Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 80 of 235
Found at i:27546393 original size:27 final size:27
Alignment explanation
Indices: 27546350--27546423 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
27546340 AAATGACTAA
*
27546350 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
27546377 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
27546404 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
27546424 TGATGAATAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:27547188 original size:16 final size:15
Alignment explanation
Indices: 27547167--27547196 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27547157 CAAATATGGG
27547167 CATGACATTCTGCATA
1 CATGACATT-TGCATA
27547183 CATGACATTTGCAT
1 CATGACATTTGCAT
27547197 GGGATATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (15 bp):
CATGACATTTGCATA
Found at i:27547263 original size:25 final size:26
Alignment explanation
Indices: 27547229--27547298 Score: 117
Period size: 25 Copynumber: 2.8 Consensus size: 26
27547219 AGGAAGTGCT
*
27547229 AAAAGTGCTCTGCCCCAGTTTA-CCG
1 AAAAGGGCTCTGCCCCAGTTTATCCG
27547254 AAAAGGGCTCTGCCCCAGTTTATCCG
1 AAAAGGGCTCTGCCCCAGTTTATCCG
27547280 -AAAGGGCTCTGCCCCAGTT
1 AAAAGGGCTCTGCCCCAGTT
27547299 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 40 0.93
26 3 0.07
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (26 bp):
AAAAGGGCTCTGCCCCAGTTTATCCG
Found at i:27547311 original size:24 final size:24
Alignment explanation
Indices: 27547229--27547311 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
27547219 AGGAAGTGCT
* *
27547229 AAAAGTGCTCTGCCCCAGTTTACC
1 AAAAGGGCTCTGCCCCAGTTTATC
27547253 GAAAAGGGCTCTGCCCCAGTTTATCC
1 -AAAAGGGCTCTGCCCCAGTTTAT-C
* *
27547279 GAAAGGGCTCTGCCCCAG-TTATT
1 AAAAGGGCTCTGCCCCAGTTTATC
27547302 AAAAGAGGCT
1 AAAAG-GGCT
27547312 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 8 0.16
25 38 0.75
26 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (24 bp):
AAAAGGGCTCTGCCCCAGTTTATC
Found at i:27547522 original size:42 final size:42
Alignment explanation
Indices: 27547446--27547533 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
27547436 TAGTTTCCCT
* *** *
27547446 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
*
27547488 AAATGGGCTTGCATATATCCATTAACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
27547530 AAAT
1 AAAT
27547534 AGGCCTAAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTAACATTACATGTGATATTG
Found at i:27549883 original size:27 final size:27
Alignment explanation
Indices: 27549852--27550277 Score: 204
Period size: 27 Copynumber: 15.7 Consensus size: 27
27549842 TTAGTTTACC
* *
27549852 AAATTACTGAAATACCCTTGACTTGTA
1 AAATTACTGAAATACCCTTGATTTATA
* *
27549879 AAATTAC-CAAAGTACCCTCGATTTATA
1 AAATTACTGAAA-TACCCTTGATTTATA
* * ** *
27549906 GAATTA-TCATTTTACCCTCGATTTATA
1 AAATTACTGA-AATACCCTTGATTTATA
* * ***
27549933 GAATTACCGTTTTACCCTTGATTTATA
1 AAATTACTGAAATACCCTTGATTTATA
* *** * *
27549960 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTTGATTTATA
* * *
27549987 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTGAAATACCCTTGATTTATA
** * *
27550014 AAATTACCAAAATACCCTCGA-TCAGTA
1 AAATTACTGAAATACCCTTGATTTA-TA
* * *
27550041 AAATTAC-CAAATTACCC-TGGTTTGTA
1 AAATTACTGAAA-TACCCTTGATTTATA
* * *
27550067 AAATTACTAAAATACCCCT-AGTTTGTA
1 AAATTACTGAAATACCCTTGA-TTTATA
** * *
27550094 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACTGAAATACCCTTGA-TTTATA
** * * *
27550121 AAATTACCAAAATACCAC-TGGTTTGTG
1 AAATTACTGAAATACC-CTTGATTTATA
* ** *
27550148 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTTGATTTATA
** * *
27550175 AAATTACCAAAATACCCCTGATTTACA
1 AAATTACTGAAATACCCTTGATTTATA
* *
27550202 AAATTACAGAAATACCCTTGACTTTCTAA
1 AAATTACTGAAATACCCTTGA-TTTAT-A
* * *
27550231 AAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACT-GAAATACCCTTGATTTATA
27550258 AAATTACTGAAATACCCTTG
1 AAATTACTGAAATACCCTTG
27550278 GTTTGTAGAT
Statistics
Matches: 324, Mismatches: 58, Indels: 34
0.78 0.14 0.08
Matches are distributed among these distances:
26 24 0.07
27 274 0.85
28 8 0.02
29 18 0.06
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACTGAAATACCCTTGATTTATA
Found at i:27550030 original size:54 final size:54
Alignment explanation
Indices: 27549972--27550302 Score: 262
Period size: 54 Copynumber: 6.1 Consensus size: 54
27549962 ATTACTGTTT
* **
27549972 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * *
27550026 TACCCTCGA-TCAGTAAAATTACCAAATTACCC-TGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* ** * *
27550079 TACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* *** * ***
27550133 TACCACT-GGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
27550187 TACCC-CTGATTTACAAAATTA-CAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAATACCCTTG-GTTTGT-AAAATTACCA-AAA
* * * ** * *
27550243 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
27550297 CACCCT
1 TACCCT
27550303 TGTAGGATGA
Statistics
Matches: 220, Mismatches: 42, Indels: 30
0.75 0.14 0.10
Matches are distributed among these distances:
52 2 0.01
53 45 0.20
54 124 0.56
55 11 0.05
56 38 0.17
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:27550100 original size:80 final size:81
Alignment explanation
Indices: 27549986--27550192 Score: 267
Period size: 80 Copynumber: 2.6 Consensus size: 81
27549976 CTCGATTTAC
* * **
27549986 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
*
27550050 AATTACC-CTGGTTTGT
65 AAATACCACTGGTTTGT
* **
27550066 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
27550131 AATACCACTGGTTTGT
66 AATACCACTGGTTTGT
* ** *
27550147 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCC
27550193 TGATTTACAA
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.02
80 64 0.57
81 46 0.41
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTTTGT
Found at i:27550278 original size:27 final size:27
Alignment explanation
Indices: 27549972--27550304 Score: 235
Period size: 27 Copynumber: 12.3 Consensus size: 27
27549962 ATTACTGTTT
* * * *
27549972 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
27549999 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * * *
27550026 TACCC-TCGATCAGTAAAATTACCAAAT
1 TACCCTTGGTTTA-TAAAATTACCAAAA
* *
27550053 TACCC-TGGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
27550079 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
27550106 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
27550133 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTATAAAATTACCAAAA
*** *
27550160 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
27550187 TACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTTGGTTTATAAAATTACCA-AAA
* * *
27550214 TACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAT-AAAATTACCA-AAA
* * **
27550243 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
* * *
27550270 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTATAAAATTACCAAAA
*
27550297 CACCCTTG
1 TACCCTTG
27550305 TAGGATGAAA
Statistics
Matches: 251, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
26 24 0.10
27 200 0.80
28 8 0.03
29 19 0.08
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACCAAAA
Found at i:27551235 original size:25 final size:25
Alignment explanation
Indices: 27551202--27551271 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
27551192 AGGAAGTGCT
*
27551202 AAAAGGGCTCTGCCCTAGTTTACCA
1 AAAAGGGCTCTGCCCCAGTTTACCA
*
27551227 AAAAGGGCTCTGCCCCAGTTTATCA
1 AAAAGGGCTCTGCCCCAGTTTACCA
* * * *
27551252 GAAAGGACTTTGCCTCAGTT
1 AAAAGGGCTCTGCCCCAGTT
27551272 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTCTGCCCCAGTTTACCA
Found at i:27552441 original size:26 final size:26
Alignment explanation
Indices: 27552412--27552464 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
27552402 TCAAACATGC
27552412 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
27552438 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
27552464 A
1 A
27552465 AAGCTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:27553751 original size:24 final size:24
Alignment explanation
Indices: 27553719--27553809 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
27553709 CTGCTCATTG
*
27553719 ATCAGCTCCTAAATCTTCTCCTTT
1 ATCAGCTCCTAAATCTTCTCCCTT
27553743 ATCAGCTCCTAAATCTTCTCCCTT
1 ATCAGCTCCTAAATCTTCTCCCTT
*
27553767 ATCAGCTCCTAAATCCTCTCCCTT
1 ATCAGCTCCTAAATCTTCTCCCTT
27553791 ATCAGCTCCTAAATCTTCT
1 ATCAGCTCCTAAATCTTCT
27553810 TCTGACAGCC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.22, C:0.36, G:0.04, T:0.37
Consensus pattern (24 bp):
ATCAGCTCCTAAATCTTCTCCCTT
Found at i:27562198 original size:42 final size:42
Alignment explanation
Indices: 27562139--27562230 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
27562129 TAGTCTCCCC
* * ** *
27562139 AAATGGGCTTGCCTACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
27562181 AAATGGGTTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
27562223 AATTGGGC
1 AAATGGGC
27562231 CTAAGGGCCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:27566189 original size:27 final size:27
Alignment explanation
Indices: 27566159--27566336 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27566149 ATATTGAGTC
* * * *
27566159 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
27566186 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27566213 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
27566241 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
27566268 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
27566295 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
27566322 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27566337 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:27566298 original size:82 final size:81
Alignment explanation
Indices: 27566180--27566335 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27566170 TGCTATATAA
* *
27566180 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27566245 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
27566262 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
27566326 CACTTAGTGC
65 CACTTAGTGC
27566336 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27587918 original size:46 final size:47
Alignment explanation
Indices: 27587863--27587978 Score: 155
Period size: 46 Copynumber: 2.5 Consensus size: 47
27587853 AGTCGATACG
* * *
27587863 TGTCCCAGACATGTCTTACACTAGC-TTACGTCTCGAGGCTGAT-CCA
1 TGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAAGGCCGATGCCA
* *
27587909 TGTCCCAGACATGTCTTACATTAGCACTCGTCTCAATGCCGATGCCA
1 TGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCCGATGCCA
27587956 TGTCCCAGACATGGTCTTACACT
1 TGTCCCAGACAT-GTCTTACACT
27587979 TGCTCTCATA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
46 36 0.59
47 16 0.26
48 9 0.15
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.28
