Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 104 of 167
Found at i:34638732 original size:46 final size:46
Alignment explanation
Indices: 34638646--34638817 Score: 152
Period size: 46 Copynumber: 3.7 Consensus size: 46
34638636 AACTCATAGC
* * * *
34638646 CGATGCATGCCCCGGACATGTCTTACACTGGCTTA-T-GTCTCGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTCGAGGA
* * * *
34638692 CGATGCATGTCCCGGACATGTCTTACACTAGCACTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAGGA
* * * * * *
34638738 CGATGCCATGTCCCAGACATGGTATTACACAAGCTCTCATAAT-GTGGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGT-CTCGAGGA
34638786 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
34638818 TCACAATAAC
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 53 0.51
47 27 0.26
48 21 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCGAGGA
Found at i:34638766 original size:94 final size:92
Alignment explanation
Indices: 34638606--34638817 Score: 209
Period size: 94 Copynumber: 2.3 Consensus size: 92
34638596 GTGCCAATGC
* * ** * *
34638606 CATGCCCCAGACATGGTCTTACACT-G-ACACAACTC-ATAGCCGATGCATGCCCCGGACATGTC
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAAT-GCCGATGCATGCCCCAGACATGTA
** ** *
34638668 TTACACTGGCT-T-ATGTCTCGAGGTCGATG
64 TTACACAAGCTCTCAT-AAT-GAGGACGATG
* *
34638697 CATGTCCCGGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTA
1 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATG-CATGCCCCAGACAT-GTA
*
34638762 TTACACAAGCTCTCATAATGTGGACGATG
64 TTACACAAGCTCTCATAATGAGGACGATG
34638791 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
34638818 TCACAATAAC
Statistics
Matches: 99, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
90 10 0.10
91 13 0.13
92 13 0.13
93 14 0.14
94 45 0.45
95 2 0.02
96 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCATGCCCCAGACATGTATT
ACACAAGCTCTCATAATGAGGACGATG
Found at i:34645648 original size:51 final size:51
Alignment explanation
Indices: 34645563--34645762 Score: 294
Period size: 51 Copynumber: 3.9 Consensus size: 51
34645553 ATGGATACAC
* * * * * *
34645563 AGTGGCCTGCACATGGTACCACCCGTGTAG-CCAAAGCTATTTTATTTACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAA
34645614 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
*
34645665 AGTGGCCTTCACATAATACCACACTTGTGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
* * *
34645716 AATGGCCTTCACATAGTACCACACTTGTGTCCGAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTC
34645763 CTAAGGCTCA
Statistics
Matches: 137, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
50 1 0.01
51 136 0.99
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAA
Found at i:34645823 original size:28 final size:28
Alignment explanation
Indices: 34645786--34645879 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 28
34645776 GAAAAATTTC
34645786 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
34645814 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* * *
34645842 TCACTTAG----ATGTCATGGTCTTACT
1 TCACTTAGCACAATGCCATGGACTTATT
34645866 TCACTTAGCACAAT
1 TCACTTAGCACAAT
34645880 CTCATATCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
24 20 0.35
28 37 0.65
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:34657237 original size:84 final size:84
Alignment explanation
Indices: 34657085--34657246 Score: 211
Period size: 84 Copynumber: 1.9 Consensus size: 84
34657075 ACATGTGTTC
* * **
34657085 TCGTGTAAGACCACGACTGGGACGTTGGCATCGATATGTGATTACGTGTAAGACCATGTGTGGGA
1 TCGTGTAAGACCACGACTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCACGTCCGGGA
*
34657150 CATTGGCATCGTATTTGAT
66 CATTGACATCGTATTTGAT
* * *
34657169 TCGTGTAAGACC-CTATTTGGGACAG-TGGCATCGATATGTGATTGCATGTAAGACCACGTCCGG
1 TCGTGTAAGACCACGA-CTGGGAC-GTTGGCATCGATATGTGATTACATGTAAGACCACGTCCGG
*
34657232 TACATTGACATCGTA
64 GACATTGACATCGTA
34657247 CGATATGCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 2 0.03
84 64 0.96
85 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (84 bp):
TCGTGTAAGACCACGACTGGGACGTTGGCATCGATATGTGATTACATGTAAGACCACGTCCGGGA
CATTGACATCGTATTTGAT
Found at i:34657244 original size:43 final size:42
Alignment explanation
Indices: 34657085--34657244 Score: 171
Period size: 43 Copynumber: 3.8 Consensus size: 42
34657075 ACATGTGTTC
* *
34657085 TCGTGTAAGACCACGACTGGGACGTTGGCATCGATATGTGAT
1 TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGAT
* * *
34657127 TACGTGTAAGACCATGTGTGGGACATTGGCATCG-TATTTGAT
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGAT
* * *
34657169 TCGTGTAAGACC-CTATTTGGGACAGTGGCATCGATATGTGAT
1 TCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATGTGAT
* * * *
34657211 TGCATGTAAGACCACGTCCGGTACATTGACATCG
1 T-CGTGTAAGACCACGTCTGGGACATTGGCATCG
34657245 TACGATATGC
Statistics
Matches: 96, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
41 27 0.28
42 17 0.18
43 51 0.53
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGAT
Found at i:34659846 original size:51 final size:50
Alignment explanation
Indices: 34659770--34659917 Score: 199
Period size: 51 Copynumber: 2.9 Consensus size: 50
34659760 CTAATACATG
* *
34659770 GTGGCCTTCACAAAGTAGCAAACTTGTGTTAAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTAGCACACTTGTG-TAAAAGCTATTTTATTCACAAA
*
34659821 GTGGCCTTCACATAGTAGCACACTTGTG-AACAACGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTAGCACACTTGTGTAA-AA-GCTATTTTATTCACAAA
* * *
34659872 GTGGCCTTCACATAGTACCACATTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTAGCACACTTGTGT-AAAAGCTATTTTATTC
34659918 CTAAGGTTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
49 2 0.02
50 2 0.02
51 79 0.92
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.32
Consensus pattern (50 bp):
GTGGCCTTCACATAGTAGCACACTTGTGTAAAAGCTATTTTATTCACAAA
Found at i:34659997 original size:52 final size:52
Alignment explanation
Indices: 34659941--34660059 Score: 184
Period size: 52 Copynumber: 2.3 Consensus size: 52
34659931 GGGAAATTTC
*
34659941 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATAGACTCATT
1 TCACTTAGCACAATGCCATGGACTCATTTCACTTAGATGCCATAGACTCATT
* * * * *
34659993 TCACTCAGCACATTGCCATGGACTCATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTCATTTCACTTAGATGCCATAGACTCATT
34660045 TCACTTAGCACAATG
1 TCACTTAGCACAATG
34660060 TCATATCCTA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 59 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTCATTTCACTTAGATGCCATAGACTCATT
Found at i:34660018 original size:28 final size:27
Alignment explanation
Indices: 34659941--34660056 Score: 127
Period size: 24 Copynumber: 4.4 Consensus size: 27
34659931 GGGAAATTTC
*
34659941 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTCATT
*
34659969 TCACTTAG---ATGCCATAGACTCATT
1 TCACTTAGCACATGCCATGGACTCATT
*
34659993 TCACTCAGCACATTGCCATGGACTCATT
1 TCACTTAGCACA-TGCCATGGACTCATT
* *
34660021 TCACTTAG---ATGCCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTCATT
34660045 TCACTTAGCACA
1 TCACTTAGCACA
34660057 ATGTCATATC
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
24 42 0.57
25 1 0.01
27 2 0.03
28 29 0.39
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTCATT
Found at i:34661382 original size:118 final size:118
Alignment explanation
Indices: 34661171--34661406 Score: 429
Period size: 118 Copynumber: 2.0 Consensus size: 118
34661161 TAAGGATAAA
34661171 ATTTTGAGCATGATTTTACTCATGATTTTCGACATTCATCTCTTTGATCCTTCTTTGATTTGTTT
1 ATTTTGAGCATGATTTTACTCATGATTTTCGACATTCATCTCTTTGATCCTTCTTTGATTTGTTT
*
34661236 GTCTTCTCCTTTGTTTCAAAGCATGTTGTAAAGCAGGATCTATGGAGAGTAAG
66 GTCTTCTCCTTTGTTTCAAAGCACGTTGTAAAGCAGGATCTATGGAGAGTAAG
*
34661289 ATTTTGAGCATGATTTTACTCTTGATTTTTC-ACATTCATCTCTTTGATCCTTCTTTGATTTGTT
1 ATTTTGAGCATGATTTTACTCATGA-TTTTCGACATTCATCTCTTTGATCCTTCTTTGATTTGTT
*
34661353 TGTCTTCTCCTTTGTTTCAAAGCACGTTGTAAAGCAGGATCTATGGAGGGTAAG
65 TGTCTTCTCCTTTGTTTCAAAGCACGTTGTAAAGCAGGATCTATGGAGAGTAAG
34661407 TTGATAATTC
Statistics
Matches: 114, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
118 109 0.96
119 5 0.04
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.44
Consensus pattern (118 bp):
ATTTTGAGCATGATTTTACTCATGATTTTCGACATTCATCTCTTTGATCCTTCTTTGATTTGTTT
GTCTTCTCCTTTGTTTCAAAGCACGTTGTAAAGCAGGATCTATGGAGAGTAAG
Found at i:34662450 original size:40 final size:40
Alignment explanation
Indices: 34662402--34662510 Score: 157
Period size: 40 Copynumber: 2.7 Consensus size: 40
34662392 TATTCGGATG
*
34662402 ATAACCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACT
* * *
34662442 AGT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 A-TAACCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACT
*
34662482 ATAACCGGGCTATGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
34662511 AACGAGGAGC
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.02
40 59 0.97
41 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACT
Found at i:34662524 original size:40 final size:40
Alignment explanation
Indices: 34662402--34662529 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 40
34662392 TATTCGGATG
* *
34662402 ATAACCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACT
* * *
34662442 AGT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 A-TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACT
* *
34662482 ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGA-CT
*
34662522 ATATCCGG
1 ATAACCGG
34662530 TTAAATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.03
40 72 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACT
Found at i:34674932 original size:40 final size:41
Alignment explanation
Indices: 34674838--34675059 Score: 230
Period size: 40 Copynumber: 5.6 Consensus size: 41
34674828 TATTCGAATG
*
34674838 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
34674879 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
34674919 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
34674959 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * * * *
34674999 ACATCCGGGCTAAGA-CTCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
34675038 ATATCC-GGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGATCCCGAAGG
34675060 TTACTTGAGT
Statistics
Matches: 151, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 14 0.09
40 92 0.61
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:34678015 original size:16 final size:16
Alignment explanation
Indices: 34677994--34678024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34677984 ATATATTTTC
*
34677994 ATTTGCATCATATATA
1 ATTTGCATCAAATATA
34678010 ATTTGCATCAAATAT
1 ATTTGCATCAAATAT
34678025 TAAATAACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTTGCATCAAATATA
Found at i:34689234 original size:41 final size:43
Alignment explanation
Indices: 34689133--34689266 Score: 148
Period size: 43 Copynumber: 3.2 Consensus size: 43
34689123 AAGTCATACA
* * **
34689133 ATGCCAACGTCCTAGAC-GTGGTCTTACATGCAATCTCATATCG
1 ATGCCAATGTCCTAGACAG-GGTCTTACACGCAATCAAATATCG
* * *
34689176 ATGCCATTATCCCAGACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCTAGACAGGGTCTTACACGCAATCAAATATCG
* * *
34689217 ATGCCAATGTCCTAGACATGGTCTTACACGTAATAAAATATCG
1 ATGCCAATGTCCTAGACAGGGTCTTACACGCAATCAAATATCG
34689260 ATGCCAA
1 ATGCCAA
34689267 CGTCTCAGAC
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 28 0.37
42 15 0.20
43 32 0.42
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACAGGGTCTTACACGCAATCAAATATCG
Found at i:34689284 original size:43 final size:41
Alignment explanation
Indices: 34689128--34689287 Score: 115
Period size: 43 Copynumber: 3.8 Consensus size: 41
34689118 CACACAAGTC
* * * * ***
34689128 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGCAATCTC
1 ATACGATGCCAACGTCCTAGACATAGTCTTACACG-AATAAA
*** * ** *
34689170 ATATCGATGCCATTATCCCAGACAGGGTCTTACACGAATCAA
1 ATA-CGATGCCAACGTCCTAGACATAGTCTTACACGAATAAA
* *
34689212 ATACGATGCCAATGTCCTAGACATGGTCTTACACGTAATAAA
1 ATACGATGCCAACGTCCTAGACATAGTCTTACACG-AATAAA
*
34689254 ATATCGATGCCAACGT-CTCAGACGTAGTCTTACA
1 ATA-CGATGCCAACGTCCT-AGACATAGTCTTACA
34689288 TGAGAACACA
Statistics
Matches: 96, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 28 0.29
42 20 0.21
43 48 0.50
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (41 bp):
ATACGATGCCAACGTCCTAGACATAGTCTTACACGAATAAA
Found at i:34689284 original size:84 final size:84
Alignment explanation
Indices: 34689128--34689287 Score: 187
Period size: 84 Copynumber: 1.9 Consensus size: 84
34689118 CACACAAGTC
* * *** **
34689128 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGCAATCTCATATCGATGCCATTATCCCAGAC
1 ATACAATGCCAACGTCCTAGACATGGTCTTACACGCAATAAAATATCGATGCCAACATCCCAGAC
*
34689193 AGGGTCTTACACGAATCAA
66 AGAGTCTTACACGAATCAA
* * * * *
34689212 ATACGATGCCAATGTCCTAGACATGGTCTTACACGTAATAAAATATCGATGCCAACGTCTCAGAC
1 ATACAATGCCAACGTCCTAGACATGGTCTTACACGCAATAAAATATCGATGCCAACATCCCAGAC
34689277 -GTAGTCTTACA
66 AG-AGTCTTACA
34689288 TGAGAACACA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
83 1 0.02
84 61 0.98
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (84 bp):
ATACAATGCCAACGTCCTAGACATGGTCTTACACGCAATAAAATATCGATGCCAACATCCCAGAC
AGAGTCTTACACGAATCAA
Found at i:34689836 original size:28 final size:27
Alignment explanation
Indices: 34689805--34689857 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
34689795 TACATTTCAT
*
34689805 TTATTTC-ACATTTTAGTCCCTCAATTTA
1 TTATTTCTACAATTTA-TCCCT-AATTTA
34689833 TTATTTCTACAATTTATCCCTAATT
1 TTATTTCTACAATTTATCCCTAATT
34689858 ATTGAATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 12 0.52
29 7 0.30
ACGTcount: A:0.26, C:0.21, G:0.02, T:0.51
Consensus pattern (27 bp):
TTATTTCTACAATTTATCCCTAATTTA
Found at i:34690129 original size:25 final size:25
Alignment explanation
Indices: 34690095--34690145 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
34690085 AATGGCCGAA
34690095 TACCCTAGGCTTTATTTCTTTTCTT
1 TACCCTAGGCTTTATTTCTTTTCTT
34690120 TACCCTAGGCTTTATTTCTTTTCTT
1 TACCCTAGGCTTTATTTCTTTTCTT
34690145 T
1 T
34690146 CTTTTTCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.24, G:0.08, T:0.57
Consensus pattern (25 bp):
TACCCTAGGCTTTATTTCTTTTCTT
Found at i:34692696 original size:26 final size:26
Alignment explanation
Indices: 34692667--34692729 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
34692657 TTAGAGATTA
* * *
34692667 ATGAAACATGACAGGTGTGTGAGTTG
1 ATGAAAAATGACAAGTGTGTCAGTTG
* *
34692693 ATGAAAGATGAGAAGTGTGTCAGTTG
1 ATGAAAAATGACAAGTGTGTCAGTTG
34692719 ATGAAAAATGA
1 ATGAAAAATGA
34692730 AGAGGTGATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.25
Consensus pattern (26 bp):
ATGAAAAATGACAAGTGTGTCAGTTG
Found at i:34695352 original size:17 final size:17
Alignment explanation
Indices: 34695330--34695364 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
34695320 CTAAAGTAGA
34695330 AATTGAATATGAAATTG
1 AATTGAATATGAAATTG
34695347 AATTGAATATGAAATTG
1 AATTGAATATGAAATTG
34695364 A
1 A
34695365 CTATCTACTA
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:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (17 bp):
AATTGAATATGAAATTG
Found at i:34697517 original size:519 final size:519
Alignment explanation
Indices: 34696616--34699185 Score: 5029
Period size: 519 Copynumber: 5.0 Consensus size: 519
34696606 ACTAGGGCTC
* *
34696616 TAAAATTATATGAAAGG--ATATATATATCAAAAATAAGTGGTAAAATAAAATAAATATATATAA
1 TAAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
34696679 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
66 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
*
34696744 ATACTAAAATAATAAACTAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
131 ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
* *
34696809 TTAATGAAAC-AAAAAGGGAAATATAATAATAGTAAAGATAAAGTCTTGATTTCAGAAGTTCATT
196 TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
34696873 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
261 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
34696938 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
326 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
34697003 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
391 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
34697068 TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAATCATGTTTCCATTAAAAACCCT
456 TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAATCATGTTTCCATTAAAAACCCT
34697132 TAAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
1 TAAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
34697197 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
66 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
34697262 ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
131 ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
34697327 TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
196 TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
34697392 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
261 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
34697457 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
326 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
* *
34697522 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACACCCCAAACCCAGCCTGGAAGTT
391 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
* *
34697587 TGGCTCAAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAACCATGTTTCCATTAAAAACCCT
456 TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAATCATGTTTCCATTAAAAACCCT
*
34697651 TCAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
1 TAAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
34697716 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
66 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
34697781 ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
131 ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
34697846 TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
196 TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
34697911 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
261 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
34697976 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
326 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
34698041 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
391 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
34698106 TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAATCATGTTTCCATTAAAAACCCT
456 TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAATCATGTTTCCATTAAAAACCCT
34698170 TAAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
1 TAAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
34698235 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
66 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
34698300 ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
131 ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
34698365 TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
196 TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
34698430 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
261 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
34698495 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
326 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
34698560 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
391 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
34698625 TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAATCATGTTTCCATTAAAAACCCT
456 TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAATCATGTTTCCATTAAAAACCCT
34698689 TAAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
1 TAAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
34698754 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
66 ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
34698819 ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
131 ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
34698884 TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
196 TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
34698949 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
261 AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
34699014 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
326 AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
34699079 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
391 TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
34699144 TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAA
456 TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAA
34699186 CAAATTGTAA
Statistics
Matches: 2036, Mismatches: 15, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
516 16 0.01
518 184 0.09
519 1836 0.90
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (519 bp):
TAAAATTATAGGAAAGGATATATATATATAAAAAATAAGTGGTAAAATAAAATAAATATATATAA
ATTTTAAGGTAAATAAATATATACAAAAGACAGCAATAATATTGCGAAATAAAAAGAAATAAAGA
ATACTAAAATAATAAAATAAAAGATGAACAAAGCAAATAAAACAAAACAAAGATAACAAATAATA
TTAATGAAACAAAAAAGGGAAATATAATAATAGTAAAGATAAACTCTTGATTTCAAAAGTTCATT
AAAAAATGAAATAAACAGACACAAAACGAAATAAAATAAAATAATTGTAAAAGACGAAATTACTT
AAGTAAAGGACCGAATTGAAAATAAAATGGAATTTAAAGTCTAGAATCTGAATAATGAACAAGCA
TAAGGATCCAGATGGAATGCGTATGAAGATAGGAAGTGTAACAGCCCAAACCCGGCCTGGAAGTT
TGGCTCGAATCTGGCATGTCACATTGAAGTGTTTTTCGAAAATCATGTTTCCATTAAAAACCCT
Found at i:34699237 original size:27 final size:27
Alignment explanation
Indices: 34699207--34699336 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
34699197 ATTACCAAAG
*
34699207 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
34699234 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
34699261 TACCCTCGATTTATAGAACTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * * *
34699288 TACCCTTGATTTACAGAATTACTGTGT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
34699315 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
34699337 TAAAATACCC
