Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 114 of 318
Found at i:34893166 original size:6 final size:6
Alignment explanation
Indices: 34893062--34893146 Score: 75
Period size: 6 Copynumber: 13.8 Consensus size: 6
34893052 TTGCATTCAC
* * * *
34893062 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
*
34893112 ATTCTA ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
34893147 ATCACCTGAT
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
5 3 0.05
6 55 0.85
7 5 0.08
8 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:34895596 original size:40 final size:40
Alignment explanation
Indices: 34895528--34895746 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
34895518 ATTCGGATTG
* *
34895528 ATAACCGGGCTAAG--CCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
34895566 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
34895606 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
34895646 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
34895686 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
34895725 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
34895747 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 21 0.13
39 31 0.19
40 114 0.69
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:34898209 original size:40 final size:40
Alignment explanation
Indices: 34898047--34898248 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
34898037 CGAATGATGT
*
34898047 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
34898087 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
34898126 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
34898164 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
34898205 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
34898245 CCGG
1 CCGG
34898249 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:34898211 original size:78 final size:79
Alignment explanation
Indices: 34898046--34898197 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
34898036 TCGAATGATG
* * *
34898046 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
34898111 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
34898126 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
34898189 GTGCAAGTC
65 GTGCAAGTC
34898198 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:34906286 original size:40 final size:40
Alignment explanation
Indices: 34906124--34906325 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
34906114 CGAATGATGT
*
34906124 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
34906164 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
34906203 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
34906241 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
34906282 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
34906322 CCGG
1 CCGG
34906326 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:34906288 original size:78 final size:79
Alignment explanation
Indices: 34906123--34906274 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
34906113 TCGAATGATG
* * *
34906123 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
34906188 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
34906203 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
34906266 GTGCAAGTC
65 GTGCAAGTC
34906275 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:34911433 original size:303 final size:304
Alignment explanation
Indices: 34910885--34911491 Score: 1189
Period size: 303 Copynumber: 2.0 Consensus size: 304
34910875 AGCAAACAAG
34910885 GATTTTCTGCTTAGAGCATCTACGATTATATTTGCCTTTCTCGGGTGGTAGTCAATGACCAGTTC
1 GATTTTCTGCTTAGAGCATCTACGATTATATTTGCCTTTCTCGGGTGGTAGTCAATGACCAGTTC
34910950 ATAATCTTTAATCAACTCTAACCATCTCCATTGTCTCAGATTTAATTCTTTTTGAGTAATCAAAT
66 ATAATCTTTAATCAACTCTAACCATCTCCATTGTCTCAGATTTAATTCTTTTTGAGTAATCAAAT
34911015 ATTTCAAACTCTTGTGATCTGTGAATATACGGCAAGTTTCACCATACAAATGGTGTCTCCAAATC
131 ATTTCAAACTCTTGTGATCTGTGAATATACGGCAAGTTTCACCATACAAATGGTGTCTCCAAATC
34911080 TTCAAGGCAAAAACAATGGCAGCTAGATCCAAGTCGTGTGTTGGATATTTTTTTCTCGTGCAGCT
196 TTCAAGGCAAAAACAATGGCAGCTAGATCCAAGTCGTGTGTTGGATATTTTTTTCTCGTGCAGCT
34911145 TTAGTTGCCTTGAAGCATATGCTATTACTTTACCCTCTTGCATA
261 TTAGTTGCCTTGAAGCATATGCTATTACTTTACCCTCTTGCATA
34911189 GATTTTCTGCTTAGAGCATCTACGATTATATTTGCCTTTCTCGGGTGGTAGTCAATGACCAGTTC
1 GATTTTCTGCTTAGAGCATCTACGATTATATTTGCCTTTCTCGGGTGGTAGTCAATGACCAGTTC
* *
34911254 ATAATCTTTAATCAACTCTAACCATCTCCGTTGTCTTAGATTTAATTC-TTTTGAGTAATCAAAT
66 ATAATCTTTAATCAACTCTAACCATCTCCATTGTCTCAGATTTAATTCTTTTTGAGTAATCAAAT
34911318 ATTTCAAACTCTTGTGATCTGTGAATATACGGCAAGTTTCACCATACAAATGGTGTCTCCAAATC
131 ATTTCAAACTCTTGTGATCTGTGAATATACGGCAAGTTTCACCATACAAATGGTGTCTCCAAATC
34911383 TTCAAGGCAAAAACAATGGCAGCTAGATCCAAGTCGTGTGTTGGATATTTTTTTCTCGTGCAGCT
196 TTCAAGGCAAAAACAATGGCAGCTAGATCCAAGTCGTGTGTTGGATATTTTTTTCTCGTGCAGCT
34911448 TTAGTTGCCTTGAAGCATATGCTATTACTTTACCCTCTTGCATA
261 TTAGTTGCCTTGAAGCATATGCTATTACTTTACCCTCTTGCATA
34911492 AGCACGCAAC
Statistics
Matches: 301, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
303 190 0.63
304 111 0.37
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (304 bp):
GATTTTCTGCTTAGAGCATCTACGATTATATTTGCCTTTCTCGGGTGGTAGTCAATGACCAGTTC
ATAATCTTTAATCAACTCTAACCATCTCCATTGTCTCAGATTTAATTCTTTTTGAGTAATCAAAT
ATTTCAAACTCTTGTGATCTGTGAATATACGGCAAGTTTCACCATACAAATGGTGTCTCCAAATC
TTCAAGGCAAAAACAATGGCAGCTAGATCCAAGTCGTGTGTTGGATATTTTTTTCTCGTGCAGCT
TTAGTTGCCTTGAAGCATATGCTATTACTTTACCCTCTTGCATA
Found at i:34914071 original size:21 final size:21
Alignment explanation
Indices: 34914045--34914091 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
34914035 CTCCGAGGTA
34914045 AGTTTATAAGCAAATAGATGT
1 AGTTTATAAGCAAATAGATGT
34914066 AGTTTATAAGCAAATAGATGT
1 AGTTTATAAGCAAATAGATGT
34914087 -GTTTA
1 AGTTTA
34914092 ATTGTAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.36
Consensus pattern (21 bp):
AGTTTATAAGCAAATAGATGT
Found at i:34914391 original size:43 final size:43
Alignment explanation
Indices: 34914317--34914402 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
34914307 TATGTGATTC
**
34914317 CGATATGTGTTTACAAGTAAGACCCTATCTGGGACAG-TGGCAT
1 CGATATGTGACTACAAGTAAGACCCTATCTGGGAC-GTTGGCAT
* *
34914360 CGATATGTGACTACATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 CGATATGTGACTACAAGTAAGACC-CTATCTGGGACGTTGGCAT
34914403 TGTACGACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.95
44 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CGATATGTGACTACAAGTAAGACCCTATCTGGGACGTTGGCAT
Found at i:34918448 original size:40 final size:40
Alignment explanation
Indices: 34918389--34918560 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
34918379 CATGAGCATG
* * *
34918389 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
* * *
34918429 ATATCTGGGCTAAGACCCGAAGGCATTCGTGCGAATTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTGATT
* **
34918469 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
* * * ** *
34918509 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
34918549 ATATCC-GGCTAA
1 ATATCCGGGCTAA
34918561 ATTCCGAAGA
Statistics
Matches: 107, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
39 8 0.07
40 96 0.90
41 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
Found at i:34927654 original size:40 final size:39
Alignment explanation
Indices: 34927489--34927672 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
34927479 AAATTGAATG
* * *
34927489 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
34927529 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
34927569 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
34927609 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
34927648 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
34927673 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:34927697 original size:80 final size:81
Alignment explanation
Indices: 34927529--34927717 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
34927519 GCTGGAAATT
* * * *
34927529 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
34927594 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
34927610 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
34927673 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
34927689 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
34927718 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:34929858 original size:40 final size:40
Alignment explanation
Indices: 34929799--34929970 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
34929789 CATTTGAATG
* * *
34929799 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
* *
34929839 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTGATT
* **
34929879 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
* * * ** *
34929919 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
34929959 ATATCC-GGCTAA
1 ATATCCGGGCTAA
34929971 ATTCCGAAGA
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
39 8 0.07
40 98 0.90
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATT
Found at i:34932934 original size:41 final size:41
Alignment explanation
Indices: 34932878--34932989 Score: 100
Period size: 43 Copynumber: 2.7 Consensus size: 41
34932868 ATGATTTATG
*
34932878 TGTAAGACCACGTCTGGGACATTGGCATC-TATTTAATTTCA
1 TGTAAGACC-CGTCTGGGACATTGGCATCATATTTAATTACA
** * * *
34932919 TGTAAGACCCTGTCTGATATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCC-GTCTGGGACATTGGCATC-ATATTTAATTACA
* * *
34932962 TGTAAGACCAAGTCTAGGACGTTGGCAT
1 TGTAAGACC-CGTCTGGGACATTGGCAT
34932990 TGTACGAGCT
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
40 1 0.02
41 23 0.43
43 30 0.56
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (41 bp):
TGTAAGACCCGTCTGGGACATTGGCATCATATTTAATTACA
Found at i:34934467 original size:47 final size:46
Alignment explanation
Indices: 34934382--34934510 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 46
34934372 AACTCTTAGT
* * **
34934382 CGATGCATGTCCCAGACACGTCTTACACTGG-ATATCATCGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCA-CTCATC-TCGACAC
* *