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAGGCCGATGCCA
Found at i:27595064 original size:37 final size:37
Alignment explanation
Indices: 27595014--27595166 Score: 236
Period size: 37 Copynumber: 4.1 Consensus size: 37
27595004 TTATTACGAA
* * *
27595014 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
27595051 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
27595088 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
27595125 GTCTTACCCGGACAAAATCCCCACAC-ATAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGA-AGTCATCGG
27595162 GTCTT
1 GTCTT
27595167 TAGAGCTCGG
Statistics
Matches: 110, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
37 110 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:27595363 original size:47 final size:47
Alignment explanation
Indices: 27595285--27595715 Score: 592
Period size: 47 Copynumber: 8.7 Consensus size: 47
27595275 CCTTTCGGGA
* * * * * * *
27595285 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27595332 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27595379 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27595426 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27595473 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27595520 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG------C
27595573 ACATATATACACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 -C-T-TAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGG------C
27595630 ACATATATACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 -C-T-TAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27595681 CTTATAACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
27595716 AGAATCCTAA
Statistics
Matches: 362, Mismatches: 12, Indels: 20
0.92 0.03 0.05
Matches are distributed among these distances:
47 252 0.70
48 3 0.01
49 1 0.00
50 1 0.00
51 1 0.00
53 1 0.00
54 1 0.00
55 1 0.00
56 3 0.01
57 98 0.27
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27595589 original size:57 final size:57
Alignment explanation
Indices: 27595525--27595698 Score: 339
Period size: 57 Copynumber: 3.1 Consensus size: 57
27595515 TAGGCCTTAT
27595525 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
27595582 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
27595639 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
27595696 CAC
1 CAC
27595699 TTTCACATTC
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
57 116 1.00
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (57 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:27595593 original size:104 final size:109
Alignment explanation
Indices: 27595478--27595698 Score: 353
Period size: 114 Copynumber: 2.0 Consensus size: 109
27595468 TAGGCCTTAT
27595478 CACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C-C-T-TAT-CACATATATACAC
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGTCACATATATACACATATATACAC
*
27595538 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATA
27595582 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACATATA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGG-----TCACATATATACACATATA
27595647 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATA
61 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATA
27595696 CAC
1 CAC
27595699 TTTCACATTC
Statistics
Matches: 106, Mismatches: 1, Indels: 10
0.91 0.01 0.09
Matches are distributed among these distances:
104 41 0.39
110 1 0.01
111 1 0.01
112 1 0.01
113 3 0.03
114 59 0.56
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.31
Consensus pattern (109 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGTCACATATATACACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATA
Found at i:27606900 original size:93 final size:93
Alignment explanation
Indices: 27606788--27606959 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
27606778 GCCCATAAGT
* *
27606788 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27606853 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
27606881 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
27606946 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
27606960 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:27606955 original size:46 final size:46
Alignment explanation
Indices: 27606780--27606955 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
27606770 TGTAACCCGC
* *
27606780 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
27606826 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
27606872 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
27606919 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
27606956 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:27626519 original size:26 final size:28
Alignment explanation
Indices: 27626455--27626525 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 28
27626445 ACATAGTATT
* *
27626455 TGCTAAATAAAGCACCAACAACTAATGCC
1 TGCTAAATATA-CACCAACAACTAAAGCC
* *
27626484 TGCTAGATATACACCAAC-A-TAAAGTC
1 TGCTAAATATACACCAACAACTAAAGCC
*
27626510 TGCTAAATATATACCA
1 TGCTAAATATACACCA
27626526 GTACTAAGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
26 19 0.53
27 1 0.03
28 7 0.19
29 9 0.25
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.23
Consensus pattern (28 bp):
TGCTAAATATACACCAACAACTAAAGCC
Found at i:27626538 original size:26 final size:24
Alignment explanation
Indices: 27626473--27626539 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 24
27626463 AAAGCACCAA
*
27626473 CAACTAATGCCTGCTAGATATACAC
1 CAACTAA-GCCTGCTAAATATACAC
* *
27626498 CAACATAAAGTCTGCTAAATATATAC
1 CAAC-T-AAGCCTGCTAAATATACAC
27626524 CAGTACTAAGCCTGCT
1 CA--ACTAAGCCTGCT
27626540 GCACTCTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
25 4 0.12
26 25 0.74
27 3 0.09
28 2 0.06
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (24 bp):
CAACTAAGCCTGCTAAATATACAC
Found at i:27630954 original size:37 final size:37
Alignment explanation
Indices: 27630903--27630978 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
27630893 TTCAAAAAAT
*
27630903 AATATTATTTTAATAGT-TTAATATTAAATTAA-ATTA
1 AATATTATCTTAATAGTATT-ATATTAAATTAATATTA
* *
27630939 AATATTTATCTTAATAGTATTTTATTAATTTAATATTA
1 AATA-TTATCTTAATAGTATTATATTAAATTAATATTA
27630977 AA
1 AA
27630979 GTGCTTTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 4 0.12
37 22 0.65
38 8 0.24
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (37 bp):
AATATTATCTTAATAGTATTATATTAAATTAATATTA
Found at i:27634135 original size:15 final size:15
Alignment explanation
Indices: 27634111--27634146 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
27634101 TCTAAGAAAT
*
27634111 AAAAATAAAACAACC
1 AAAAACAAAACAACC
27634126 AAAAACAAAACAACC
1 AAAAACAAAACAACC
27634141 ATAAAA
1 A-AAAA
27634147 ATAAATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.75, C:0.19, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACAAAACAACC
Found at i:27650551 original size:40 final size:40
Alignment explanation
Indices: 27650496--27650720 Score: 312
Period size: 40 Copynumber: 5.6 Consensus size: 40
27650486 TATTCGGATG
* *
27650496 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
27650536 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
27650576 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
27650619 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
27650659 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
27650699 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
27650721 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 11, Indels: 13
0.88 0.06 0.07
Matches are distributed among these distances:
39 16 0.10
40 113 0.67
41 2 0.01
43 35 0.21
44 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:27650652 original size:83 final size:81
Alignment explanation
Indices: 27650496--27650720 Score: 332
Period size: 83 Copynumber: 2.8 Consensus size: 81
27650486 TATTCGGATG
* *
27650496 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGC-TAG-TGACCATATCCGGGCTAAGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTG-CTATATCCGGGCTAAGTCCCGAAGG
27650559 CATTTGTGCTAGTGACT
65 CATTTGTGCTAGTGACT
* *
27650576 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--GTAGTTGCTATATCCGGGCTAAGTCCCGAAG
27650641 GCATTTGTGCTAGTGACT
64 GCATTTGTGCTAGTGACT
* * *
27650659 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCG-AGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCCGGGCTAAGTCCCGAAGG
27650721 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
79 15 0.11
80 42 0.32
81 1 0.01
83 72 0.55
84 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGTAGTTGCTATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCTAGTGACT
Found at i:27657991 original size:39 final size:39
Alignment explanation
Indices: 27657948--27658074 Score: 164
Period size: 39 Copynumber: 3.3 Consensus size: 39
27657938 CCGGCATTTT
* * * *
27657948 GCCTGCTAGATATAAACCCGGACTTAACACCGGCACGAG
1 GCCTGCTAGATATAAACCTGAATTTATCACCGGCACGAG
* *
27657987 GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
1 GCCTGCTAGATATAAACCTGAATTTATCACCGGCACGAG
* * * *
27658026 GCCTACTAGGTATAAACCTGAATTTATTATCGGCACGAG
1 GCCTGCTAGATATAAACCTGAATTTATCACCGGCACGAG
27658065 GCCTGCTAGA
1 GCCTGCTAGA
27658075 CATTAAGTCT
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (39 bp):
GCCTGCTAGATATAAACCTGAATTTATCACCGGCACGAG
Found at i:27662913 original size:75 final size:75
Alignment explanation
Indices: 27662818--27662967 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
27662808 AAACTCCTGA
27662818 AGGGAAATTGAGGAGAGATCTTTAGTCTTAATGATGAATCTGGCTTCTGAGATGGATCAATCAGC
1 AGGGAAATTGAGGAGAGATCTTTAGTCTTAATGATGAATCTGGCTTCTGAGATGGATCAATCAGC
27662883 TTCCTTGGAG
66 TTCCTTGGAG
27662893 AGGGAAATTGAGGAGAGATCTTTAGTCTTAATGATGAATCTGGCTTCTGAGATGGATCAATCAGC
1 AGGGAAATTGAGGAGAGATCTTTAGTCTTAATGATGAATCTGGCTTCTGAGATGGATCAATCAGC
27662958 TTCCTTGGAG
66 TTCCTTGGAG
27662968 TAATTCCTTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (75 bp):
AGGGAAATTGAGGAGAGATCTTTAGTCTTAATGATGAATCTGGCTTCTGAGATGGATCAATCAGC
TTCCTTGGAG
Found at i:27667423 original size:42 final size:42
Alignment explanation
Indices: 27667364--27667479 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 42
27667354 TGTTATCGTA
* * *
27667364 TAAGACCACATCTGGGACGTTGGCATCGTATTTGATTTCGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACATG
*
27667406 TAAGACC-CTGTCTGGGACTGTT-GCATCAATATTTGATTACATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATC-GTATTTGATTACATG
*
27667449 TAAGACCACGTCTGGGACGTTGGCATTGTAT
1 TAAGACCACGTCTGGGACGTTGGCATCGTAT
27667480 GAGATTTTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
41 1 0.02
42 26 0.41
43 35 0.56
44 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACATG
Found at i:27688729 original size:46 final size:46
Alignment explanation
Indices: 27688679--27688901 Score: 265
Period size: 46 Copynumber: 4.8 Consensus size: 46
27688669 TGGTTGAGCA