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:34699345 original size:27 final size:27
Alignment explanation
Indices: 34699315--34699589 Score: 211
Period size: 27 Copynumber: 10.2 Consensus size: 27
34699305 ATTACTGTGT
* *
34699315 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
34699342 TACCCTTGATTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
34699369 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * * *
34699396 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
34699422 TACCCTTGGTTTGTAAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
34699449 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
34699476 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * **
34699503 TACCACT-GGTTTGTGAAATTACCGGAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* * *
34699530 TACCCGCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
34699557 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
34699584 TACCCT
1 TACCCT
34699590 TAACTTTCTA
Statistics
Matches: 203, Mismatches: 36, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
26 26 0.13
27 175 0.86
28 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:34699373 original size:54 final size:54
Alignment explanation
Indices: 34699193--34699675 Score: 256
Period size: 54 Copynumber: 8.9 Consensus size: 54
34699183 AAACAAATTG
* * ***
34699193 TAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTA
* **** * * *****
34699247 TAGAATTACCGTTTTACCCTCGATTTATAGAACTACTGTTTTACCCTTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTA
* * ***** * *
34699301 CAGAATTACTGTGTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTA
* * * * *
34699355 CAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAATACCCTAG-TCTG
1 TAAAATTACCAAAATACCCTCGATTTA-TAAAATTACCAAAATACCCTTGATTTA
* * * * * * ** *
34699408 TAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTA
* * * *
34699462 TAAAATTACCAAAATACCCT-TAGTTTGTAAAATTACCAAAATACCAC-TGGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTATAAAATTACCAAAATACC-CTTGATTTA
* ** * * * *
34699516 TGAAATTACCGGAATACCCGCAATTTGTAAAATTACCAAAATACCCCTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTA
* * ** * *** * *
34699570 CAAAGTTA-CAGAAATACCCTTAACTTTCTAAAAATTATGGAAATACCATTGGTTTAA
1 TAAAATTACCA-AAATACCCTCGA-TTTAT-AAAATTACCAAAATACCCTTGATTT-A
* * * * * * *
34699627 TAAAATTACTAAAATACCCTTGGTTTGTAGATTTACCAAAACACCCTTG
1 TAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTG
34699676 TAGGATGAAA
Statistics
Matches: 334, Mismatches: 83, Indels: 23
0.76 0.19 0.05
Matches are distributed among these distances:
53 43 0.13
54 230 0.69
55 20 0.06
56 23 0.07
57 17 0.05
58 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCTCGATTTATAAAATTACCAAAATACCCTTGATTTA
Found at i:34699524 original size:81 final size:80
Alignment explanation
Indices: 34699329--34699561 Score: 315
Period size: 81 Copynumber: 2.9 Consensus size: 80
34699319 CTCGATTTAC
* * ** * * **
34699329 AAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
34699394 AATACCCTAGTCTGT
66 AATACCCTAGTCTGT
* *
34699409 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
34699474 AATACCCTTAGTTTGT
66 AATACCC-TAGTCTGT
* * *
34699490 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGGAATACCCGCAATTTGTAAAATTACCA
1 AAAATTACCAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
34699554 AAATACCC
65 AAATACCC
34699562 CTGATTTACA
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 64 0.47
81 72 0.53
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCTAGTCTGT
Found at i:34699585 original size:81 final size:81
Alignment explanation
Indices: 34699329--34699590 Score: 293
Period size: 81 Copynumber: 3.2 Consensus size: 81
34699319 CTCGATTTAC
* * ** * * * **
34699329 AAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCGCAATTTGTAAAATTACCAA
34699394 AATA-CCCTAG-TCTGT
66 AATACCCCTAGAT-TGT
* * *
34699409 AAAATTGCTAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCGCAATTTGTAAAATTACCAA
* *
34699474 AATACCCTTAGTTTGT
66 AATACCCCTAGATTGT
* *
34699490 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGGAATACCCGCAATTTGTAAAATTACCA
1 AAAATTACCAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCGCAATTTGTAAAATTACCA
34699554 AAATACCCCT-GATT-T
65 AAATACCCCTAGATTGT
34699569 ACAAAGTTA-CAGAAATACCCTT
1 A-AAA-TTACCA-AAATACCCTT
34699591 AACTTTCTAA
Statistics
Matches: 159, Mismatches: 16, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
79 2 0.01
80 70 0.44
81 85 0.53
82 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCGCAATTTGTAAAATTACCAA
AATACCCCTAGATTGT
Found at i:34699736 original size:27 final size:28
Alignment explanation
Indices: 34699692--34699793 Score: 104
Period size: 27 Copynumber: 3.8 Consensus size: 28
34699682 GAAATGACTA
34699692 AAATACCCCTATTA-GGTAAAAAGACCGT
1 AAATACCCCTA-TAGGGTAAAAAGACCGT
*
34699720 AAAT-CCCCTATAGGGTAAAGAGACCGT
1 AAATACCCCTATAGGGTAAAAAGACCGT
* * **
34699747 AAA-GCCCCTGTAGGGTAAAGTGACCGT
1 AAATACCCCTATAGGGTAAAAAGACCGT
* *
34699774 -AATACCCCTGTATGGTAAAA
1 AAATACCCCTATAGGGTAAAA
34699794 TGACGAATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
26 4 0.06
27 57 0.88
28 4 0.06
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (28 bp):
AAATACCCCTATAGGGTAAAAAGACCGT
Found at i:34700465 original size:26 final size:26
Alignment explanation
Indices: 34700436--34700541 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
34700426 GAGGAAGTGC
34700436 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
34700462 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
34700488 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
34700514 AAAGGGGCTT-TGCCCCA-TTTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
34700537 AAAAG
1 AAAAG
34700542 AGGCAAGGCC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
23 4 0.06
24 6 0.08
25 7 0.10
26 55 0.76
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:34701595 original size:27 final size:27
Alignment explanation
Indices: 34701561--34701998 Score: 486
Period size: 27 Copynumber: 16.2 Consensus size: 27
34701551 GGTTATCTCG
34701561 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
34701588 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
34701615 GTAATTTTATCCTACGGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
** *
34701642 AAAATTCTACCCTACAGGGCTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
**
34701668 GATAATTCTACATTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
34701696 ATAATTCTACCCTACACGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
34701723 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * **
34701750 GTCATTTTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
34701777 GTAATTCTACCATACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
34701804 ATAATTCTACACTACAGGGATATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
34701831 GTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
34701858 GTAATTCTACTCTAGAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
34701884 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* **
34701912 GTAATTCTACCATACAGGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
34701939 GTAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
34701965 GATAATTCTACCCTATAGGGTTGTTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
34701993 GTAATT
1 GTAATT
34701999 TTGTAAATCG
Statistics
Matches: 337, Mismatches: 68, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 333 0.99
28 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:34701996 original size:54 final size:53
Alignment explanation
Indices: 34701558--34701998 Score: 542
Period size: 54 Copynumber: 8.2 Consensus size: 53
34701548 GGAGGTTATC
*
34701558 TCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTAC-AGGGTATT
* * * **
34701612 TCGGTAATTTTATCCTACGGGGGTATTTCAAAAATTCTACCCTACAGGGCTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGG-TATT
* ** *
34701666 TCGATAATTCTACATTACAGGGGTATTTCAATAATTCTACCCTACACGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA-GGGTATT
* * *
34701720 TCGGTAATTCTACCTTACAGGGGTATTTCAGTCATTTTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA-GGGTATT
* * * * *
34701774 TTGGTAATTCTACCATACAGGAGTATTTCAATAATTCTACACTACAGGGATATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGG-TATT
* * * *
34701828 TCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACTCTAGAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA-CAGGGTATT
* *
34701882 TCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCATACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA-GGGTATT
* * * *
34701936 TTGGTAATTCTACCCTATAGGGGTATTTC-GATAATTCTACCCTATAGGGTTGTT
1 TCGGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACAGGG-TATT
34701990 TCGGTAATT
1 TCGGTAATT
34701999 TTGTAAATCG
Statistics
Matches: 336, Mismatches: 44, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
53 12 0.04
54 317 0.94
55 7 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (53 bp):
TCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGTATT
Found at i:34702051 original size:27 final size:26
Alignment explanation
Indices: 34701992--34702322 Score: 200
Period size: 27 Copynumber: 12.3 Consensus size: 26
34701982 GGGTTGTTTC
* ***
34701992 GGTAATTTTGTAAATCGAGGGTAAAAT
1 GGTAATTTTATAAATCG-GGGTATTTT
* * *
34702019 GTTAATTTTGTAAATCAGGGGTACTTT
1 GGTAATTTTATAAATC-GGGGTATTTT
* * *
34702046 GGTAATTTTACAAGTCGAAGGTATTTT
1 GGTAATTTTATAAATCG-GGGTATTTT
* * *
34702073 AGTAATCTTACAAATCGGGGTATTTT
1 GGTAATTTTATAAATCGGGGTATTTT
* * * *
34702099 GGTGATTTTATAAACCAAGGGTATTCT
1 GGTAATTTTATAAATC-GGGGTATTTT
* * *
34702126 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTATAAATC-GGGGTATTTT
* ** *
34702153 GGTAATTTTGTAACCCAAGGGTATTTT
1 GGTAATTTTATAAATC-GGGGTATTTT
* * *
34702180 GGTAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTATAAATC-GGGGTATTTT
* ** *
34702207 GGTGATTTTATAAACTAAGGGTATTCT
1 GGTAATTTTATAAA-TCGGGGTATTTT
* *
34702234 AGTAATTTTGCT-AATCGAGGGTATTTT
1 GGTAATTTT-ATAAATCG-GGGTATTTT
*
34702261 GGTAATTTT-TCTAATCGAGGGTATTTT
1 GGTAATTTTAT-AAATCG-GGGTATTTT
*
34702288 GGTAATTTTGCT-AATCGAGGGTATTTT
1 GGTAATTTT-ATAAATCG-GGGTATTTT
34702315 GGTAATTT
1 GGTAATTT
34702323 AGTAAACTAA
Statistics
Matches: 248, Mismatches: 46, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.00
26 21 0.08
27 223 0.90
28 2 0.01
29 1 0.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (26 bp):
GGTAATTTTATAAATCGGGGTATTTT
Found at i:34702171 original size:54 final size:53
Alignment explanation
Indices: 34702021--34702322 Score: 293
Period size: 54 Copynumber: 5.6 Consensus size: 53
34702011 GGTAAAATGT
** * * * *
34702021 TAATTTTGTAAATCAGGGGTACTTTGGTAATTTTACAAGTCGAA-GGTATTTTAG
1 TAATTTTACAAATC-GGGGTATTTTGGTAATTTTATAA-ACCAAGGGTATTTTAG
* * *
34702075 TAATCTTACAAATCGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTACAAATCGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