34934429 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACAT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGACAC
*
34934475 TGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC
34934511 ACAAGAAATC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 7 0.10
47 49 0.68
48 16 0.22
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCGACAC
Found at i:34940763 original size:47 final size:45
Alignment explanation
Indices: 34940651--34940772 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 45
34940641 TATACATGCT
* *
34940651 AATGCATGTCCCAGACATGTCTTACACTAG-TACAACTCTTAGCC
1 AATGCATGTCCCAGACATGTCTTACACTGGCTACAACTCTGAGCC
* *
34940695 GATGCATGTCTCAGACATGTCTTACACTGGCTATCAACATC-GAGGCC
1 AATGCATGTCCCAGACATGTCTTACACTGGCTA-CAAC-TCTGA-GCC
*
34940742 AATGCATGTCCCAAACATGTCTTACACTGGC
1 AATGCATGTCCCAGACATGTCTTACACTGGC
34940773 ACTCATCTCT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
44 27 0.40
45 2 0.03
46 5 0.07
47 33 0.49
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (45 bp):
AATGCATGTCCCAGACATGTCTTACACTGGCTACAACTCTGAGCC
Found at i:34952246 original size:43 final size:41
Alignment explanation
Indices: 34952135--34952246 Score: 102
Period size: 43 Copynumber: 2.6 Consensus size: 41
34952125 ATGATTTATG
* *
34952135 TGTAAGACCACATCTGTGA-TGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACATCTG-GACT-TTGGCATCGTATTTGATTACA
* * **
34952177 TGTAAGACC-CTGTCCGGTACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-ATCTGG-ACTTTGGCATCG-TATTTGATTACA
34952220 TGTAAGACCACATCTAGGACTTTGGCA
1 TGTAAGACCACATCT-GGACTTTGGCA
34952247 ATGTACGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
41 2 0.04
42 21 0.39
43 28 0.52
44 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (41 bp):
TGTAAGACCACATCTGGACTTTGGCATCGTATTTGATTACA
Found at i:34955653 original size:92 final size:93
Alignment explanation
Indices: 34955543--34955712 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
34955533 GCCCCTAAGT
* * *
34955543 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCGTCCA-AAGTGAAATCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAAATCGGACTCAACTCA
34955606 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* *
34955635 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
34955700 CGAGTTCGGATGC
66 CGAGTTCGGATGC
34955713 TCAACCATCC
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
91 2 0.03
92 34 0.48
93 35 0.49
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:34955728 original size:46 final size:43
Alignment explanation
Indices: 34955540--34955720 Score: 116
Period size: 45 Copynumber: 4.0 Consensus size: 43
34955530 CCCGCCCCTA
* * * ** *
34955540 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCGTCCA-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CAACCATT
*
34955585 AGTGAAATCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * * *
34955632 CA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
34955678 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
34955721 CCTAGTGACA
Statistics
Matches: 106, Mismatches: 18, Indels: 25
0.71 0.12 0.17
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 11 0.10
45 30 0.28
46 28 0.26
47 28 0.26
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:34956171 original size:30 final size:30
Alignment explanation
Indices: 34956137--34956196 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34956127 ATTTAATACG
34956137 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
34956167 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
34956197 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:34962889 original size:25 final size:25
Alignment explanation
Indices: 34962860--34962907 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34962850 TTATAATATG
* * *
34962860 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
34962885 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
34962908 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:34962988 original size:11 final size:11
Alignment explanation
Indices: 34962955--34963008 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34962945 TATGGTATGT
34962955 ATGATATGCAC
1 ATGATATGCAC
*
34962966 ATGA-ATG--T
1 ATGATATGCAC
34962974 ATGATATGCAC
1 ATGATATGCAC
*
34962985 ATGATATG--T
1 ATGATATGCAC
34962994 ATGATATGCAC
1 ATGATATGCAC
34963005 ATGA
1 ATGA
34963009 GGTAATCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 4 0.12
9 11 0.32
10 3 0.09
11 16 0.47
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34962995 original size:20 final size:20
Alignment explanation
Indices: 34962950--34963008 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
34962940 ATAAATATGG
34962950 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
34962970 -ATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
34962989 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
34963009 GGTAATCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:34963086 original size:24 final size:24
Alignment explanation
Indices: 34963059--34963201 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
34963049 GAGGAAGTGA
34963059 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34963083 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
34963107 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
34963130 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * * *
34963154 GAAAGGGCTTTTACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
34963178 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
34963202 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 75 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:34963152 original size:47 final size:47
Alignment explanation
Indices: 34963059--34963201 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
34963049 GAGGAAGTGA
34963059 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
34963107 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * * *
34963154 GAAAGGGCTTTTACCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
34963202 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 42 0.48
48 34 0.39
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:34963175 original size:71 final size:72
Alignment explanation
Indices: 34963059--34963202 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
34963049 GAGGAAGTGA
* *
34963059 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAGTTATCAAAAGAGGC-TAGGCCT
34963122 CCAGTTAT
65 CCAGTTAT
** * *
34963130 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTACCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAGTTATCAAAAGAGGCTAGGCCTC
34963195 CAGTTAT
66 CAGTTAT
34963202 A
1 A
34963203 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATACCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:34963427 original size:31 final size:31
Alignment explanation
Indices: 34963392--34963455 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34963382 CGTTTACAGT
34963392 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
34963423 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
34963454 AA
1 AA
34963456 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:34965354 original size:49 final size:49
Alignment explanation
Indices: 34965301--34965476 Score: 243
Period size: 49 Copynumber: 3.7 Consensus size: 49
34965291 GATTTTACGC
* *
34965301 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
*
34965350 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
34965399 GATGAATGTGAAAGTGTAT--ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
*
34965446 GATGGATGTGAAAGTGTAT-AA-ATGTGATAAG
1 GATGAATGTGAAAGTGTATAAATATGTGATAAG
34965477 TCCCGAAGGG
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 50 0.43
48 1 0.01
49 65 0.56
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATAAATATGTGATAAGGCCTAATGGCCGATGT
Found at i:34965459 original size:96 final size:95
Alignment explanation
Indices: 34965301--34965476 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 95
34965291 GATTTTACGC
* * * *
34965301 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTAT-AATATGAGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
34965366 TATATATATGTGATAAGGCCTAATGGCCGATGT
65 TATA-A-ATGTGATAAGGCCTAATGGCCGATGT
* * * *
34965399 GATGAATGTGAAAGTGTAT-ATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 GATGAATGTGAAAGTGTATAATATGAGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGT
34965463 ATAAATGTGATAAG
66 ATAAATGTGATAAG
34965477 TCCCGAAGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
94 10 0.14
95 1 0.01
96 41 0.59
98 18 0.26
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (95 bp):
GATGAATGTGAAAGTGTATAATATGAGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGT
ATAAATGTGATAAGGCCTAATGGCCGATGT
Found at i:34969689 original size:39 final size:39
Alignment explanation
Indices: 34969646--34969759 Score: 156
Period size: 39 Copynumber: 2.9 Consensus size: 39
34969636 CTAGACATAT
* * *
34969646 TTCCAGCACGTAGCCTGCAGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
* * *
34969685 TTCCAGCACATAGCTTGTGGACCTTAAGTCTGGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
* *
34969724 TTCCAGCACATAGCCTGCGGACCCTAAGTCGGGATA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATA
34969760 AACATCACTG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:34971968 original size:27 final size:26
Alignment explanation
Indices: 34971899--34972013 Score: 88
Period size: 27 Copynumber: 4.3 Consensus size: 26
34971889 AGCATGGCTG
* * *
34971899 CCAGAACAAATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGGTAGAGCCA
*
34971925 CCAGATATAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGTAGAGCCA
* *
34971952 CTAGAACAGATATTTGTGG-CGTAGCCA
1 CCAGAACAGATA-TTGTGGTAG-AGCCA
* * *
34971979 CCAGAAACAGATGTTTGTGGCATAGCCA
1 CCAG-AACAGAT-ATTGTGGTAGAGCCA
*
34972007 CTAGAAC
1 CCAGAAC
34972014 GCTTCTTCCA
Statistics
Matches: 71, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
26 12 0.17
27 38 0.54
28 21 0.30
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGTAGAGCCA
Found at i:34971996 original size:28 final size:28
Alignment explanation
Indices: 34971933--34972012 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
34971923 CACCAGATAT
* *
34971933 AGATA-TTGTGGTAGAGCCACTAG-AAC
1 AGATATTTGTGGCATAGCCACTAGAAAC
* *
34971959 AGATATTTGTGGCGTAGCCACCAGAAAC
1 AGATATTTGTGGCATAGCCACTAGAAAC
*
34971987 AGATGTTTGTGGCATAGCCACTAGAA
1 AGATATTTGTGGCATAGCCACTAGAA
34972013 CGCTTCTTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 5 0.11
27 14 0.31
28 26 0.58
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (28 bp):
AGATATTTGTGGCATAGCCACTAGAAAC
Found at i:34980096 original size:26 final size:26
Alignment explanation
Indices: 34980067--34980178 Score: 64
Period size: 27 Copynumber: 4.2 Consensus size: 26
34980057 CAGCATGGCT
*
34980067 ACCAGAACAGATATTGTGACAGAGTC
1 ACCAGAACAGATATTGTGACAGAGCC
* * * *
34980093 ACCAGATGCAGATACTGTGGCCGAGCC
1 ACCAGA-ACAGATATTGTGACAGAGCC
* * *
34980120 ACTAGAACATATATTTGTGGC-GTAGCC
1 ACCAGAACAGATA-TTGTGACAG-AGCC
* * * *
34980147 ACCAAAAACAGATGTTTGTGGCATAGCC
1 ACC-AGAACAGAT-ATTGTGACAGAGCC
34980175 ACCA
1 ACCA
34980179 AAATGCTTCC
Statistics
Matches: 66, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
26 12 0.18
27 33 0.50
28 21 0.32
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (26 bp):
ACCAGAACAGATATTGTGACAGAGCC
Found at i:34980146 original size:27 final size:27
Alignment explanation
Indices: 34980108--34980181 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
34980098 ATGCAGATAC
* * *
34980108 TGTGGCCG-AGCCACTAGAACATATATT
1 TGTGG-CGTAGCCACAAAAACAGATATT
*
34980135 TGTGGCGTAGCCACCAAAAACAGATGTT
1 TGTGGCGTAGCCA-CAAAAACAGATATT
* *
34980163 TGTGGCATAGCCACCAAAA
1 TGTGGCGTAGCCACAAAAA
34980182 TGCTTCCTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 15 0.38
28 22 0.56
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (27 bp):
TGTGGCGTAGCCACAAAAACAGATATT
Found at i:34986972 original size:13 final size:13
Alignment explanation
Indices: 34986954--34986979 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34986944 GCAACACCAA
34986954 ACGATAGGCTAAC
1 ACGATAGGCTAAC
34986967 ACGATAGGCTAAC
1 ACGATAGGCTAAC
34986980 GGTCCAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (13 bp):
ACGATAGGCTAAC
Found at i:34988397 original size:106 final size:106
Alignment explanation
Indices: 34988206--34988412 Score: 396
Period size: 106 Copynumber: 2.0 Consensus size: 106
34988196 TCTACTCAAT
34988206 GCATCGGCGACCACATTCGCCTTTCCTAGGTGATAGTCGATAATCAGATCATAATCCATAATTAA
1 GCATCGGCGACCACATTCGCCTTTCCTAGGTGATAGTCGATAATCAGATCATAATCCATAATTAA
*
34988271 TTCTACCCATCTCCGTTGTCTCAAATTTAATTCTTTGAGTA
66 TTCTACCCATCTCCGCTGTCTCAAATTTAATTCTTTGAGTA
34988312 GCATCGGCGACCACATTCGCCTTTCCTAGGTGATAGTCGATAATCAGATCATAATCCATAATTAA
1 GCATCGGCGACCACATTCGCCTTTCCTAGGTGATAGTCGATAATCAGATCATAATCCATAATTAA
*
34988377 TTCTACCCATCTTCGCTGTCTCAAATTTAATTCTTT
66 TTCTACCCATCTCCGCTGTCTCAAATTTAATTCTTT
34988413 CTGAGTCATC
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (106 bp):
GCATCGGCGACCACATTCGCCTTTCCTAGGTGATAGTCGATAATCAGATCATAATCCATAATTAA
TTCTACCCATCTCCGCTGTCTCAAATTTAATTCTTTGAGTA
Found at i:35001139 original size:24 final size:24
Alignment explanation
Indices: 35001112--35001161 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
35001102 TTTGAGCATG
35001112 ATGTATTGGTATGACGTATATACT
1 ATGTATTGGTATGACGTATATACT
35001136 ATGTATTGGTATGACGTATATACT
1 ATGTATTGGTATGACGTATATACT
35001160 AT
1 AT
35001162 CTTAAGGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (24 bp):
ATGTATTGGTATGACGTATATACT
Found at i:35001864 original size:29 final size:29
Alignment explanation
Indices: 35001795--35001896 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
35001785 GTGACGAGAT
* *
35001795 TGGCACTGAGTGTGCGAGCTTGTAAT-GTA
1 TGGCACTAAGTGTGCGAGCTTG-AATCATA
* * *
35001824 -CGCACTAAGTGTGCGAGTTTGGA-CTATA
1 TGGCACTAAGTGTGCGAGCTTGAATC-ATA
* *
35001852 TGGCACTATGTGTGCGGGCTTGAATCATA
1 TGGCACTAAGTGTGCGAGCTTGAATCATA
35001881 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35001897 TGATTGAGTA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
27 1 0.02
28 20 0.34
29 36 0.62
30 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAATCATA
Found at i:35006119 original size:13 final size:13
Alignment explanation
Indices: 35006101--35006127 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35006091 CACAAACGAT
35006101 AAAATTTTCACAC
1 AAAATTTTCACAC
35006114 AAAATTTTCACAC
1 AAAATTTTCACAC
35006127 A
1 A
35006128 TGTCACATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAATTTTCACAC
Found at i:35013705 original size:16 final size:16
Alignment explanation
Indices: 35013681--35013731 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
35013671 TTAGATCGGC
* *
35013681 AAATCCCGAAATGCCA
1 AAATGCCGAAAAGCCA
*
35013697 AAATGCCGAAAAGTCA
1 AAATGCCGAAAAGCCA
* *
35013713 AAATGTCGAAAAGCTA
1 AAATGCCGAAAAGCCA
35013729 AAA
1 AAA
35013732 GTTTGGGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.51, C:0.20, G:0.16, T:0.14
Consensus pattern (16 bp):
AAATGCCGAAAAGCCA
Found at i:35014041 original size:28 final size:29
Alignment explanation
Indices: 35013941--35014060 Score: 170
Period size: 29 Copynumber: 4.2 Consensus size: 29
35013931 GTGAGCATGA
35013941 ATATAAATGTGATTTGGGCCTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
*
35013970 ATATAAATGTGATTTGGGCTTAAAGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
*
35013999 ATATAAATGTGATTTGGGCCTAAGGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
* * * **
35014028 ATGTGAATAT-ATTTGGGCCTAGTGGGCC
1 ATATAAATGTGATTTGGGCCTAAAGGGCC
35014056 ATATA
1 ATATA
35014061 TAGGTATGTG
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 19 0.23
29 62 0.77
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAAAGGGCC
Found at i:35015286 original size:27 final size:27
Alignment explanation
Indices: 35015254--35015384 Score: 190
Period size: 27 Copynumber: 4.9 Consensus size: 27
35015244 GGGTGTTACA
35015254 GCCCTTATGTGGTAAAATGACTGTTTT
1 GCCCTTATGTGGTAAAATGACTGTTTT
* * *
35015281 GCCCTTATGTGGCAACATGACTGTTTC
1 GCCCTTATGTGGTAAAATGACTGTTTT
*
35015308 GCCCTTATGTGGTAAAATGATTGTTTT
1 GCCCTTATGTGGTAAAATGACTGTTTT
* *
35015335 GCCCTTTTATGGTAAAATGACTGTTTT
1 GCCCTTATGTGGTAAAATGACTGTTTT
* *
35015362 ACCATTATGTGGTAAAATGACTG
1 GCCCTTATGTGGTAAAATGACTG
35015385 AAATGCCTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (27 bp):
GCCCTTATGTGGTAAAATGACTGTTTT
Found at i:35015401 original size:54 final size:54
Alignment explanation
Indices: 35015258--35015404 Score: 170
Period size: 54 Copynumber: 2.7 Consensus size: 54
35015248 GTTACAGCCC
* * * * * *
35015258 TTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGCAACATGACTGTTTCGCCC
1 TTATGTGGTAAAATGACTGTTTTGCCTTTATATGGTAAAATGACTGTTTCACCA
* *
35015312 TTATGTGGTAAAATGATTGTTTTGCCCTTT-TATGGTAAAATGACTGTTTTACCA
1 TTATGTGGTAAAATGACTGTTTTG-CCTTTATATGGTAAAATGACTGTTTCACCA
*** *
35015366 TTATGTGGTAAAATGACTGAAATGCCTTTACATGGTAAA
1 TTATGTGGTAAAATGACTGTTTTGCCTTTATATGGTAAA
35015405 TTGATTATTT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 5 0.06
54 69 0.88
55 4 0.05
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (54 bp):
TTATGTGGTAAAATGACTGTTTTGCCTTTATATGGTAAAATGACTGTTTCACCA
Found at i:35015402 original size:81 final size:81
Alignment explanation
Indices: 35015254--35015419 Score: 199
Period size: 81 Copynumber: 2.0 Consensus size: 81
35015244 GGGTGTTACA
* * * * ** **
35015254 GCCCTTATGTGGTAAAATGACTGTTTTGCCCTTATGTGGCAACATGACTGTTTCGCCCTTATGTG
1 GCCCTTATATGGTAAAATGACTGTTTTACCATTATGTGGCAAAATGACTGAATCGCCCTTACATG
*
35015319 GTAAAATGATTGTTTT
66 GTAAAATGATTATTTT
* * *
35015335 GCCCTTTTATGGTAAAATGACTGTTTTACCATTATGTGGTAAAATGACTGAAAT-GCCTTTACAT
1 GCCCTTATATGGTAAAATGACTGTTTTACCATTATGTGGCAAAATGACTG-AATCGCCCTTACAT
*
35015399 GGTAAATTGATTATTTT
65 GGTAAAATGATTATTTT
35015416 GCCC
1 GCCC
35015420 CTATGTGATA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
81 70 0.99
82 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (81 bp):
GCCCTTATATGGTAAAATGACTGTTTTACCATTATGTGGCAAAATGACTGAATCGCCCTTACATG
GTAAAATGATTATTTT
Found at i:35017576 original size:12 final size:12
Alignment explanation
Indices: 35017551--35017590 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
35017541 TTGGATGGTT
**
35017551 GAGAGATTGGAG
1 GAGAGATTTTAG
*
35017563 GAGTGATTTTAG
1 GAGAGATTTTAG
35017575 GAGAGATTTTAG
1 GAGAGATTTTAG
35017587 GAGA
1 GAGA
35017591 AAATCAAGGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.28
Consensus pattern (12 bp):
GAGAGATTTTAG
Found at i:35019045 original size:27 final size:27
Alignment explanation
Indices: 35019014--35019155 Score: 207
Period size: 27 Copynumber: 5.3 Consensus size: 27
35019004 CTGATTGAAC
* * *
35019014 AAAATGACTGTTTTTCCCGTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
* *
35019041 GAAATGACTATTTTACCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
* *
35019068 AACATGACTATTTTGCCTTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
35019095 AAAATGACTA--TTGCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
35019120 AAAATGACTATTTTGCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGT
35019147 AAAATGACT
1 AAAATGACT
35019156 GAAATGCCCT
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
25 24 0.23
27 79 0.77
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTATGTGGT
Found at i:35019130 original size:52 final size:53
Alignment explanation
Indices: 35019014--35019155 Score: 205
Period size: 52 Copynumber: 2.7 Consensus size: 53
35019004 CTGATTGAAC
* * * *
35019014 AAAATGACTGTTTTTCCCGTATGTGGTGAAATGACTATTTTACCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGTAAAATGACTA-TTTACCCTTATGTGGT
* * *
35019068 AACATGACTATTTTGCCTTTATGTGGTAAAATGACTA-TTGCCCTTATGTGGT
1 AAAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTACCCTTATGTGGT
35019120 AAAATGACTATTTTGCCCTTATGTGGTAAAATGACT
1 AAAATGACTATTTTGCCCTTATGTGGTAAAATGACT
35019156 GAAATGCCCT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
52 48 0.61
54 31 0.39
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (53 bp):
AAAATGACTATTTTGCCCTTATGTGGTAAAATGACTATTTACCCTTATGTGGT