* *
27688679 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27688725 TCCGAACTCGTTGAGTTGAGTCGGAGTTCACTTATGGATGCGAA-C
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
27688770 ACCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
27688817 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
27688864 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
27688902 CGGGTTACAT
Statistics
Matches: 151, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
45 5 0.03
46 105 0.70
47 36 0.24
48 1 0.01
49 3 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:27688817 original size:92 final size:93
Alignment explanation
Indices: 27688685--27688901 Score: 303
Period size: 92 Copynumber: 2.3 Consensus size: 93
27688675 AGCATCCGAA
* *
27688685 CTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGTCGGA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGTCCGA
** *
27688750 GTTC-ACTTATGGATGCGA-ACACCCAAG
66 GTTCGACAGATGGA-ACGAGACACCCAAG
*
27688777 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGTCCGA
* * * * * *
27688842 GTTCGAGAGATGTAACTAGGCATCCGAG
66 GTTCGACAGATGGAACGAGACACCCAAG
27688870 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
27688902 CGGGTTACAT
Statistics
Matches: 111, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
92 68 0.61
93 43 0.39
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGTCCGA
GTTCGACAGATGGAACGAGACACCCAAG
Found at i:27696364 original size:46 final size:45
Alignment explanation
Indices: 27696312--27696486 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
27696302 TGGTTGAGCA
*
27696312 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * *
27696358 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
*
27696403 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
*
27696451 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
27696487 GGCGGGTTAC
Statistics
Matches: 108, Mismatches: 11, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.06
46 57 0.53
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:27696468 original size:93 final size:93
Alignment explanation
Indices: 27696309--27696479 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
27696299 GGATGGTTGA
* *
27696309 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
27696374 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
27696402 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCTC-GAACTCGTTGAG
27696466 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
27696480 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 71 0.99
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:27715169 original size:40 final size:40
Alignment explanation
Indices: 27715071--27715373 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
27715061 TCCTCGTTCA
* * * * *
27715071 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27715110 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27715150 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27715190 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
27715230 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27715270 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
27715310 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
27715350 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
27715374 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27715382 original size:41 final size:41
Alignment explanation
Indices: 27715305--27715382 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
27715295 TTAGTATCTC
* * *
27715305 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
27715346 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
27715383 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:27728709 original size:98 final size:98
Alignment explanation
Indices: 27728540--27728738 Score: 380
Period size: 98 Copynumber: 2.0 Consensus size: 98
27728530 AATTAAGAAC
27728540 AAGTCAAATATTTATCATAGAATTCAGATAATAATAACAAGATCCGTCTTAGGTTTCATTCCCCT
1 AAGTCAAATATTTATCATAGAATTCAGATAATAATAACAAGATCCGTCTTAGGTTTCATTCCCCT
27728605 TAGGTATTTAGGGGGTTTAGTTCATAATTATAG
66 TAGGTATTTAGGGGGTTTAGTTCATAATTATAG
* *
27728638 AAGTCAAATATTTATCATAGAATTCAGATAATAATAACAAGATCCGTCTTATGTTTCATTCCCGT
1 AAGTCAAATATTTATCATAGAATTCAGATAATAATAACAAGATCCGTCTTAGGTTTCATTCCCCT
27728703 TAGGTATTTAGGGGGTTTAGTTCATAATTATAG
66 TAGGTATTTAGGGGGTTTAGTTCATAATTATAG
27728736 AAG
1 AAG
27728739 AAAACATCTT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 99 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (98 bp):
AAGTCAAATATTTATCATAGAATTCAGATAATAATAACAAGATCCGTCTTAGGTTTCATTCCCCT
TAGGTATTTAGGGGGTTTAGTTCATAATTATAG
Found at i:27729141 original size:164 final size:164
Alignment explanation
Indices: 27728864--27729191 Score: 595
Period size: 164 Copynumber: 2.0 Consensus size: 164
27728854 ATCGACTTCC
*
27728864 CTTGAGTAATTCCTTGCCTCTTACTCTGCATCTCCCTTCCTAAGTGCCTCCTCAGGTGTTTAAAT
1 CTTGAGTAATTCCTTGCCTCTTACTCTGCATCTCCCTTCCTAAGTGCCTCCTCAAGTGTTTAAAT
27728929 AGGCTTTAGAATGCCTAAGAGCCCTTAAAATTGGCCTTTTCTGAATAGGGCTATACTTGGGCTCG
66 AGGCTTTAGAATGCCTAAGAGCCCTTAAAATTGGCCTTTTCTGAATAGGGCTATACTTGGGCTCG
*
27728994 GTAGGGACATGCCCATGTGACACACCCGTGTGCA
131 GTAGGGACACGCCCATGTGACACACCCGTGTGCA
*
27729028 CTTGAGTAATTCCTTGCCTCTTACTCTGCGTCTCCCTTCCTAAGTGCCTCCTCAAGTGTTTAAAT
1 CTTGAGTAATTCCTTGCCTCTTACTCTGCATCTCCCTTCCTAAGTGCCTCCTCAAGTGTTTAAAT
27729093 AGGCTTTAGAATGCCTAAGAGCCCTTAAAATTGGCCTTTT-TCGAATAGGGCTATACTTGGGCTC
66 AGGCTTTAGAATGCCTAAGAGCCCTTAAAATTGGCCTTTTCT-GAATAGGGCTATACTTGGGCTC
* *
27729157 GGTAGGGACACGCCCGTGTGACACACCTGTGTGCA
130 GGTAGGGACACGCCCATGTGACACACCCGTGTGCA
27729192 ATTACTCCAG
Statistics
Matches: 158, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
163 1 0.01
164 157 0.99
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (164 bp):
CTTGAGTAATTCCTTGCCTCTTACTCTGCATCTCCCTTCCTAAGTGCCTCCTCAAGTGTTTAAAT
AGGCTTTAGAATGCCTAAGAGCCCTTAAAATTGGCCTTTTCTGAATAGGGCTATACTTGGGCTCG
GTAGGGACACGCCCATGTGACACACCCGTGTGCA
Found at i:27731099 original size:49 final size:49
Alignment explanation
Indices: 27730909--27731104 Score: 194
Period size: 50 Copynumber: 3.9 Consensus size: 49
27730899 TCTATTGTGA
* * * * * *
27730909 GGTCGCATGTGTAGTACTAAGTGCAAGCTGCTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-T
* * * ** * **
27730960 GATCACGTGTGTAGTACTAAGTGCAGGATACTACATGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
27731009 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
27731059 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
27731105 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 26, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
49 42 0.36
50 43 0.36
51 33 0.28
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:27731103 original size:99 final size:101
Alignment explanation
Indices: 27730916--27731103 Score: 236
Period size: 99 Copynumber: 1.9 Consensus size: 101
27730906 TGAGGTCGCA
* * *
27730916 TGTGTAGTACTAAGTGCAAGCTGCTATGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAAGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
* *
27730981 TGCAGGATACTACATGTATCAGATGGTTAGGTCACG
66 TGCAGGATACTACACGTACCAGATGGTTAGGTCACG
* * * * * *
27731017 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAAGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
* **
27731080 TGCAGGCTACTATGCGTACCAGAT
66 TGCAGGATACTACACGTACCAGAT
27731104 AGCTTTGGCT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 38 0.52
100 1 0.01
101 34 0.47
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAAGCTACTACGCGTACCCGAAAACTGTGATCACATGTGTAGTACTAAG
TGCAGGATACTACACGTACCAGATGGTTAGGTCACG
Found at i:27735820 original size:18 final size:18
Alignment explanation
Indices: 27735797--27735832 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
27735787 TTGGGTAACC
27735797 AAGGAATTGTATGTATAT
1 AAGGAATTGTATGTATAT
27735815 AAGGAATTGTATGTATAT
1 AAGGAATTGTATGTATAT
27735833 CATTTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (18 bp):
AAGGAATTGTATGTATAT
Found at i:27740268 original size:18 final size:18
Alignment explanation
Indices: 27740247--27740281 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
27740237 GCAACTTTTA
27740247 CCTTTTATGC-AATTAAGT
1 CCTTTTAT-CAAATTAAGT
27740265 CCTTTTATCAAATTAAG
1 CCTTTTATCAAATTAAG
27740282 CACACAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (18 bp):
CCTTTTATCAAATTAAGT
Found at i:27742387 original size:24 final size:24
Alignment explanation
Indices: 27742349--27742423 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
27742339 CTCGTATTGA
*
27742349 CATTCAAATCAGCACACATAATGC
1 CATTCAAATCCGCACACATAATGC
* * *
27742373 TATTCAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAATGC
* *
27742397 CATTCAAAATCCGCACACTTAGTGC
1 CATTC-AAATCCGCACACATAATGC
27742422 CA
1 CA
27742424 ATGTCATTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 24 0.56
25 19 0.44
ACGTcount: A:0.35, C:0.31, G:0.11, T:0.24
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAATGC
Found at i:27748528 original size:40 final size:40
Alignment explanation
Indices: 27748484--27748630 Score: 186
Period size: 40 Copynumber: 3.7 Consensus size: 40
27748474 ATATTGATGT
** * *
27748484 TAATCCAATTGAAACACGCCAAACAAAAGCTCATAAGAGC
1 TAATCCAACCGAAACACACCAAACAGAAGCTCATAAGAGC
*
27748524 TAATCCAACCGAAACACACCAAACAGAAGCTCATAATAGC
1 TAATCCAACCGAAACACACCAAACAGAAGCTCATAAGAGC
* * *
27748564 TGATCCAACCGAAACACATCAAATAGAAGCTCATAAGAGC
1 TAATCCAACCGAAACACACCAAACAGAAGCTCATAAGAGC
* * **
27748604 TGATCCAAGCGAAACATGCCAAACAGA
1 TAATCCAACCGAAACACACCAAACAGA
27748631 GAGTATAACA
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.46, C:0.27, G:0.14, T:0.14
Consensus pattern (40 bp):
TAATCCAACCGAAACACACCAAACAGAAGCTCATAAGAGC
Found at i:27752542 original size:42 final size:42
Alignment explanation
Indices: 27752481--27752634 Score: 143
Period size: 42 Copynumber: 3.6 Consensus size: 42
27752471 AACTCAATAT
** * *
27752481 CGATGCCCCTGTCCTAGACAAGGTCTTACACGAAATTAGATA
1 CGATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATA
* * *
27752523 CGATGCCGATGTCTCAGACATGGTCTTATACATAAATCTTA-AT-
1 CGATGCCGATGTCCCAGACATGGTCTTACAC-GAAA--TTAGATA
* * * *
27752566 CAAGGTCTG-TGTCCCAGACATGGTCTTACACGAAATCAGATA
1 CGATG-CCGATGTCCCAGACATGGTCTTACACGAAATTAGATA
*
27752608 CGATGCCGATGTCCCAAACATGGTCTT
1 CGATGCCGATGTCCCAGACATGGTCTT
27752635 CTACGTAAAT
Statistics
Matches: 87, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
40 2 0.02
41 4 0.05
42 48 0.55
43 26 0.30
44 4 0.05
45 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
CGATGCCGATGTCCCAGACATGGTCTTACACGAAATTAGATA
Found at i:27752591 original size:85 final size:85
Alignment explanation
Indices: 27752490--27752683 Score: 280
Period size: 85 Copynumber: 2.3 Consensus size: 85
27752480 TCGATGCCCC
* * *
27752490 TGTCCTAGACAAGGTCTTACACGAAATTAGATACGATGCCGATGTCTCAGACATGGTCTTATACA
1 TGTCCTAGACAAGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAAACATGGTCTTATACA
*
27752555 TAAATCTTAATCAAGGTCTG
66 TAAATCTCAATCAAGGTCTG
* * * *
27752575 TGTCCCAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAAACATGGTCTTCTACG
1 TGTCCTAGACAAGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAAACATGGTCTTATACA
*
27752640 TAAATCTCAATCGAGGTCTG
66 TAAATCTCAATCAAGGTCTG
* * *
27752660 TGTCCTAGGCACGGTTTTACACGA
1 TGTCCTAGACAAGGTCTTACACGA
27752684 TGTCTCAGAC
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 96 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (85 bp):
TGTCCTAGACAAGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAAACATGGTCTTATACA
TAAATCTCAATCAAGGTCTG
Found at i:27755170 original size:42 final size:46
Alignment explanation
Indices: 27755065--27755184 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 46
27755055 ATAAGATGCT
* * * *
27755065 AACGCCATATCCCAGATAAGGTCTTACATGGGATCACCACTCGATGCC
1 AACGCCATATCCCAAACATGGTCTTACATGGGATCAACACTC-AT-CC
* * *
27755113 AATGCCATGTTCCAAACATGGTCTTACATGGGAT-AACA-T-AT-C
1 AACGCCATATCCCAAACATGGTCTTACATGGGATCAACACTCATCC
27755155 AACGCCATATCCCAAACATGGTCTTACATG
1 AACGCCATATCCCAAACATGGTCTTACATG
27755185 ATAACACATA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.45
44 2 0.03
46 1 0.02
47 3 0.05
48 28 0.45
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (46 bp):
AACGCCATATCCCAAACATGGTCTTACATGGGATCAACACTCATCC
Found at i:27755224 original size:90 final size:89
Alignment explanation
Indices: 27755065--27755228 Score: 204
Period size: 90 Copynumber: 1.8 Consensus size: 89
27755055 ATAAGATGCT
* * * * * *
27755065 AACGCCATATCCCAGATAAGGTCTTACATGGGATCACCACTCGATGCCAATGCCATGTTCCAAAC
1 AACGCCATATCCCAAACAAGGTCTTACAT-GGATAACCAATCGATGCCAATGCCATATCCCAAAC
27755130 ATGGTCTTACATGGGATAACATATC
65 ATGGTCTTACATGGGATAACATATC
* * *
27755155 AACGCCATATCCCAAACATGGTCTTACAT-GATAACACATATCGATGCCAATGCTATATCCCAGA
1 AACGCCATATCCCAAACAAGGTCTTACATGGATAAC-CA-ATCGATGCCAATGCCATATCCCAAA
*
27755219 TATGGTCTTA
64 CATGGTCTTA
27755229 TACGGGATCT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
88 5 0.08
89 2 0.03
90 55 0.89
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (89 bp):
AACGCCATATCCCAAACAAGGTCTTACATGGATAACCAATCGATGCCAATGCCATATCCCAAACA
TGGTCTTACATGGGATAACATATC
Found at i:27760688 original size:149 final size:149
Alignment explanation
Indices: 27760418--27760869 Score: 787
Period size: 149 Copynumber: 3.0 Consensus size: 149
27760408 ACAAATTTGA
* *
27760418 TATGAGTATTATGATTTTAATGTCTATGGAACGTTAGTGAGCTCGTCTAAAAATTTCGTTAAGAA
1 TATGAGTATTATAATTTTAATGTCTATGGAACGTTAGTGAGGTCGTCTAAAAATTTCGTTAAGAA
* *
27760483 ATTTTGACATTTGCATGCTTAATTGTGCGACTAAATCGTAAAAGGTGCAGAATTAGAGTTCTAGT
66 ATTTTGACATTTGCATGCTTAATTCTGCGACTAAATCGTAAAAGGTGCAAAATTAGAGTTCTAGT
*
27760548 AGTAAAGGTGTTGAATAGC
131 AGTAAAGGTGTTAAATAGC
*
27760567 TATGAGTATTATAATTTTAATGTCTATGGAACGTTAGTGAGGTCGTTTAAAAATTTCGTTAAGAA
1 TATGAGTATTATAATTTTAATGTCTATGGAACGTTAGTGAGGTCGTCTAAAAATTTCGTTAAGAA
* *
27760632 AATTTGACATTTGCATGCTTAATTCTGTGACTAAATCGTAAAAGGTGCAAAATTAGAGTTCTAGT
66 ATTTTGACATTTGCATGCTTAATTCTGCGACTAAATCGTAAAAGGTGCAAAATTAGAGTTCTAGT
*
27760697 AGTAAAGGTGTTAAATAAC
131 AGTAAAGGTGTTAAATAGC
*
27760716 TATGAGTATTATAATTTTAATGTCTATGGAACGTTAGTGAGGTCATCTAAAAATTTCGTTAAGAA
1 TATGAGTATTATAATTTTAATGTCTATGGAACGTTAGTGAGGTCGTCTAAAAATTTCGTTAAGAA
* * *
27760781 ATTTTGACATTTGCATGCTTAATTTTGCGACTAAATCGTAAAAGGTACAAAATTAGAGCTCTAGT
66 ATTTTGACATTTGCATGCTTAATTCTGCGACTAAATCGTAAAAGGTGCAAAATTAGAGTTCTAGT
27760846 AGTAAAGGTGTTAAATAGC
131 AGTAAAGGTGTTAAATAGC
27760865 TATGA
1 TATGA
27760870 AACTTTAATG
Statistics
Matches: 286, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
149 286 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.36
Consensus pattern (149 bp):
TATGAGTATTATAATTTTAATGTCTATGGAACGTTAGTGAGGTCGTCTAAAAATTTCGTTAAGAA
ATTTTGACATTTGCATGCTTAATTCTGCGACTAAATCGTAAAAGGTGCAAAATTAGAGTTCTAGT
AGTAAAGGTGTTAAATAGC
Found at i:27767129 original size:66 final size:66
Alignment explanation
Indices: 27767006--27767129 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
27766996 ATCGAATACT
* * * * *
27767006 AACAATAATAATAAATTAAAAATAATAGAAAAAAAAGTAATAAAGATAAATACAATAATAGTAAA
1 AACAATAATAATAAACTAAAAATAAAACAAAAAAAAGAAATAAAGATAAAGACAATAATAGTAAA
27767071 G
66 G
*
27767072 AACAATAATAAT-AACTAAAAATAAAACAAAATGAAAAGAAAATGAA-ATAAAGA-AATAA
1 AACAATAATAATAAACTAAAAATAAAACAAAA--AAAAG-AAATAAAGATAAAGACAATAA
27767130 ATAAAAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
65 16 0.33
66 17 0.35
67 11 0.22
68 5 0.10
ACGTcount: A:0.70, C:0.04, G:0.07, T:0.19
Consensus pattern (66 bp):
AACAATAATAATAAACTAAAAATAAAACAAAAAAAAGAAATAAAGATAAAGACAATAATAGTAAA
G
Found at i:27770850 original size:17 final size:17
Alignment explanation
Indices: 27770828--27770862 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
27770818 ACTAGAACTT
*
27770828 CGATTTAGTCCTTTTTA
1 CGATTTAGTACTTTTTA
27770845 CGATTTAGTACTTTTTA
1 CGATTTAGTACTTTTTA
27770862 C
1 C
27770863 TTAATTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (17 bp):
CGATTTAGTACTTTTTA
Found at i:27771283 original size:24 final size:24
Alignment explanation
Indices: 27771256--27771303 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
27771246 ATTTAATAAG
27771256 GATCATTCATGTATAA-TCAATCAA
1 GATCATTCATGTA-AATTCAATCAA
*
27771280 GATCATTTATGTAAATTCAATCAA
1 GATCATTCATGTAAATTCAATCAA
27771304 AACCGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (24 bp):
GATCATTCATGTAAATTCAATCAA
Found at i:27771516 original size:20 final size:20
Alignment explanation
Indices: 27771491--27771536 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
27771481 CAAAGGCACT
27771491 AAAGTGAAAACAGAGACACC
1 AAAGTGAAAACAGAGACACC
* * * *
27771511 AAAGTGTAAATAGAGGCATC
1 AAAGTGAAAACAGAGACACC
27771531 AAAGTG
1 AAAGTG
27771537 CGAACTCGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.50, C:0.13, G:0.24, T:0.13
Consensus pattern (20 bp):
AAAGTGAAAACAGAGACACC
Found at i:27784182 original size:27 final size:27
Alignment explanation
Indices: 27784151--27784328 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
27784141 TAAATTGTAC
27784151 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
27784178 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27784204 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
27784232 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
27784260 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
27784287 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
27784314 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27784329 GGCTCAATAT
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:27784265 original size:82 final size:81
Alignment explanation
Indices: 27784152--27784307 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
27784142 AAATTGTACA
* *
27784152 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
27784216 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
27784233 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
27784298 TGCGAGTTGA
65 TGCGAATTGA
27784308 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:27784319 original size:82 final size:81
Alignment explanation
Indices: 27784148--27784328 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
27784138 GATTAAATTG
* *
27784148 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
27784213 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
27784229 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
27784293 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
27784311 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
27784329 GGCTCAATAT
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:27784339 original size:27 final size:27
Alignment explanation
Indices: 27784233--27784339 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
27784223 TGACCATGCG
* * * *
27784233 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
27784261 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
27784288 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
27784315 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
27784340 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:27787950 original size:29 final size:29
Alignment explanation
Indices: 27787901--27787992 Score: 148
Period size: 29 Copynumber: 3.2 Consensus size: 29
27787891 TATTTACATG
* *
27787901 CATATGTCCCACTAGGCCCAAATCGCATT
1 CATATGGCCCATTAGGCCCAAATCGCATT
* *
27787930 CATCTGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCGCATT
27787959 CATATGGCCCATTAGGCCCAAATCGCATT
1 CATATGGCCCATTAGGCCCAAATCGCATT
27787988 CATAT
1 CATAT
27787993 TCATGCTTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCGCATT
Found at i:27788216 original size:8 final size:8
Alignment explanation
Indices: 27788203--27788241 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
27788193 GTAGCCAAAC
27788203 TTTCGACA
1 TTTCGACA
27788211 TTTCGACA
1 TTTCGACA
*
27788219 TTTCGACT
1 TTTCGACA
* *
27788227 TTTTGGCA
1 TTTCGACA
27788235 TTTCGAC
1 TTTCGAC
27788242 TTTTGCCGAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (8 bp):
TTTCGACA
Found at i:27788242 original size:16 final size:16
Alignment explanation
Indices: 27788203--27788245 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
27788193 GTAGCCAAAC
*
27788203 TTTCGACATTTCGACA
1 TTTCGACTTTTCGACA
* *
27788219 TTTCGACTTTTTGGCA
1 TTTCGACTTTTCGACA
27788235 TTTCGACTTTT
1 TTTCGACTTTT
27788246 GCCGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.16, C:0.21, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTCGACTTTTCGACA
Found at i:27792665 original size:16 final size:16
Alignment explanation
Indices: 27792640--27792674 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27792630 CTTCTCGGTA
* *
27792640 TTTCGGTATTTTGGCT
1 TTTCGATATTTTGACT
27792656 TTTCGATATTTTGACT
1 TTTCGATATTTTGACT
27792672 TTT
1 TTT
27792675 GCTGATCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.17, T:0.60
Consensus pattern (16 bp):
TTTCGATATTTTGACT
Found at i:27796895 original size:29 final size:29
Alignment explanation
Indices: 27796829--27796924 Score: 122
Period size: 29 Copynumber: 3.3 Consensus size: 29
27796819 AAGTCTACAT
* *
27796829 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * *
27796857 TCATCCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
27796886 ACATTCATATGGCCCATTATGCCCAAACC
1 ACATTCATATGGCCCATTAGGCCCAAATC
27796915 ACATTCATAT
1 ACATTCATAT
27796925 TGATGCTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
28 20 0.34
29 38 0.66
ACGTcount: A:0.31, C:0.33, G:0.11, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:27798602 original size:47 final size:47
Alignment explanation
Indices: 27798528--27798642 Score: 185
Period size: 47 Copynumber: 2.4 Consensus size: 47
27798518 NNNNNNNNNN
27798528 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATAT
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATAT
* *
