Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 27 of 161
Found at i:8536546 original size:35 final size:36
Alignment explanation
Indices: 8536480--8536551 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 36
8536470 CTTTCAAAAT
*
8536480 ACCCTAATCCCTAAAAAACCATAAACCCTAACCCTA
1 ACCCTAATCCCTAAAAAACCAAAAACCCTAACCCTA
* *
8536516 ACCCTAA-CCCTAATAAAA-TAAAAACTCTAACCCTA
1 ACCCTAATCCCTAA-AAAACCAAAAACCCTAACCCTA
8536551 A
1 A
8536552 AAAAAGCCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 21 0.66
36 11 0.34
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (36 bp):
ACCCTAATCCCTAAAAAACCAAAAACCCTAACCCTA
Found at i:8537579 original size:2 final size:2
Alignment explanation
Indices: 8537574--8537603 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8537564 CCTCTCACCG
*
8537574 TC TC TC TC TC TC TC TC TC TC TC TC GC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8537604 AGTCTCCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (2 bp):
TC
Found at i:8543954 original size:44 final size:46
Alignment explanation
Indices: 8543902--8543997 Score: 151
Period size: 44 Copynumber: 2.1 Consensus size: 46
8543892 ATTACAACAC
8543902 CTATTCCATTAAACCAAAC-ATAAAAATACT-ATTACAATTTTATT
1 CTATTCCATTAAACCAAACAATAAAAATACTAATTACAATTTTATT
* *
8543946 CTATTCCATTAAACCAAACAATTAAATTACTAATTACAATTTTATT
1 CTATTCCATTAAACCAAACAATAAAAATACTAATTACAATTTTATT
*
8543992 CCATTC
1 CTATTC
8543998 ACCTCAACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 19 0.40
45 9 0.19
46 19 0.40
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.38
Consensus pattern (46 bp):
CTATTCCATTAAACCAAACAATAAAAATACTAATTACAATTTTATT
Found at i:8544099 original size:28 final size:28
Alignment explanation
Indices: 8544059--8544117 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
8544049 ACAGATACAC
8544059 AAACCATGCAAAAGAAAAGAGGTGTGTG
1 AAACCATGCAAAAGAAAAGAGGTGTGTG
8544087 AAACCATGCAAAAGAAAAGAGGTGTGTG
1 AAACCATGCAAAAGAAAAGAGGTGTGTG
8544115 AAA
1 AAA
8544118 AGGGCAATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.27, T:0.14
Consensus pattern (28 bp):
AAACCATGCAAAAGAAAAGAGGTGTGTG
Found at i:8550368 original size:30 final size:28
Alignment explanation
Indices: 8550332--8550392 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 28
8550322 AACAAAGAAA
*
8550332 ATATTTA-TAAAACTGAAATCAAATTAAACT
1 ATATTTAGCAAAACT-AAAT-AAA-TAAACT
*
8550362 ATATTTAGCAAATCTAAATAAATAAACT
1 ATATTTAGCAAAACTAAATAAATAAACT
8550390 ATA
1 ATA
8550393 GAAGTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 9 0.32
29 3 0.11
30 11 0.39
31 5 0.18
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (28 bp):
ATATTTAGCAAAACTAAATAAATAAACT
Found at i:8550943 original size:26 final size:25
Alignment explanation
Indices: 8550871--8550950 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
8550861 TATTATTACT
*
8550871 ATAAAATATATAGACTTAAATTATA
1 ATAAAATATATAAACTTAAATTATA
8550896 ATAAAAGTA-ATTAATA-TT--ATTATA
1 ATAAAA-TATA-TAA-ACTTAAATTATA
*
8550920 TATGAAATATATAAACTTAAATTATA
1 -ATAAAATATATAAACTTAAATTATA
8550946 ATAAA
1 ATAAA
8550951 GGCTTATATC
Statistics
Matches: 44, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
23 1 0.02
24 13 0.30
25 17 0.39
26 12 0.27
27 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (25 bp):
ATAAAATATATAAACTTAAATTATA
Found at i:8555916 original size:22 final size:23
Alignment explanation
Indices: 8555890--8555936 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
8555880 AAAAACTAAT
8555890 AAATAACCCCAA-ACCCAA-AACA
1 AAAT-ACCCCAATACCCAATAACA
*
8555912 AAATAGCCCAATACCCAATAACA
1 AAATACCCCAATACCCAATAACA
8555935 AA
1 AA
8555937 CCCTAGCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 10 0.45
23 6 0.27
ACGTcount: A:0.57, C:0.32, G:0.02, T:0.09
Consensus pattern (23 bp):
AAATACCCCAATACCCAATAACA
Found at i:8568843 original size:132 final size:132
Alignment explanation
Indices: 8568606--8569234 Score: 679
Period size: 132 Copynumber: 4.8 Consensus size: 132
8568596 AGATAACAAG
* * * * * * *
8568606 TCCTATTTCCCTCAGCAGCAGTGGAGTAGGTTGAATATTATAGATCCT-GTCTCTCTAAGCAGTA
1 TCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGAATGTAGAT-CTGGTCTCCCTAAGCAGTA
* * *
8568670 GCGGAGCAGATCGAAGAAGTTGAGTCTTATCTTCCCAAAGTAGTAGGGAAGCAGATTTAAGCCAC
65 GCGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAGCAGATTTAAGCCAC
*
8568735 CAT
130 CAA
* * * * *
8568738 TCCTATTTCCCTGAGCAGTAGTGGAGAAGGTTGAAGAATGTGGATCTGGTCTCCCTAAGTAGTAA
1 TCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
* *
8568803 CAGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAGCAGATTTAAGCCACT
66 CGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAGCAGATTTAAGCCACC
8568868 AA
131 AA
* *
8568870 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAACAGTAG
1 TCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
* * * * * *
8568935 CGGAGCAGATCGAACACGGTGAATCTTATCTTCCTAAGGTAGTAGGGAAGCAGATTTAGGCTACT
66 CGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAGCAGATTTAAGCCACC
8569000 AA
131 AA
* * * * ** *
8569002 TCAC-ATCTGCCTGAACACTAATGGAGTAGGTTGAAGAATGTAGATCTTATGTCCCTAAGCAGTA
1 TC-CTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTA
* * ** * * * * * * *
8569066 GTGGAGTAGATAAAAAAAATGGCGAATTTTATCTTTCCAAGGTAGTAGAGAAGCAGATTTAAGCC
65 GCGGAGCAGAT--CGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAGCAGATTTAAGCC
8569131 ACCAA
128 ACCAA
* * * *** * *
8569136 TCCTATCTCCCTGAGCAGTAGTAGAGTAGGTTGAAGATTGCAGATCACATCTCCTTGAGCAGTAG
1 TCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
** * * * *
8569201 TAGAGCGGATCGAAGACAGCGAATTTTAT-TTCCC
66 CGGAGCAGATCGAAGACGGTGAATCTTATCTTCCC
8569235 TGGCGTTGCA
Statistics
Matches: 419, Mismatches: 73, Indels: 11
0.83 0.15 0.02
Matches are distributed among these distances:
131 6 0.01
132 308 0.74
133 2 0.00
134 103 0.25
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
TCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAG
CGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAAGTAGTAGGGAAGCAGATTTAAGCCACC
AA
Found at i:8569328 original size:51 final size:51
Alignment explanation
Indices: 8569220--8569337 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
8569210 TCGAAGACAG
* ** * *
8569220 CGAATTTTATTTCCCTGGCGTTGCAGTGGACCAGATTAAAGCTGAAGGCAG
1 CGAATCTTATTTCCCTGGCGTTGCAACGGAACAGATTAAAGCTGAAGGCAA
** * *
8569271 TAAATCTTATTTCCCTGGCGTTGTAACGGAACAGATTAAAGTTGAAGGCAA
1 CGAATCTTATTTCCCTGGCGTTGCAACGGAACAGATTAAAGCTGAAGGCAA
* *
8569322 CGAATCTCATCTCCCT
1 CGAATCTTATTTCCCT
8569338 AGCATTTAAA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (51 bp):
CGAATCTTATTTCCCTGGCGTTGCAACGGAACAGATTAAAGCTGAAGGCAA
Found at i:8570937 original size:3 final size:3
Alignment explanation
Indices: 8570929--8571007 Score: 54
Period size: 3 Copynumber: 26.3 Consensus size: 3
8570919 ATGTTCGCTG
* * * * *
8570929 TTA TTA TTA TCA TTC TTA TCT- TCA TTA TTA CTA TT- TCTA TTA TCA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA
* * *
8570974 ATA TTA TTA TTA TTA TTA TTA CTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8571008 ATTTTTATAA
Statistics
Matches: 56, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
2 1 0.02
3 53 0.95
4 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:8571940 original size:4 final size:4
Alignment explanation
Indices: 8571931--8571971 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
8571921 CCCTATTTAA
8571931 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
8571972 TTTGAAGTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:8573262 original size:145 final size:144
Alignment explanation
Indices: 8572972--8573989 Score: 1864
Period size: 145 Copynumber: 7.0 Consensus size: 144
8572962 AAAATGTTGT
*
8572972 GTTTGTTGAAGCAAGTGGGTTCTCCAAAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
1 GTTTGTTGAAGCAAGT-GGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
8573037 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
65 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
8573102 CAAAATAGAAGAATG
130 CAAAATAGAAGAATG
* * * *
8573117 GTTAAGAAT-ACTTGCCAA-T-ATT-TCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGA
1 GTT-TG-TTGA--AG-CAAGTGGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGA
8573178 GGTTGGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATC
61 GGTTGGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATC
8573243 ATTTCAAAATAGAAGAATG
126 ATTTCAAAATAGAAGAATG
8573262 GTTTGTTGAAGCAAGTGGGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
1 GTTTGTTGAAGCAAGT-GGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
8573327 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
65 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
8573392 CAAAATAGAAGAATG
130 CAAAATAGAAGAATG
8573407 GTTTGTTGAAGCAAGTGGGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
1 GTTTGTTGAAGCAAGT-GGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
8573472 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
65 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
8573537 CAAAATAGAAGAATG
130 CAAAATAGAAGAATG
8573552 GTTTGTTGAAGCAAGTGGGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
1 GTTTGTTGAAGCAAGT-GGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
8573617 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
65 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
8573682 CAAAATAGAAGAATG
130 CAAAATAGAAGAATG
8573697 GTTTGTTGAAGCAAGTGGGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
1 GTTTGTTGAAGCAAGT-GGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
8573762 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
65 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
8573827 CAAAATAGAAGAATG
130 CAAAATAGAAGAATG
8573842 GTTTGTTGAAGCAAGTGGGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
1 GTTTGTTGAAGCAAGT-GGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTT
8573907 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