* * * *
34702128 TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAACCCAAGGGTATTTTGG
1 TAATTTTACAAATC-GGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
* * * * *
34702182 TAATTTTACAAACCAAGGGTATTTTGGTGATTTTATAAACTAAGGGTATTCTAG
1 TAATTTTACAAATC-GGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
* * * * * *
34702236 TAATTTTGCTAATCGAGGGTATTTTGGTAATTTT-TCTAATCGAGGGTATTTTGG
1 TAATTTTACAAATCG-GGGTATTTTGGTAATTTTAT-AAACCAAGGGTATTTTAG
* *
34702290 TAATTTTGCTAATCGAGGGTATTTTGGTAATTT
1 TAATTTTACAAATCG-GGGTATTTTGGTAATTT
34702323 AGTAAACTAA
Statistics
Matches: 210, Mismatches: 34, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
52 3 0.01
53 42 0.20
54 165 0.79
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (53 bp):
TAATTTTACAAATCGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
Found at i:34702201 original size:81 final size:80
Alignment explanation
Indices: 34702090--34702327 Score: 262
Period size: 81 Copynumber: 3.0 Consensus size: 80
34702080 TTACAAATCG
* * * *
34702090 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
34702155 TAATTTTGTAACCCAA
66 TAATTTTGTAA-CCAA
* * * * * *
34702171 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTGATTTTATAAACTAAGGGTATTCTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
* *
34702236 TAATTTTGCTAATCGA
66 TAATTTTG-TAACCAA
* * * * * * *
34702252 GGGTATTTTGGTAATTTTTCTAATCGAGGGTATTTTGGTAATTTTGCTAATC-GAGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTG
*
34702316 GTAATTTAGTAA
65 GTAATTTTGTAA
34702328 ACTAAAGTAT
Statistics
Matches: 129, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
80 3 0.02
81 123 0.95
82 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
TAATTTTGTAACCAA
Found at i:34702241 original size:108 final size:106
Alignment explanation
Indices: 34702034--34702341 Score: 345
Period size: 108 Copynumber: 2.9 Consensus size: 106
34702024 TTTTGTAAAT
* * * * * *
34702034 CAGGGGTACTTTGGTAATTTTACAAGTCGAA-GGTATTTTAGTAATCTTACAAATCGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTATAA--CCAAGGGTATTTTGGTAATTTTACAAATCAGGGTATTT
*
34702098 TGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAAC
64 TGGTGATTTTATAAACTAAGGGTATTCTAGTAATTTTACAAAC
* *
34702141 CAGGGGTATTTTGGTAATTTTGTAACCCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAGGGGTATTTTGGTAATTTTATAA-CCAAGGGTATTTTGGTAATTTTACAAATC-AGGGTATTT
* * *
34702206 TGGTGATTTTATAAACTAAGGGTATTCTAGTAATTTTGCTAAT
64 TGGTGATTTTATAAACTAAGGGTATTCTAGTAATTTTACAAAC
* * * * *
34702249 C-GAGGGTATTTTGGTAATTTTTCTAATCGAGGGTATTTTGGTAATTTTGCTAATCGAGGGTATT
1 CAG-GGGTATTTTGGTAA-TTTTATAACCAAGGGTATTTTGGTAATTTTACAAATC-AGGGTATT
* *
34702313 TTGGT-AATTTAGTAAACTAA-AGTATTCTA
63 TTGGTGATTTTA-TAAACTAAGGGTATTCTA
34702342 AACAGGGATA
Statistics
Matches: 174, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
106 3 0.02
107 57 0.33
108 107 0.61
109 7 0.04
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.40
Consensus pattern (106 bp):
CAGGGGTATTTTGGTAATTTTATAACCAAGGGTATTTTGGTAATTTTACAAATCAGGGTATTTTG
GTGATTTTATAAACTAAGGGTATTCTAGTAATTTTACAAAC
Found at i:34704706 original size:44 final size:44
Alignment explanation
Indices: 34704655--34704802 Score: 138
Period size: 44 Copynumber: 3.4 Consensus size: 44
34704645 GCTCCGCTGC
* * *
34704655 AACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCAATGT
1 AACTTCAGAGAGATAAGGTTGGTGGCTTCAATCTACTCCAATGA
* * * * * **
34704699 AATTTCAGAGAGA-AGAGATTTGTAGCTTCGATCTACTCCGTTGA
1 AACTTCAGAGAGATA-AGGTTGGTGGCTTCAATCTACTCCAATGA
* *
34704743 AACTTCA-AGGAGATAAGGTTGGTGGCTTCAATCTACTCCACTGC
1 AACTTCAGA-GAGATAAGGTTGGTGGCTTCAATCTACTCCAATGA
* *
34704787 AACATCAGGGAGATAA
1 AACTTCAGAGAGATAA
34704803 TGTAATACCC
Statistics
Matches: 80, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
43 2 0.03
44 77 0.96
45 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
AACTTCAGAGAGATAAGGTTGGTGGCTTCAATCTACTCCAATGA
Found at i:34709065 original size:8 final size:8
Alignment explanation
Indices: 34709052--34709081 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
34709042 ATTTAAGTAA
34709052 ATATTATT
1 ATATTATT
34709060 ATATTATT
1 ATATTATT
34709068 ATATTATT
1 ATATTATT
34709076 ATATTA
1 ATATTA
34709082 ATTAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATATTATT
Found at i:34709089 original size:8 final size:9
Alignment explanation
Indices: 34709052--34709090 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
34709042 ATTTAAGTAA
34709052 ATATT-ATT
1 ATATTAATT
34709060 ATATT-ATT
1 ATATTAATT
34709068 ATATT-ATT
1 ATATTAATT
34709076 ATATTAATT
1 ATATTAATT
34709085 A-ATTAA
1 ATATTAA
34709091 AGTAAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 26 0.87
9 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATTAATT
Found at i:34709163 original size:23 final size:23
Alignment explanation
Indices: 34709129--34709174 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
34709119 ATTGTGTGGT
34709129 AATAATATTGTAAATGTGTAATA
1 AATAATATTGTAAATGTGTAATA
* *
34709152 AATACATA-TGTACATTTGTAATA
1 AATA-ATATTGTAAATGTGTAATA
34709175 CATATATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (23 bp):
AATAATATTGTAAATGTGTAATA
Found at i:34710239 original size:40 final size:39
Alignment explanation
Indices: 34710183--34710299 Score: 135
Period size: 40 Copynumber: 2.9 Consensus size: 39
34710173 CCTTCTCGAG
*
34710183 AATTAAAAGTGAATAGGATTTATTCTTGATTCACTAAAAGA
1 AATT-AAAGTGAATAGGATTTATTCCTGATTCACTAAAA-A
* *
34710224 AATTAAAGTGAATAGGATTTATTCCTGATTCGCTAGAAA
1 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
* * * * *
34710263 TATATAAAGCGGATAGGATTTGTTCCCGATTCACTAA
1 AAT-TAAAGTGAATAGGATTTATTCCTGATTCACTAA
34710300 GGTAACTCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.05
40 58 0.89
41 4 0.06
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (39 bp):
AATTAAAGTGAATAGGATTTATTCCTGATTCACTAAAAA
Found at i:34726210 original size:40 final size:40
Alignment explanation
Indices: 34726166--34726250 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
34726156 TTAAGTCCGG
*
34726166 ATATAGTACCAGCACT-AAGCCTGCGGGATTTAACCAGGAT
1 ATATAGTACCAGCA-TGAAGCCTGCAGGATTTAACCAGGAT
* * *
34726206 ATATATTACTAGCATGAAGCCTGCAGGATTTAACCCGGAT
1 ATATAGTACCAGCATGAAGCCTGCAGGATTTAACCAGGAT
34726246 ATATA
1 ATATA
34726251 TTATATCGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (40 bp):
ATATAGTACCAGCATGAAGCCTGCAGGATTTAACCAGGAT
Found at i:34740323 original size:99 final size:99
Alignment explanation
Indices: 34740151--34740528 Score: 505
Period size: 99 Copynumber: 3.9 Consensus size: 99
34740141 AAAACATGCG
* * * * **
34740151 AGGTATGAAAGTGTTAACATATCATGTTGCGTACTTGATATTCTGTATGATTAATAAAGTGACCG
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
*
34740216 CACATATTATGTTGAAAATGAATGGGAATGAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* * *
34740250 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTTTTTATGATTGATAAAGTGTTCA
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
* * *
34740315 CACTTATTATATTGAAAATGAATGGAAATTAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* * *
34740349 AGGTATAAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATTATTGATGAAGTGTTCG
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
*
34740414 CACTTACTATGTTGAAAATGAATGGGAATGAATC
66 CACTTATTATGTTGAAAATGAATGGGAATGAATC
* * ** *
34740448 AGGTATGAAAGTATTAATATATCATGTTGTGTACTTGATATAT-TATATG-TTGATAAAGTGTTC
1 AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATAT-TCTGTATGATTGATAAAGTGTTC
*
34740511 G-A-TCATTATG-TGAAAATG
65 GCACTTATTATGTTGAAAATG
34740529 GTTTTGGTTT
Statistics
Matches: 245, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
95 8 0.03
96 6 0.02
97 1 0.00
98 14 0.06
99 215 0.88
100 1 0.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (99 bp):
AGGTATGAAAATGTTAATATATCATGTTGCATACTTGATATTCTGTATGATTGATAAAGTGTTCG
CACTTATTATGTTGAAAATGAATGGGAATGAATC
Found at i:34742020 original size:14 final size:15
Alignment explanation
Indices: 34741980--34742023 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
34741970 GTTAAGAGCA
*
34741980 TAAAATAATTATATAT
1 TAAAATAATT-TTTAT
*
34741996 TAAAATTATTTTTAT
1 TAAAATAATTTTTAT
34742011 T-AAATAATTTTTA
1 TAAAATAATTTTTA
34742024 ATCTTTTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 11 0.44
15 5 0.20
16 9 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAAAATAATTTTTAT
Found at i:34744796 original size:82 final size:83
Alignment explanation
Indices: 34744659--34744825 Score: 246
Period size: 82 Copynumber: 2.0 Consensus size: 83
34744649 TTTAAATAGT
* * * * *
34744659 ATTATCGTAACATTTTATAGTGATTGAAAGATGTTTTGAGATTTTTATTTTTCATCCAAAATTAA
1 ATTATCGTAACATTTTATAGTGATTCAAAGATGTTTTAAAATTTTCACTTTTCATCCAAAATTAA
*
34744724 AAGAACTAATAAA-AAAA
66 AAGAACCAATAAAGAAAA
* *
34744741 ATTATCGTAACATTTTATAGTGATTCAAAGATGTTTTAAAATTTTCGCTTTTCATCCAAGATTAA
1 ATTATCGTAACATTTTATAGTGATTCAAAGATGTTTTAAAATTTTCACTTTTCATCCAAAATTAA
*
34744806 CAGAACCAATAAAGAAAA
66 AAGAACCAATAAAGAAAA
34744824 AT
1 AT
34744826 AAAATGGTAG
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 69 0.92
83 6 0.08
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (83 bp):
ATTATCGTAACATTTTATAGTGATTCAAAGATGTTTTAAAATTTTCACTTTTCATCCAAAATTAA
AAGAACCAATAAAGAAAA
Found at i:34749042 original size:5 final size:5
Alignment explanation
Indices: 34749032--34749058 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34749022 AGGATTTGGG
34749032 GCCAT GCCAT GCCAT GCCAT GCCAT GC
1 GCCAT GCCAT GCCAT GCCAT GCCAT GC
34749059 AATCGACTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.41, G:0.22, T:0.19
Consensus pattern (5 bp):
GCCAT
Found at i:34754724 original size:17 final size:18
Alignment explanation
Indices: 34754704--34754750 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
34754694 ACCCCTTTTG
34754704 AAATTTAAAAAATCAT-A
1 AAATTTAAAAAATCATAA
**
34754721 AAATTTATAAAAATTTTAA
1 AAATTTA-AAAAATCATAA
34754740 AAATTTAAAAA
1 AAATTTAAAAA
34754751 TTAAGCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 11 0.42
19 8 0.31
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTTAAAAAATCATAA
Found at i:34754740 original size:9 final size:9
Alignment explanation
Indices: 34754720--34754752 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
34754710 AAAAAATCAT
34754720 AAAATTTATA
1 AAAATTT-TA
34754730 AAAATTTTA
1 AAAATTTTA
34754739 AAAA-TTTA
1 AAAATTTTA
34754747 AAAATT
1 AAAATT
34754753 AAGCCCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 7 0.32
10 7 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAATTTTA
Found at i:34754877 original size:9 final size:8
Alignment explanation
Indices: 34754855--34754880 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
34754845 AGTAGGGATC
34754855 AATTTTTA
1 AATTTTTA
34754863 AATTTTTA
1 AATTTTTA
34754871 AATTTTTA
1 AATTTTTA
34754879 AA
1 AA
34754881 AGTGTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
AATTTTTA
Found at i:34761235 original size:16 final size:17