27798575 GCATGTTCATATTCATCACATTTGCCATTCGGCCTTATCTCATATAT
1 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATAT
* **
27798622 ACACATTCACATTCATCACAT
1 GCATGTTCACATTCATCACAT
27798643 AAAATCCTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 62 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.37
Consensus pattern (47 bp):
GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATAT
Found at i:27807697 original size:48 final size:47
Alignment explanation
Indices: 27807626--27807989 Score: 283
Period size: 48 Copynumber: 7.6 Consensus size: 47
27807616 TATGTGTGCT
*
27807626 AGTGTAAGACTATGTCTGGGACATGGCACTTGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TTGCCACATTATGAGAGCC
* ** * * ** *
27807674 AGTGTAAGACCATGTCTGGGACATGGCATCGGTA-TTGGTATGTGTTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGCCACAT--TATGAGAGCC
* *
27807722 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCAT-TGCCACATTATGAGAGCC
* *** ** *
27807770 AGTGTAGGACCATGTCTAAAACATGGCA-T-CGGCATTGAT-ATGTATGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGCCACATT-ATGA-G-A-GCC
* **
27807818 AGTGTAAGACCATGTCTGGGACATGGCACTAGCCACATTATGAGAGTA
1 AGTGTAAGACCATGTCTGGGACATGGCA-TTGCCACATTATGAGAGCC
* *** *
27807866 AGTGTAAGACCATATCTGGGACATGGCATTG--GTGTTGAT-ATGTATGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGCCACATT-ATGA-G-A-GCC
* **
27807914 AGTGTAAGACCATGTCTAGGACATGGCATCACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTGCCACATTATGAGAGCC
* *
27807961 AATGTAAGACCATGCCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
27807990 CGGCAATTTA
Statistics
Matches: 243, Mismatches: 54, Indels: 39
0.72 0.16 0.12
Matches are distributed among these distances:
45 9 0.04
46 7 0.03
47 35 0.14
48 173 0.71
49 6 0.02
50 7 0.03
51 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGCCACATTATGAGAGCC
Found at i:27807781 original size:96 final size:95
Alignment explanation
Indices: 27807612--27807992 Score: 530
Period size: 96 Copynumber: 4.0 Consensus size: 95
27807602 TGACAATTGG
* *
27807612 TTGATATGTGTGCTAGTGTAAGACTATGTCTGGGACATGGCACTTGCCACATTATGAGAGCCAGT
1 TTGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCAC-TGCCACATTATGAGAGCCAGT
27807677 GTAAGACCATGTCTGGGACATGGCATCGGTA
65 GTAAGACCATGTCTGGGACATGGCATCGGTA
* * * * *
27807708 TTGGTATGTGTTCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGT
1 TTGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCA-CTGCCACATTATGAGAGCCAGT
* *** *
27807773 GTAGGACCATGTCTAAAACATGGCATCGGCA
65 GTAAGACCATGTCTGGGACATGGCATCGGTA
**
27807804 TTGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCACTAGCCACATTATGAGAGTAAGT
1 TTGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCACT-GCCACATTATGAGAGCCAGT
* * *
27807869 GTAAGACCATATCTGGGACATGGCATTGGTG
65 GTAAGACCATGTCTGGGACATGGCATCGGTA
* * *
27807900 TTGATATGTATGCTAGTGTAAGACCATGTCTAGGACATGGCA-TCACCACATTATGAGAGCCAAT
1 TTGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCACT-GCCACATTATGAGAGCCAGT
*
27807964 GTAAGACCATGCCTGGGACATGGCATCGG
65 GTAAGACCATGTCTGGGACATGGCATCGG
27807993 CAATTTACCA
Statistics
Matches: 249, Mismatches: 34, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
95 44 0.18
96 204 0.82
97 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (95 bp):
TTGATATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCACTGCCACATTATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCGGTA
Found at i:27827337 original size:48 final size:48
Alignment explanation
Indices: 27827266--27827630 Score: 389
Period size: 48 Copynumber: 7.6 Consensus size: 48
27827256 GTGTGCTAGC
* * *
27827266 GTAAGACCATGTTTGGGACATGGCTTTGGCTACATTATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAGAGCCAGT
* *
27827314 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAGAGCCAGT
* * **
27827362 GTAAGACCATGTCTAGGA-ATGGCATCGGCCACATTATGAGATTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAGAGCCAGT
* *
27827409 GTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGTCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAGAGCCAGT
* * ** * * *
27827457 GTAAGACCACGTCTGGGACATGGCATCAGCGTTGA-TATGTGTGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGC-TACATTATGAGAGCCAGT
* ** * * **
27827505 GTAAGACCATGTCTGGGACATGGCATTGGCATTGA-GACGAGAGGTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGC-TACATTATGAGAGCCAGT
* * *
27827553 GTAAGACCATGTCTGGGACATGGTATCGGCCT-CGA-CATGTGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGG-CTAC-ATTATGAGAGCCAGT
* *
27827601 GTAAGACGATGTCTGGGATATGGCATCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
27827631 AATTTACCCT
Statistics
Matches: 273, Mismatches: 40, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
47 44 0.16
48 227 0.83
49 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCTACATTATGAGAGCCAGT
Found at i:27844200 original size:52 final size:52
Alignment explanation
Indices: 27844140--27844246 Score: 178
Period size: 52 Copynumber: 2.1 Consensus size: 52
27844130 TTACACACGA
*
27844140 CCAACAAACACGGCCGTGTGATACTTAGATGGCTACTGACTTAAGCCCACAG
1 CCAACAAACACAGCCGTGTGATACTTAGATGGCTACTGACTTAAGCCCACAG
* * *
27844192 CCAACAAACATAGCCGTGTGATACTTAGCTGGCTACTGACTTAAGCCCACGG
1 CCAACAAACACAGCCGTGTGATACTTAGATGGCTACTGACTTAAGCCCACAG
27844244 CCA
1 CCA
27844247 TATGACACGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (52 bp):
CCAACAAACACAGCCGTGTGATACTTAGATGGCTACTGACTTAAGCCCACAG
Found at i:27845347 original size:42 final size:42
Alignment explanation
Indices: 27845263--27845758 Score: 688
Period size: 42 Copynumber: 11.8 Consensus size: 42
27845253 GCCTACATCT
* * * **
27845263 CAGACGTGGTCTTACATGTAATTCAG-TATCGATGCCTCTGTCC
1 CAGACATGGTCTTACACG-AAATCAGATA-CGATGCCGATGTCC
* * *
27845306 CAAACAGGGTCTTACACGAAATCAGATACAATGCCGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
* * * * *
27845348 CAGACATGGTCTTACACCAAAACAGATATGATGCTGATGTCG
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
* * * * *
27845390 CAGACAAGCTCTTAGACGAAATTAGATACGATGCCGACGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
* *
27845432 CAGACATGGTCTTACATGAAATCAGATACGATGGCGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
* ** *
27845474 TAGACATGGTCTTACATAAAATCAGATACGATGCCAATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
*
27845516 CAGACATGGTCTTACACGAAATCAAATACGATGCCGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
27845558 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
*
27845600 CAGACATGGTCTTACACGAAATCAGATACAATGCCGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
* * *
27845642 TAGACATGGTCTTACACAAAATCAAATACGATGCCGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
**
27845684 CAGACATTATCTTACACGAAATCAGATACGATGCCGATGTCC
1 CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
27845726 CAGACATGGTCTTACACGAAATCAGATACGATG
1 CAGACATGGTCTTACACGAAATCAGATACGATG
27845759 TCAATGTTCT
Statistics
Matches: 397, Mismatches: 55, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
42 381 0.96
43 16 0.04
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (42 bp):
CAGACATGGTCTTACACGAAATCAGATACGATGCCGATGTCC
Found at i:27855313 original size:16 final size:16
Alignment explanation
Indices: 27855292--27855323 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27855282 AAACTTTTGG
*
27855292 CTTTTCGGCATTTCGA
1 CTTTTCGACATTTCGA
27855308 CTTTTCGACATTTCGA
1 CTTTTCGACATTTCGA
27855324 GATTTGCCGA
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:0.16, C:0.25, G:0.16, T:0.44
Consensus pattern (16 bp):
CTTTTCGACATTTCGA
Found at i:27859678 original size:28 final size:28
Alignment explanation
Indices: 27859641--27859734 Score: 118
Period size: 28 Copynumber: 3.3 Consensus size: 28
27859631 AAGTCTACAT
*
27859641 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCACTAGGCCCAATC
* * *
27859669 TCTTTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCC-AATC
*
27859698 ACATTCAAATGGCCC-CTTAGGCCCAATC
1 ACATTCATATGGCCCAC-TAGGCCCAATC
27859726 ACATTCATA
1 ACATTCATA
27859735 GTCATGCAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 32 0.58
29 23 0.42
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCACTAGGCCCAATC
Found at i:27860251 original size:20 final size:21
Alignment explanation
Indices: 27860223--27860261 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
27860213 ACTAAACAAC
*
27860223 AAGTGACTCGTA-ATCATCTT
1 AAGTCACTCGTATATCATCTT
*
27860243 AAGTCACTCTTATATCATC
1 AAGTCACTCGTATATCATC
27860262 CATGGCCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (21 bp):
AAGTCACTCGTATATCATCTT
Found at i:27861823 original size:42 final size:42
Alignment explanation
Indices: 27861721--27862102 Score: 505
Period size: 42 Copynumber: 9.1 Consensus size: 42
27861711 AATGGGTACA
* * * * *
27861721 ATGCCGACGTCTCAGATATGGTCTTACATGTAATTCAG-TATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACG-AAATCAGATA-CG
** * * *
27861764 ATGCCTCTATCCAAGACATGGTCTTACACGAAATCAGATATG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
*
27861806 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATAAG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * * *
27861848 ATGCTGATGTCCCAAACATGGTCTTACACAAAATTAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * *
27861890 ATGCCGATGTCCCAGACATGGTATTACACAAAATCCGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * *
27861932 ATGCCGATGTCCTAGACATGGTCTTACACAAAATCAAATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
* * *
27861974 ATGCCGATGTCCTAGACATGGTCTTACACAAAATCAAATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
**
27862016 ATGCCGATGTCCCAGACATTATCTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
27862058 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
27862100 ATG
1 ATG
27862103 TCAACGTTCA
Statistics
Matches: 302, Mismatches: 36, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
42 278 0.92
43 24 0.08
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGAAATCAGATACG
Found at i:27869087 original size:79 final size:81
Alignment explanation
Indices: 27868951--27869135 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
27868941 TTGAATGATG
*
27868951 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
27869015 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
27869030 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
27869092 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
27869110 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27869136 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:27869149 original size:40 final size:40
Alignment explanation
Indices: 27868952--27869135 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
27868942 TGAATGATGT
* * * *
27868952 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
27868992 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
27869032 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
27869070 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
27869111 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