65 GGCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTT
8573972 CAAAATAGAAGAATG
130 CAAAATAGAAGAATG
8573987 GTT
1 GTT
8573990 AAGAATACTT
Statistics
Matches: 854, Mismatches: 9, Indels: 20
0.97 0.01 0.02
Matches are distributed among these distances:
141 3 0.00
142 2 0.00
143 1 0.00
144 4 0.00
145 834 0.98
146 4 0.00
147 1 0.00
148 2 0.00
149 3 0.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (144 bp):
GTTTGTTGAAGCAAGTGGTTCTCCAGAGGTGAAAAGGAAAAAAAACAATATGGAATAGGAGGTTG
GCAATAATGTTTTGTAATCTTTGTATCATTGAGGTAATTAATAGCAATAAACCTGGTATCATTTC
AAAATAGAAGAATG
Found at i:8577710 original size:37 final size:38
Alignment explanation
Indices: 8577655--8577751 Score: 106
Period size: 37 Copynumber: 2.5 Consensus size: 38
8577645 ACACACCAGT
* *
8577655 TTGGCACCCAGTGTCTCATCGACTA-AACCGAAGTAAA
1 TTGGCACCCAGTGCCTCATCGAATATAACCGAAGTAAA
* *
8577692 TTGGCACCTAGTGCCTCATCGAATATATCCGAAGTAATAA
1 TTGGCACCCAGTGCCTCATCGAATATAACCGAAGT-A-AA
* *
8577732 TTTGACACCCAGTGTCTCAT
1 -TTGGCACCCAGTGCCTCAT
8577752 TGACTCGAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
37 22 0.45
38 8 0.16
39 1 0.02
40 2 0.04
41 16 0.33
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (38 bp):
TTGGCACCCAGTGCCTCATCGAATATAACCGAAGTAAA
Found at i:8578705 original size:5 final size:5
Alignment explanation
Indices: 8578697--8578932 Score: 465
Period size: 5 Copynumber: 47.4 Consensus size: 5
8578687 TTATTTATTT
8578697 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
8578747 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
8578797 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
8578847 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
8578897 TAATA TAATA TAATA TAATA TAATA TAATA T-ATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
8578933 CACTTAATTC
Statistics
Matches: 230, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.02
5 226 0.98
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:8580071 original size:10 final size:10
Alignment explanation
Indices: 8580036--8580078 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
8580026 CGAGACTAAA
8580036 TAGAAAACATT
1 TAGAAAA-ATT
*
8580047 TA-AAAAGTT
1 TAGAAAAATT
8580056 TCAGAAAAATT
1 T-AGAAAAATT
8580067 TAGAAAAATT
1 TAGAAAAATT
8580077 TA
1 TA
8580079 TACTGCAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 3 0.11
10 16 0.57
11 9 0.32
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (10 bp):
TAGAAAAATT
Found at i:8581904 original size:39 final size:39
Alignment explanation
Indices: 8581790--8581904 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 39
8581780 AAATCAACCG
* **
8581790 AACACACCAGACAGAAGCTCATAAGAGCTTATCCAATTGA
1 AACACACCA-ACAGAAGCTCATAAGAGCTGATCCACCTGA
* * * *
8581830 AATACTCCAAATAGAAGCTCATAAGAGCTGGTCCACCTGA
1 AACACACC-AACAGAAGCTCATAAGAGCTGATCCACCTGA
*
8581870 AACACACCAACAGAAGCTCATAAGAGATGATCCAC
1 AACACACCAACAGAAGCTCATAAGAGCTGATCCAC
8581905 TCGGAACACG
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
39 24 0.39
40 37 0.60
41 1 0.02
ACGTcount: A:0.42, C:0.26, G:0.16, T:0.17
Consensus pattern (39 bp):
AACACACCAACAGAAGCTCATAAGAGCTGATCCACCTGA
Found at i:8581913 original size:39 final size:39
Alignment explanation
Indices: 8581790--8581918 Score: 134
Period size: 40 Copynumber: 3.3 Consensus size: 39
8581780 AAATCAACCG
* * *
8581790 AACACACCAGACAGAAGCTCATAAGAGCTTATCCAATTGA
1 AACACACCA-ACAGAAGCTCATAAGAGCTGATCCACTCGA
* * * *
8581830 AATACTCCAAATAGAAGCTCATAAGAGCTGGTCCAC-CTGA
1 AACACACC-AACAGAAGCTCATAAGAGCTGATCCACTC-GA
* *
8581870 AACACACCAACAGAAGCTCATAAGAGATGATCCACTCGG
1 AACACACCAACAGAAGCTCATAAGAGCTGATCCACTCGA
*
8581909 AACACGCCAA
1 AACACACCAA
8581919 ATAGAAAGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
39 34 0.47
40 37 0.51
41 1 0.01
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (39 bp):
AACACACCAACAGAAGCTCATAAGAGCTGATCCACTCGA
Found at i:8583762 original size:67 final size:66
Alignment explanation
Indices: 8583682--8583868 Score: 232
Period size: 67 Copynumber: 2.8 Consensus size: 66
8583672 GTCCTAGCCC
* *
8583682 GTGAGCTTACTGACTTAGGTCACACGGCCAAGCCAAACGCTTGTGTGCTAGGCCGTGTGAAAAAA
1 GTGAGCATACTGACTTAGGTCACACGGCCAAGCCAAACGCCTGTGTGCTAGGCCGTGTG-AAAAA
*
8583747 TG
65 TA
* * * * **
8583749 GTGAGCATACTGACTTATGACACACGGCCAAGCCACACGCCCGTGTGCTAGGATGTGTGAAAAAT
1 GTGAGCATACTGACTTAGGTCACACGGCCAAGCCAAACGCCTGTGTGCTAGGCCGTGTGAAAAAT
8583814 A
66 A
* * * *
8583815 GTGGGTATACTGACTT-GTGTCACACTGCCAAGTCAAACGCCTGTGTGCTAGGCC
1 GTGAGCATACTGACTTAG-GTCACACGGCCAAGCCAAACGCCTGTGTGCTAGGCC
8583869 ATTTGAGGCT
Statistics
Matches: 100, Mismatches: 19, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
66 49 0.49
67 51 0.51
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (66 bp):
GTGAGCATACTGACTTAGGTCACACGGCCAAGCCAAACGCCTGTGTGCTAGGCCGTGTGAAAAAT
A
Found at i:8583855 original size:66 final size:67
Alignment explanation
Indices: 8583682--8583866 Score: 230
Period size: 66 Copynumber: 2.8 Consensus size: 67
8583672 GTCCTAGCCC
* * *
8583682 GTGAGCTTACTGACTTAG-GTCACACGGCCAAGCCAAACGCTTGTGTGCTAGGCCGTGTGAAAAA
1 GTGAGCATACTGACTT-GTGTCACACGGCCAAGCCAAACGCCTGTGTGCTAGGACGTGTGAAAAA
*
8583746 ATG
65 ATA
* * * * *
8583749 GTGAGCATACTGACTTATGACACACGGCCAAGCCACACGCCCGTGTGCTAGGATGTGTG-AAAAA
1 GTGAGCATACTGACTTGTGTCACACGGCCAAGCCAAACGCCTGTGTGCTAGGACGTGTGAAAAAA
8583813 TA
66 TA
* * * *
8583815 GTGGGTATACTGACTTGTGTCACACTGCCAAGTCAAACGCCTGTGTGCTAGG
1 GTGAGCATACTGACTTGTGTCACACGGCCAAGCCAAACGCCTGTGTGCTAGG
8583867 CCATTTGAGG
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
66 50 0.50
67 50 0.50
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (67 bp):
GTGAGCATACTGACTTGTGTCACACGGCCAAGCCAAACGCCTGTGTGCTAGGACGTGTGAAAAAA
TA
Found at i:8583968 original size:30 final size:30
Alignment explanation
Indices: 8583932--8583996 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
8583922 GTCACCTGGT
* * *
8583932 CGTGTGTCACATACGGCTGAGACACATGCC
1 CGTGTGTCACACACGGATGACACACATGCC
8583962 CGTGTGTCACACACGGATGACACACATGCC
1 CGTGTGTCACACACGGATGACACACATGCC
8583992 CGTGT
1 CGTGT
8583997 CTCTGCCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (30 bp):
CGTGTGTCACACACGGATGACACACATGCC
Found at i:8593418 original size:25 final size:24
Alignment explanation
Indices: 8593388--8593434 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
8593378 AATAATAATA
8593388 ATAATAAAGATAATA-AAATGAAAAC
1 ATAATAAAGA-AATAGAAA-GAAAAC
8593413 ATAATAAAGAAATAGAAAGAAA
1 ATAATAAAGAAATAGAAAGAAA
8593435 GTGGAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (24 bp):
ATAATAAAGAAATAGAAAGAAAAC
Found at i:8593419 original size:3 final size:3
Alignment explanation
Indices: 8593365--8593403 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
8593355 AAAGTAACTT
*
8593365 TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA -AGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
8593404 AATGAAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:8594657 original size:15 final size:15
Alignment explanation
Indices: 8594599--8594660 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
8594589 TATATGATTG
8594599 ATATTGAAATGACAA
1 ATATTGAAATGACAA
*
8594614 AGATTAGAAATG---A
1 ATATT-GAAATGACAA
* *
8594627 ATA-TGAGATGCGCAA
1 ATATTGAAATG-ACAA
8594642 ATATTGAAATGACAA
1 ATATTGAAATGACAA
8594657 ATAT
1 ATAT
8594661 GAGAAATGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
11 5 0.14
12 1 0.03
13 3 0.08
15 15 0.42
16 12 0.33
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (15 bp):
ATATTGAAATGACAA
Found at i:8604621 original size:88 final size:88
Alignment explanation
Indices: 8604465--8604951 Score: 543
Period size: 88 Copynumber: 5.5 Consensus size: 88
8604455 TCAGTGAATA
* ** * *
8604465 TAGCAGATCTTGCCTTCCTGTACAGGCAGCGAAGCAGATCAAAGACACCAGCCTTGTTTCCTTGG
1 TAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAG
8604530 GTTGCAGCGGAGCAGGTTGAAAG
66 GTTGCAGCGGAGCAGGTTGAAAG
* * * *
8604553 TAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGTAGATCAAAGACACCAGTCTTGCCTCCCTAG
1 TAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAG
**
8604618 GTTGCAGCGGAGCAGACTG-AAG
66 GTTGCAGCGGAGCAGGTTGAAAG
* *
8604640 ATAGCAGATCTTGCCTTCTTGTA-TCGGCAACGAAGCAGATCAAAGACACCAGCCTTGCCTCCCT
1 -TAGCAGATCTTGCCTTCCTGTACT-GGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCT
*
8604704 AGGTTGCAGCGGAGCAGGTTGAAAA
64 AGGTTGCAGCGGAGCAGGTTGAAAG
* * * **
8604729 TAACAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCAAAGACACCAATCTTGCCTCCCTAG
1 TAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAG
* * **
8604794 GTTGCAGTGGAACAGACTG-AAG
66 GTTGCAGCGGAGCAGGTTGAAAG
* ** * *
8604816 ATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCGAAA-ACTTCGGCCTTGTCTCCCT
1 -TAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC-AAAGACACCAGCCTTGCCTCCCT
** * * * *
8604880 -GAGCAGCAGTGGAGTAGGTTCAAAA
64 AG-GTTGCAGCGGAGCAGGTTGAAAG
* * * * *
8604905 TAGTAGATCTTACCTTCCTATACTGGCAGTGAAGCAGATCGAAGACA
1 TAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACA
8604952 TCAATCTTAT
Statistics
Matches: 333, Mismatches: 57, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
87 9 0.03
88 316 0.95
89 8 0.02
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (88 bp):
TAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAG
GTTGCAGCGGAGCAGGTTGAAAG
Found at i:8604652 original size:44 final size:43
Alignment explanation
Indices: 8604594--8604831 Score: 162
Period size: 44 Copynumber: 5.4 Consensus size: 43
8604584 AAGTAGATCA
*
8604594 AAGACACCAG-TCTTGCCTCCCTAGGTTGCAGCGGAGCAGACTG
1 AAGATACCAGATCTTGCCTCCCTAGGTTGCAGCGGAGCAGA-TG
* * * * * *
8604637 AAGATAGCAGATCTTGCCT-TCT-TGTATCGGCAACGAAGCAGATCA
1 AAGATACCAGATCTTGCCTCCCTAGGT-T--GCAGCGGAGCAGAT-G
* * *
8604682 AAGACACCAG-CCTTGCCTCCCTAGGTTGCAGCGGAGCAGGTTG
1 AAGATACCAGATCTTGCCTCCCTAGGTTGCAGCGGAGCA-GATG
* * * *** * *
8604725 AAAATAACAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCA
1 AAGATACCAGATCTTGCCTCCCTAGGTTG-CAGCGGAGCAGAT-G
* * *
