TGGCACAAAGCCAT
58054501 TAATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:58054655 original size:27 final size:26
Alignment explanation
Indices: 58054588--58054670 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
58054578 TCGATCGGTC
* * *
58054588 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
58054614 ATACAGATATGGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
* *
58054641 AACAGATATTTGTGGCATAGCCACTAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
58054668 AAC
1 AAC
58054671 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.17
27 40 0.83
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:58054855 original size:27 final size:27
Alignment explanation
Indices: 58054825--58054888 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
58054815 TCAGTCACTT
*
58054825 ACCCAAAGGGCAAAACAGTTATTTAAC
1 ACCCAAAGGGCAAAACAGTAATTTAAC
* * * *
58054852 ACCCTAGGGGCAAAATAGTAATTTTAC
1 ACCCAAAGGGCAAAACAGTAATTTAAC
58054879 -CCCACAAGGG
1 ACCCA-AAGGG
58054889 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (27 bp):
ACCCAAAGGGCAAAACAGTAATTTAAC
Found at i:58054899 original size:27 final size:27
Alignment explanation
Indices: 58054869--58055063 Score: 219
Period size: 27 Copynumber: 7.2 Consensus size: 27
58054859 GGGCAAAATA
* * *
58054869 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
58054896 GTAATTCTACCCTACAGGGGTATTGCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
58054923 GTATTTTTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
58054950 ATAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * *
58054977 GTAATTCTATCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
58055004 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* * * *
58055031 GAAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
58055058 GTAATT
1 GTAATT
58055064 TCACAATCAA
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:58055098 original size:27 final size:27
Alignment explanation
Indices: 58055068--58055182 Score: 178
Period size: 27 Copynumber: 4.3 Consensus size: 27
58055058 GTAATTTCAC
* *
58055068 AATCAAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
58055095 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
58055122 AA-CTGAGGGTAAAACGGTAATCCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
58055149 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
58055176 AATCGAG
1 AATCGAG
58055183 AGTACTTTGG
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.24
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:58057085 original size:30 final size:29
Alignment explanation
Indices: 58057049--58057105 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
58057039 ATAGTATAGT
*
58057049 ATCTTGGGTTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATT-TGGGTTTCTCA
*
58057079 ATCTTGGATTTCTTTATTTGGTTTTCT
1 ATCTTGGATTTCTTTATTTGGGTTTCT
58057106 TGTTATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.11, C:0.14, G:0.18, T:0.58
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTTGGGTTTCTCA
Found at i:58057104 original size:14 final size:14
Alignment explanation
Indices: 58057052--58057106 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
58057042 GTATAGTATC
58057052 TTGGGTTTCTTTAT
1 TTGGGTTTCTTTAT
**
58057066 TCTGGGTTTCTCAAT
1 T-TGGGTTTCTTTAT
*
58057081 CTTGGATTTCTTTAT
1 -TTGGGTTTCTTTAT
*
58057096 TTGGTTTTCTT
1 TTGGGTTTCTT
58057107 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 11 0.33
15 21 0.64
16 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.18, T:0.60
Consensus pattern (14 bp):
TTGGGTTTCTTTAT
Found at i:58059653 original size:46 final size:46
Alignment explanation
Indices: 58059603--58059778 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
58059593 TATTTGGGCA
58059603 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
58059649 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
58059696 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
58059742 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
58059779 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:58059758 original size:93 final size:93
Alignment explanation
Indices: 58059599--58059770 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
58059589 TGGATATTTG
* *
58059599 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
58059664 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
58059692 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
58059757 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
58059771 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:58062673 original size:46 final size:46
Alignment explanation
Indices: 58062607--58062826 Score: 216
Period size: 46 Copynumber: 4.8 Consensus size: 46
58062597 AATATTTGAG
*
58062607 CATCCGAACT-GTTGAATTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * * *
58062652 CATCCAAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-A
* * * *