27869136 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:27869157 original size:79 final size:79
Alignment explanation
Indices: 27869004--27869168 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
27868994 GGACTAAGAT
* **
27869004 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
27869069 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
27869083 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
27869146 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
27869162 CCGAAGG
1 CCGAAGG
27869169 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:27895238 original size:27 final size:28
Alignment explanation
Indices: 27895208--27895268 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
27895198 CTATTCAGTA
*
27895208 TCAGTA-CAGCCTGGGCCTAAGCCCTAT
1 TCAGTAGCAGCCTGGGCCTAAGCCCCAT
* **
27895235 TCAGTAGTAGTGTGGGCCTAAGCCCCAT
1 TCAGTAGCAGCCTGGGCCTAAGCCCCAT
*
27895263 GCAGTA
1 TCAGTA
27895269 ACAATACAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (28 bp):
TCAGTAGCAGCCTGGGCCTAAGCCCCAT
Found at i:27895440 original size:26 final size:26
Alignment explanation
Indices: 27895392--27895441 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
27895382 ACCAATATCA
* * *
27895392 CAGCAAAGCTGTCAGTAATAATAATG
1 CAGCAAAGCTGCCAGAAACAATAATG
*
27895418 CAGCATAGCTGCCAGAAACAATAA
1 CAGCAAAGCTGCCAGAAACAATAA
27895442 ATGTGGCAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGAAACAATAATG
Found at i:27895500 original size:27 final size:26
Alignment explanation
Indices: 27895441--27895516 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
27895431 AGAAACAATA
* * *
27895441 AATGTGGCAAAGCCACCAGTATCTGT
1 AATGTGGCATAGCCACCAGTAACAGT
*
27895467 AATTGTGGCATAGCCACTAGTAACAGT
1 AA-TGTGGCATAGCCACCAGTAACAGT
* *
27895494 GAATGTGACATAGTCACCAGTAA
1 -AATGTGGCATAGCCACCAGTAA
27895517 AGAACTTCCT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.05
27 37 0.90
28 2 0.05
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (26 bp):
AATGTGGCATAGCCACCAGTAACAGT
Found at i:27895688 original size:27 final size:25
Alignment explanation
Indices: 27895655--27895830 Score: 163
Period size: 27 Copynumber: 6.6 Consensus size: 25
27895645 AGGGCTTAAT
* *
27895655 CGTCATTTTACCATACAGAGGTATTA
1 CGTCATTTTACC-TACAGGGGCATTA
*
27895681 CAGACATTTTACCCTACAGGGGCATTA
1 C-GTCATTTTA-CCTACAGGGGCATTA
* * *
27895708 TGGTCATTTTACTCTATAGGGGTATTA
1 -CGTCATTTTAC-CTACAGGGGCATTA
27895735 CGTTCATTTTACTCTACAGGGGCATTA
1 CG-TCATTTTAC-CTACAGGGGCATTA
*
27895762 CGGTCATTTTACTCTACAAGGGCATTA
1 C-GTCATTTTAC-CTACAGGGGCATTA
* *
27895789 CCGTCATTTTACCCTAAAGGGGTATTA
1 -CGTCATTTTA-CCTACAGGGGCATTA
27895816 CGATCATTTTACCTA
1 CG-TCATTTTACCTA
27895831 TTTTAGGGTT
Statistics
Matches: 127, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
26 9 0.07
27 113 0.89
28 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (25 bp):
CGTCATTTTACCTACAGGGGCATTA
Found at i:27895743 original size:54 final size:54
Alignment explanation
Indices: 27895685--27895831 Score: 199
Period size: 54 Copynumber: 2.7 Consensus size: 54
27895675 GTATTACAGA
* * *
27895685 CATTTTACCCTACAGGGGCATTATGGTCATTTTACTCTATAGGGGTATTA-CGTT
1 CATTTTACCCTACAGGGGCATTACGGTCATTTTACTCTATAAGGGCATTACCG-T
* *
27895739 CATTTTACTCTACAGGGGCATTACGGTCATTTTACTCTACAAGGGCATTACCGT
1 CATTTTACCCTACAGGGGCATTACGGTCATTTTACTCTATAAGGGCATTACCGT
* * *
27895793 CATTTTACCCTAAAGGGGTATTACGATCATTTTAC-CTAT
1 CATTTTACCCTACAGGGGCATTACGGTCATTTTACTCTAT
27895832 TTTAGGGTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 3 0.04
54 77 0.94
55 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (54 bp):
CATTTTACCCTACAGGGGCATTACGGTCATTTTACTCTATAAGGGCATTACCGT
Found at i:27895795 original size:81 final size:81
Alignment explanation
Indices: 27895657--27895828 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
27895647 GGCTTAATCG
* * ** *
27895657 TCATTTTACCATACAGAGGTATTACAGACATTTTACCCTACAGGGGCATTATGGTCATTTTACTC
1 TCATTTTACCATACAGAGGCATTACAGACATTTTACCCTACAAGGGCATTACCGTCATTTTACCC
* *
27895722 TATAGGGGTATTACGT
66 TAAAGGGGTATTACGA
* * * *
27895738 TCATTTTACTC-TACAGGGGCATTACGGTCATTTTACTCTACAAGGGCATTACCGTCATTTTACC
1 TCATTTTAC-CATACAGAGGCATTACAGACATTTTACCCTACAAGGGCATTACCGTCATTTTACC
27895802 CTAAAGGGGTATTACGA
65 CTAAAGGGGTATTACGA
27895819 TCATTTTACC
1 TCATTTTACC
27895829 TATTTTAGGG
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 77 0.97
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (81 bp):
TCATTTTACCATACAGAGGCATTACAGACATTTTACCCTACAAGGGCATTACCGTCATTTTACCC
TAAAGGGGTATTACGA
Found at i:27901397 original size:30 final size:30
Alignment explanation
Indices: 27901353--27901441 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
27901343 CAAAGATAAC
27901353 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
27901382 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
27901412 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
27901442 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:27901401 original size:15 final size:15
Alignment explanation
Indices: 27901353--27901432 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
27901343 CAAAGATAAC
*
27901353 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
27901367 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
27901382 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
27901397 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
27901412 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
27901427 AAGAAA
1 AAGAAA
27901433 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:27901441 original size:15 final size:15
Alignment explanation
Indices: 27901364--27901441 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
27901354 AGAAAACCGA
27901364 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
27901379 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
27901393 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
27901408 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
27901424 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
27901439 ATA
1 ATA
27901442 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:27910294 original size:132 final size:131
Alignment explanation
Indices: 27910053--27910408 Score: 351
Period size: 132 Copynumber: 2.7 Consensus size: 131
27910043 ATTATTCATT
* * * * * * * *
27910053 TAAAAATTCTTTAAAAAGAAGGCGAGGTTTGATATTTGGCAATTTGCGGAATCGTACCCTAATGT
1 TAAAAATCCTTTAAAAA-AAGGCGATGTTCGATATTTGACAATTCGAGGAATCATGCCCTAATGT
* ** * ** *
27910118 GTTGGGTTGCAATTTCCCGTTTGCTCAAAATGATCAAATATCCCTTCATAATTTTATTCATGTCT
65 GCTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCAAATATCCCTTCAGAATTCCATTCATATCT
27910183 TC
130 TC
*
27910185 TAAAAATCCTTTAAAACAAAGGCGATGTTCGATATTTGACAATTCGTGGAATCATGCCCTAATGT
1 TAAAAATCCTTTAAAA-AAAGGCGATGTTCGATATTTGACAATTCGAGGAATCATGCCCTAATGT
* * * * * * *
27910250 GCTGGGTTGCAATTTCTCGTTTGCTCAAAGCAATCGAATGTCCCTTTAGAATTCCGTTCGTATCT
65 GCTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCAAATATCCCTTCAGAATTCCATTCATATCT
27910315 TC
130 TC
* ** ** *
27910317 TAAAAA-CTCTTTAAAATGAAGGTAATACTCGATGTTTGGA-AATTC-AGGAATCATGCCCT-AT
1 TAAAAATC-CTTTAAAA-AAAGGCGATGTTCGATATTT-GACAATTCGAGGAATCATGCCCTAAT
* *
27910378 CGTTCTGGGTTGCGATTTCCCGTTTGCTCAA
63 -GTGCTGGGTTGCAATTTCCCGTTTGCTCAA
27910409 TAATCGAAGA
Statistics
Matches: 187, Mismatches: 33, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
130 2 0.01
131 41 0.22
132 141 0.75
133 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TAAAAATCCTTTAAAAAAAGGCGATGTTCGATATTTGACAATTCGAGGAATCATGCCCTAATGTG
CTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCAAATATCCCTTCAGAATTCCATTCATATCTT
C
Found at i:27918236 original size:13 final size:13
Alignment explanation
Indices: 27918218--27918243 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27918208 GTCCCTAAGA
27918218 AAGATGGAAAAGT
1 AAGATGGAAAAGT
27918231 AAGATGGAAAAGT
1 AAGATGGAAAAGT
27918244 GCGAATGTGT
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:0.54, C:0.00, G:0.31, T:0.15
Consensus pattern (13 bp):
AAGATGGAAAAGT
Found at i:27921357 original size:85 final size:85
Alignment explanation
Indices: 27921214--27921477 Score: 510
Period size: 85 Copynumber: 3.1 Consensus size: 85
27921204 GGCCGGCCAT
27921214 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
27921279 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
27921299 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
27921364 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
* *
27921384 GACCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
27921449 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
27921469 GAGCATGGG
1 GAGCATGGG
27921478 CAATAAAATA
Statistics
Matches: 176, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 176 1.00
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:27923290 original size:47 final size:47
Alignment explanation
Indices: 27923168--27923517 Score: 610
Period size: 47 Copynumber: 7.4 Consensus size: 47
27923158 CAGCCAAGAC
27923168 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
27923215 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
27923264 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
27923311 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
27923358 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
27923405 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
27923452 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
27923499 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
27923518 TCCCGAAGGG
Statistics
Matches: 291, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
47 244 0.84
49 47 0.16
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:27933478 original size:44 final size:44
Alignment explanation
Indices: 27933413--27933678 Score: 339
Period size: 44 Copynumber: 6.2 Consensus size: 44
27933403 GGCGAATCCT
27933413 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
* * *
27933457 GTAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCAAAGAAA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
* * *
27933501 GCAGATTTGGGATCTCTGTATTAGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
** *
27933545 GCAGATTTGGTGTCTCTGTATTGTCAGAG-GCCAGATC---G--A
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAG-CAGATCAAAGATA
* * *
27933584 GCAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCGAAGAT-
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
*
27933627 GACAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAAATA
1 G-CAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
*
27933672 ACAGATT
1 GCAGATT
27933679 AGTGTTCCCG
Statistics
Matches: 190, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
39 32 0.17
40 1 0.01
41 1 0.01
42 1 0.01
43 2 0.01
44 153 0.81
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCAAAGATA
Found at i:27935679 original size:33 final size:33