Found at i:35019174 original size:79 final size:79
Alignment explanation
Indices: 35019033--35019185 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 79
35019023 GTTTTTCCCG
* * ** * * **
35019033 TATGTGGTGAAATGACTATTTTACCCTTATGTGGTAACATGACTATTTTGCCTTTATGTGGTAAA
1 TATGTGGTAAAATGACTATTTTACCCTTATGTGGTAAAATGACTATAATGCCCTAACATGGTAAA
*
35019098 ATGACTATTGCCCT
66 ATAACTATTGCCCT
*
35019112 TATGTGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGA-AATGCCCTAACATGGTAA
1 TATGTGGTAAAATGACTATTTTACCCTTATGTGGTAAAATGACT-ATAATGCCCTAACATGGTAA
*
35019176 ATTAACTATT
65 AATAACTATT
35019186 TTGCCCCTAT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
79 61 0.98
80 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.38
Consensus pattern (79 bp):
TATGTGGTAAAATGACTATTTTACCCTTATGTGGTAAAATGACTATAATGCCCTAACATGGTAAA
ATAACTATTGCCCT
Found at i:35019188 original size:54 final size:52
Alignment explanation
Indices: 35019064--35019198 Score: 162
Period size: 52 Copynumber: 2.6 Consensus size: 52
35019054 TACCCTTATG
* * * * * **
35019064 TGGTAACATGACTATTTTGCCTTTATGTGGTAAAATGACTATTGCCCTTATG
1 TGGTAAAATAACTATTTTGCCCTTATGTGGTAAAATGACTAATGCCCTAACA
*
35019116 TGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTGAAATGCCCTAACA
1 TGGTAAAATAACTATTTTGCCCTTATGTGGTAAAATGACT--AATGCCCTAACA
* *
35019170 TGGTAAATTAACTATTTTGCCCCTATGTG
1 TGGTAAAATAACTATTTTGCCCTTATGTG
35019199 ATATATGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 38 0.53
54 34 0.47
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (52 bp):
TGGTAAAATAACTATTTTGCCCTTATGTGGTAAAATGACTAATGCCCTAACA
Found at i:35026200 original size:10 final size:10
Alignment explanation
Indices: 35026185--35026221 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
35026175 ATATATACTT
35026185 AACCAAAATA
1 AACCAAAATA
35026195 AACCAAAATA
1 AACCAAAATA
*
35026205 TACCAAAATA
1 AACCAAAATA
*
35026215 AGCCAAA
1 AACCAAA
35026222 TCACATGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.65, C:0.22, G:0.03, T:0.11
Consensus pattern (10 bp):
AACCAAAATA
Found at i:35026952 original size:22 final size:22
Alignment explanation
Indices: 35026924--35026965 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
35026914 TAACAAACGG
35026924 AGTAAGCTTTCATAAGCTTAAT
1 AGTAAGCTTTCATAAGCTTAAT
*
35026946 AGTAAGCTTTCATATGCTTA
1 AGTAAGCTTTCATAAGCTTA
35026966 GTAAGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (22 bp):
AGTAAGCTTTCATAAGCTTAAT
Found at i:35027493 original size:45 final size:43
Alignment explanation
Indices: 35027340--35027545 Score: 188
Period size: 45 Copynumber: 4.7 Consensus size: 43
35027330 CTTTTATCAA
* * * * *
35027340 ATCACCGGCATT-CAGCCTGCTAGGTTTAAAAACCTGAAT-TCAT
1 ATCACCGGCATTATAGCCTGCTAGG-CTCAAAGCCCGAATGT-AT
* * * *
35027383 -TCACCGGCATT-TTGCCTGCTAGGCTCGAAGCCTGATAT-CAT
1 ATCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGA-ATGTAT
* *
35027424 TTCACCGGCATTATATCCTGCTAGGCTCGAAAGCCCGAATGGTAT
1 ATCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAAT-GTAT
*
35027469 ATCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTAT
1 ATCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-GTAT
* *
35027514 CTCACTGGCATTATAGCCTGCTAGGCTCAAAG
1 ATCACCGGCATTATAGCCTGCTAGGCTCAAAG
35027546 GCCTGAATAA
Statistics
Matches: 137, Mismatches: 19, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
41 10 0.07
42 34 0.25
43 15 0.11
44 11 0.08
45 67 0.49
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (43 bp):
ATCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATGTAT
Found at i:35027546 original size:45 final size:44
Alignment explanation
Indices: 35027383--35027554 Score: 197
Period size: 45 Copynumber: 3.9 Consensus size: 44
35027373 CTGAATTCAT
* * * *
35027383 TCACCGGCATT-TTGCCTGCTAGGCTCGAAGCCTG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGT-ATA
* *
35027425 TCACCGGCATTATATCCTGCTAGGCTCGAAAGCCCGAATGGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATA
* *
35027470 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATA
* *
35027515 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATA
35027555 ATACTATGCG
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
42 11 0.10
43 13 0.12
44 9 0.08
45 78 0.70
46 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATA
Found at i:35034432 original size:22 final size:22
Alignment explanation
Indices: 35034404--35034445 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
35034394 TAACAAACGG
35034404 AGTAAGCTTTCATAAGCTTAAT
1 AGTAAGCTTTCATAAGCTTAAT
35034426 AGTAAGCTTTCATAAGCTTA
1 AGTAAGCTTTCATAAGCTTA
35034446 GTAAGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (22 bp):
AGTAAGCTTTCATAAGCTTAAT
Found at i:35035026 original size:45 final size:44
Alignment explanation
Indices: 35034863--35035034 Score: 197
Period size: 45 Copynumber: 3.9 Consensus size: 44
35034853 CTGAATTCGT
* * * *
35034863 TCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCTG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGT-ATA
* * *
35034905 TCACTGGCATTATAGCCTGCTAGGCTCGAAAGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATA
*
35034950 TCACCGACATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATA
* *
35034995 TCACCGGCATTATAGTCTGCTAGGCTCAAAGGCCTGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATA
35035035 ATACTGTGCG
Statistics
Matches: 112, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
42 10 0.09
43 14 0.12
44 8 0.07
45 79 0.71
46 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATA
Found at i:35035892 original size:47 final size:47
Alignment explanation
Indices: 35035840--35035982 Score: 261
Period size: 47 Copynumber: 3.0 Consensus size: 47
35035830 AAAATTTTCT
35035840 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
35035887 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
*
35035934 TTAACTAAGTAACTTATCCAGG-AATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCC-GGAAATATTAAGGGCAAATTTAACAAGC
35035981 TT
1 TT
35035983 TAAATTCAAC
Statistics
Matches: 94, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
47 92 0.98
48 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.29
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
Found at i:35038087 original size:26 final size:26
Alignment explanation
Indices: 35038058--35038111 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
35038048 GGGTCTGTTT
*
35038058 ACACAAGTTGTGAAATGGGATTACTC
1 ACACAAGCTGTGAAATGGGATTACTC
* * *
35038084 ACACGAGCTGTGAAATGGGCTTGCTC
1 ACACAAGCTGTGAAATGGGATTACTC
35038110 AC
1 AC
35038112 TTGAGCTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (26 bp):
ACACAAGCTGTGAAATGGGATTACTC
Found at i:35038951 original size:41 final size:41
Alignment explanation
Indices: 35038859--35038999 Score: 169
Period size: 41 Copynumber: 3.5 Consensus size: 41
35038849 TATTCTACTG
*
35038859 AGGGATACCGAAGTACAAACAGT-G-ATAGTATGTGCAATTC
1 AGGGGTACCGAAGTACAAACAGTGGCAT-GTATGTGCAATTC
* * * * *
35038899 AGGAGTGCCGAAGTATAAACAGTGGCATGTATGTGTAATTT
1 AGGGGTACCGAAGTACAAACAGTGGCATGTATGTGCAATTC
* *
35038940 AGGGGTACCGAAGTACAAACAGGGGCATGTATATGCAATTC
1 AGGGGTACCGAAGTACAAACAGTGGCATGTATGTGCAATTC
* *
35038981 AGAGGTATCGAAGTACAAA
1 AGGGGTACCGAAGTACAAA
35039000 TAGGGGATAA
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 19 0.23
41 63 0.75
42 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (41 bp):
AGGGGTACCGAAGTACAAACAGTGGCATGTATGTGCAATTC
Found at i:35042036 original size:42 final size:43
Alignment explanation
Indices: 35041946--35042040 Score: 113
Period size: 42 Copynumber: 2.2 Consensus size: 43
35041936 GTCCAAGACG
* * *
35041946 TGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
1 TGGTCTTACATGAAATCAAATATCGATGCCACTACCCCAAACA
* * *
35041989 GGGTCTTACATGAAATCAAATA-CGATGCTGAC-GCCCCAAACA
1 TGGTCTTACATGAAATCAAATATCGATGC-CACTACCCCAAACA
35042031 TGGTCTTACA
1 TGGTCTTACA
35042041 CGTAAATATC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 22 0.50
43 22 0.50
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAATATCGATGCCACTACCCCAAACA
Found at i:35043895 original size:40 final size:39
Alignment explanation
Indices: 35043761--35043981 Score: 277
Period size: 40 Copynumber: 5.5 Consensus size: 39
35043751 TATTCGGATG
* *
35043761 ATATCCGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
35043800 ATATCCGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
35043842 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
35043882 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
35043922 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
35043962 ATATCCGGCTAAAT-CCGAAG
1 ATATCCGGCTAAGTCCCGAAG
35043982 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
38 6 0.04
39 39 0.24
40 81 0.50
41 2 0.01
42 9 0.06
43 26 0.16
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:35051863 original size:42 final size:41
Alignment explanation
Indices: 35051766--35052028 Score: 289
Period size: 42 Copynumber: 6.5 Consensus size: 41
35051756 TATTCGGATG
*
35051766 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCA--AGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-AGTAGTTGCT
35051806 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTCCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--GAGTAGTTGCT
35051848 ATA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--GAGTAGTTGCT
* *
35051890 ATA-CCCGGCTAAGTCCCGAAGGCATTTGTG-CTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGTAGTTG-CT
* ** *
35051929 ATATCCAGGCTAAGTCCCGAAGGCATTCATG-CTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGTAGTTG-CT
* *
35051969 ATATCCGGGC-AAGACCCGAAGGCATTTGTGCG-AGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGTAGTTGCT
*
35052008 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
35052029 ATACTTGGGT
Statistics
Matches: 199, Mismatches: 14, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
38 5 0.03
39 69 0.35
40 50 0.25
41 1 0.01
42 74 0.37
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGTAGTTGCT
Found at i:35057653 original size:39 final size:40
Alignment explanation