Alignment explanation
Indices: 34761208--34761241 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
34761198 TTTTATTTTG
*
34761208 AAATTAAAAAATGTATA
1 AAATTAAAAAATATATA
34761225 AAATT-AAAAATATATA
1 AAATTAAAAAATATATA
34761241 A
1 A
34761242 CTAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATTAAAAAATATATA
Found at i:34761345 original size:27 final size:25
Alignment explanation
Indices: 34761315--34761401 Score: 95
Period size: 27 Copynumber: 3.4 Consensus size: 25
34761305 CTCGATGTGG
*
34761315 TATTTTTAGTAATTTTATATATTTATA
1 TATTTTTA-TAATTTTATAAATTT-TA
*
34761342 TATTTTTAATAAATTTATAAATTTTA
1 TATTTTT-ATAATTTTATAAATTTTA
* *
34761368 TTTTTTTATATTTTTAATAAATTTTA
1 TATTTTTATAATTTT-ATAAATTTTA
34761394 T-TTTTTAT
1 TATTTTTAT
34761402 TTTATAACTT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
25 13 0.25
26 19 0.36
27 20 0.38
28 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (25 bp):
TATTTTTATAATTTTATAAATTTTA
Found at i:34761383 original size:34 final size:33
Alignment explanation
Indices: 34761325--34761404 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 33
34761315 TATTTTTAGT
34761325 AATTTTATATATTTATATATTTTTAATAAATTTATA
1 AATTTTAT-T-TTTATATATTTTTAATAAATTT-TA
*
34761361 AATTTTATTTTTTTATATTTTTAATAAATTTTA
1 AATTTTATTTTTATATATTTTTAATAAATTTTA
**
34761394 TTTTTTATTTT
1 AATTTTATTTT
34761405 ATAACTTATA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
33 11 0.27
34 21 0.51
35 1 0.02
36 8 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (33 bp):
AATTTTATTTTTATATATTTTTAATAAATTTTA
Found at i:34764586 original size:47 final size:47
Alignment explanation
Indices: 34764435--34764567 Score: 257
Period size: 47 Copynumber: 2.8 Consensus size: 47
34764425 TTTTGAGAGG
34764435 AGTTACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCAAGATA
1 AGTTACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCAAGATA
34764482 AGTTACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCAAGATA
1 AGTTACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCAAGATA
*
34764529 AGTTACCTTGATTTGGCTACAAGCCATGGTATAGGTACT
1 AGTTACCTTGATTTGGCTACAGGCCATGGTATAGGTACT
34764568 TATCGATTGT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (47 bp):
AGTTACCTTGATTTGGCTACAGGCCATGGTATAGGTACTCCAAGATA
Found at i:34769534 original size:46 final size:46
Alignment explanation
Indices: 34769481--34769701 Score: 232
Period size: 46 Copynumber: 4.8 Consensus size: 46
34769471 TGATATGTGT
*
34769481 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGA
*
34769527 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGA
* * * * ** *
34769573 GCTAGTGTAAGACATGTCTAGAACATGAATCGGCCTCGAGAAAT-ACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TCATGA-GA
* * * * * * *
34769621 GCCAGTGTAAGACATGTTTGTGACATGCATCGG-TA-TTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAT--CATGAGA
34769667 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
34769702 TTGAGATATA
Statistics
Matches: 143, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
46 110 0.77
47 3 0.02
48 30 0.21
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGA
Found at i:34769637 original size:48 final size:48
Alignment explanation
Indices: 34769572--34769742 Score: 186
Period size: 48 Copynumber: 3.6 Consensus size: 48
34769562 ACATCATGAG
* *
34769572 AGCTAGTGTAAGACATGTCTAGAACATGAATCGGCCTCGAGAAATACA
1 AGCTAGTGTAAGACATGTCTAGGACATGAATCGGCCTTGAGAAATACA
* * * ** ** *
34769620 AGCCAGTGTAAGACATGT-TTGTGACATGCATCGGTATTGAG-ACGA-G
1 AGCTAGTGTAAGACATGTCTAG-GACATGAATCGGCCTTGAGAAATACA
* * *
34769666 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACA
1 AGCTAGTGTAAGACATGTCTAGGACATGAATCGGCCTTGAGAAATACA
*
34769714 AGCTAGTGTAAGACCTGTCTAGGACATGA
1 AGCTAGTGTAAGACATGTCTAGGACATGA
34769743 CATCAGCTTA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
46 34 0.35
47 7 0.07
48 57 0.58
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.24
Consensus pattern (48 bp):
AGCTAGTGTAAGACATGTCTAGGACATGAATCGGCCTTGAGAAATACA
Found at i:34769706 original size:46 final size:46
Alignment explanation
Indices: 34769481--34769746 Score: 221
Period size: 46 Copynumber: 5.7 Consensus size: 46
34769471 TGATATGTGT
* * * *
34769481 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCC-ACATCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGA-GAAGAGA
* * * *
34769527 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCC-ACATCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGA-GAAGAGA
* * * * * *
34769573 GCTAGTGTAAGACATGTCTAGAACATGAATCGGCCTCGAGAAATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAG-AAGA-GA
* * * ** * *
34769621 GCCAGTGTAAGACATGTTTGTGACATGCATCGGTATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGAAGAGA
* * *
34769667 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGA-AGA-GA
* *
34769715 GCTAGTGTAAGACCTGTCTAGGACATGACATC
1 GCTAGTGTAAGACATGTCTGGGACATG-CATC
34769747 AGCTTATTGT
Statistics
Matches: 182, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
46 114 0.63
47 6 0.03
48 58 0.32
49 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAGAGAAGAGA
Found at i:34769740 original size:94 final size:93
Alignment explanation
Indices: 34769481--34769746 Score: 274
Period size: 94 Copynumber: 2.8 Consensus size: 93
34769471 TGATATGTGT
* * *
34769481 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCC--ACATCATGA-GAGCTAGTGTAAGACATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGAT-AT-ACAAGCTAGTGTAAGACATG
* * *
34769543 TCTGGGACATGCATTGGCCACATCATGAGA
64 TCTAGGACATGCATCGGCCACATCACGAGA
* * * * *
34769573 GCTAGTGTAAGACATGTCTAGAACATGAATCGGCCTCGAGAAATACAAGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-GAGATATACAAGCTAGTGTAAGACATGT
* * * *
34769638 -TTGTGACATGCATCGG-TA-TTGAGACGAGA
65 CTAG-GACATGCATCGGCCACAT--CACGAGA
*
34769667 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATACAAGCTAGTGTAAGACCTGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TGAGATATACAAGCTAGTGTAAGACATGT
34769732 CTAGGACATGACATC
65 CTAGGACATG-CATC
34769747 AGCTTATTGT
Statistics
Matches: 143, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
92 32 0.22
93 4 0.03
94 98 0.69
95 9 0.06
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTGAGATATACAAGCTAGTGTAAGACATGTC
TAGGACATGCATCGGCCACATCACGAGA
Found at i:34770982 original size:28 final size:28
Alignment explanation
Indices: 34770942--34771006 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
34770932 CATAGGCTGT
* * *
34770942 GACATGGGCGTGTCATGGTCGTGTGAGG
1 GACACGGGCGTGTCATAGCCGTGTGAGG
34770970 GACACGGGCGTGTCATAGCCGTGTGAGG
1 GACACGGGCGTGTCATAGCCGTGTGAGG
34770998 GACACGGGC
1 GACACGGGC
34771007 TATAGACACA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.17, C:0.20, G:0.45, T:0.18
Consensus pattern (28 bp):
GACACGGGCGTGTCATAGCCGTGTGAGG
Found at i:34774028 original size:30 final size:31
Alignment explanation
Indices: 34773975--34774046 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
34773965 GCTTTAAATT
34773975 AATAATGATAAAATTACACTTTAACTC-TTCAAA
1 AATAAT-A-AAAATTACACTTTAA-TCATTCAAA
* *
34774008 AATAATAAAAATTAGA-TTTAATCATTTAAA
1 AATAATAAAAATTACACTTTAATCATTCAAA
*
34774038 AATTATAAA
1 AATAATAAA
34774047 TATACAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 2 0.06
30 18 0.51
31 8 0.23
32 1 0.03
33 6 0.17
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (31 bp):
AATAATAAAAATTACACTTTAATCATTCAAA
Found at i:34774834 original size:56 final size:56
Alignment explanation
Indices: 34774748--34774859 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
34774738 AACAAAAAAA
* *
34774748 TATTTTAGGTACTAAAGTGAAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
1 TATTTTAAGTAATAAAGTGAAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
34774804 TATTTTAAGTAATAAAGTGAAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
1 TATTTTAAGTAATAAAGTGAAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
34774860 GAAGCTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (56 bp):
TATTTTAAGTAATAAAGTGAAAAAAATAAGTATAATTCAAAGACCAAATCTTGAAT
Found at i:34776205 original size:20 final size:20
Alignment explanation
Indices: 34776182--34776220 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34776172 TCTTATTCTG
*
34776182 AATTTTAGGATTTTATCCTA
1 AATTTTAAGATTTTATCCTA
34776202 AATTTTAAGATTTTATCCT
1 AATTTTAAGATTTTATCCT
34776221 GAAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.51
Consensus pattern (20 bp):
AATTTTAAGATTTTATCCTA
Found at i:34776282 original size:20 final size:20
Alignment explanation
Indices: 34776241--34776288 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34776231 AAATCCAAAT
*
34776241 TAAAATATTGAAATTCAGGA
1 TAAAATATTGAAATTCAAGA
* *
34776261 TAAAATCTTGAAATTTAAGA
1 TAAAATATTGAAATTCAAGA
34776281 TAAGAATA
1 TAA-AATA
34776289 CTGATGTGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.31
Consensus pattern (20 bp):
TAAAATATTGAAATTCAAGA
Found at i:34779277 original size:27 final size:27
Alignment explanation
Indices: 34779246--34779423 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34779236 TAAATTGTAC
34779246 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34779273 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34779299 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34779327 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34779355 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34779382 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34779409 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34779424 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34779360 original size:82 final size:81
Alignment explanation
Indices: 34779247--34779402 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34779237 AAATTGTACA
* *
34779247 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34779311 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34779328 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34779393 TGCGAGTTGA
65 TGCGAATTGA
34779403 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34779414 original size:82 final size:81
Alignment explanation
Indices: 34779243--34779423 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34779233 GATTAAATTG
* *
34779243 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34779308 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34779324 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34779388 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34779406 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34779424 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34780830 original size:21 final size:21
Alignment explanation
Indices: 34780801--34780841 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
34780791 GGTGATAATA
*
34780801 ATTACTATAATTGTGTGATTT
1 ATTACTATAATTGTGGGATTT
* *
34780822 ATTATTATAGTTGTGGGATT
1 ATTACTATAATTGTGGGATT
34780842 AAAATTAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (21 bp):