Alignment explanation
Indices: 27935637--27935704 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
27935627 TATGTAAGCA
27935637 TATTCTTCAATCCATTATAATTTATAATAAAAT
1 TATTCTTCAATCCATTATAATTTATAATAAAAT
27935670 TATTCTTCAATCCATTATAATTTATAATAAAAT
1 TATTCTTCAATCCATTATAATTTATAATAAAAT
27935703 TA
1 TA
27935705 ATTTAGCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.46
Consensus pattern (33 bp):
TATTCTTCAATCCATTATAATTTATAATAAAAT
Found at i:27936897 original size:129 final size:131
Alignment explanation
Indices: 27936707--27937084 Score: 376
Period size: 129 Copynumber: 2.9 Consensus size: 131
27936697 AATATTCATT
* * * *
27936707 TAAAAATTCTTTAAAATGAAGGCAAGGTTTGATATTTGGCAATTTCCGGAATCGTGCCCTAACAT
1 TAAAAATCCTTTAAAATGAAGGC-AGATGTGATATTTGACAATTTCCGGAATCGTGCCCTAACAT
* ** * *
27936772 GTTGGGTTGCAATTTCCCGTTTGCTCAAAATGATCGAATATCCCTTCATAATTTCGTTCATGTCT
65 GCTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCGTTCATATCT
27936837 TC
130 TC
* **
27936839 TAAAAATCCTTTAAAATGAAGGC-GATGT-ATATTTGACAA-TTCGCGGCATCGTGCCCTAATGT
1 TAAAAATCCTTTAAAATGAAGGCAGATGTGATATTTGACAATTTC-CGGAATCGTGCCCTAACAT
* * * * *
27936901 GCTGGGTTGCAATTTCTCGTTTGCTCAAAGCAATCGAATGTCCCTTTAGAATTTCGTTCGTATCT
65 GCTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCGTTCATATCT
27936966 TC
130 TC
* * * * * * *
27936968 TAAAAA-CTCTTTAAAATGAAGGTA-ATACTCGATGTTTGGCAA-TTCGGGAATCATGCCCTATC
1 TAAAAATC-CTTTAAAATGAAGGCAGAT-GT-GATATTTGACAATTTCCGGAATCGTGCCCTAAC
* * * * * * *
27937030 GTGCTGGGTTGCGATTTCCCGTTCGCTC--AATAATCGAAGATTCCTTTAGAATTTC
63 ATGCTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTC
27937085 ATCATACTCT
Statistics
Matches: 206, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
128 4 0.02
129 127 0.62
130 4 0.02
131 37 0.18
132 34 0.17
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (131 bp):
TAAAAATCCTTTAAAATGAAGGCAGATGTGATATTTGACAATTTCCGGAATCGTGCCCTAACATG
CTGGGTTGCAATTTCCCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCGTTCATATCTT
C
Found at i:27937158 original size:124 final size:129
Alignment explanation
Indices: 27936754--27937163 Score: 324
Period size: 129 Copynumber: 3.2 Consensus size: 129
27936744 GGCAATTTCC
** * * *** * *
27936754 GGAATCGTGCCCTAACATGTTGGGTTGCAATTTCCCGTTTGCTCAAAATGATCGAATATCCCTTC
1 GGAATCGTGCCCT-ATGTGCTGGGTTGCAATTTCCCGTTCGCTCAAAGCAATCGAATGTCCCTTT
* * * * * * * *
27936819 ATAATTTCGTTCATGTCTTCTAAAAATCCTTTAAAATGAAGGCGAT-GT--ATATTT-GACAATT
65 AGAATTTCGATCATATCTTCTAAAACT-CTCTAAAATGAAGGCAATACTCGATGTTTAGA-AATT
*
27936880 CGC
128 C-A
* * *
27936883 GGCATCGTGCCCTAATGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAGCAATCGAATGTCCCTTT
1 GGAATCGTGCCCT-ATGTGCTGGGTTGCAATTTCCCGTTCGCTCAAAGCAATCGAATGTCCCTTT
* * * * * *
27936948 AGAATTTCGTTCGTATCTTCTAAAAACTCTTTAAAATGAAGGTAATACTCGATGTTTGGCAATTC
65 AGAATTTCGATCATATCTTCT-AAAACTCTCTAAAATGAAGGCAATACTCGATGTTTAGAAATTC
*
27937013 G
129 A
* * * *
27937014 GGAATCATGCCCTATCGTGCTGGGTTGCGATTTCCCGTTCGCTC-AA-TAATCGAA-GATTCCTT
1 GGAATCGTGCCCTAT-GTGCTGGGTTGCAATTTCCCGTTCGCTCAAAGCAATCGAATG-TCCCTT
* *
27937076 TAGAATTTC-ATCATA-CTCTCT-AAA-T-TCTAAAAT-AAGGCAATGCTTGATGTTTAGAAATT
64 TAGAATTTCGATCATATCT-TCTAAAACTCTCTAAAATGAAGGCAATACTCGATGTTTAGAAATT
27937135 CAA
128 C-A
27937138 GGAATCGTGCCCTACTGTGCTGGGTT
1 GGAATCGTGCCCTA-TGTGCTGGGTT
27937164 TTGATTTTCT
Statistics
Matches: 234, Mismatches: 37, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
123 22 0.09
124 30 0.13
125 2 0.01
126 3 0.01
127 2 0.01
128 8 0.03
129 110 0.47
130 10 0.04
131 36 0.15
132 10 0.04
133 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (129 bp):
GGAATCGTGCCCTATGTGCTGGGTTGCAATTTCCCGTTCGCTCAAAGCAATCGAATGTCCCTTTA
GAATTTCGATCATATCTTCTAAAACTCTCTAAAATGAAGGCAATACTCGATGTTTAGAAATTCA
Found at i:27943697 original size:356 final size:356
Alignment explanation
Indices: 27943044--27943728 Score: 1217
Period size: 356 Copynumber: 1.9 Consensus size: 356
27943034 CATTTGCATA
*
27943044 AACAACACCAAGACATTCCTATTTCATTTGCATTTAATATCTTTCTACGATTTCATCATACCAAG
1 AACAACACCAAGACATTCCTATTTCATTTGCATTTAATATCCTTCTACGATTTCATCATACCAAG
** * *
27943109 TTCTCAACTTGAGGATTTAAGCACATACCTGTCAAATATTCTCATTCATCACACTTACCAATATG
66 TTCTCAACCCGAGGATTTAAGCACATACCTGTCAAATATTCTCATTCACCACACTTACCAATATA
27943174 TCACCTTCATTTTAGGCATTCTTCTCATTCACTTAAGATTCACCCGTTGAACACATCGGAATATA
131 TCACCTTCATTTTAGGCATTCTTCTCATTCACTTAAGATTCACCCGTTGAACACATCGGAATATA
27943239 ATTCAAATACGCGGATTTCATGAACGTAAGTGCCATACCCGCAGCTAGACAAACTCAATAGCCTG
196 ATTCAAATACGCGGATTTCATGAACGTAAGTGCCATACCCGCAGCTAGACAAACTCAATAGCCTG
* *
27943304 CGGAACTTATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAACGA
261 CGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAACAA
27943369 GCTCAGATGCCTAGTTACATCTCACGAACTC
326 GCTCAGATGCCTAGTTACATCTCACGAACTC
* * * *
27943400 AACAACATCAAGACATTCGTGTTTCGTTTGCATTTAATATCCTTCTACGATTTCATCATACCAAG
1 AACAACACCAAGACATTCCTATTTCATTTGCATTTAATATCCTTCTACGATTTCATCATACCAAG
*
27943465 TTCTCAACCCGAGGATTTAAGCACATACCTGTCAAATTTTCTCATTCACCACACTTACCAATATA
66 TTCTCAACCCGAGGATTTAAGCACATACCTGTCAAATATTCTCATTCACCACACTTACCAATATA
* *
27943530 TCACCTTCGTTTTAGGCATTCTTCTCATTCACTTAAGATTCACCTGTTGAACACATCGGAATATA
131 TCACCTTCATTTTAGGCATTCTTCTCATTCACTTAAGATTCACCCGTTGAACACATCGGAATATA
* * *
27943595 ATTCGAATACGCGGATTTCATGAATGTAAGTGCCATACCCGCAGCTAGACAAACTCAATAGCTTG
196 ATTCAAATACGCGGATTTCATGAACGTAAGTGCCATACCCGCAGCTAGACAAACTCAATAGCCTG
27943660 CGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAACAA
261 CGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAACAA
27943725 GCTC
326 GCTC
27943729 GGGTGGTATT
Statistics
Matches: 312, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
356 312 1.00
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (356 bp):
AACAACACCAAGACATTCCTATTTCATTTGCATTTAATATCCTTCTACGATTTCATCATACCAAG
TTCTCAACCCGAGGATTTAAGCACATACCTGTCAAATATTCTCATTCACCACACTTACCAATATA
TCACCTTCATTTTAGGCATTCTTCTCATTCACTTAAGATTCACCCGTTGAACACATCGGAATATA
ATTCAAATACGCGGATTTCATGAACGTAAGTGCCATACCCGCAGCTAGACAAACTCAATAGCCTG
CGAAACTTATGTAGCCAAGCTACCATGTAACCCGCCCATAAGTGAACTCGGACTCAACTCAACAA
GCTCAGATGCCTAGTTACATCTCACGAACTC
Found at i:27960907 original size:39 final size:40
Alignment explanation
Indices: 27960812--27961073 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
27960802 TTGAATGATG
*
27960812 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
27960850 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
27960891 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
27960930 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
27960969 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
27961008 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
27961047 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27961074 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:27975272 original size:28 final size:27
Alignment explanation
Indices: 27975215--27975366 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
27975205 TAAATTGTGC
* *
27975215 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
27975242 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
27975270 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
27975297 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
27975325 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
27975352 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27975367 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:27975280 original size:55 final size:55
Alignment explanation
Indices: 27975215--27975366 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
27975205 TAAATTGTGC
*
27975215 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
27975270 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
27975325 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
27975367 GACTTAATAA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:27981499 original size:17 final size:17
Alignment explanation
Indices: 27981477--27981510 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27981467 ATCAAGGGTA
27981477 ATTTTTTAAAGGGATAT
1 ATTTTTTAAAGGGATAT
27981494 ATTTTTTAAAGGGATAT
1 ATTTTTTAAAGGGATAT
27981511 TCATGAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (17 bp):
ATTTTTTAAAGGGATAT
Found at i:27987238 original size:47 final size:47
Alignment explanation
Indices: 27987160--27987447 Score: 468
Period size: 47 Copynumber: 6.1 Consensus size: 47
27987150 CCCTTCGGGA
* * * * * *
27987160 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27987207 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27987254 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27987301 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27987350 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27987397 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27987444 CTTA
1 CTTA
27987448 CTATCATTTC
Statistics
Matches: 226, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
47 179 0.79
49 47 0.21
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27987352 original size:96 final size:94
Alignment explanation
Indices: 27987160--27987447 Score: 468
Period size: 96 Copynumber: 3.0 Consensus size: 94
27987150 CCCTTCGGGA
* * * * * * * *
27987160 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
27987225 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
27987254 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
27987319 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
27987350 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
27987415 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
27987444 CTTA
1 CTTA
27987448 CTATCATTTC
Statistics
Matches: 181, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
94 88 0.49
96 93 0.51
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:27987429 original size:143 final size:141
Alignment explanation
Indices: 27987160--27987447 Score: 477
Period size: 143 Copynumber: 2.0 Consensus size: 141
27987150 CCCTTCGGGA
* * * *
27987160 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
27987225 TTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
27987290 GGCCATTAGGC
131 GGCCATTAGGC
* * *
27987301 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
27987366 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
27987431 TCGGCTATTAGGC
129 TCGGCCATTAGGC
27987444 CTTA
1 CTTA
27987448 CTATCATTTC
Statistics
Matches: 136, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 10 0.07
142 1 0.01
143 125 0.92
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:27991183 original size:40 final size:40
Alignment explanation
Indices: 27991115--27991551 Score: 739
Period size: 40 Copynumber: 10.9 Consensus size: 40
27991105 CGAATACACG
* * * *
27991115 TCACCAGCATGATTGCTCTTCGGGACTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* **
27991155 TCACTAGCACGAATGCTCTTCGAAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