Indices: 35057595--35057695 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
35057585 AAATTGAATG
* *
35057595 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
35057634 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
35057674 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
35057696 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:35057688 original size:40 final size:40
Alignment explanation
Indices: 35057595--35057777 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
35057585 AAATTGAATG
* * * * *
35057595 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35057634 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35057674 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
35057714 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
35057754 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35057778 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:35057802 original size:80 final size:80
Alignment explanation
Indices: 35057636--35057822 Score: 189
Period size: 80 Copynumber: 2.3 Consensus size: 80
35057626 CTGAAATTAT
* * *
35057636 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
* *
35057701 CGTGCAAGTTGTTAA
66 CGTGCAAGTTATCAA
* * * * * *
35057716 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGCAT
* **
35057780 TGGTGCGGGTTATCATA
65 TCGTGCAAGTTATCA-A
* * *
35057797 A-CCGGGCTATGTCCCGAAGGCGATTG
1 ATCCGGGCTAAGACCCGAAGGCAATTG
35057823 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
79 1 0.01
80 84 0.97
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTATCAA
Found at i:35060830 original size:46 final size:46
Alignment explanation
Indices: 35060777--35060952 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35060767 TATTTGGGCA
35060777 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
35060823 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
35060870 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
35060916 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35060953 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:35060932 original size:93 final size:93
Alignment explanation
Indices: 35060773--35060944 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35060763 GGGATATTTG
* *
35060773 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35060838 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
35060866 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35060931 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
35060945 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:35063925 original size:15 final size:15
Alignment explanation
Indices: 35063905--35063973 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
35063895 GTATCTTGGG
35063905 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
35063920 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
35063935 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
35063950 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
35063965 TTTCTTTAT
1 TTTCTTTAT
35063974 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:35063974 original size:30 final size:30
Alignment explanation
Indices: 35063896--35063983 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
35063886 CATAGTATCG
* * * *
35063896 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
35063926 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
35063956 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
35063984 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:35066418 original size:46 final size:46
Alignment explanation
Indices: 35066368--35066543 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
35066358 TATTTGGGCA
35066368 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
35066414 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
35066461 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
35066507 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35066544 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:35066523 original size:93 final size:93
Alignment explanation
Indices: 35066364--35066535 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35066354 TGGATATTTG
* *
35066364 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35066429 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
35066457 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
35066522 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
35066536 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:35074161 original size:40 final size:40
Alignment explanation
Indices: 35074059--35074242 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
35074049 AAATTGAATG
* * * * *
35074059 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
35074099 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
35074139 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
35074179 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
35074219 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
35074243 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:35074267 original size:80 final size:80
Alignment explanation
Indices: 35074101--35074287 Score: 189
Period size: 80 Copynumber: 2.3 Consensus size: 80
35074091 TGAAAATTAT
* * *
35074101 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
* *
35074166 CGTGCAAGTTGTTAA
66 CGTGCAAGTTATCAA
* * * * * *
35074181 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGGCAT
* **
35074245 TGGTGCGGGTTATCATA
65 TCGTGCAAGTTATCA-A
* * *
35074262 A-CCGGGCTATGTCCCGAAGGCGATTG
1 ATCCGGGCTAAGACCCGAAGGCAATTG
35074288 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
79 1 0.01
80 84 0.97
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCATT
CGTGCAAGTTATCAA
Found at i:35090241 original size:40 final size:40
Alignment explanation
Indices: 35090197--35090382 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
35090187 GCTACTCGTT
* * *
35090197 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
35090237 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
35090277 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
35090317 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35090358 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35090383 CATCATTCGA
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 116 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35098322 original size:40 final size:40
Alignment explanation
Indices: 35098267--35098416 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
35098257 GCCCGGTTAA
*
35098267 TCGCACAAATGCCTTCGGGA-CTTAATCCGGATTTAGTAAC
1 TCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAAC
35098307 TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC
* *
35098347 TCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCAC
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC
* * *
35098387 TTAGCACAAA-GCCTTGGGA-CTTAGCCCGGA
1 -TCGCACAAATGCCTTCGGATCTTAGTCCGGA
35098417 CATCATTCGA
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
39 13 0.13
40 81 0.79
41 8 0.08
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC
Found at i:35103783 original size:26 final size:26
Alignment explanation
Indices: 35103752--35103808 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
35103742 CTTCCTAAAA
35103752 GGCTCTTTGTGAGCTTCTCGATTA-AT
1 GGCTCTTTGTGAGCTTC-CGATTATAT
*
35103778 GGCTCTTTGTGAGCTTCCTATTATAT
1 GGCTCTTTGTGAGCTTCCGATTATAT
35103804 GGCTC
1 GGCTC
35103809 GAGAGAAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.42
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCGATTATAT
Found at i:35107639 original size:30 final size:29
Alignment explanation
Indices: 35107596--35107659 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
35107586 CAAGTAGCCG
35107596 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
35107625 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
35107655 AAGCT
1 AAGCT
35107660 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:35114521 original size:30 final size:29
Alignment explanation
Indices: 35114478--35114541 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
35114468 CAAGTAGCCG
35114478 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
35114507 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
35114537 AAGCT
1 AAGCT
35114542 TCCGATTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:35117514 original size:40 final size:40
Alignment explanation
Indices: 35117440--35117661 Score: 358
Period size: 40 Copynumber: 5.6 Consensus size: 40
35117430 AACCCAAGTA
* *
35117440 CCTTCGGGATTTAG-CCGGATATA-TCAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
35117479 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
35117519 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
35117559 CATTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
35117599 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
35117639 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
35117662 CATTCGAATA
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 155 0.92
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:35120376 original size:20 final size:19
Alignment explanation
Indices: 35120353--35120401 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
35120343 ATAAAAATAC
35120353 AAAAAGAAAAGAAAAATGA
1 AAAAAGAAAAGAAAAATGA
* * *
35120372 GAAAAATAGAGGAAAAATGA
1 -AAAAAGAAAAGAAAAATGA
*
35120392 TAAAAGAAAA
1 AAAAAGAAAA
35120402 TGAGAAAAAG
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.08
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAATGA
Found at i:35134546 original size:30 final size:30
Alignment explanation
Indices: 35134496--35134563 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
35134486 GTCTGTCTCA
* *
35134496 GCCGTATGCGACACACGGTCATGGTATATG
1 GCCGTGTGTGACACACGGTCATGGTATATG
* *
35134526 GTCGTGTGTGACACATGGTCATGGTATATG
1 GCCGTGTGTGACACACGGTCATGGTATATG
35134556 GCCGTGTG
1 GCCGTGTG
35134564 ACCCCTGATG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (30 bp):
GCCGTGTGTGACACACGGTCATGGTATATG