58062699 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTTACTTATGGATACGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*
58062745 CGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
58062791 C-GCTCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTA
1 CATC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58062827 AGGGCGGGTT
Statistics
Matches: 140, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
43 4 0.03
45 12 0.09
46 91 0.65
47 28 0.20
48 2 0.01
50 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:58062720 original size:93 final size:92
Alignment explanation
Indices: 58062606--58062775 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 92
58062596 AAATATTTGA
*
58062606 GCATCCGAACTGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACATCCAAACTCGTTGAGTT
1 GCATCCGAACTGTTGAATTGAGTCCGAGTTCACTTATGGATACGAACATCCAAACTCGTTGAGTT
*
58062671 GAGTTCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * *
58062698 GCATCCGAGCTCGTTGAGTTGAGTCTGAGTTTACTTATGGATACGAACGTCCGAACTCGTTGAGT
1 GCATCCGAACT-GTTGAATTGAGTCCGAGTTCACTTATGGATACGAACATCCAAACTCGTTGAGT
58062763 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
58062776 ACTTATGGAT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
92 10 0.14
93 59 0.86
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (92 bp):
GCATCCGAACTGTTGAATTGAGTCCGAGTTCACTTATGGATACGAACATCCAAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:58066185 original size:16 final size:16
Alignment explanation
Indices: 58066164--58066195 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
58066154 TATGTAACGC
58066164 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
*
58066180 CCCAAAAATCTTGAAA
1 CCCAAAAATCTCGAAA
58066196 TCCCGAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.28, G:0.06, T:0.16
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:58066885 original size:21 final size:19
Alignment explanation
Indices: 58066843--58066885 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
58066833 TTTGTTTTTC
* *
58066843 TTTCTTTTCTTCCTGCCAA
1 TTTCTATTCTTCCTACCAA
58066862 TTTCTATTCTTCTCTACACAA
1 TTTCTATTCTTC-CTAC-CAA
58066883 TTT
1 TTT
58066886 TCTTTGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 3 0.15
21 6 0.30
ACGTcount: A:0.16, C:0.28, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTCTATTCTTCCTACCAA
Found at i:58067909 original size:27 final size:27
Alignment explanation
Indices: 58067879--58067940 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
58067869 TTAGTTTACC
*
58067879 AAATTACTAAAATAACCTCGACTTATA
1 AAATTACCAAAATAACCTCGACTTATA
* * * *
58067906 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATAACCTCGACTTATA
*
58067933 GAATTACC
1 AAATTACC
58067941 GTTTTACCCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATAACCTCGACTTATA
Found at i:58067948 original size:27 final size:27
Alignment explanation
Indices: 58067918--58068263 Score: 440
Period size: 27 Copynumber: 12.8 Consensus size: 27
58067908 ATTACCAAAG
* *
58067918 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
58067945 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
58067972 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58067999 TACCCTCGATTTATAGTATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
58068026 TACCCTTGATTTACAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* ***
58068053 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
58068080 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
58068107 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58068134 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58068161 TACTCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58068188 CACCCTCGGTTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58068215 TACCCTCGGTTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
58068242 TACCCTCAATTTATAGAATTAC
1 TACCCTCGATTTACAGAATTAC
58068264 TGAAATACCC
Statistics
Matches: 275, Mismatches: 44, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 275 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:58068285 original size:27 final size:27
Alignment explanation
Indices: 58068255--58068344 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
58068245 CCTCAATTTA
58068255 TAGAATTACTGAAATACCCCTGTAGGG
1 TAGAATTACTGAAATACCCCTGTAGGG
*
58068282 TAGAATTACTAAAATACCCCTGTAGGG
1 TAGAATTACTGAAATACCCCTGTAGGG
* * *
58068309 TAGAATTACTGAGATACCCTTGTGGGG
1 TAGAATTACTGAAATACCCCTGTAGGG
*
58068336 TAAAATTAC
1 TAGAATTAC
58068345 CATTTTGCCC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
TAGAATTACTGAAATACCCCTGTAGGG
Found at i:58068613 original size:28 final size:27
Alignment explanation
Indices: 58068570--58068679 Score: 150
Period size: 27 Copynumber: 4.0 Consensus size: 27
58068560 GGAGGAAGCG
* *
58068570 TTCTGGTGGCTATGCCCCAAATATCTGT
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
58068598 TTCTGGTGGCTCTGCCACAAATATCTG-
1 TTCTGGTGGCTCTGCCAC-AATATCTGT
58068625 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