8604770 AAGACACCA-ATCTTGCCTCCCTAGGTTGCAGTGGAACAGACTG
1 AAGATACCAGATCTTGCCTCCCTAGGTTGCAGCGGAGCAGA-TG
*
8604813 AAGATAGCAGATCTTGCCT
1 AAGATACCAGATCTTGCCT
8604832 TCCTGTACCG
Statistics
Matches: 142, Mismatches: 40, Indels: 25
0.69 0.19 0.12
Matches are distributed among these distances:
42 2 0.01
43 43 0.30
44 58 0.41
45 37 0.26
46 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (43 bp):
AAGATACCAGATCTTGCCTCCCTAGGTTGCAGCGGAGCAGATG
Found at i:8604758 original size:176 final size:174
Alignment explanation
Indices: 8604459--8604959 Score: 689
Period size: 176 Copynumber: 2.8 Consensus size: 174
8604449 AATAGATCAG
* *
8604459 TGAATATAGCAGATCTTGCCTTCCTGTACAGGCAGCGAAGCAGATCAAAGACACCAGCCTTGTTT
1 TGAAGATAGCAGATCTTGCCTTCCTGTAC-GGCAGCGAAGCAGATCAAAGACACCAGCCTTGTCT
* * * *
8604524 CCTTGGGTTGCAGCGGAGCAGGTTGAAAGTAGTAGATCTTGCCTTCCTGTACTGACAGCGAAGTA
65 CCCT-GGTTGCAGCGGAGCAGGTTGAAAATAGTAGATCTTGCCTTCCTATACTGACAGCGAAGCA
* *
8604589 GATCAAAGACACCAGTCTTGCCTCCCTAGGTTGCAGCGGAGCAGAC
129 GATCAAAGACACCAATCTTGCCTCCCTAGGTTGCAGCGGAACAGAC
* * *
8604635 TGAAGATAGCAGATCTTGCCTTCTTGTATCGGCAACGAAGCAGATCAAAGACACCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGTA-CGGCAGCGAAGCAGATCAAAGACACCAGCCTTGTCT
**
8604700 CCCTAGGTTGCAGCGGAGCAGGTTGAAAATAACAGATCTTGCCTTCCTATACTGACAGCGAAGCA
65 CCCT-GGTTGCAGCGGAGCAGGTTGAAAATAGTAGATCTTGCCTTCCTATACTGACAGCGAAGCA
*
8604765 GATCAAAGACACCAATCTTGCCTCCCTAGGTTGCAGTGGAACAGAC
129 GATCAAAGACACCAATCTTGCCTCCCTAGGTTGCAGCGGAACAGAC
** *
8604811 TGAAGATAGCAGATCTTGCCTTCCTGTACCGGCAGCGAAGCAGATCGAAA-ACTTCGGCCTTGTC
1 TGAAGATAGCAGATCTTGCCTTCCTGTA-CGGCAGCGAAGCAGATC-AAAGACACCAGCCTTGTC
** * * * * * *
8604875 TCCCTGAGCAGCAGTGGAGTAGGTTCAAAATAGTAGATCTTACCTTCCTATACTGGCAGTGAAGC
64 TCCCTG-GTTGCAGCGGAGCAGGTTGAAAATAGTAGATCTTGCCTTCCTATACTGACAGCGAAGC
* *
8604940 AGATCGAAGACATCAATCTT
128 AGATCAAAGACACCAATCTT
8604960 ATTGCCTTGA
Statistics
Matches: 288, Mismatches: 34, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
175 1 0.00
176 283 0.98
177 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (174 bp):
TGAAGATAGCAGATCTTGCCTTCCTGTACGGCAGCGAAGCAGATCAAAGACACCAGCCTTGTCTC
CCTGGTTGCAGCGGAGCAGGTTGAAAATAGTAGATCTTGCCTTCCTATACTGACAGCGAAGCAGA
TCAAAGACACCAATCTTGCCTCCCTAGGTTGCAGCGGAACAGAC
Found at i:8605635 original size:19 final size:19
Alignment explanation
Indices: 8605611--8605664 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
8605601 AATCTTCAAG
8605611 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
8605630 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8605649 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
8605665 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:8605640 original size:36 final size:36
Alignment explanation
Indices: 8605600--8605671 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
8605590 TATGGAAACA
8605600 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
8605636 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
8605672 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:8605655 original size:38 final size:40
Alignment explanation
Indices: 8605611--8605687 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
8605601 AATCTTCAAG
8605611 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
8605649 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
8605688 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:8607069 original size:12 final size:12
Alignment explanation
Indices: 8607038--8607070 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8607028 ATGGTAATCC
*
8607038 TAATATAAATAA
1 TAATATATATAA
8607050 TAATATATATAA
1 TAATATATATAA
8607062 TAATATATA
1 TAATATATA
8607071 CAAAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATATATATAA
Found at i:8607154 original size:25 final size:26
Alignment explanation
Indices: 8607120--8607168 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
8607110 TTTAAGAATA
*
8607120 GATATATAAAACAAT-TTAAATAACT
1 GATATATAAAAAAATATTAAATAACT
*
8607145 GATATGTAAAAAAATATTAAATAA
1 GATATATAAAAAAATATTAAATAA
8607169 ATAGTACATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (26 bp):
GATATATAAAAAAATATTAAATAACT
Found at i:8607308 original size:26 final size:26
Alignment explanation
Indices: 8607239--8607324 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
8607229 GGACAATTTA
* * ** *
8607239 AAAATAATTAATATATAAAATAATTT
1 AAAATAAATAATATACAAAGCAACTT
8607265 AAAATGAAATAATATACAAAGCAACTT
1 AAAAT-AAATAATATACAAAGCAACTT
* * *
8607292 AACATAAATAATTTACAAAGCAAGTT
1 AAAATAAATAATATACAAAGCAACTT
8607318 AAAATAA
1 AAAATAA
8607325 TCATATAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 30 0.60
27 20 0.40
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (26 bp):
AAAATAAATAATATACAAAGCAACTT
Found at i:8610090 original size:25 final size:25
Alignment explanation
Indices: 8610042--8610090 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
8610032 CATAATTGAA
* *
8610042 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATGGATTGATTATGAATATT
*
8610067 ATGAAATGTATTGATTATGAATAT
1 ATGAAATGGATTGATTATGAATAT
8610091 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (25 bp):
ATGAAATGGATTGATTATGAATATT
Found at i:8612594 original size:4 final size:4
Alignment explanation
Indices: 8612585--8612609 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8612575 TATTTTCATA
8612585 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
8612610 CTACACATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:8627229 original size:76 final size:75
Alignment explanation
Indices: 8627090--8627371 Score: 325
Period size: 76 Copynumber: 3.7 Consensus size: 75
8627080 GATGTGCACT
* * * * * *
8627090 GCACTAGTAGAATAAATCGACAATGATTTGCGCCCAACACTAATCAGATTAACTGACGATATTAA
1 GCACTAGTCGAATAAATCGACAAAGATTTGC-TCCAACGCTAGTCAGATAAACTGACGATATTAA
*
8627155 TTGCGTGCCCA
65 CTGCGTGCCCA
* * * * * *
8627166 GCATTGGTCGAATAAATCGACAAATATTTGCATCCAACGCTAGCCAGATAAACCGACGTTATTAA
1 GCACTAGTCGAATAAATCGACAAAGATTTGC-TCCAACGCTAGTCAGATAAACTGACGATATTAA
*
8627231 CTGGGTGCCCA
65 CTGCGTGCCCA
* * * *
8627242 GCCCTAGTTGAATAAATCGACAAAGATTTG-TCC-ACGCTAGTCGGATAAACTAACGATATTAAC
1 GCACTAGTCGAATAAATCGACAAAGATTTGCTCCAACGCTAGTCAGATAAACTGACGATATTAAC
*
8627305 TGTGTGCCCA
66 TGCGTGCCCA
* * *
8627315 GCACTAGTCAAATAAATCGACAAAGATTTGCGCCTAGCGCTAGTCAGATAAACTGAC
1 GCACTAGTCGAATAAATCGACAAAGATTTGCTCC-AACGCTAGTCAGATAAACTGAC
8627372 AATCACATAC
Statistics
Matches: 170, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
73 61 0.36
74 5 0.03
76 104 0.61
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (75 bp):
GCACTAGTCGAATAAATCGACAAAGATTTGCTCCAACGCTAGTCAGATAAACTGACGATATTAAC
TGCGTGCCCA
Found at i:8627313 original size:73 final size:76
Alignment explanation
Indices: 8627038--8627368 Score: 288
Period size: 76 Copynumber: 4.5 Consensus size: 76
8627028 ATAAGCCGTA
* * * * *
8627038 ACAAAGTTTTACGCCTAGCGCTAGTCAGATAAACCAAC---ATTAGA-T--GTGCACTGCACTAG
1 ACAAAGATTTGCGCCTAGCGCTAGTCAGATAAACTAACGATATTA-ACTGGGTGCCCAGCACTAG
8627097 T-AGAATAAATCG
65 TCA-AATAAATCG
* * * * * * * * * * *
8627109 ACAATGATTTGCGCCCAACACTAATCAGATTAACTGACGATATTAATTGCGTGCCCAGCATTGGT
1 ACAAAGATTTGCGCCTAGCGCTAGTCAGATAAACTAACGATATTAACTGGGTGCCCAGCACTAGT
*
8627174 CGAATAAATCG
66 CAAATAAATCG
* * * * ** * *
8627185 ACAAATATTTGCATCC-AACGCTAGCCAGATAAACCGACGTTATTAACTGGGTGCCCAGCCCTAG
1 ACAAAGATTTGC-GCCTAGCGCTAGTCAGATAAACTAACGATATTAACTGGGTGCCCAGCACTAG
**
8627249 TTGAATAAATCG
65 TCAAATAAATCG
* * *
8627261 ACAAAGATTTG-TCC-A-CGCTAGTCGGATAAACTAACGATATTAACTGTGTGCCCAGCACTAGT
1 ACAAAGATTTGCGCCTAGCGCTAGTCAGATAAACTAACGATATTAACTGGGTGCCCAGCACTAGT
8627323 CAAATAAATCG
66 CAAATAAATCG
8627334 ACAAAGATTTGCGCCTAGCGCTAGTCAGATAAACT
1 ACAAAGATTTGCGCCTAGCGCTAGTCAGATAAACT
8627369 GACAATCACA
Statistics
Matches: 207, Mismatches: 42, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
71 28 0.14
73 61 0.29
74 11 0.05
75 1 0.00
76 104 0.50
77 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (76 bp):
ACAAAGATTTGCGCCTAGCGCTAGTCAGATAAACTAACGATATTAACTGGGTGCCCAGCACTAGT
CAAATAAATCG
Found at i:8627329 original size:149 final size:151
Alignment explanation
Indices: 8627093--8627367 Score: 358
Period size: 149 Copynumber: 1.8 Consensus size: 151
8627083 GTGCACTGCA
* * * *
8627093 CTAGTAGAATAAATCGACAATGATTTGCGCCCAACACTAATCAGATTAACTGACGATATTAATTG
1 CTAGTAGAATAAATCGACAAAGATTT-CGCCCAACACTAATCAGATAAACTAACGATATTAACTG
* * * * *
8627158 CGTGCCCAGCATTGGTCGAATAAATCGACAAATATTTGCATCC-AACGCTAGCCAGATAAACCGA
65 CGTGCCCAGCACTAGTCAAATAAATCGACAAAGATTTGC-GCCTAACGCTAGCCAGATAAACCGA
8627222 CGTTATTAACTGGGTGCCCAGCC
129 CGTTATTAACTGGGTGCCCAGCC
* * * * * *
8627245 CTAGTTGAATAAATCGACAAAGATTT-GTCC-ACGCTAGTCGGATAAACTAACGATATTAACTGT
1 CTAGTAGAATAAATCGACAAAGATTTCGCCCAACACTAATCAGATAAACTAACGATATTAACTGC
* *
8627308 GTGCCCAGCACTAGTCAAATAAATCGACAAAGATTTGCGCCTAGCGCTAGTCAGATAAAC
66 GTGCCCAGCACTAGTCAAATAAATCGACAAAGATTTGCGCCTAACGCTAGCCAGATAAAC
8627368 TGACAATCAC
Statistics
Matches: 105, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
148 2 0.02
149 76 0.72
150 3 0.03
152 24 0.23
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (151 bp):
CTAGTAGAATAAATCGACAAAGATTTCGCCCAACACTAATCAGATAAACTAACGATATTAACTGC
GTGCCCAGCACTAGTCAAATAAATCGACAAAGATTTGCGCCTAACGCTAGCCAGATAAACCGACG
TTATTAACTGGGTGCCCAGCC
Found at i:8630063 original size:21 final size:21
Alignment explanation
Indices: 8630037--8630092 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
8630027 AACAGCGGTG
*
8630037 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
8630058 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
8630079 TCAGTGAGATTAGA
1 GCGGTGAGATTAGA
8630093 AACAGCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.09, G:0.32, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:8633019 original size:25 final size:25
Alignment explanation
Indices: 8632960--8633020 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
8632950 AGAATATGCT
8632960 AAGAA-GAGAA-G-ATGAAGAACAG