Found at i:35137626 original size:48 final size:48
Alignment explanation
Indices: 35137559--35137786 Score: 148
Period size: 48 Copynumber: 4.9 Consensus size: 48
35137549 GGTTATGTGT
* * * * *
35137559 GATCCCTTGTAAGAGCATGTCTAGGACATGGCATTGGCATCGTTATGA
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * * *
35137607 GATCCCATCTAAGACCATGTCCGGGACATGGCACTGGAAT-GACATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * *
35137654 GATCCCATATAAGACCATATTTGGGATATGACATTGGCATCGATATGA
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
* * * * * * *
35137702 GA-CATCATGTAAGACAATAGT-TGGG-C-T---ATCGGCTTCGATTTGT
1 GATC-CCATATAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGA
* * *
35137745 GATCCCATATAAAGACCATGTCTAGGATATGGCGTTGGCATC
1 GATCCCATAT-AAGACCATGTCTGGGACATGGCATTGGCATC
35137787 TTATTATGTT
Statistics
Matches: 132, Mismatches: 37, Indels: 21
0.69 0.19 0.11
Matches are distributed among these distances:
43 20 0.15
44 11 0.08
46 2 0.02
47 37 0.28
48 55 0.42
49 7 0.05
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA
Found at i:35142231 original size:37 final size:36
Alignment explanation
Indices: 35142180--35142266 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 36
35142170 TACGAAGTCT
35142180 TACCCGGACATAATCTCCACACGTAGCCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGCCATCGGGTC
** *
35142216 GTACCCGGATGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGCCATCGGGTC
35142253 TCACCCGGAACATA
1 T-ACCCGG-ACATA
35142267 TTTCTAAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 1 0.02
37 39 0.91
38 3 0.07
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGCCATCGGGTC
Found at i:35142402 original size:49 final size:49
Alignment explanation
Indices: 35142335--35142744 Score: 635
Period size: 49 Copynumber: 8.2 Consensus size: 49
35142325 TTTACCACAT
*
35142335 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
35142384 ATATATATACATTTTCACATTCATCATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT--A----CACTTTCA-CATTCATCACATCGGCCATTAGGCCTTATCAC
* *
35142440 ATATATACACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
35142489 ATATAT-TCACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
35142538 ATATATATACACTTTCGCATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
35142587 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
35142636 ATATATACACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
35142685 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
35142734 ATATATATACA
1 ATATATATACA
35142745 TCTCATACAT
Statistics
Matches: 337, Mismatches: 13, Indels: 22
0.91 0.03 0.06
Matches are distributed among these distances:
48 1 0.00
49 281 0.83
50 8 0.02
51 1 0.00
54 1 0.00
55 7 0.02
56 38 0.11
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:35146899 original size:79 final size:82
Alignment explanation
Indices: 35146759--35146943 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
35146749 TCGAATGATG
* * *
35146759 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
35146823 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
35146839 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
35146901 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
35146919 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35146944 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:35146951 original size:40 final size:40
Alignment explanation
Indices: 35146760--35146951 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
35146750 CGAATGATGT
* * * * *
35146760 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
35146800 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
35146840 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
35146879 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
35146919 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
35146952 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:35154878 original size:40 final size:39
Alignment explanation
Indices: 35154834--35154945 Score: 120
Period size: 38 Copynumber: 2.8 Consensus size: 39
35154824 AAGTGACTAT
*
35154834 ATCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAA
1 ATCCGGGCTA-GATCCGAAGGCATTCGTGCGAGTTAATAA
* * * *
35154874 ATCCGGGCTA-AGCCGAAGGCATTTGTGCAAGTTACTAA
1 ATCCGGGCTAGATCCGAAGGCATTCGTGCGAGTTAATAA
* *
35154912 ACCCGGGTTA-AGTCCCGAAGGCATTCGTGCGAGT
1 ATCCGGGCTAGA-T-CCGAAGGCATTCGTGCGAGT
35154946 CACTATAACC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 33 0.55
40 27 0.45
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (39 bp):
ATCCGGGCTAGATCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:35154958 original size:40 final size:40
Alignment explanation
Indices: 35154796--35154986 Score: 167
Period size: 40 Copynumber: 4.8 Consensus size: 40
35154786 CGAATGATGT
* * * *
35154796 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
* * * * * *
35154836 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* *
35154876 CCGGGCTAAG--CCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
* *
35154914 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
** *
35154954 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTC
35154987 GTTATATCCG
Statistics
Matches: 124, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
38 33 0.27
40 82 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:35154958 original size:78 final size:80
Alignment explanation
Indices: 35154795--35154978 Score: 207
Period size: 78 Copynumber: 2.3 Consensus size: 80
35154785 TCGAATGATG
* * *
35154795 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
35154859 CGTGCGAGTTAATAAA
65 CGTGCGAGTCAATAAA
* **
35154875 TCCGGGCTAAG-CCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
35154937 CGTGCGAGTCACTATAA
65 CGTGCGAGTCAATA-AA
**
35154954 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
35154979 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 1 0.01
78 55 0.62
79 9 0.10
80 24 0.27
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTCAATAAA
Found at i:35156899 original size:40 final size:39
Alignment explanation
Indices: 35156855--35156993 Score: 136
Period size: 40 Copynumber: 3.5 Consensus size: 39
35156845 GCTCGATTGT
*
35156855 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAAATGC
1 CTTCGGGACATAGCCCGGTT-TAGTAATTCGCACAAATGC
* * * *
35156895 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAATTCGCACAAATGC
* * * *
35156935 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAGGC
1 CTTCGGGACATAG-CCCGG-TTTAGT-AATTCGCACAAATGC
*
35156976 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
35156994 ATACCATTCG
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
39 1 0.01
40 50 0.63
41 26 0.33
42 2 0.03
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAATTCGCACAAATGC
Found at i:35158051 original size:40 final size:40
Alignment explanation
Indices: 35157740--35158044 Score: 538
Period size: 40 Copynumber: 7.6 Consensus size: 40
35157730 CCAGCATGGT
* * * *
35157740 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
* * *
35157780 TGCTCCTCGAAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
35157820 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
35157860 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
*
35157900 TGCTCTTCGGAACTTAGTCCAGATACGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
35157940 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
35157980 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
35158020 TGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATA
35158045 TATCACTCTC
Statistics
Matches: 255, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACGTCACTAGCACGAA
Found at i:35159938 original size:37 final size:37
Alignment explanation
Indices: 35159878--35159949 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
35159868 TACGAAGTCT
35159878 TACCCGGACATAATCTCCACACGTAGTCATCGGGTTG
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTTG
* *
35159915 TACCTGGACGTAATCTCCACACGTAGTCATCGGGT
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGT
35159950 CTCACCCGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (37 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTTG
Found at i:35160098 original size:49 final size:49
Alignment explanation
Indices: 35160033--35160533 Score: 837
Period size: 49 Copynumber: 10.2 Consensus size: 49
35160023 TTTACCACAT
* *
35160033 ATATATATACACTTTCACATTCATCACGTCGTCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
35160082 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
35160131 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
35160180 ATATATACACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
35160229 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
35160278 ATATATATACACTTTCGCATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
35160327 ATATAT-TCACACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
35160376 ATATAT-TCACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATAT-ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
35160425 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
35160474 ATATATACACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
35160523 ATATATATACA
1 ATATATATACA
35160534 TCTCATACAT
Statistics
Matches: 431, Mismatches: 17, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
48 1 0.00
49 429 1.00
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:35164671 original size:48 final size:47
Alignment explanation
Indices: 35164481--35164737 Score: 284
Period size: 48 Copynumber: 5.4 Consensus size: 47
35164471 ATTCAGAATA
* * ** *
35164481 CAGACATGGTCTTACACTGGCTCATAAATCAAGTCGATGCCATGTCC
1 CAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCC
* * * * *
35164528 CAGACATGGTCTTACGCTGGCTCTCACATATCTATGCCGATGCTATGTCC
1 CAGACATGGTCTTACACTAG--CTCACATCTC-AAGCCGATGCCATGTCC
* *
35164578 CAGACATGGTCTTACACTA--ACGCATCTCATAGCCGATGCCATGTCC
1 CAGACATGGTCTTACACTAGCTCACATCTCA-AGCCGATGCCATGTCC
* *
35164624 CAAACATGGTCTTACACTAGCTCACATCTCGAGGCCGATGCCATGTCC
1 CAGACATGGTCTTACACTAGCTCACATCTC-AAGCCGATGCCATGTCC