ATTACTATAATTGTGGGATTT
Found at i:34790076 original size:6 final size:6
Alignment explanation
Indices: 34790065--34790089 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
34790055 ATAGTGAAAT
34790065 GTAGCA GTAGCA GTAGCA GTAGCA G
1 GTAGCA GTAGCA GTAGCA GTAGCA G
34790090 ATGATGTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16
Consensus pattern (6 bp):
GTAGCA
Found at i:34795743 original size:16 final size:16
Alignment explanation
Indices: 34795700--34795746 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
34795690 AACTAAAGCC
*
34795700 TTGTTCTGAAT-ATAG
1 TTGTTCTGAATAACAG
* *
34795715 TTATTCTCAAATAACAG
1 TTGTTCT-GAATAACAG
34795732 TTGTTCTGAATAACA
1 TTGTTCTGAATAACA
34795747 ATAATTCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 6 0.24
16 10 0.40
17 9 0.36
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (16 bp):
TTGTTCTGAATAACAG
Found at i:34800148 original size:30 final size:30
Alignment explanation
Indices: 34800114--34800174 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34800104 TCCTTAACTC
34800114 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
34800144 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
34800174 A
1 A
34800175 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:34803105 original size:30 final size:30
Alignment explanation
Indices: 34803071--34803131 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
34803061 TCCTTAACTC
34803071 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
34803101 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
34803131 A
1 A
34803132 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:34812309 original size:22 final size:19
Alignment explanation
Indices: 34812271--34812308 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34812261 CATATTGGCG
34812271 ACACTAATAAAAATTATTA
1 ACACTAATAAAAATTATTA
34812290 ACACTAATAAAAATTATTA
1 ACACTAATAAAAATTATTA
34812309 TTGTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (19 bp):
ACACTAATAAAAATTATTA
Found at i:34816213 original size:38 final size:39
Alignment explanation
Indices: 34816124--34816220 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 39
34816114 CAAATATAAT
* * * *
34816124 AATTACAATTACCACAAGTATAATAATGTTTGACCGAAA
1 AATTACAATTACAATAATTATAATAATATTTGACCGAAA
* *
34816163 AATTACAATTACAATAATTATAATAATATTTGATCG-TA
1 AATTACAATTACAATAATTATAATAATATTTGACCGAAA
**
34816201 AATTTTAATTACAATAATTA
1 AATTACAATTACAATAATTA
34816221 CAACAAGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 19 0.38
39 31 0.62
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.36
Consensus pattern (39 bp):
AATTACAATTACAATAATTATAATAATATTTGACCGAAA
Found at i:34819582 original size:27 final size:26
Alignment explanation
Indices: 34819552--34819610 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
34819542 ATTTACTAAA
*
34819552 ATACCCCTAAGTATAAAAATTACCATT
1 ATACCCCTAAGT-GAAAAATTACCATT
* * *
34819579 ATACCTCTAGGTGCAAAATTACCATT
1 ATACCCCTAAGTGAAAAATTACCATT
34819605 ATACCC
1 ATACCC
34819611 TAGGGTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (26 bp):
ATACCCCTAAGTGAAAAATTACCATT
Found at i:34819758 original size:28 final size:28
Alignment explanation
Indices: 34819718--34819804 Score: 135
Period size: 27 Copynumber: 3.2 Consensus size: 28
34819708 GAGGAAACGT
34819718 TCTGGTGGCTCTGCCACAAATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
34819746 TCTGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
34819773 TCTGGTGACTCTGTCA-AAATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
34819799 TCTGGT
1 TCTGGT
34819805 AGCCATGCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 6 0.11
27 33 0.59
28 17 0.30
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:34822291 original size:6 final size:6
Alignment explanation
Indices: 34822282--34822311 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
34822272 GGGCCCATAT
*
34822282 CAGATA CAGATA CAGATA CAGTTA CAGATA
1 CAGATA CAGATA CAGATA CAGATA CAGATA
34822312 TGCAACTCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.20
Consensus pattern (6 bp):
CAGATA
Found at i:34824128 original size:20 final size:20
Alignment explanation
Indices: 34824103--34824150 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
34824093 AGTCAAGCTA
34824103 CAAGCTCAGGGACTGTCAGC
1 CAAGCTCAGGGACTGTCAGC
* *
34824123 CAAGCTCGGGGACTGTTAGC
1 CAAGCTCAGGGACTGTCAGC
34824143 CAAGCTCA
1 CAAGCTCA
34824151 TAACACTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.17
Consensus pattern (20 bp):
CAAGCTCAGGGACTGTCAGC
Found at i:34825041 original size:17 final size:17
Alignment explanation
Indices: 34825016--34825051 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34825006 TTGTTTATTA
*
34825016 AATTGATTGACTAAACT
1 AATTAATTGACTAAACT
*
34825033 AATTAATTGATTAAACT
1 AATTAATTGACTAAACT
34825050 AA
1 AA
34825052 AGCAAAGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.36
Consensus pattern (17 bp):
AATTAATTGACTAAACT
Found at i:34827837 original size:34 final size:34
Alignment explanation
Indices: 34827799--34827863 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
34827789 TCTGTAGAAC
34827799 CATGAAGAGCTTATTAAGAGTGGGTGTGGAAAAT
1 CATGAAGAGCTTATTAAGAGTGGGTGTGGAAAAT
*
34827833 CATGAAGAGCTTATTAAGAGTTGGTGTGGAA
1 CATGAAGAGCTTATTAAGAGTGGGTGTGGAA
34827864 GAGAGCGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.34, C:0.06, G:0.32, T:0.28
Consensus pattern (34 bp):
CATGAAGAGCTTATTAAGAGTGGGTGTGGAAAAT
Found at i:34831037 original size:14 final size:15
Alignment explanation
Indices: 34831010--34831039 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
34831000 GCCTCCCTAA
34831010 AATCAAAGGGGTGTT
1 AATCAAAGGGGTGTT
34831025 AATCAAA-GGGTGTT
1 AATCAAAGGGGTGTT
34831039 A
1 A
34831040 TTATCCTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.37, C:0.07, G:0.30, T:0.27
Consensus pattern (15 bp):
AATCAAAGGGGTGTT
Found at i:34868995 original size:46 final size:46
Alignment explanation
Indices: 34868942--34869029 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
34868932 CCCGGCATGT
34868942 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
34868988 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATC
34869030 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:34871054 original size:18 final size:20
Alignment explanation
Indices: 34871039--34871075 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34871029 TAATAATAAA
*
34871039 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
34871059 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
34871076 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:34872755 original size:172 final size:172
Alignment explanation
Indices: 34872485--34872820 Score: 485
Period size: 172 Copynumber: 2.0 Consensus size: 172
34872475 TTCTAGACCT
* * * *
34872485 CATTGAAAAGATCTGTTTGATCTTACAGACTATTATTTGTTTATTTGTTAGTTATAGTTTAGTTT
1 CATTGAAAAGATCTGTTGGATCTTACAGACTATTATTTGTTTATTTGTTAGTTACACTTTAGTTA
* * *
34872550 AATCCCAATCTTGTTCTTATTAGTTTCCATTGAATTTGTTTGCTATATTAATTGAGTTCCAAATC
66 AATCCCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTCCAAATC
* * *
34872615 TTGTCTTAGTGCCATTCATGTTGGTTAGGATGTTTTGGAATG
131 TTGTCTTAGTGCCACTCATATTGGTCAGGATGTTTTGGAATG
* * * *
34872657 CATTGAAAAGGTCTGTTGGATCTTACA-ATCTGTTATTTGTTTGTTTGTTAGTTCCACTTTAGTT
1 CATTGAAAAGATCTGTTGGATCTTACAGA-CTATTATTTGTTTATTTGTTAGTTACACTTTAGTT
* **
34872721 AAATCTCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTTTAAAT
65 AAATCCCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTCCAAAT
* *
34872786 CTTGTTTTAGTGTCACTCATATTGGTCAGGATGTT
130 CTTGTCTTAGTGCCACTCATATTGGTCAGGATGTT
34872821 CCTGTAGCAC
Statistics
Matches: 144, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
171 1 0.01
172 143 0.99
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (172 bp):
CATTGAAAAGATCTGTTGGATCTTACAGACTATTATTTGTTTATTTGTTAGTTACACTTTAGTTA
AATCCCAATCTTATTCTTATTAGTTTCCATTGAATTTGTTCGCTATATTAACTGAGTTCCAAATC
TTGTCTTAGTGCCACTCATATTGGTCAGGATGTTTTGGAATG
Found at i:34874026 original size:20 final size:20
Alignment explanation
Indices: 34874001--34874089 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 20
34873991 CATATAGAGT
* * *
34874001 ATGCCATAAAGGATAATAGA
1 ATGCCACAAAGGATAACAAA
*
34874021 ATGCCACAAGGGATAACAAA
1 ATGCCACAAAGGATAACAAA
34874041 ATGCCAC-AAGGACTAAATCAGAA
1 ATGCCACAAAGGA-T-AA-CA-AA
*
34874064 TATGCCACAAA-GACTAACAGA
1 -ATGCCACAAAGGA-TAACAAA
34874085 ATGCC
1 ATGCC
34874090 TCATAGGCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
19 4 0.07
20 29 0.51
21 3 0.05
22 4 0.07
23 4 0.07
24 11 0.19
25 2 0.04
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.15
Consensus pattern (20 bp):
ATGCCACAAAGGATAACAAA
Found at i:34875867 original size:25 final size:25
Alignment explanation
Indices: 34875838--34875893 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
34875828 GAGCCCGTGA
* *
34875838 GAGCATACAGA-TCTACAACTTGAGT
1 GAGCATACAGATTC-ACAACTCGAAT
*
34875863 GAGCATACCGATTCACAACTCGAAT
1 GAGCATACAGATTCACAACTCGAAT
34875888 GAGCAT
1 GAGCAT
34875894 TCATGTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (25 bp):
GAGCATACAGATTCACAACTCGAAT
Found at i:34884032 original size:18 final size:18
Alignment explanation
Indices: 34884009--34884044 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34883999 TTCCTGGGTG
34884009 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
34884027 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
34884045 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:34886951 original size:18 final size:18
Alignment explanation
Indices: 34886928--34886963 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34886918 TTCCTGGGTG
34886928 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
34886946 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
34886964 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:34890231 original size:50 final size:50
Alignment explanation
Indices: 34890156--34890548 Score: 430
Period size: 50 Copynumber: 7.8 Consensus size: 50
34890146 TCCATTGTGA
* *
34890156 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * * *
34890206 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
34890257 ATCACATGTGTACTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
34890307 GTCACATGTGTGGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * *
34890357 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAACTTTG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * * * *
34890408 ATCACGTATGTAGTACTAAGTGCAGGCTACTACATGTATCATATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*
34890458 GTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * *
34890508 ATCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
34890549 AAGAGCTTCG
Statistics
Matches: 279, Mismatches: 58, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
49 5 0.02
50 199 0.71