1 AAGAAGGAGAAGGAATGAAGAACAG
* * *
8632982 AAGAAGAAAAAGGAATGAAGAACGG
1 AAGAAGGAGAAGGAATGAAGAACAG
8633007 AAGAAGGAGAAGGA
1 AAGAAGGAGAAGGA
8633021 GCCTTACCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 5 0.16
23 3 0.10
24 1 0.03
25 22 0.71
ACGTcount: A:0.59, C:0.03, G:0.34, T:0.03
Consensus pattern (25 bp):
AAGAAGGAGAAGGAATGAAGAACAG
Found at i:8633095 original size:6 final size:6
Alignment explanation
Indices: 8633080--8633126 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
8633070 TTTGCAACCC
* * * *
8633080 AAGGGG AAGGGA AAGGGA AGGGGA AGGGGA AGGGGA AAGGGA AAGGG
1 AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGGA AAGGG
8633127 GAGAAGAAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (6 bp):
AAGGGA
Found at i:8633100 original size:17 final size:17
Alignment explanation
Indices: 8633080--8633113 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8633070 TTTGCAACCC
8633080 AAGGGGAAGGGAAAGGG
1 AAGGGGAAGGGAAAGGG
*
8633097 AAGGGGAAGGGGAAGGG
1 AAGGGGAAGGGAAAGGG
8633114 GAAAGGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (17 bp):
AAGGGGAAGGGAAAGGG
Found at i:8633103 original size:12 final size:12
Alignment explanation
Indices: 8633083--8633128 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
8633073 GCAACCCAAG
8633083 GGGAA-GGGAAA
1 GGGAAGGGGAAA
*
8633094 GGGAAGGGGAAG
1 GGGAAGGGGAAA
8633106 GGGAAGGGGAAA
1 GGGAAGGGGAAA
8633118 GGGAAAGGGGA
1 GGG-AAGGGGA
8633129 GAAGAAGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 5 0.16
12 19 0.61
13 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (12 bp):
GGGAAGGGGAAA
Found at i:8633115 original size:18 final size:19
Alignment explanation
Indices: 8633080--8633128 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
8633070 TTTGCAACCC
8633080 AAGGGGAA-GGGAAAGGG-
1 AAGGGGAAGGGGAAAGGGA
*
8633097 AAGGGGAAGGGGAAGGGGA
1 AAGGGGAAGGGGAAAGGGA
*
8633116 AAGGGAAAGGGGA
1 AAGGGGAAGGGGA
8633129 GAAGAAGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.29
18 8 0.29
19 12 0.43
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (19 bp):
AAGGGGAAGGGGAAAGGGA
Found at i:8633135 original size:24 final size:24
Alignment explanation
Indices: 8633088--8633136 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
8633078 CCAAGGGGAA
**
8633088 GGGAAAGGGAAGGGGAAGGGGAAG
1 GGGAAAGGGAAGGGGAAGAAGAAG
8633112 GGGAAAGGGAAAGGGG-AGAAGAAG
1 GGGAAAGGG-AAGGGGAAGAAGAAG
8633136 G
1 G
8633137 TAACAGACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (24 bp):
GGGAAAGGGAAGGGGAAGAAGAAG
Found at i:8641979 original size:14 final size:14
Alignment explanation
Indices: 8641957--8641986 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8641947 CCATGTTACA
*
8641957 TAAACTCACTTCAT
1 TAAAATCACTTCAT
8641971 TAAAATCACTTCAT
1 TAAAATCACTTCAT
8641985 TA
1 TA
8641987 CCTNNNNNNN
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATCACTTCAT
Found at i:8648702 original size:22 final size:24
Alignment explanation
Indices: 8648650--8648703 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
8648640 TTTTTTAAGA
8648650 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
8648675 TGAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
8648697 TTAAATT
1 TTAAATT
8648704 GAATCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:8649796 original size:17 final size:17
Alignment explanation
Indices: 8649774--8649808 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8649764 ATAAAGCTCG
8649774 TTATGGTTGGATGCACA
1 TTATGGTTGGATGCACA
8649791 TTATGGTTGGATGCACA
1 TTATGGTTGGATGCACA
8649808 T
1 T
8649809 GAAGTTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (17 bp):
TTATGGTTGGATGCACA
Found at i:8654297 original size:22 final size:22
Alignment explanation
Indices: 8654253--8654302 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
8654243 TAATAAGGGC
* *
8654253 AAAAATAAAATAAGATAAATAA
1 AAAAATAAAACAAGACAAATAA
* *
8654275 AAAAATAAAACAAGCCAATTAA
1 AAAAATAAAACAAGACAAATAA
8654297 ATAAAA
1 A-AAAA
8654303 AGAAATAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (22 bp):
AAAAATAAAACAAGACAAATAA
Found at i:8654435 original size:15 final size:15
Alignment explanation
Indices: 8654415--8654445 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8654405 TTTTTTTTAA
8654415 AATGATAAAAATAAT
1 AATGATAAAAATAAT
*
8654430 AATGATAATAATAAT
1 AATGATAAAAATAAT
8654445 A
1 A
8654446 GTAATAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AATGATAAAAATAAT
Found at i:8656290 original size:44 final size:44
Alignment explanation
Indices: 8656242--8656332 Score: 110
Period size: 44 Copynumber: 2.1 Consensus size: 44
8656232 CCTCAGAGGT
* * *
8656242 ATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAG
1 ATAGGATTCATCGCTTCAATCCGCTCCACTGCAACTTCAGGAAG
** * * *
8656286 ATAGGATTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAG
1 ATAGGATTCATCGCTTCAATCCGCTCCACTGCAACTTCAGGAAG
8656330 ATA
1 ATA
8656333 ATATCCGCCA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
ATAGGATTCATCGCTTCAATCCGCTCCACTGCAACTTCAGGAAG
Found at i:8656449 original size:143 final size:143
Alignment explanation
Indices: 8656264--8656719 Score: 648
Period size: 143 Copynumber: 3.2 Consensus size: 143
8656254 GTTTTAATCC
* *
8656264 GCTCCACTGCAACTTCAGGGAGAT-AGGATTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGG-CTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* * *
8656328 AGATAATATCCGCCATAATTTGTAGCATTAATCTATTCCACTGTAACGCCAGGGAAATAAGATTC
65 AGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGTAACGCCAGGGAAATAAGATTC
8656393 GCTGTCTTCAGTTT
130 GCTGTCTTCAGTTT
* * * * *
8656407 GCTCCGCTGCAACTTCAGAGAGATAAGGCCGGTGGCTTCAATCTGCTCCATTGCAACTTTAGGAA
1 GCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAA
* * *
8656472 GATAAGATCCGCCATAATTTGTAACTTTAATTTGTTCCA-TTTCAACGCCAGGGAAATAAGATTC
66 GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGT-AACGCCAGGGAAATAAGATTC
* *
8656536 GTTGTTTTCAGTTT
130 GCTGTCTTCAGTTT
* *
8656550 GCTCCGCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAA
1 GCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAA
* * * * *
8656615 GATAAGATCCACCATAATTTGTAGCTTTCATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCG
66 GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGTAACGCCAGGGAAATAAGATTCG
*
8656680 CTGTCTTCAGTCT
131 CTGTCTTCAGTTT
*
8656693 GCTCCACTGTAACTTCA-GGATGATAAG
1 GCTCCACTGCAACTTCAGGGA-GATAAG
8656720 ATCTGTCATA
Statistics
Matches: 277, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
142 5 0.02
143 268 0.97
144 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (143 bp):
GCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAA
GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGTAACGCCAGGGAAATAAGATTCG
CTGTCTTCAGTTT
Found at i:8656718 original size:99 final size:99
Alignment explanation
Indices: 8656585--8656806 Score: 320
Period size: 99 Copynumber: 2.2 Consensus size: 99
8656575 AGGCTGGTGG
* * *
8656585 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTCATCTGT
1 CTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGC
8656650 TCCACTGCAACGCTAAG-GAAATAAGATTCGCTGT
66 TCCACTGCAACGC-AAGAGAAATAAGATTCGCTGT
* * ***
8656684 CTTCAGTCTGCTCCACTGTAACTTCAGGATGATAAGATCTGTCATAATTTGTAGCTTTAATCTGC
1 CTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGC
* *
8656749 TCCACTGTAACGCCAGAGAAATAAGATTCGCTGT
66 TCCACTGCAACGCAAGAGAAATAAGATTCGCTGT
* *
8656783 CTTCAGTCTACTCCGCTGCAACTT
1 CTTCAGTCTGCTCCACTGCAACTT
8656807 ATCAGCCTAA
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
98 2 0.02
99 107 0.98
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (99 bp):
CTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGATCCACCATAATTTGTAGCTTTAATCTGC
TCCACTGCAACGCAAGAGAAATAAGATTCGCTGT
Found at i:8661545 original size:3 final size:3
Alignment explanation
Indices: 8661537--8661641 Score: 210
Period size: 3 Copynumber: 35.0 Consensus size: 3
8661527 ACTAGTGACA
8661537 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8661585 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8661633 TAT TAT TAT
1 TAT TAT TAT
8661642 AGTAGGGAAA
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8663967 original size:20 final size:19
Alignment explanation
Indices: 8663942--8663994 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
8663932 TAGAAAACTC
8663942 AAAAATAT-AAAATTATTTTT
1 AAAAATATAAAAATTA--TTT
8663962 AAAAAT-TAAAAATTATTT
1 AAAAATATAAAAATTATTT
8663980 AAAAAGTATAAAAAT
1 AAAAA-TATAAAAAT
8663995 GATAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.27
19 2 0.07
20 20 0.67
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AAAAATATAAAAATTATTT
Found at i:8668226 original size:43 final size:43
Alignment explanation
Indices: 8668165--8668394 Score: 370
Period size: 43 Copynumber: 5.3 Consensus size: 43
8668155 GTGTCGCTAA
8668165 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* *
8668208 CTTTAGCGGCACTTTTCCCACAAACGCTGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* ** *
8668251 CTTTAGCGGCGCTTTTTCCACAAACGCTACTAAAGACCAGAAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
* *
8668294 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
*
8668337 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
*
8668380 CTTTAGCGACGCTTT
1 CTTTAGCGGCGCTTT
8668395 CTCCAAAAAC
Statistics
Matches: 175, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 175 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
Found at i:8668321 original size:129 final size:129
Alignment explanation
Indices: 8668165--8668414 Score: 410
Period size: 129 Copynumber: 1.9 Consensus size: 129
8668155 GTGTCGCTAA
* *
8668165 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCACTTTTCCCACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCAAGACCTTTAGCGGCACTTTTCCCACA
* * * * * * *
8668230 AACGCTGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTCCACAAACGCTACTAAAGACCAGAAC
66 AACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTCTCCAAAAACACCACTAAAGACCAGAAC