* * *
58068652 ATCTGGTGACTCTGTCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAATATCTGT
58068679 T
1 T
58068680 GACCGATCGA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
26 8 0.11
27 42 0.56
28 25 0.33
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCCACAATATCTGT
Found at i:58068819 original size:22 final size:22
Alignment explanation
Indices: 58068787--58068845 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
58068777 CCCGTAATTG
*
58068787 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
58068809 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
58068831 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
58068846 ACATATTTAC
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:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:58069209 original size:6 final size:6
Alignment explanation
Indices: 58069200--58069299 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
58069190 TTGCATTCAC
* * *
58069200 ATTCTG ATTCTG ATTCTG -TCAACTA ATTCTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
58069249 ATTTTG -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
58069298 AT
1 AT
58069300 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
5 3 0.04
6 62 0.86
7 5 0.07
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:58069250 original size:37 final size:37
Alignment explanation
Indices: 58069200--58069290 Score: 128
Period size: 37 Copynumber: 2.5 Consensus size: 37
58069190 TTGCATTCAC
*
58069200 ATTCTGATTCTGATTCTGTCAACTAATTCTGATTCTG
1 ATTCTAATTCTGATTCTGTCAACTAATTCTGATTCTG
* * *
58069237 ATTCTAATTCTGATTTTGTCACCTGATTCTGATTCTG
1 ATTCTAATTCTGATTCTGTCAACTAATTCTGATTCTG
* *
58069274 ATTCTCATTTTGATTCT
1 ATTCTAATTCTGATTCT
58069291 AGTTCTGATA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (37 bp):
ATTCTAATTCTGATTCTGTCAACTAATTCTGATTCTG
Found at i:58070447 original size:8 final size:8
Alignment explanation
Indices: 58070430--58070480 Score: 66
Period size: 8 Copynumber: 6.4 Consensus size: 8
58070420 ATGTATTGGC
58070430 AAAAGCCG
1 AAAAGCCG
*
58070438 AAATGCCG
1 AAAAGCCG
58070446 AAAAGCCG
1 AAAAGCCG
*
58070454 AAAAGTCG
1 AAAAGCCG
*
58070462 AAATGCCG
1 AAAAGCCG
*
58070470 AAAAGCTG
1 AAAAGCCG
58070478 AAA
1 AAA
58070481 GTTTGGCTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.49, C:0.20, G:0.24, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:58070463 original size:24 final size:24
Alignment explanation
Indices: 58070430--58070480 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
58070420 ATGTATTGGC
58070430 AAAAGCCGAAATGCCGAAAAGCCG
1 AAAAGCCGAAATGCCGAAAAGCCG
* *
58070454 AAAAGTCGAAATGCCGAAAAGCTG
1 AAAAGCCGAAATGCCGAAAAGCCG
58070478 AAA
1 AAA
58070481 GTTTGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.20, G:0.24, T:0.08
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCG
Found at i:58070748 original size:29 final size:29
Alignment explanation
Indices: 58070703--58070804 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
58070693 TGAATGTGGC
58070703 TGGGCCTAAT-GGTCCATATAAATGTGATT
1 TGGGCCTAATAGG-CCATATAAATGTGATT
* * *
58070732 TGGGCCGAATAGGCCATATACAGGTGATT
1 TGGGCCTAATAGGCCATATAAATGTGATT
* * *
58070761 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATAGGCCATATAAATGTGATT
*
58070789 TGGGCTTAATAGGCCA
1 TGGGCCTAATAGGCCA
58070805 GATACAGGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 15 0.25
29 44 0.72
30 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATAGGCCATATAAATGTGATT
Found at i:58070813 original size:57 final size:58
Alignment explanation
Indices: 58070703--58070813 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
58070693 TGAATGTGGC
* * *
58070703 TGGGCCTAATGGTCCATATAAATGTGATTTGGGCCGAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATATGATTTGGGCCGAATAGGCCAGATACAGGTGATT
* **
58070761 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATAGGCCAGATACAGGT
1 TGGGCCTAATGGGCCATATAAATATGATTTGGGCCGAATAGGCCAGATACAGGT
58070814 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (58 bp):
TGGGCCTAATGGGCCATATAAATATGATTTGGGCCGAATAGGCCAGATACAGGTGATT
Found at i:58072310 original size:58 final size:56
Alignment explanation
Indices: 58072159--58072310 Score: 150
Period size: 56 Copynumber: 2.7 Consensus size: 56
58072149 ATATCGTATA
* * * *
58072159 ACAGGATTACCAGTCCAGGATAAATCCTTTATATAACGTATGCTCAAAGAGCTCA-
1 ACAGGATTACCAGTCCAGGCTAAATCCTTTATATAACATATGCTCAAAGAGATTAT
* *
58072214 ACTAGGATTACCAGTCCAGGCTAAA--CTTTAATCGTAACATATGCTC-GAGAGGTATTAT
1 AC-AGGATTACCAGTCCAGGCTAAATCCTTT-AT-ATAACATATGCTCAAAGA-G-ATTAT
* *
58072272 ATCAGGATTACCCGTCCAGGCTAAATCCTTTCTATAACA
1 A-CAGGATTACCAGTCCAGGCTAAATCCTTTATATAACA
58072311 AGGTCAATCA
Statistics
Matches: 79, Mismatches: 9, Indels: 15
0.77 0.09 0.15
Matches are distributed among these distances:
54 4 0.05
55 7 0.09
56 33 0.42
57 2 0.03
58 27 0.34
59 2 0.03
60 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (56 bp):
ACAGGATTACCAGTCCAGGCTAAATCCTTTATATAACATATGCTCAAAGAGATTAT
Done.