51 74 0.27
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:34890337 original size:101 final size:100
Alignment explanation
Indices: 34890157--34890548 Score: 380
Period size: 101 Copynumber: 3.9 Consensus size: 100
34890147 CCATTGTGAG
* * * *
34890157 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCAGATTGATAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
* * * *
34890222 TAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCGA
66 TAAGTGCAAGCTACTACGCGTACCAGATTAA--TAGA
* * * * *
34890258 TCACATGTGTACTACTAAGTGCAAGCTACTACGTGTATCAGATGGTTAAGTCACATGTGTGGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
* * *
34890323 TAAGTGCAAGCTACTACGTGTACCAGATTGATAGG
66 TAAGTGCAAGCTACTACGCGTACCAGATTAATAGA
* * * ** * *
34890358 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-AACTTTGATCACGTATGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGA-TAAG-TCACATGTGTAGT
* ** * * *
34890422 ACTAAGTGCAGGCTACTACATGTATCATATGGTTA-AG-
64 ACTAAGTGCAAGCTACTACGCGTACCAGAT--TAATAGA
* * *
34890459 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGAT-AGATCGCATGTGTAGTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAG-TCACATGTGTAGTA
* *
34890523 CTAAGTGCAGGCTACTATGCGTACCA
65 CTAAGTGCAAGCTACTACGCGTACCA
34890549 AAGAGCTTCG
Statistics
Matches: 240, Mismatches: 45, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
100 77 0.32
101 155 0.65
102 6 0.03
103 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAAGCTACTACGCGTACCAGATTAATAGA
Found at i:34890429 original size:151 final size:151
Alignment explanation
Indices: 34890155--34890548 Score: 635
Period size: 151 Copynumber: 2.6 Consensus size: 151
34890145 ATCCATTGTG
* * *
34890155 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCAGATTGATAGGTCACATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
34890220 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGTGTACTACTAAGTGCAAGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATATGTACTACTAAGTGCAAGCT
*
34890285 ACTACGTGTATCAGATGGTTA
131 ACTACATGTATCAGATGGTTA
* *
34890306 AGTCACATGTGTGGTACTAAGTGCAAGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * * * *
34890371 ACTAAGTGCAGGCTACTATGTGTACCAGATAACTTTGATCACGTATGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATATGTACTACTAAGTGCAAGCT
*
34890436 ACTACATGTATCATATGGTTA
131 ACTACATGTATCAGATGGTTA
* *
34890457 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGATCGCATGTGTAGT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
34890522 ACTAAGTGCAGGCTACTATGCGTACCA
66 ACTAAGTGCAGGCTACTATGCGTACCA
34890549 AAGAGCTTCG
Statistics
Matches: 223, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 223 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (151 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACATATGTACTACTAAGTGCAAGCT
ACTACATGTATCAGATGGTTA
Found at i:34890746 original size:16 final size:16
Alignment explanation
Indices: 34890725--34890756 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34890715 AGAATGGAGT
34890725 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
34890741 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
34890757 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:34893958 original size:13 final size:13
Alignment explanation
Indices: 34893940--34893965 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34893930 CTCTGCATTC
34893940 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
34893953 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
34893966 AGCAAATCCC
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:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:34897203 original size:6 final size:6
Alignment explanation
Indices: 34897194--34897268 Score: 78
Period size: 6 Copynumber: 11.7 Consensus size: 6
34897184 TTTTTCGTTT
* *
34897194 TTTTTA TTTTTTA TTTTTTA TTTTTA TTTTTA TCTTTA TCTTTA TTTTTA
1 TTTTTA -TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
34897244 TTTGTA GTTGCTTTA TTTTTA TTTT
1 TTTTTA -TT--TTTA TTTTTA TTTT
34897269 CTTAGACTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
6 41 0.67
7 15 0.25
8 2 0.03
9 3 0.05
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:34897203 original size:7 final size:7
Alignment explanation
Indices: 34897193--34897224 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
34897183 CTTTTTCGTT
34897193 TTTTTTA
1 TTTTTTA
34897200 TTTTTTA
1 TTTTTTA
34897207 TTTTTTA
1 TTTTTTA
34897214 -TTTTTA
1 TTTTTTA
34897220 TTTTT
1 TTTTT
34897225 ATCTTTATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:34897242 original size:44 final size:45
Alignment explanation
Indices: 34897171--34897268 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 45
34897161 TATCATTAAG
* * * *
34897171 TTTATTTCTTTTCTTTTTCGTTTTTTTTATTTTTTA-TT-TTTTATT
1 TTTATTT-TTATCTTTATCGTTTTTTTTA-TTTGTAGTTGCTTTATT
34897216 TTTATTTTTATCTTTATC-TTTATTTTTATTTGTAGTTGCTTTATT
1 TTTATTTTTATCTTTATCGTTT-TTTTTATTTGTAGTTGCTTTATT
34897261 TTTATTTT
1 TTTATTTT
34897269 CTTAGACTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
43 8 0.17
44 17 0.37
45 21 0.46
ACGTcount: A:0.12, C:0.06, G:0.04, T:0.78
Consensus pattern (45 bp):
TTTATTTTTATCTTTATCGTTTTTTTTATTTGTAGTTGCTTTATT
Found at i:34903860 original size:23 final size:23
Alignment explanation
Indices: 34903791--34903877 Score: 72
Period size: 23 Copynumber: 3.8 Consensus size: 23
34903781 TACCGGTATA
* *
34903791 TCAACTCGTAAGAGCTTATTGTTT
1 TCAACTCATATGAGCTTATTG-TT
* * *
34903815 TCAGCTCAT-TAGAGCATACTGTT
1 TCAACTCATAT-GAGCTTATTGTT
34903838 TCAACTCATATGAGCTTATTG-T
1 TCAACTCATATGAGCTTATTGTT
*
34903860 TCAGCTCGATA-GAGCTTA
1 TCAACTC-ATATGAGCTTA
34903878 CCATTTCAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
22 14 0.27
23 21 0.41
24 16 0.31
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (23 bp):
TCAACTCATATGAGCTTATTGTT
Found at i:34903885 original size:45 final size:44
Alignment explanation
Indices: 34903791--34903924 Score: 119
Period size: 45 Copynumber: 2.9 Consensus size: 44
34903781 TACCGGTATA
* * * **
34903791 TCAACTCGTAAGAGCTTATTGTTTTCAGCTCATTAGAGCATACTGTT
1 TCAACTCATATGAGCTTATTG--TTCAGCTCA-TAGAGCTTACCATT
34903838 TCAACTCATATGAGCTTATTGTTCAGCTCGATAGAGCTTACCATT
1 TCAACTCATATGAGCTTATTGTTCAGCTC-ATAGAGCTTACCATT
* *
34903883 TCAGCTCA-ATAGAGCTTACTAT-TTCAGCTAAATAGAGCTTAC
1 TCAACTCATAT-GAGCTTA-T-TGTTCAGCT-CATAGAGCTTAC
34903925 TATTCATCAA
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
44 2 0.03
45 33 0.44
46 20 0.27
47 20 0.27
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (44 bp):
TCAACTCATATGAGCTTATTGTTCAGCTCATAGAGCTTACCATT
Found at i:34903925 original size:23 final size:23
Alignment explanation
Indices: 34903813--34903928 Score: 130
Period size: 23 Copynumber: 5.1 Consensus size: 23
34903803 AGCTTATTGT
* * *
34903813 TTTCAGCTCATTAGAGCATACTG
1 TTTCAGCTCAATAGAGCTTACTA
*
34903836 TTTCAACTC-ATATGAGCTTA-T-
1 TTTCAGCTCAATA-GAGCTTACTA
* *
34903857 TGTTCAGCTCGATAGAGCTTACCA
1 T-TTCAGCTCAATAGAGCTTACTA
34903881 TTTCAGCTCAATAGAGCTTACTA
1 TTTCAGCTCAATAGAGCTTACTA
*
34903904 TTTCAGCTAAATAGAGCTTACTA
1 TTTCAGCTCAATAGAGCTTACTA
34903927 TT
1 TT
34903929 CATCAACTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 17 0.21
23 61 0.76
24 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (23 bp):
TTTCAGCTCAATAGAGCTTACTA
Found at i:34914031 original size:40 final size:40
Alignment explanation
Indices: 34913994--34914217 Score: 380
Period size: 40 Copynumber: 5.6 Consensus size: 40
34913984 GCTACTCGTT
*
34913994 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
34914034 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
34914074 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
34914113 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
34914153 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
34914193 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
34914218 TTATCATCCG
Statistics
Matches: 173, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
39 36 0.21
40 135 0.78
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34914105 original size:79 final size:80
Alignment explanation
Indices: 34913994--34914217 Score: 389
Period size: 79 Copynumber: 2.8 Consensus size: 80
34913984 GCTACTCGTT
*
34913994 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
34914058 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* *
34914074 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
34914138 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
*
34914153 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
34914218 TTATCATCCG
Statistics
Matches: 136, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
79 74 0.54
80 62 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:34914177 original size:119 final size:120
Alignment explanation
Indices: 34913994--34914217 Score: 389
Period size: 119 Copynumber: 1.9 Consensus size: 120
34913984 GCTACTCGTT
*
34913994 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
34914059 ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
66 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
34914113 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
34914177 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
65 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
34914218 TTATCATCCG
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
119 87 0.88
120 12 0.12
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:34920889 original size:49 final size:49
Alignment explanation
Indices: 34920817--34920914 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
34920807 CCAAGCCTAG
34920817 CTGATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
1 CTGATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
*
34920866 CTGATTCATATATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
1 CTGATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
34920915 TTTCTACTAC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (49 bp):
CTGATTCATAAATTATCTCATATCAGCCCATATTTTTCTTTATTTCACC
Found at i:34924119 original size:23 final size:24
Alignment explanation
Indices: 34924042--34924176 Score: 115
Period size: 23 Copynumber: 5.8 Consensus size: 24
34924032 GGACTCATCA
34924042 CAGCTCATAT-GAGCTTACCGATATAT
1 CAGCTCATATAGAGCTTACCG-T-T-T
* * *
34924068 CATCTCGTA-AGAGCTTACTGTTTT
1 CAGCTCATATAGAGCTTACCG-TTT
*
34924092 CAGCTCAT-TGGAGCTTACCGTTT
1 CAGCTCATATAGAGCTTACCGTTT
*
34924115 CAGCTCGTAT-GAGCTTA-C-TATT
1 CAGCTCATATAGAGCTTACCGT-TT
34924137 CAGCTC-TATAGAGCTTACCGTTT
1 CAGCTCATATAGAGCTTACCGTTT
*
34924160 CATCTCA-ATAGAGCTTA
1 CAGCTCATATAGAGCTTA
34924177 TTGTTCATCA
Statistics
Matches: 91, Mismatches: 10, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.04
22 16 0.18
23 35 0.38
24 18 0.20
25 1 0.01
26 17 0.19
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (24 bp):
CAGCTCATATAGAGCTTACCGTTT
Found at i:34924174 original size:45 final size:44
Alignment explanation