*
8668294 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCAAGACCTTTAGCGGCACTTTTCCCACA
8668359 AACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTCTCCAAAAACACCACTAAAG
66 AACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTCTCCAAAAACACCACTAAAG
8668415 GTCACAAAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 111 1.00
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.20
Consensus pattern (129 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCAAGACCTTTAGCGGCACTTTTCCCACA
AACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTCTCCAAAAACACCACTAAAGACCAGAAC
Found at i:8669055 original size:23 final size:23
Alignment explanation
Indices: 8669021--8669258 Score: 179
Period size: 23 Copynumber: 10.4 Consensus size: 23
8669011 AATGGAAAGT
*
8669021 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
8669044 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
8669067 AACAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
8669090 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
8669113 AGCATTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
8669136 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
8669158 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
8669181 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
8669204 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
8669227 AGCATTTAAACACTTAAATTTGA-
1 AGCACTTAAACACTTCAATTT-AC
8669250 AGCACTTAA
1 AGCACTTAA
8669259 CATATCAATT
Statistics
Matches: 173, Mismatches: 28, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
22 20 0.12
23 149 0.86
24 4 0.02
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:8669123 original size:46 final size:46
Alignment explanation
Indices: 8669021--8669258 Score: 204
Period size: 46 Copynumber: 5.2 Consensus size: 46
8669011 AATGGAAAGT
* *
8669021 AGCACTTTAACACTTCAATTTACAGCGA-TAAAACA-TCTCAATTTGC
1 AGCACTTAAACACTTCAATTTACAGC-ACTTAAACACT-TCAATTTGC
* *
8669067 AACAAC-TAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTGC
* * * * * * *
8669113 AGCATTTAAACA-TATCAATTAACAACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACT-TCAATTTACAGCACTTAAACACTTCAATTTGC
* * *
8669158 AGCGA-TAAAACA-TCTCAATTTCCAGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTACAGC-ACTTAAACACTTCAATTTGC
* * *
8669204 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGA
1 AGCACTTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTGC
8669250 AGCACTTAA
1 AGCACTTAA
8669259 CATATCAATT
Statistics
Matches: 152, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
45 36 0.24
46 112 0.74
47 4 0.03
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (46 bp):
AGCACTTAAACACTTCAATTTACAGCACTTAAACACTTCAATTTGC
Found at i:8669199 original size:68 final size:68
Alignment explanation
Indices: 8669076--8669289 Score: 181
Period size: 68 Copynumber: 3.1 Consensus size: 68
8669066 CAACAACTAA
* * * *
8669076 ACACTTCAATTTGCAGCACTT-AAACACTTCAATTTGC-AGCATTTAAACATATCAATTAACAAC
1 ACACCTCAATTTACAGCA-TTAAAACACTTAAATTT-CAAGCACTT-AACATATCAATTAACAAC
8669139 ATTTAT
63 ATTTAT
* * **
8669145 ACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTCCAGCAAC-TAA-ATACTTCAATTTGCA
1 ACACCTCAATTTACAGC-ATTAAAACACT-TAAATTTCAAGC-ACTTAACATA--TCAATTAACA
* * *
8669205 GCACTTAA
61 ACATTTAT
* * *
8669213 ACACTTCAATTTACAGCATTTAAACACTTAAATTTGAAGCACTTAACATATCAATTAACAACATT
1 ACACCTCAATTTACAGCATTAAAACACTTAAATTTCAAGCACTTAACATATCAATTAACAACATT
8669278 TAT
66 TAT
8669281 ACACCTCAA
1 ACACCTCAA
8669290 NNNNNNNNNN
Statistics
Matches: 114, Mismatches: 19, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
66 3 0.03
67 5 0.04
68 67 0.59
69 35 0.31
70 4 0.04
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (68 bp):
ACACCTCAATTTACAGCATTAAAACACTTAAATTTCAAGCACTTAACATATCAATTAACAACATT
TAT
Found at i:8669289 original size:114 final size:114
Alignment explanation
Indices: 8669030--8669246 Score: 301
Period size: 114 Copynumber: 1.9 Consensus size: 114
8669020 TAGCACTTTA
* * * *
8669030 ACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAACAACTAAACACTTCAATTTGCAGCAC
1 ACACATCAA-TTACAACGATAAAACACCTCAATTTCCAACAACTAAACACTTCAATTTGCAGCAC
* * *
8669095 TTAAACACTTCAATTTGCAGCATTTAAACATATCAATTAACAACATTTAT
65 TTAAACACTTCAATTTACAGCATTTAAACATATAAATTAACAACACTTAT
* * * * *
8669145 ACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCAGCACT
1 ACACATCAATTACAACGATAAAACACCTCAATTTCCAACAACTAAACACTTCAATTTGCAGCACT
8669210 TAAACACTTCAATTTACAGCATTTAAACACT-TAAATT
66 TAAACACTTCAATTTACAGCATTTAAACA-TATAAATT
8669247 TGAAGCACTT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
114 86 0.91
115 9 0.09
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.30
Consensus pattern (114 bp):
ACACATCAATTACAACGATAAAACACCTCAATTTCCAACAACTAAACACTTCAATTTGCAGCACT
TAAACACTTCAATTTACAGCATTTAAACATATAAATTAACAACACTTAT
Found at i:8679890 original size:53 final size:52
Alignment explanation
Indices: 8679811--8679917 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 52
8679801 GATTTGCTTC
8679811 CTAAAAAAAAAAAGGACTTTGGAGAGGCTAAGGTGAAAACCCGTAAAGGGCA
1 CTAAAAAAAAAAAGGACTTTGGAGAGGCTAAGGTGAAAACCCGTAAAGGGCA
8679863 CTAAAAAAAAAAAGGGACTTTGGAGAGGCTAAGGTGAAAACCCGTAAAGGGCA
1 CTAAAAAAAAAAA-GGACTTTGGAGAGGCTAAGGTGAAAACCCGTAAAGGGCA
8679916 CT
1 CT
8679918 TTGAGACCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 13 0.24
53 41 0.76
ACGTcount: A:0.45, C:0.14, G:0.27, T:0.14
Consensus pattern (52 bp):
CTAAAAAAAAAAAGGACTTTGGAGAGGCTAAGGTGAAAACCCGTAAAGGGCA
Found at i:8681393 original size:44 final size:44
Alignment explanation
Indices: 8681345--8681494 Score: 153
Period size: 44 Copynumber: 3.4 Consensus size: 44
8681335 CCAGAAATCC
8681345 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
* ** * **** *
8681389 TATCTCCCTG-AGATTACAGCGGAGC-AGA-TCGAAGACCCTATCC
1 TATCTCCCTGAAG-TTACAGTGGAGCGA-ATTAAAATAAAGGATCT
*
8681432 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
* *
8681476 TATCTCTCTGAGGTTACAG
1 TATCTCCCTGAAGTTACAG
8681495 CAGAGTAGAT
Statistics
Matches: 80, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
43 32 0.40
44 48 0.60
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCT
Found at i:8681467 original size:87 final size:86
Alignment explanation
Indices: 8681127--8681506 Score: 357
Period size: 87 Copynumber: 4.4 Consensus size: 86
8681117 AAAAATTGCA
* **
8681127 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA-ATATAGTAATCCTATCTCCCTGAAGTT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAGA-CCA-T-ATCCTATCTCCCTGAAGTT
*
8681191 ACAATGGAGCGGA-T----TAAAG
63 ACAGTGGAGCGGATTAAAATAAAG
* ** * ** * *
8681210 GATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCG-CACCAGGTCTTATTTCCCTG-AGATTA
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAGACCATATCCTATCTCCCTGAAG-TTA
* * * **
8681272 CAGTGGAACAGACTAAAAATTTCA-
64 CAGTGGAGCGGA-TTAAAA-TAAAG
* * * *
8681296 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAGGCCAGAAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAGACC--ATATCCTATCTCCCTGAAGTTA
*
8681361 CAGTGGAGCGAATTAAAATAAAG
64 CAGTGGAGCGGATTAAAATAAAG
*
8681384 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACCCTATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG-AGACCATATCCTATCTCCCTGAAGTTAC
8681449 AGTGGAGCGGATTAAAATAAAG
65 AGTGGAGCGGATTAAAATAAAG
* * * *
8681471 GATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
8681507 CATCAGGTCT
Statistics
Matches: 239, Mismatches: 41, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
79 2 0.01
80 23 0.10
82 2 0.01
83 31 0.13
86 32 0.13
87 80 0.33
88 39 0.16
89 28 0.12
90 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (86 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAGACCATATCCTATCTCCCTGAAGTTACA
GTGGAGCGGATTAAAATAAAG
Found at i:8686330 original size:83 final size:83
Alignment explanation
Indices: 8686191--8686358 Score: 300
Period size: 83 Copynumber: 2.0 Consensus size: 83
8686181 CTCTAGTAGC
*
8686191 TCGATATATCCTTAAGCGGTTTGCGTTTGGATCAATGATGTGAATATATGAAAATGATGAATTAG
1 TCGATATATCCTTAAGCGGTTTGCGTTTGGATCAATGATGTGAATATATGAAAATGACGAATTAG
*
8686256 AGAAATAGATTGTATGTA
66 AGAAATAGACTGTATGTA
* *
8686274 TCGATATATCCTTGAGCGGTTTGCGTTTGGATCGATGATGTGAATATATGAAAATGACGAATTAG
1 TCGATATATCCTTAAGCGGTTTGCGTTTGGATCAATGATGTGAATATATGAAAATGACGAATTAG
8686339 AGAAATAGACTGTATGTA
66 AGAAATAGACTGTATGTA
8686357 TC
1 TC
8686359 ACTATCCACA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (83 bp):
TCGATATATCCTTAAGCGGTTTGCGTTTGGATCAATGATGTGAATATATGAAAATGACGAATTAG
AGAAATAGACTGTATGTA
Found at i:8686963 original size:21 final size:23
Alignment explanation
Indices: 8686926--8686969 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
8686916 TAAAAAAAAC
8686926 ATATTTATATCATTTTTAATTTA
1 ATATTTATATCATTTTTAATTTA
*
8686949 ATATTTA-AT-ATTTTTCATTTA
1 ATATTTATATCATTTTTAATTTA
8686970 TTAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 2 0.10
23 7 0.35
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (23 bp):
ATATTTATATCATTTTTAATTTA
Found at i:8690135 original size:23 final size:22
Alignment explanation
Indices: 8690091--8690154 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
8690081 ATGTATAGTG
8690091 CCAGAATGATTTGCAC-TAAAGTA
1 CCAGAATGA-TTGCACAT-AAGTA
* *
8690114 TCGGAATGAATTGCACATAAGTA
1 CCAGAATG-ATTGCACATAAGTA
8690137 CCAGAATG-TTGCACATAA
1 CCAGAATGATTGCACATAA
8690155 ATGCCAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 10 0.29
23 23 0.66
24 2 0.06
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (22 bp):
CCAGAATGATTGCACATAAGTA
Found at i:8693945 original size:18 final size:18
Alignment explanation
Indices: 8693924--8693958 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8693914 AAAAAATAAA
* *
8693924 AAATTTATAAATTTATAT
1 AAATATATAAATATATAT
8693942 AAATATATAAATATATA
1 AAATATATAAATATATA
8693959 AAAGAACTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATATAAATATATAT
Found at i:8693953 original size:26 final size:26