* * * *
35164672 CAGACATGATCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCC
1 CAGACATGGTCTTACACTAGCTCACATCTCAA-GCCGATGCCATGTCC
35164720 CAGACATGGTCTTACACT
1 CAGACATGGTCTTACACT
35164738 GGATCTCATA
Statistics
Matches: 178, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 38 0.21
47 20 0.11
48 79 0.44
49 9 0.05
50 31 0.17
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (47 bp):
CAGACATGGTCTTACACTAGCTCACATCTCAAGCCGATGCCATGTCC
Found at i:35164709 original size:96 final size:96
Alignment explanation
Indices: 35164515--35164797 Score: 335
Period size: 96 Copynumber: 3.0 Consensus size: 96
35164505 TAAATCAAGT
* * *
35164515 CGATGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCACATATCTATGCCGATGCTATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCACATATCTAGGCCGATGCCATGTCCCA
*
35164580 GACATGGTCTTACACTA--ACGCATCTCATAGC
64 GACATGATCTTACACTAGCACGCATCTCATAGC
* * * *
35164611 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTCGAGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCTAGGCCGATGCCATGTCCCAGA
* * *
35164676 CATGATCTTACACTAGCCCTCGTCTCA-ATGC
66 CATGATCTTACACTAGCACGCATCTCATA-GC
* * * *
35164707 CGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAAT-TTGGCCAATG-CATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCTAGGCCGATGCCATGTCCCAG
* *
35164770 ACAT-ATCTTACACTAGCACACATGTCAT
65 ACATGATCTTACACTAGCACGCATCTCAT
35164798 CCAAATGACA
Statistics
Matches: 159, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
94 61 0.38
95 15 0.09
96 82 0.52
97 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCTAGGCCGATGCCATGTCCCAGA
CATGATCTTACACTAGCACGCATCTCATAGC
Found at i:35164779 original size:142 final size:142
Alignment explanation
Indices: 35164515--35164792 Score: 341
Period size: 142 Copynumber: 1.9 Consensus size: 142
35164505 TAAATCAAGT
* * * * *
35164515 CGATGCCATGTCCCAGACATGGTCTTACGCTGGCTCTCACATATCTATGCCGATGCTATGTCCCA
1 CGATGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCAATGCCGATGCCATGTCCCA
* *
35164580 GACATGGTCTTACACTAACGCATCTCATAGCCGATGCCATGTCCCAAACATGGTCTTACACTAGC
66 GACATGGTCTTACACT-A-GCATCTCATAGCCAATGCCATGTCCCAAACATGATCTTACACTAGC
*
35164645 TCACATCTCGAGGC
129 ACACATCTCGAGGC
* * *
35164659 CGATGCCATGTCCCAGACATGATCTTACACTAGC-C-CTCGTCTCAATGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCAATGCCGATGCCATGTCCCA
* *
35164722 GACATGGTCTTACACT-GGATCTCATAATTTGGCCAATG-CATGTCCCAGACAT-ATCTTACACT
66 GACATGGTCTTACACTAGCATCTCAT-A----GCCAATGCCATGTCCCAAACATGATCTTACACT
35164784 AGCACACAT
126 AGCACACAT
35164793 GTCATCCAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
139 8 0.07
140 1 0.01
142 56 0.48
143 14 0.12
144 37 0.32
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (142 bp):
CGATGCCATGTCCCAGACATGATCTTACACTAGCTCTCACATATCAATGCCGATGCCATGTCCCA
GACATGGTCTTACACTAGCATCTCATAGCCAATGCCATGTCCCAAACATGATCTTACACTAGCAC
ACATCTCGAGGC
Found at i:35174367 original size:30 final size:30
Alignment explanation
Indices: 35174331--35174431 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
35174321 GACAAGATTG
* * *
35174331 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
35174361 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
35174389 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
35174418 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
35174432 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:35174443 original size:29 final size:28
Alignment explanation
Indices: 35174360--35174435 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
35174350 AAAATTGTAC
* *
35174360 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
35174388 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
35174417 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
35174436 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:35180854 original size:15 final size:15
Alignment explanation
Indices: 35180820--35180860 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
35180810 TAAAGATGAA
*
35180820 AAAGAAA-CCCAGAT
1 AAAGAAATCCAAGAT
35180834 AAAGAAATCCAAGAT
1 AAAGAAATCCAAGAT
*
35180849 AGAGAAATCCAA
1 AAAGAAATCCAA
35180861 AATACAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.59, C:0.17, G:0.15, T:0.10
Consensus pattern (15 bp):
AAAGAAATCCAAGAT
Found at i:35189885 original size:2 final size:2
Alignment explanation
Indices: 35189878--35189903 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35189868 GCTTCGCCAC
35189878 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
35189904 CTGTTCTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35189952 original size:27 final size:26
Alignment explanation
Indices: 35189900--35189959 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
35189890 ATATATATAT
*
35189900 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
35189926 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
35189953 ATATCTG
1 ATATCTG
35189960 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:35191635 original size:40 final size:40
Alignment explanation
Indices: 35191589--35191665 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
35191579 ATAGCTGAAT
35191589 ATACTTTTAATTTAAACTTATAATACATGCAGATAAATAG
1 ATACTTTTAATTTAAACTTATAATACATGCAGATAAATAG
35191629 ATACTTTTAATTTAAACTTATAATACATGCAGATAAA
1 ATACTTTTAATTTAAACTTATAATACATGCAGATAAA
35191666 CAGACTTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (40 bp):
ATACTTTTAATTTAAACTTATAATACATGCAGATAAATAG
Found at i:35193291 original size:42 final size:42
Alignment explanation
Indices: 35193194--35193343 Score: 223
Period size: 42 Copynumber: 3.6 Consensus size: 42
35193184 CCGGCAAAGT
* *
35193194 GCCTGCTAGGTAATAAACCTGAT-TCAATACACCGGCAT-AAA
1 GCCTGCTAGGCAATAAGCCTGATATC-ATACACCGGCATCAAA
* *
35193235 GCCTGCTAGACAATAAGTCTGATATCATACACCGGCATCAAA
1 GCCTGCTAGGCAATAAGCCTGATATCATACACCGGCATCAAA
*
35193277 GCCTGCTAGGCAATAAGCCTGATATCTTACACCGGCATCAAA
1 GCCTGCTAGGCAATAAGCCTGATATCATACACCGGCATCAAA
*
35193319 GCCTGCGAGGCAATAAGCCTGATAT
1 GCCTGCTAGGCAATAAGCCTGATAT
35193344 ATCACTGTTA
Statistics
Matches: 99, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
41 31 0.31
42 68 0.69
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (42 bp):
GCCTGCTAGGCAATAAGCCTGATATCATACACCGGCATCAAA
Found at i:35197250 original size:47 final size:47
Alignment explanation
Indices: 35197178--35197319 Score: 259
Period size: 47 Copynumber: 3.0 Consensus size: 47
35197168 GTTGAATTTA
35197178 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
35197224 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* *
35197271 AAGCTTGTTAAATTTGCCCTTATTATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
35197318 AA
1 AA
35197320 AGAAAATTTT
Statistics
Matches: 93, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
46 12 0.13
47 81 0.87
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:35206428 original size:42 final size:42
Alignment explanation
Indices: 35206327--35206487 Score: 195
Period size: 42 Copynumber: 3.9 Consensus size: 42
35206317 TGTATAAAAC
* * *
35206327 ACCGGCA-CAGAGCCTGCTAGGTAATAAACCTGAT-TCA-AT
1 ACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCATAT
* *
35206366 ACACTGACAT-AAAGCCTGCTAGACAATAAGCCTGATATCATAT
1 AC-C-GGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCATAT
* *
35206409 ACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCTTAC
1 ACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCATAT
**
35206451 ACCGGCATCAAAATCTGCTAGGCAATAAGCCTGATAT
1 ACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATAT
35206488 ATCACTGTTA
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 29 0.28
42 69 0.66
43 4 0.04
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (42 bp):
ACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCATAT
Found at i:35206442 original size:83 final size:83
Alignment explanation
Indices: 35206327--35206487 Score: 209
Period size: 83 Copynumber: 1.9 Consensus size: 83
35206317 TGTATAAAAC
* * * *
35206327 ACCGGCACAGAGCCTGCTAGGTAATAAACCTGAT-TCAATACACTGACAT-AAAGCCTGCTAGAC
1 ACCGGCACAAAGCCTGCTAGGCAATAAACCTGATATC-ATACACCGACATCAAAACCTGCTAGAC
35206390 AATAAGCCTGATATCATAT
65 AATAAGCCTGATATCATAT
* * * * *
35206409 ACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATATCTTACACCGGCATCAAAATCTGCTAGGC
1 ACCGGCA-CAAAGCCTGCTAGGCAATAAACCTGATATCATACACCGACATCAAAACCTGCTAGAC
35206474 AATAAGCCTGATAT
65 AATAAGCCTGATAT
35206488 ATCACTGTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 7 0.10
83 33 0.49
84 27 0.40
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (83 bp):
ACCGGCACAAAGCCTGCTAGGCAATAAACCTGATATCATACACCGACATCAAAACCTGCTAGACA
ATAAGCCTGATATCATAT
Found at i:35208763 original size:19 final size:18
Alignment explanation
Indices: 35208735--35208772 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
35208725 CTTTGGAGAG
35208735 TCACAGGCCCGTGTAGGCT
1 TCACAGGCCCGTGT-GGCT
*
35208754 TCACATGCCCGTGTGGCT
1 TCACAGGCCCGTGTGGCT
35208772 T
1 T
35208773 GGACACGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.13, C:0.32, G:0.29, T:0.26
Consensus pattern (18 bp):
TCACAGGCCCGTGTGGCT
Found at i:35210751 original size:48 final size:48
Alignment explanation
Indices: 35210548--35210827 Score: 259
Period size: 48 Copynumber: 5.8 Consensus size: 48
35210538 TACATCAAGT
* * *
35210548 CGATGCCATGTCCTAGACATGGTCTTACACT-GTCTATCGCA-ATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-C--TCACATCTCGAGGC
** * * * * *
35210597 CGGCGCCATGTCCTAGACATGGTCTTACACTGGCTCTCACATATCCG-TGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG--CTCACATCT-CGAGGC
* * *
35210647 CGATGCCATGTCCCAAACATGGTCTTACACTA--ACACATCTC-ATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGA-GGC
** *
35210693 TAATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGAGGC
* * * *
35210741 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGAGGC
*
35210789 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCACACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT
35210828 GTCACCCAAA
Statistics
Matches: 194, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 37 0.19