Indices: 34924042--34924176 Score: 137
Period size: 45 Copynumber: 2.9 Consensus size: 44
34924032 GGACTCATCA
*
34924042 CAGCTCATATGAGCTTACCGATATATCATCTCGTAAGAGCTTACTGTTTT
1 CAGCTCATA-GAGCTTACCG-T-T-TCATCTCGT-AGAGCTTAC-GTATT
* *
34924092 CAGCTCATTGGAGCTTACCGTTTCAGCTCGTATGAGCTTAC-TATT
1 CAGCTCA-TAGAGCTTACCGTTTCATCTCGTA-GAGCTTACGTATT
*
34924137 CAGCTCTATAGAGCTTACCGTTTCATCTCAATAGAGCTTA
1 CAGCTC-ATAGAGCTTACCGTTTCATCTC-GTAGAGCTTA
34924177 TTGTTCATCA
Statistics
Matches: 75, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
45 35 0.47
46 4 0.05
47 16 0.21
48 1 0.01
49 1 0.01
50 17 0.23
51 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (44 bp):
CAGCTCATAGAGCTTACCGTTTCATCTCGTAGAGCTTACGTATT
Found at i:34928726 original size:40 final size:40
Alignment explanation
Indices: 34928655--34928791 Score: 168
Period size: 40 Copynumber: 3.4 Consensus size: 40
34928645 TTCTGAATCT
*
34928655 ATGAAAAGGTTGAAAAGGAAGTTATCTGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAG-TATCCGAAAAGGATAACAA
34928696 ATGAAAAGGTTG-AAAGGAAGCTATCCGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGAAG-TATCCGAAAAGGATAACAA
* * * * *
34928736 CTGAAAAGGTTGAAAATGATGTATTCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGAAGTATCCGAAAAGGATAACAA
* * *
34928776 AGGAATAGATTGAAAA
1 ATGAAAAGGTTGAAAA
34928792 AAATAGCAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
40 66 0.79
41 18 0.21
ACGTcount: A:0.50, C:0.07, G:0.24, T:0.20
Consensus pattern (40 bp):
ATGAAAAGGTTGAAAAGGAAGTATCCGAAAAGGATAACAA
Found at i:34932510 original size:21 final size:21
Alignment explanation
Indices: 34932486--34932525 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34932476 ACCTTTTCTA
*
34932486 AAGTTAAAAATCAAAACTATT
1 AAGTTAAAAAGCAAAACTATT
*
34932507 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAAGCAAAACTA
34932526 CGTTATTTTG
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:0.57, C:0.10, G:0.10, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAAGCAAAACTATT
Found at i:34936428 original size:36 final size:35
Alignment explanation
Indices: 34936326--34936430 Score: 165
Period size: 35 Copynumber: 3.0 Consensus size: 35
34936316 TCAATTAGAC
* *
34936326 TAGCTCTTATGAGCACTAGTCTGTTTTGGATGGAT
1 TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
*
34936361 TAGCTCTTACGAGCACTGGTGTGTTTTGGATGGAT
1 TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
*
34936396 TAGCTCTTATGAGCATCTGGTGTGTTTCGGATGGA
1 TAGCTCTTATGAGCA-CTGGTGTGTTTTGGATGGA
34936431 ATATGGATGT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
35 46 0.72
36 18 0.28
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.38
Consensus pattern (35 bp):
TAGCTCTTATGAGCACTGGTGTGTTTTGGATGGAT
Found at i:34938258 original size:18 final size:18
Alignment explanation
Indices: 34938237--34938273 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34938227 TTGATTTCGG
* *
34938237 AATTCGAATAACTCGAAT
1 AATTCAAATAAATCGAAT
34938255 AATTCAAATAAATCGAAT
1 AATTCAAATAAATCGAAT
34938273 A
1 A
34938274 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (18 bp):
AATTCAAATAAATCGAAT
Found at i:34938516 original size:20 final size:20
Alignment explanation
Indices: 34938491--34938530 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34938481 CAACCCTCAA
* *
34938491 AAACTTTTACTTTTCTCCCT
1 AAACTTTTAATTTTCACCCT
34938511 AAACTTTTAATTTTCACCCT
1 AAACTTTTAATTTTCACCCT
34938531 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (20 bp):
AAACTTTTAATTTTCACCCT
Found at i:34939591 original size:16 final size:17
Alignment explanation
Indices: 34939558--34939590 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
34939548 ATTAATGATA
34939558 TAATTAATTTTCATTTT
1 TAATTAATTTTCATTTT
34939575 TAATT-ATTTT-ATTTT
1 TAATTAATTTTCATTTT
34939590 T
1 T
34939591 TCCAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 5 0.31
17 5 0.31
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TAATTAATTTTCATTTT
Found at i:34939722 original size:7 final size:7
Alignment explanation
Indices: 34939712--34939751 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
34939702 TTTTGGTTGC
34939712 TTTTTTA
1 TTTTTTA
34939719 TTTTTTA
1 TTTTTTA
34939726 TTTTTTA
1 TTTTTTA
*
34939733 TTTTTCA
1 TTTTTTA
*
34939740 TTCTTTA
1 TTTTTTA
34939747 TTTTT
1 TTTTT
34939752 CTTCTTCCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTA
Found at i:34940769 original size:16 final size:15
Alignment explanation
Indices: 34940748--34940777 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
34940738 ATGTTTAGTT
34940748 GGAAAGAAAAGTAAAA
1 GGAAAGAAAA-TAAAA
34940764 GGAAAGAAAATAAA
1 GGAAAGAAAATAAA
34940778 TGATAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (15 bp):
GGAAAGAAAATAAAA
Found at i:34952604 original size:19 final size:19
Alignment explanation
Indices: 34952580--34952616 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34952570 CAATGCAAAT
* *
34952580 AAAACAATAAATCGAATAA
1 AAAACAACAAATCCAATAA
34952599 AAAACAACAAATCCAATA
1 AAAACAACAAATCCAATA
34952617 CACCTCTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.16, G:0.03, T:0.14
Consensus pattern (19 bp):
AAAACAACAAATCCAATAA
Found at i:34957231 original size:37 final size:37
Alignment explanation
Indices: 34957174--34957244 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
34957164 TTTAACCTTA
* *
34957174 CAACTCCCTTAAGATCTCTACCTAAATCTTAAGATTG
1 CAACTCCCTTAAGATCTCTACCCAAACCTTAAGATTG
* *
34957211 CAACTCCCTTAAGGTTTCTACCCAAACCTTAAGA
1 CAACTCCCTTAAGATCTCTACCCAAACCTTAAGA
34957245 CTCAACCCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (37 bp):
CAACTCCCTTAAGATCTCTACCCAAACCTTAAGATTG
Found at i:34957682 original size:20 final size:20
Alignment explanation
Indices: 34957654--34957702 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
34957644 TCGTTGGAGC
* **
34957654 TATCAATACCAAAGAAAATT
1 TATCGATACCAAAGAAAAGG
*
34957674 TATCGATACCAAATAAAAGG
1 TATCGATACCAAAGAAAAGG
34957694 TATCGATAC
1 TATCGATAC
34957703 TGGATCGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.24
Consensus pattern (20 bp):
TATCGATACCAAAGAAAAGG
Found at i:34960287 original size:54 final size:52
Alignment explanation
Indices: 34960107--34960320 Score: 259
Period size: 53 Copynumber: 4.0 Consensus size: 52
34960097 ATATATTATA
* * * * * *
34960107 CCGATGCCATATCCCGGATATGGTCTTTTACGGAAGCACTTATCACTTTTCT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTTT
* * **
34960159 CCGATGCCATAGCCCAACTATGGTCTTATACGG-ATCACTTGTATCAATTTAAT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCAC-T-TATCACTTTTTT
*
34960212 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACTTATCACTT-TTTT
* *
34960266 CCGATGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTTTCACTTGTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATACGGA-ATCACTTATCACTTTTTT
34960319 CC
1 CC
34960321 ATGTTCCAAC
Statistics
Matches: 139, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
51 4 0.03
52 29 0.21
53 53 0.38
54 48 0.35
55 5 0.04
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (52 bp):
CCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACTTATCACTTTTTT
Found at i:34960296 original size:107 final size:105
Alignment explanation
Indices: 34960107--34960300 Score: 298
Period size: 107 Copynumber: 1.8 Consensus size: 105
34960097 ATATATTATA
* * * *
34960107 CCGATGCCATATCCCGGATATGGTCTTTTACGGAAGCACTTATCACTTTTCTCCGATGCCATAGC
1 CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAGCACTTATCACTTTTCTCCGATGCCATAGC
34960172 CCAACTATGGTCTTATACGGATCACTTGTATCAATTTAAT
66 CCAACTATGGTCTTATACGGATCACTTGTATCAATTTAAT
* * *
34960212 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAATCACTTATCACTTGTTTTCCGATGCCATA
1 CCGAAGCCATAGCCCAGATATGGTCTTATACGG-AAGCACTTATCACTT-TTCTCCGATGCCATA
*
34960277 GCCCAGCTATGGTCTTATACGGAT
64 GCCCAACTATGGTCTTATACGGAT
34960301 ATCACTTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 28 0.35
106 14 0.18
107 37 0.47
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (105 bp):
CCGAAGCCATAGCCCAGATATGGTCTTATACGGAAGCACTTATCACTTTTCTCCGATGCCATAGC
CCAACTATGGTCTTATACGGATCACTTGTATCAATTTAAT
Found at i:34963403 original size:27 final size:27
Alignment explanation
Indices: 34963372--34963549 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34963362 TAAATTGTAC
34963372 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34963399 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34963425 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34963453 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34963481 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34963508 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34963535 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34963550 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34963486 original size:82 final size:81
Alignment explanation
Indices: 34963373--34963528 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34963363 AAATTGTACA
* *
34963373 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34963437 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34963454 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34963519 TGCGAGTTGA
65 TGCGAATTGA
34963529 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34963540 original size:82 final size:81
Alignment explanation
Indices: 34963369--34963549 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34963359 GATTAAATTG
* *
34963369 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34963434 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34963450 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34963514 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34963532 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34963550 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34971679 original size:55 final size:54
Alignment explanation
Indices: 34971584--34971733 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
34971574 CTACTTTGTT
* ** * *
34971584 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
34971638 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
34971693 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
34971734 GACTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:34971696 original size:27 final size:27
Alignment explanation
Indices: 34971556--34971733 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
34971546 TAAATTGTAC
34971556 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
34971583 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
34971609 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
34971637 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
34971665 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
34971692 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
34971719 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34971734 GACTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Done.