Alignment explanation
Indices: 8693907--8693960 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
8693897 ATAAGACATT
*
8693907 AATTTATAAAAAATAAAAAATTTATA
1 AATTTATAAAAAATAAAAAATATATA
* *
8693933 AATTTAT-ATAAATATATAAATATATA
1 AATTTATAAAAAATA-AAAAATATATA
8693959 AA
1 AA
8693961 AGAACTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AATTTATAAAAAATAAAAAATATATA
Found at i:8697284 original size:16 final size:16
Alignment explanation
Indices: 8697259--8697311 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
8697249 TTGGTTCGCT
*
8697259 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
*
8697275 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
8697291 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
8697307 GTAAT
1 GTAAT
8697312 AGGTAATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.06, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:8697380 original size:44 final size:46
Alignment explanation
Indices: 8697292--8697380 Score: 155
Period size: 46 Copynumber: 2.0 Consensus size: 46
8697282 AATAGATGCG
*
8697292 TAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATA
1 TAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATA
8697338 TAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 TAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
8697381 GGAATAGAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 19 0.45
45 3 0.07
46 20 0.48
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.39
Consensus pattern (46 bp):
TAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATA
Found at i:8697382 original size:39 final size:42
Alignment explanation
Indices: 8697293--8697397 Score: 135
Period size: 46 Copynumber: 2.5 Consensus size: 42
8697283 ATAGATGCGT
*
8697293 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATA
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG---A
8697338 TAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTG-
1 -AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGA
*
8697378 AATGGAATAGAGGTGTAATA
1 AATGGAATAGAGGCGTAATA
8697398 ACATAAGGAA
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
39 18 0.32
44 16 0.29
45 3 0.05
46 19 0.34
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (42 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGA
Found at i:8697560 original size:15 final size:15
Alignment explanation
Indices: 8697540--8697578 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
8697530 CATAATTGTT
8697540 ATAAAATATAATTTA
1 ATAAAATATAATTTA
8697555 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
8697572 ATAAAAT
1 ATAAAAT
8697579 TTTAATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:8697567 original size:17 final size:17
Alignment explanation
Indices: 8697545--8697578 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8697535 TTGTTATAAA
8697545 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8697562 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8697579 TTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8697701 original size:17 final size:17
Alignment explanation
Indices: 8697661--8697694 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8697651 TTATTATTAA
8697661 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8697678 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8697695 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8697748 original size:117 final size:116
Alignment explanation
Indices: 8697525--8698013 Score: 773
Period size: 117 Copynumber: 4.3 Consensus size: 116
8697515 TTAATCATAT
* * *
8697525 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTTTAATAAATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTTTAATAAATA
*
8697590 TTCTTATATGAATTTACTAATAAAACCATAATATATGATACTAAAATATAA
66 TTCTTATATGAATTTACTAATAAAACCATAATATATAATACTAAAATATAA
8697641 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATT-TTAATAAAT
*
8697706 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
65 ATTCTTATATGAATTTACTAATAAAACCATAATATATAATACTAAAATATAA
* * *
8697758 TTTAACATAATTGTTATAAAATATAATTTAATAAAATATATAATTTAATAAAATTGTTAATAAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATT-TTAATAAAT
*
8697823 ATTCTTATATGAATTTACTAATAAAATCATAATATATAATACTAAAATATAA
65 ATTCTTATATGAATTTACTAATAAAACCATAATATATAATACTAAAATATAA
*
8697875 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA--TT-CT---T
1 TTTAAAATAATTATTATTAAATATAATTTAATAA-AATATATAATTTAATAAAATTTTAATAAAT
8697934 ATTCTTATATGAATTTAC---TAAAACCATAATATATAATACTATAAAATATAA
65 ATTCTTATATGAATTTACTAATAAAACCATAATATATAATAC--TAAAATATAA
8697985 TTT-AAATAATTATTATTAAATATAATTTA
1 TTTAAAATAATTATTATTAAATATAATTTA
8698014 TAATCTACTT
Statistics
Matches: 356, Mismatches: 13, Indels: 15
0.93 0.03 0.04
Matches are distributed among these distances:
108 20 0.06
109 26 0.07
110 13 0.04
111 19 0.05
114 1 0.00
115 2 0.01
116 52 0.15
117 204 0.57
118 19 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (116 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTTTAATAAATA
TTCTTATATGAATTTACTAATAAAACCATAATATATAATACTAAAATATAA
Found at i:8697793 original size:15 final size:15
Alignment explanation
Indices: 8697773--8697811 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
8697763 CATAATTGTT
8697773 ATAAAATATAATTTA
1 ATAAAATATAATTTA
8697788 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
8697805 ATAAAAT
1 ATAAAAT
8697812 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:8697818 original size:17 final size:17
Alignment explanation
Indices: 8697778--8697811 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8697768 TTGTTATAAA
8697778 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8697795 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8697812 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8697883 original size:20 final size:21
Alignment explanation
Indices: 8697844--8697883 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8697834 AATTTACTAA
*
8697844 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
8697865 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
8697884 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:8697896 original size:26 final size:28
Alignment explanation
Indices: 8697851--8697930 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
8697841 TAATAAAATC
8697851 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
8697881 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
8697908 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
8697931 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:8698009 original size:32 final size:32
Alignment explanation
Indices: 8697973--8698036 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
8697963 TATATAATAC
*
8697973 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
8698005 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
8698037 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:8700478 original size:29 final size:29
Alignment explanation
Indices: 8700457--8700515 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8700447 CATTTTGATG
8700457 TATTTTGATGTATTTCAATCATTATCGAT
1 TATTTTGATGTATTTCAATCATTATCGAT
8700486 TATTTTGATGTATTTCAATCATTATCGAT
1 TATTTTGATGTATTTCAATCATTATCGAT
8700515 T
1 T
8700516 TATATAGTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (29 bp):
TATTTTGATGTATTTCAATCATTATCGAT
Found at i:8710555 original size:3 final size:3
Alignment explanation
Indices: 8710549--8710608 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
8710539 GGTTTTGGCG
* * *
8710549 CTT CTT CTT -TGT CTT CTT CTT CTT CAT CAT CAT CTT CTT CTT CTT
1 CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
8710594 CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT
8710609 GCTGTTGTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 1 0.02
3 51 0.96
4 1 0.02
ACGTcount: A:0.05, C:0.32, G:0.02, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:8711693 original size:48 final size:49
Alignment explanation
Indices: 8711639--8711738 Score: 139
Period size: 49 Copynumber: 2.1 Consensus size: 49
8711629 TGTTTACACA
* * * *
8711639 TTTTATCAATTTGGTCTTGAACT-AAAAATTCAATAATTTTAGCCCTCG
1 TTTTATCAATTTGATCCTAAAATCAAAAATTCAATAATTTTAGCCCTCG
* *
8711687 TTTTATCAATTTGATCCTAAAATCAATAATTCAATAATTTTAGCCCTTG
1 TTTTATCAATTTGATCCTAAAATCAAAAATTCAATAATTTTAGCCCTCG
8711736 TTT
1 TTT
8711739 ATAAAGTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
48 19 0.42
49 26 0.58
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (49 bp):
TTTTATCAATTTGATCCTAAAATCAAAAATTCAATAATTTTAGCCCTCG
Found at i:8718576 original size:13 final size:13
Alignment explanation
Indices: 8718558--8718600 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
8718548 TAGGTTTTTT
8718558 CTAAATATTATCA
1 CTAAATATTATCA
8718571 CTAAATA--ATC-
1 CTAAATATTATCA
*
8718581 CTAAATATTATTA
1 CTAAATATTATCA
8718594 CTAAATA
1 CTAAATA
8718601 ATTCAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
12 2 0.08
13 14 0.54
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:8718588 original size:23 final size:23
Alignment explanation
Indices: 8718558--8718602 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
8718548 TAGGTTTTTT
8718558 CTAAATATTATCACTAAATAATC
1 CTAAATATTATCACTAAATAATC
*
8718581 CTAAATATTATTACTAAATAAT
1 CTAAATATTATCACTAAATAAT
8718603 TCAAATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATC
Found at i:8720693 original size:18 final size:20
Alignment explanation
Indices: 8720672--8720712 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 20
8720662 AAACATATTC
8720672 TAAAATGTAA-AAAAT-AAA
1 TAAAATGTAAGAAAATAAAA
*
8720690 T-AAATTTAAGAAAATAAAA
1 TAAAATGTAAGAAAATAAAA
8720709 TAAA
1 TAAA
8720713 TGGATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 4 0.21
20 2 0.11
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (20 bp):
TAAAATGTAAGAAAATAAAA
Found at i:8721569 original size:13 final size:13
Alignment explanation