47 16 0.08
48 71 0.37
49 34 0.18
50 31 0.16
51 4 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATCTCGAGGC
Found at i:35210846 original size:94 final size:94
Alignment explanation
Indices: 35210649--35210827 Score: 227
Period size: 94 Copynumber: 1.9 Consensus size: 94
35210639 ATCCGTGTCG
*
35210649 ATGCCATGTCCCAAACATGGTCTTACACTAACACATCTCATAGCTAATGCCATGTCCCAAACATG
1 ATGCCATGTCCCAAACATGGTCTTACACTAACACATCTCATAGCCAATGCCATGTCCCAAACATG
* * *
35210714 GTCTTACACTAGCTCACATCTCGAGGCCG
66 GTCTTACACTAGCACACATCTCGAGCCCA
* * * * * *
35210743 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCA-ATGCCGATGCCATGTCCCAGAC
1 ATGCCATGTCCCAAACATGGTCTTACACTA--ACACATCTCATA-GCCAATGCCATGTCCCAAAC
35210807 AT-GTCTTACACTAGCACACAT
63 ATGGTCTTACACTAGCACACAT
35210828 GTCACCCAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
94 29 0.39
95 19 0.26
96 26 0.35
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (94 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAACACATCTCATAGCCAATGCCATGTCCCAAACATG
GTCTTACACTAGCACACATCTCGAGCCCA
Found at i:35212808 original size:40 final size:40
Alignment explanation
Indices: 35212641--35212792 Score: 162
Period size: 40 Copynumber: 3.8 Consensus size: 40
35212631 AAATTGAATG
* * * * **
35212641 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGATT
* * * **
35212681 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
* *
35212721 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
*
35212761 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
35212793 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATT
Found at i:35217372 original size:40 final size:40
Alignment explanation
Indices: 35217317--35217541 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
35217307 CTTGCACAAG
* * * * *
35217317 GCCTTCGGGTCTTAGCCTGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
35217357 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
** * *
35217397 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
35217437 GCCTTCGGGTCTTAGACCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * *
35217477 GCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAAT
35217518 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
35217542 CATTCGAATA
Statistics
Matches: 157, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.02
40 124 0.79
41 27 0.17
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:35217412 original size:80 final size:79
Alignment explanation
Indices: 35217281--35217541 Score: 276
Period size: 80 Copynumber: 3.3 Consensus size: 79
35217271 CTCAAGTAAT
* * * * * * * *
35217281 CTTCGGGATTTA-ACCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCTGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCC-GGATATAGT
*
35217344 CACTAGCATAAATGC
65 CACTAGCACAAATGC
* * *
35217359 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAG-CCGGATATAG
*
35217423 TCGCTAGCACAAATGC
64 TCACTAGCACAAATGC
* * * * * *
35217439 CTTCGGGTCTTAGACCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAG-CCGGATATAGT
*
35217504 CACCTAGCACAAAAGC
65 CA-CTAGCACAAATGC
35217520 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
35217542 CATTCGAATA
Statistics
Matches: 151, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
78 11 0.07
79 16 0.11
80 90 0.60
81 34 0.23
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCGGATATAGTC
ACTAGCACAAATGC
Found at i:35221294 original size:24 final size:24
Alignment explanation
Indices: 35221262--35221360 Score: 189
Period size: 24 Copynumber: 4.1 Consensus size: 24
35221252 AGGGGTAGAA
35221262 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
35221286 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
35221310 GATTTACTATGGCACTGTGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
*
35221334 GATTTACTATGGCACTATGTGTGC
1 GATTTACTATGGCACTGTGTGTGC
35221358 GAT
1 GAT
35221361 CATAATAAGC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.18, C:0.16, G:0.28, T:0.37
Consensus pattern (24 bp):
GATTTACTATGGCACTGTGTGTGC
Found at i:35221373 original size:48 final size:48
Alignment explanation
Indices: 35221273--35221381 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 48
35221263 ATTTACTATG
* * * *
35221273 GCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATG
1 GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATA
35221321 GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATCATAATA-A
1 GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGAT-ATAATATA
*
35221369 GCACTATGTGTGC
1 GCACTGTGTGTGC
35221382 CACATTCGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 51 0.93
49 4 0.07
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (48 bp):
GCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATA
Found at i:35229087 original size:24 final size:24
Alignment explanation
Indices: 35229055--35229175 Score: 233
Period size: 24 Copynumber: 5.0 Consensus size: 24
35229045 GGGTAGAAAG
35229055 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
35229079 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
35229103 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
35229127 TTTACTATGGCACTGTGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
*
35229151 TTTACTATGGCACTATGTGTGCGA
1 TTTACTATGGCACTGTGTGTGCGA
35229175 T
1 T
35229176 CATAATAAGC
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 96 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (24 bp):
TTTACTATGGCACTGTGTGTGCGA
Found at i:35229188 original size:72 final size:72
Alignment explanation
Indices: 35229055--35229196 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 72
35229045 GGGTAGAAAG
* * * * *
35229055 TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTGTG
1 TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTATG
35229120 TGTGCGA
66 TGTGCGA
35229127 TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATCATAATA-AGCACTAT
1 TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGAT-ATAATATAGCACTAT
35229191 GTGTGC
65 GTGTGC
35229197 CACATTCGGT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 60 0.94
73 4 0.06
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (72 bp):
TTTACTATGGCACTGTGTGTGCGATTTACTATGGCACTATGTGTGCGATATAATATAGCACTATG
TGTGCGA
Found at i:35237149 original size:70 final size:71
Alignment explanation
Indices: 35236998--35237160 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
35236988 GAGATGTATC
35236998 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
35237063 AGGACA
66 AGGACA
35237069 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
35237133 CGGACA
66 AGGACA
35237139 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
35237161 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:35239531 original size:24 final size:24
Alignment explanation
Indices: 35239449--35239536 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
35239439 AAGAAATTTC
* * **
35239449 AGCACTATGTGTGCGTGGTTATGC
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
35239473 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
35239498 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
35239522 AGCACTATGTGTGCG
1 AGCACTATGTGTGCG
35239537 GACCTTTAAA
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
24 33 0.67
25 16 0.33
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:35247335 original size:24 final size:24
Alignment explanation
Indices: 35247253--35247342 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
35247243 AAGAAATTTC
* * **
35247253 AGCACTATGTGTGCGTGGTTATGC
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
35247277 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
35247302 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
35247326 AGCACTATGTGTGCGAG
1 AGCACTATGTGTGCGAG
35247343 GAAACACGGT
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 35 0.69
25 16 0.31
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:35253426 original size:126 final size:125
Alignment explanation
Indices: 35253123--35253500 Score: 456
Period size: 126 Copynumber: 3.0 Consensus size: 125
35253113 GGCCAAACAT
* * *
35253123 GAACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTACTGATAATGCATG
1 GAACTACTGTAGAAAAAGAGCGTTCATGTGGGAGCTTTTTTCAGTAATTTTACTGATAATGCATC
* * * *
35253188 CTGCTTAAAGCATTTTTTACACTAATTTTT-AGAAATGTCTTCTGAAATTTA-TTTTTCAG
66 CTGCTTAAAGCATTTTTAACACT-ATTTTTCAGAAATGTCTTCTCAAAATTATTTTTTCAA
* * * * * * *
35253247 GAGCTAGTGTAGAAAAATAGC-TTCCATGTGGGAGCATTTTTCAGTACTTTTACTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTT-CATGTGGGAGCTTTTTTCAGTAATTTTACTGATAATGCAT
* * **
35253311 CCTGCTTAAAGCATTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTATTTTTTCAA
65 CCTGCTTAAAGCATTTTTAACACTATTT-TTCAGAAATGTCTTCTCAAAATTATTTTTTCAA
* * * *
35253373 GAACTACTGTAGAAAAAGAGCGTTTACGTGTGAGCTTTTTTCAGTAATATTACTGATAATGCATC
1 GAACTACTGTAGAAAAAGAGCGTTCATGTGGGAGCTTTTTTCAGTAATTTTACTGATAATGCATC
** * *
35253438 CTTTTTGAAGCGTTTTTAACACTATTTATTCAGAAATGTCTTCTCAAAATTATTTTTTTCAA
66 CTGCTTAAAGCATTTTTAACACTATTT-TTCAGAAATGTCTTCTCAAAATTA-TTTTTTCAA
35253500 G
1 G
35253501 GTAAAATTAG
Statistics
Matches: 211, Mismatches: 37, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
123 5 0.02
124 77 0.36
125 16 0.08
126 101 0.48
127 12 0.06
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (125 bp):
GAACTACTGTAGAAAAAGAGCGTTCATGTGGGAGCTTTTTTCAGTAATTTTACTGATAATGCATC
CTGCTTAAAGCATTTTTAACACTATTTTTCAGAAATGTCTTCTCAAAATTATTTTTTCAA
Found at i:35253659 original size:35 final size:35
Alignment explanation
Indices: 35253592--35253683 Score: 118
Period size: 34 Copynumber: 2.7 Consensus size: 35
35253582 CCCTAAACAT
*
35253592 TAATTTAATTAATTTATTT-AAAACTCTTAAACCC
1 TAATTTAATTAATTTATTTAAAAACTCTAAAACCC
* *
35253626 TTATTTACTTAATTTATTTAAAAAC-CATAAAACCC
1 TAATTTAATTAATTTATTTAAAAACTC-TAAAACCC
*
35253661 TAATTTAATTAATTT-TTAAAAAA
1 TAATTTAATTAATTTATTTAAAAA
35253684 GAACACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
34 25 0.50
35 25 0.50
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (35 bp):
TAATTTAATTAATTTATTTAAAAACTCTAAAACCC
Done.