Indices: 8721551--8721616 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
8721541 TAGATTTTTT
8721551 CTAAATATTATCA
1 CTAAATATTATCA
8721564 CTAAATA--AT-A
1 CTAAATATTATCA
*
8721574 CTAAATATTTTCA
1 CTAAATATTATCA
8721587 CTAAATAATT-T--
1 CTAAAT-ATTATCA
8721598 -TAAATATTATCA
1 CTAAATATTATCA
8721610 CTAAATA
1 CTAAATA
8721617 ATTCAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
9 3 0.07
10 14 0.32
11 2 0.05
12 1 0.02
13 21 0.48
14 3 0.07
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:8721619 original size:23 final size:23
Alignment explanation
Indices: 8721549--8721624 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
8721539 GCTAGATTTT
8721549 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
* *
8721572 TACTAAATATTTTCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
*
8721595 TTTTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
8721618 TTC-AAAT
1 TTCTAAAT
8721625 TTTAAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 4 0.09
23 43 0.91
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAATAA
Found at i:8725378 original size:18 final size:18
Alignment explanation
Indices: 8725332--8725371 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
8725322 CAAATAATTA
* *
8725332 TTATAAATTTAAAATTTT
1 TTATAATTTTTAAATTTT
8725350 TTATAATTTTTAAATTTT
1 TTATAATTTTTAAATTTT
8725368 TTAT
1 TTAT
8725372 GTTTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATAATTTTTAAATTTT
Found at i:8725388 original size:10 final size:10
Alignment explanation
Indices: 8725339--8725388 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
8725329 TTATTATAAA
*
8725339 TTTAAAATTT
1 TTTATAATTT
8725349 TTTATAA-TT
1 TTTATAATTT
8725358 TTTA-AATTT
1 TTTATAATTT
**
8725367 TTTATGTTTTT
1 TTTAT-AATTT
8725378 TTTATAATTT
1 TTTATAATTT
8725388 T
1 T
8725389 AGAATGAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
8 2 0.06
9 12 0.38
10 10 0.31
11 8 0.25
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATAATTT
Found at i:8734274 original size:37 final size:38
Alignment explanation
Indices: 8734176--8734279 Score: 111
Period size: 39 Copynumber: 2.7 Consensus size: 38
8734166 AGGCACTTAT
* * * *
8734176 GTGCCGACTACTTTTACTGTTACCGATTCGGCACTTTGT
1 GTGCCGAATACTGTTACTGTTACCGATTCGACAC-TTGC
* * *
8734215 GTGTCGAATATTGTTACTGTTACCGATTTGACAC-TGC
1 GTGCCGAATACTGTTACTGTTACCGATTCGACACTTGC
* *
8734252 GTGCCGAATACTGTTACCGTTACTGATT
1 GTGCCGAATACTGTTACTGTTACCGATT
8734280 ACTGTTTACT
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
37 26 0.48
39 28 0.52
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (38 bp):
GTGCCGAATACTGTTACTGTTACCGATTCGACACTTGC
Found at i:8738430 original size:152 final size:152
Alignment explanation
Indices: 8738154--8738457 Score: 590
Period size: 152 Copynumber: 2.0 Consensus size: 152
8738144 CACTTTGGTC
8738154 CCAAAAACACTTGTTTTTAAAATTAAAGGAGAATTATTGATCGGATTAATCTGATTCTTTCAACA
1 CCAAAAACACTTGTTTTTAAAATTAAAGGAGAATTATTGATCGGATTAATCTGATTCTTTCAACA
*
8738219 ATGTGTCTAAAAGGATTTTAGAATTAAAATGTAGTTCTAAATTTTTGTTATGTGTGTGTTCGGAT
66 ATGTGTCTAAAAGGATTTTAGAATTAAAATGTAGTTCTAAATTTTTGTTATGTGTGTGTTCGAAT
8738284 ATGAGATGTGAAATGACTATTT
131 ATGAGATGTGAAATGACTATTT
*
8738306 CCAAAAACACTTGTTTTTAAAATTAAAGGAGAATTGTTGATCGGATTAATCTGATTCTTTCAACA
1 CCAAAAACACTTGTTTTTAAAATTAAAGGAGAATTATTGATCGGATTAATCTGATTCTTTCAACA
8738371 ATGTGTCTAAAAGGATTTTAGAATTAAAATGTAGTTCTAAATTTTTGTTATGTGTGTGTTCGAAT
66 ATGTGTCTAAAAGGATTTTAGAATTAAAATGTAGTTCTAAATTTTTGTTATGTGTGTGTTCGAAT
8738436 ATGAGATGTGAAATGACTATTT
131 ATGAGATGTGAAATGACTATTT
8738458 TGCCCCTAAT
Statistics
Matches: 150, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 150 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (152 bp):
CCAAAAACACTTGTTTTTAAAATTAAAGGAGAATTATTGATCGGATTAATCTGATTCTTTCAACA
ATGTGTCTAAAAGGATTTTAGAATTAAAATGTAGTTCTAAATTTTTGTTATGTGTGTGTTCGAAT
ATGAGATGTGAAATGACTATTT
Found at i:8740882 original size:18 final size:17
Alignment explanation
Indices: 8740861--8740900 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
8740851 ATTAACTAAA
* *
8740861 TTTTTATAATTTTTTAT
1 TTTTTATAAATCTTTAT
8740878 TTTTTATTAAATCTTTAT
1 TTTTTA-TAAATCTTTAT
8740896 TTTTT
1 TTTTT
8740901 TATGTGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATAAATCTTTAT
Found at i:8741145 original size:10 final size:10
Alignment explanation
Indices: 8741132--8741156 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8741122 TTTATTTTTA
8741132 ATTTTAAAAT
1 ATTTTAAAAT
8741142 ATTTTAAAAT
1 ATTTTAAAAT
8741152 ATTTT
1 ATTTT
8741157 TTTTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:8742066 original size:30 final size:28
Alignment explanation
Indices: 8742011--8742070 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 28
8742001 TGCAATGTTA
8742011 TACATAAACTTTGATTTGATACAATTATT
1 TACATAAACTTTGATTTGATACAATT-TT
* *
8742040 TACATTAAACTTTG-GTTGTATTCAATTTT
1 TACA-TAAACTTTGATTTG-ATACAATTTT
8742069 TA
1 TA
8742071 TAAATCACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (28 bp):
TACATAAACTTTGATTTGATACAATTTT
Found at i:8743113 original size:21 final size:21
Alignment explanation
Indices: 8743087--8743126 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8743077 CCTACTATAC
*
8743087 AATTTTAAACTTCAAATATCA
1 AATTTTAAACATCAAATATCA
*
8743108 AATTTTAACCATCAAATAT
1 AATTTTAAACATCAAATAT
8743127 ACTTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTTTAAACATCAAATATCA
Found at i:8746774 original size:11 final size:11
Alignment explanation
Indices: 8746760--8746802 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
8746750 AGTTAAATAT
8746760 TATTTTATTAA
1 TATTTTATTAA
8746771 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
8746784 TA-TTTATTAG
1 TATTTTATTAA
8746794 TATTTTATT
1 TATTTTATT
8746803 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:8746789 original size:23 final size:23
Alignment explanation
Indices: 8746763--8746806 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8746753 TAAATATTAT
8746763 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
8746786 TTTATTAGTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
8746807 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:8749584 original size:13 final size:13
Alignment explanation
Indices: 8749568--8749607 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
8749558 ACTTACCAAT
8749568 TAAACCTTAAACC
1 TAAACCTTAAACC
8749581 TAAACCTTAAACCC
1 TAAACCTTAAA-CC
*
8749595 TAAACCCTAAACC
1 TAAACCTTAAACC
8749608 CTTTCAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAACCTTAAACC
Found at i:8749598 original size:14 final size:14
Alignment explanation
Indices: 8749568--8749609 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
8749558 ACTTACCAAT
8749568 TAAACCTTAAA-CC
1 TAAACCTTAAACCC
8749581 TAAACCTTAAACCC
1 TAAACCTTAAACCC
*
8749595 TAAACCCTAAACCC
1 TAAACCTTAAACCC
8749609 T
1 T
8749610 TTCAAGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:8749608 original size:7 final size:7
Alignment explanation
Indices: 8749568--8749609 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
8749558 ACTTACCAAT
*
8749568 TAAACCT
1 TAAACCC
8749575 TAAA-CC
1 TAAACCC
*
8749581 TAAACCT
1 TAAACCC
8749588 TAAACCC
1 TAAACCC
8749595 TAAACCC
1 TAAACCC
8749602 TAAACCC
1 TAAACCC
8749609 T
1 T
8749610 TTCAAGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.43, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:8749902 original size:30 final size:29
Alignment explanation
Indices: 8749868--8749924 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
8749858 TTATCAAATA
8749868 AATAAA-ATCTTTTAATATAATAATTTAATT
1 AATAAATATCTTTTAAT-TAA-AATTTAATT
* *
8749898 AATAAATTTCTTTTACTTAAAATTTAA
1 AATAAATATCTTTTAATTAAAATTTAA
8749925 GAAAATATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 7 0.29
30 9 0.38
31 8 0.33
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (29 bp):
AATAAATATCTTTTAATTAAAATTTAATT
Found at i:8750048 original size:17 final size:16
Alignment explanation
Indices: 8750017--8750060 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
8750007 GATTTATTTA
8750017 ATAATATAATATCATT
1 ATAATATAATATCATT
*
8750033 ATAATTTAATTATCATT
1 ATAATATAA-TATCATT
*
8750050 AATTATATAAT
1 -ATAATATAAT
8750061 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:8756063 original size:6 final size:6
Alignment explanation
Indices: 8756030--8756079 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
8756020 ACAGGACCTA
* ** *
8756030 AACAGT AATCAGT AACGGT AGTAGT AACAGT AACAGT AACAGG AACAGT
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT
8756079 A
1 A
8756080 TTCAACACAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (6 bp):
AACAGT
Found at i:8756147 original size:45 final size:45
Alignment explanation
Indices: 8756059--8756161 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
8756049 AGTAGTAACA
8756059 GTAACAGTAACAGGAACAGTATTCAACACACAAAGTGCTGAATCT
1 GTAACAGTAACAGGAACAGTATTCAACACACAAAGTGCTGAATCT
* * * *
8756104 GTAACCGTAAC-GGTAATAGTATTCGACACACAAAGTG-TCGAATCA
1 GTAACAGTAACAGG-AACAGTATTCAACACACAAAGTGCT-GAATCT
*
8756149 ATAACAGTAACAG
1 GTAACAGTAACAG
8756162 TAGTCGGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
44 3 0.06
45 45 0.92
46 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAGGAACAGTATTCAACACACAAAGTGCTGAATCT
Found at i:8757555 original size:17 final size:16
Alignment explanation
Indices: 8757524--8757567 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
8757514 GATTTATTTA
8757524 ATAATATAATATCATT
1 ATAATATAATATCATT
*
8757540 ATAATTTAATTATCATT
1 ATAATATAA-TATCATT
*
8757557 AATTATATAAT
1 -ATAATATAAT
8757568 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:8768546 original size:11 final size:12
Alignment explanation
Indices: 8768523--8768547 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8768513 ATTAATTTTC
8768523 AAAATTTTAAAA
1 AAAATTTTAAAA
8768535 AAAATTTTAAAA
1 AAAATTTTAAAA
8768547 A
1 A
8768548 GTGTTTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTTTAAAA
Found at i:8769183 original size:19 final size:20
Alignment explanation
Indices: 8769143--8769207 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 20
8769133 AAACTACCCC
* *
8769143 TTTTATTTTATTTTATT-CTA
1 TTTTATATTA-TTTATTATTA
*
8769163 TTTTAT-TTATTTGTTATTA
1 TTTTATATTATTTATTATTA
*
8769182 TTTGTTATATTATTTATTTTTA
1 -TT-TTATATTATTTATTATTA
8769204 TTTT
1 TTTT
8769208 CCTATTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.14
19 5 0.14
20 10 0.27
21 6 0.16
22 11 0.30
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTTATATTATTTATTATTA
Found at i:8769204 original size:22 final size:21
Alignment explanation
Indices: 8769165--8769225 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
8769155 TTATTCTATT
*
8769165 TTATTTATTTGTTATTATTTG
1 TTATTTATTTATTATTATTTG
*
8769186 TTATATTATTTATTTTTATTT-
1 TTAT-TTATTTATTATTATTTG
8769207 TCCTATTTTATTTATTATT
1 T--TA-TTTATTTATTATT
8769226 CTTATACTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.15
22 14 0.42
23 13 0.39
24 1 0.03
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.72
Consensus pattern (21 bp):
TTATTTATTTATTATTATTTG
Found at i:8769221 original size:23 final size:26
Alignment explanation
Indices: 8769160--8769222 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 26
8769150 TTATTTTATT
*
8769160 CTATTTTATTTATTTGTTATTATTTG
1 CTATTTTATTTATTTGTTATTATTTC
* *
8769186 TTATATTATTTATTT-TTA-T-TTTC
1 CTATTTTATTTATTTGTTATTATTTC
8769209 CTATTTTATTTATT
1 CTATTTTATTTATT
8769223 ATTCTTATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 15 0.47
24 1 0.03
25 3 0.09
26 13 0.41
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (26 bp):
CTATTTTATTTATTTGTTATTATTTC
Found at i:8776070 original size:30 final size:30
Alignment explanation
Indices: 8776003--8776070 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
8775993 ATATATACAC
* *
8776003 ATACTTTTTTATAATATATACGTACATATT
1 ATACTTTTGTATAATATATACATACATATT
* *
8776033 TTAACTTTTGTA-AATATATACATACTTATAT
1 AT-ACTTTTGTATAATATATACATACATAT-T
8776064 ATACTTT
1 ATACTTT
8776071 CTATTATATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
30 21 0.68
31 10 0.32
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (30 bp):
ATACTTTTGTATAATATATACATACATATT
Found at i:8781722 original size:12 final size:12
Alignment explanation
Indices: 8781705--8781734 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8781695 GGAGTTCTAT
8781705 GAAGAAGTCCAA
1 GAAGAAGTCCAA
*
8781717 GAAGAAGTCTAA
1 GAAGAAGTCCAA
8781729 GAAGAA
1 GAAGAA
8781735 AGAAGCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.27, T:0.10
Consensus pattern (12 bp):
GAAGAAGTCCAA
Found at i:8788452 original size:21 final size:21
Alignment explanation
Indices: 8788426--8788468 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8788416 CTGATGTTGC
8788426 AGTGGAATAGATTAAAGCTGA
1 AGTGGAATAGATTAAAGCTGA
* *
8788447 AGTGGAGTGGATTAAAGCTGA
1 AGTGGAATAGATTAAAGCTGA
8788468 A
1 A
8788469 AGCAGCGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.33, T:0.23
Consensus pattern (21 bp):
AGTGGAATAGATTAAAGCTGA
Found at i:8788527 original size:51 final size:51
Alignment explanation
Indices: 8788456--8788607 Score: 157
Period size: 51 Copynumber: 3.0 Consensus size: 51
8788446 AAGTGGAGTG
* * *
8788456 GATTAAAGCTGAAA-GCAGCGAATCCTATCTCTTTGGTGTTGCAGTGGAA-CA
1 GATTAAAGCT-AAAGGCAGCGAATCCTATCTCTTTGGCGTTACAG-CGAAGCA
* * *
8788507 GATTAAATCTAAAGGTAGCGAATCCTAT-TTTCTTGGCGTTACAGCGAAGCA
1 GATTAAAGCTAAAGGCAGCGAATCCTATCTCT-TTGGCGTTACAGCGAAGCA
* * * *
8788558 GATTAAAGCTGAAGGCAGCGAATCTTATCTCCTTGGCGTTAAAGCTGAAG
1 GATTAAAGCTAAAGGCAGCGAATCCTATCTCTTTGGCGTTACAGC-GAAG
8788608 GCAGCGAATT
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
50 8 0.10
51 70 0.84
52 5 0.06
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (51 bp):
GATTAAAGCTAAAGGCAGCGAATCCTATCTCTTTGGCGTTACAGCGAAGCA
Found at i:8788607 original size:36 final size:36
Alignment explanation
Indices: 8788560--8788629 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
8788550 GCGAAGCAGA
8788560 TTAAAGCTGAAGGCAGCGAATCTTA-TCTCCTTGGCG
1 TTAAAGCTGAAGGCAGCGAATCTTACT-TCCTTGGCG
*
8788596 TTAAAGCTGAAGGCAGCGAATTTTACTTCCTTGG
1 TTAAAGCTGAAGGCAGCGAATCTTACTTCCTTGG
8788630 TGATGTAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (36 bp):
TTAAAGCTGAAGGCAGCGAATCTTACTTCCTTGGCG
Found at i:8788744 original size:136 final size:136
Alignment explanation
Indices: 8788573--8788865 Score: 457
Period size: 136 Copynumber: 2.2 Consensus size: 136
8788563 AAGCTGAAGG
* *
8788573 CAGCGAATCTTATCTCCTTGGCGTTAAAGCTGAAGGCAGCGAATTTTACTTCCTTGGTGATGTAG
1 CAGCGAATCTTATCTCCTTGGCATTAAAGCTGAAGGCAGCGAATTTTACTTCCCTGGTGATGTAG
* * *
8788638 TGGAATAGATTGAAGCTACAATAGCAAATCTTGCTT-CTCTGACATTGCAATTAAACAGATTGAA
66 TGGAACAGATTGAAGCTACAACAACAAATCTTGCTTCCTC-GACATTGCAATTAAACAGATTGAA
8788702 GCTACAA
130 GCTACAA
*
8788709 CAGCGAATCTTATCTCAC-TGGCATTAAAGCTGAAGGCAGCGAATTTTACTTCCCTGGTGGTGTA
1 CAGCGAATCTTATCTC-CTTGGCATTAAAGCTGAAGGCAGCGAATTTTACTTCCCTGGTGATGTA
* *
8788773 GTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCTCGACATTGCAGTTAAACAGATTGAA
65 GTGGAACAGATTGAAGCTACAACAACAAATCTTGCTTCCTCGACATTGCAATTAAACAGATTGAA
8788838 GCTACAA
130 GCTACAA
*
8788845 TAGCGAATCTTA-CTTCCTTGG
1 CAGCGAATCTTATC-TCCTTGG
8788866 TAGTGCAGTG
Statistics
Matches: 144, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
135 2 0.01
136 138 0.96
137 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (136 bp):
CAGCGAATCTTATCTCCTTGGCATTAAAGCTGAAGGCAGCGAATTTTACTTCCCTGGTGATGTAG
TGGAACAGATTGAAGCTACAACAACAAATCTTGCTTCCTCGACATTGCAATTAAACAGATTGAAG
CTACAA
Found at i:8788811 original size:50 final size:50
Alignment explanation
Indices: 8788745--8789003 Score: 268
Period size: 50 Copynumber: 5.2 Consensus size: 50
8788735 AAGCTGAAGG
* ** * *
8788745 CAGCGAATTTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACAA
1 CAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAA
* * * * ** *
8788795 CAACGAATCTTGCTT-CCTCGACATTGCAGTTAAACAGATTGAAGCTACAA
1 CAGCGAATCTTACTTCCCT-GGCAGTGCAGTGGAATAGATTGAAGCTACAA
* * *
8788845 TAGCGAATCTTACTTCCTTGGTAGTGCAGTGGAATAGATTGAAGCTACAA
1 CAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAA
* * * * * * **
8788895 CAGCGAATTTTGCTTCCCTGACATTACAATTAAATAGATTGAAGCTACAA
1 CAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAA
* *
8788945 CAACGAATCTTACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACAA
1 CAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAA
*
8788995 GAGCGAATC
1 CAGCGAATC
8789004 ACCGACATTA
Statistics
Matches: 164, Mismatches: 43, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
49 3 0.02
50 159 0.97
51 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (50 bp):
CAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAATAGATTGAAGCTACAA
Found at i:8788919 original size:100 final size:100
Alignment explanation
Indices: 8788745--8789003 Score: 376
Period size: 100 Copynumber: 2.6 Consensus size: 100
8788735 AAGCTGAAGG
* * * *
8788745 CAGCGAATTTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTT
1 CAGCGAATCTTACTTCCCTGGTAGTGTAGTGGAATAGATTGAAGCTACAACAGCGAATCTTGCTT
* *
8788810 CCTCGACATTGCAGTTAAACAGATTGAAGCTACAA
66 CCTCGACATTACAATTAAACAGATTGAAGCTACAA
* * * *
8788845 TAGCGAATCTTACTTCCTTGGTAGTGCAGTGGAATAGATTGAAGCTACAACAGCGAATTTTGCTT
1 CAGCGAATCTTACTTCCCTGGTAGTGTAGTGGAATAGATTGAAGCTACAACAGCGAATCTTGCTT
*
8788910 CC-CTGACATTACAATTAAATAGATTGAAGCTACAA
66 CCTC-GACATTACAATTAAACAGATTGAAGCTACAA
* * *
8788945 CAACGAATCTTACTTCCCTGGCAGTGTAGTGGAATAGATTGAAGCTACAAGAGCGAATC
1 CAGCGAATCTTACTTCCCTGGTAGTGTAGTGGAATAGATTGAAGCTACAACAGCGAATC
8789004 ACCGACATTA
Statistics
Matches: 140, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
99 1 0.01
100 139 0.99
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (100 bp):
CAGCGAATCTTACTTCCCTGGTAGTGTAGTGGAATAGATTGAAGCTACAACAGCGAATCTTGCTT
CCTCGACATTACAATTAAACAGATTGAAGCTACAA
Found at i:8789244 original size:44 final size:45
Alignment explanation
Indices: 8789180--8789384 Score: 202
Period size: 44 Copynumber: 4.6 Consensus size: 45
8789170 GTCTTATTTC
* *
8789180 CCTTATTTCCCTGAAGTTGCAGTGGGGCAGGTTAAAGAT-ACAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGATAACAAG
* * ** * *
8789224 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGATAACAAG
* *
8789269 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAAATAAACCAA-
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGAT-AA-CAAG
* * * *
8789315 CCTTATCTCCCTGAAGTCGCAGTGGAGCAGTTTGAAGCT-ACAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGATAACAAG
* ** *
8789359 CCATATCTCTTTGAAG-TGTAGTGGAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAG
8789385 TGGATCGAAA
Statistics
Matches: 133, Mismatches: 24, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
43 11 0.08
44 48 0.36
45 36 0.27
46 35 0.26
47 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGATAACAAG
Found at i:8789299 original size:89 final size:89
Alignment explanation
Indices: 8789180--8789384 Score: 236
Period size: 89 Copynumber: 2.3 Consensus size: 89
8789170 GTCTTATTTC
* * * * * * *
8789180 CCTTATTTCCCTGAAGTTGCAGTGGGGCAGGTTAAAGAT-A-CAAGTCTTATTTCCCTGAAGTTG
1 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAAATAACCAA-CCTTATCTCCCTGAAGTCG
8789243 CAGTGGAGCAGACTGAAGATAACAAA
65 CAGTGGAGCAGACTGAAGAT-ACAAA
8789269 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAAATAAACCAACCTTATCTCCCTGAAGTCG
1 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAAAT-AACCAACCTTATCTCCCTGAAGTCG
** * *
8789334 CAGTGGAGCAGTTTGAAGCTACAAG
65 CAGTGGAGCAGACTGAAGATACAAA
* **
8789359 CCATATCTCTTTGAAG-TGTAGTGGAG
1 CCTTATCTCCCTGAAGTTGTAGTGGAG
8789385 TGGATCGAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
89 45 0.45
90 17 0.17
91 34 0.34
92 3 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (89 bp):
CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAAATAACCAACCTTATCTCCCTGAAGTCGC
AGTGGAGCAGACTGAAGATACAAA
Done.