27991195 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27991235 TCGCTAGCATGAATTCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
27991275 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27991315 TCGCTAGCATGAATTCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
27991355 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
27991395 TCGCTAGCATGAATGCTCTTTGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
27991435 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
27991475 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
27991515 TCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
27991552 TTAGTAACTC
Statistics
Matches: 372, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 372 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:27991576 original size:40 final size:40
Alignment explanation
Indices: 27991128--27991630 Score: 656
Period size: 40 Copynumber: 12.6 Consensus size: 40
27991118 CCAGCATGAT
* *
27991128 TGCTCTTCGGGACTTAGCACGGATATATCACTAGCA-CGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATC-AA
** *
27991168 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
* *
27991208 TGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
* *
27991248 TTCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
* *
27991288 TGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
* *
27991328 TTCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
* * *
27991368 TGCTCTTCGGGACTTAGCCCGGATACGTCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
* *
27991408 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
*
27991448 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
*
27991488 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
* ** * * *
27991528 TGCTCTTCGAGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCATCAA
* **
27991569 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCATCAA
*
27991609 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
27991631 CATCATTCGA
Statistics
Matches: 420, Mismatches: 37, Indels: 12
0.90 0.08 0.03
Matches are distributed among these distances:
39 2 0.00
40 399 0.95
41 19 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATCAA
Found at i:27991973 original size:29 final size:29
Alignment explanation
Indices: 27991934--27992012 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
27991924 CTTAATAATC
* *
27991934 AACCACGCACACTTAGTGCGATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
27991964 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
27991993 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27992013 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:27992055 original size:43 final size:43
Alignment explanation
Indices: 27991994--27992096 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
27991984 TGCATTTCAA
*
27991994 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
27992037 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
27992080 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
27992097 TGAAAGCCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:27994000 original size:37 final size:37
Alignment explanation
Indices: 27993950--27994028 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
27993940 TTATTACGAA
* *
27993950 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
27993987 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
27994024 GTCTT
1 GTCTT
27994029 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:27994225 original size:47 final size:47
Alignment explanation
Indices: 27994147--27994857 Score: 1125
Period size: 47 Copynumber: 15.1 Consensus size: 47
27994137 CCCTTCGGGA
* * * * * * * *
27994147 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*** *
27994194 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
27994241 CTTATCACATATATACATTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
27994288 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
27994335 CTTATCACATATATACATTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
27994382 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
27994429 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
27994476 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
27994523 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
27994570 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
27994617 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
27994664 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
27994711 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
27994758 CTTATCACATATATATACACTTTCACATTCATTACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
27994807 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
27994854 CTTA
1 CTTA
27994858 CTATCATTTC
Statistics
Matches: 629, Mismatches: 33, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 585 0.93
49 44 0.07
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:27998879 original size:47 final size:44
Alignment explanation
Indices: 27998766--27999027 Score: 179
Period size: 47 Copynumber: 5.7 Consensus size: 44
27998756 TACAAGTGCT
* * *
27998766 GATGCATGTCCCAGACATGTCTTACACTAGCACAAAGCTTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-CATCTTAGGCC
* * * *
27998810 AATGAATGTCCCAAACACGTCTTACACTGGCTACCATCATTGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACCATC-TT-AGGCC
**
27998857 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-CATCT-TAGGCC
* * * * * *
27998903 AATGCCATGTCCCAGACATGGTCATACGCT-G-ACTATCGTAATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACCATC-T--T-AGGCC
* * * * *
27998951 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-CATCT-TAGGCC
27998997 GATGCCATGTCCCAGACATGGTCTTACACTG
1 GATG-CATGTCCCAGACAT-GTCTTACACTG
27999028 ACTCTCACAT
Statistics
Matches: 168, Mismatches: 34, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
44 28 0.17
45 7 0.04
46 27 0.16
47 80 0.48
48 24 0.14
49 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACCATCTTAGGCC
Found at i:27998970 original size:94 final size:94
Alignment explanation
Indices: 27998763--27999030 Score: 310
Period size: 94 Copynumber: 2.9 Consensus size: 94
27998753 GTGTACAAGT
** * * *
27998763 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAAAGCT-TAGCCAATG-AATGTCCCAAAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTAGCCAATGCCATGTCCCAGAC
* * *
27998826 A-CGTCTTACACTGGCTACCATCATTGAG
66 ATGGTCTTACACTGACTACCATCAATGAG
* * *
27998854 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACACCAATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTA-GCCAATGCCATGTCCCAGA
* * * * *
27998919 CATGGTCATACGCTGACTATCGT-AATGTG
65 CATGGTCTTACACTGACTACCATCAATGAG
* * * *
27998948 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTA-GCCAATGCCATGTCCCAGA
27999013 CATGGTCTTACACTGACT
65 CATGGTCTTACACTGACT
27999031 CTCACATAAT
Statistics
Matches: 147, Mismatches: 26, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
91 37 0.25
92 2 0.01
93 6 0.04
94 88 0.60
95 14 0.10
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (94 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTAGCCAATGCCATGTCCCAGAC
ATGGTCTTACACTGACTACCATCAATGAG
Found at i:28004635 original size:47 final size:46
Alignment explanation
Indices: 28004523--28004833 Score: 238
Period size: 47 Copynumber: 6.7 Consensus size: 46
28004513 ATTTGTTTGT
* ** * *
28004523 GAGCTAGTGTAAGACATGTCTAGGACAT-GCATCGGAC-ACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG-CTTGA-GATAA
* *
28004569 GAGCTAGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACAA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TTGAGATAA
*
28004617 GAGCTAGTGTAAGACATGTCAGGGACAT-GCATCGGCCTTGAGACGT-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG-CTTGAGA--TAA
* * * *
28004664 -AGCCAGTGTAAGACATGTCTAGGACAT-GCATCGGCTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCT-TGAGATAA
* * * * * *
28004709 TAGTTAGTGTAAGACAGTGTTTGGGACATGGCATTGACTTGAGATAT
1 GAGCTAGTGTAAGACA-TGTCTGGGACATGGCATCGGCTTGAGATAA
* * * * * *
28004756 GAGCCAGTGTAAGACTGTGTCTGAGATATGGCATCGACTTGAGATAT
1 GAGCTAGTGTAAGAC-ATGTCTGGGACATGGCATCGGCTTGAGATAA
* * *
28004803 GAGCCAGTGTAAGACTGTGTCTAGGACATGG
1 GAGCTAGTGTAAGAC-ATGTCTGGGACATGG
28004834 AATTGGCACC
Statistics
Matches: 218, Mismatches: 34, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.00
45 3 0.01
46 74 0.34
47 110 0.50
48 29 0.13
49 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCTTGAGATAA
Found at i:28004672 original size:46 final size:45
Alignment explanation
Indices: 28004524--28004738 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 45
28004514 TTTGTTTGTG
28004524 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGACACATT-ATGA-G-
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-C-TTGA-GACGA
* * * *
28004570 AGCTAGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACAA
1 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTTGAGACGA
28004617 GAGCTAGTGTAAGACATGTC-AGGGACATGCATCGGCCTTGAGACGTA
1 -AGCTAGTGTAAGACATGTCTA-GGACATGCATCGGCCTTGAGACG-A
* * *
28004664 AGCCAGTGTAAGACATGTCTAGGACATGCATCGG-CTACGAGATGA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-TGAGACGA
* * *
28004709 TAGTTAGTGTAAGACAGTGTTTGGGACATG
1 -AGCTAGTGTAAGACA-TGTCTAGGACATG
28004739 GCATTGACTT
Statistics
Matches: 142, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
45 7 0.05
46 77 0.54
47 39 0.27
48 19 0.13
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTTGAGACGA
Found at i:28004797 original size:140 final size:140
Alignment explanation
Indices: 28004528--28004832 Score: 350
Period size: 140 Copynumber: 2.2 Consensus size: 140
28004518 TTTGTGAGCT
*
28004528 AGTGTAAGACATGTCTAGGACATGCATCGGACACATTATGAGAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGACACATGATGAGAGCTAGTGTAAGACCATGTCTGG
* * * *
28004593 GACATGGAATCGGCATTGAGACAAGAGCTAGTGTAAGACATGTCAGGGACATGCATCGGCCTTGA
66 GACATGGAATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCAGAGACATGCATCGGACTTGA
*
28004658 GACGTAAGCC
131 GACATAAGCC
* * *
28004668 AGTGTAAGACATGTCTAGGACATGCATCGG-CTACGA-GATGATAGTTAGTGTAAGA-CAGTGTT
1 AGTGTAAGACATGTCTAGGACATGCATCGGAC-AC-ATGATGAGAGCTAGTGTAAGACCA-TGTC
* * * * * * *
28004730 TGGGACATGGCATTGAC-TTGAGATATGAGCCAGTGTAAGACTGTGTCTGAGATATGGCATC-GA
63 TGGGACATGGAATCGACATTGAGACAAGAGCCAGTGTAAGAC-ATGTCAGAGACAT-GCATCGGA
* *
28004793 CTTGAGATATGAGCC
126 CTTGAGACATAAGCC
*
28004808 AGTGTAAGACTGTGTCTAGGACATG
1 AGTGTAAGAC-ATGTCTAGGACATG
28004833 GAATTGGCAC
Statistics
Matches: 140, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
139 24 0.17
140 97 0.69
141 19 0.14
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGACACATGATGAGAGCTAGTGTAAGACCATGTCTGG
GACATGGAATCGACATTGAGACAAGAGCCAGTGTAAGACATGTCAGAGACATGCATCGGACTTGA
GACATAAGCC
Found at i:28007641 original size:27 final size:27
Alignment explanation
Indices: 28007602--28007718 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
28007592 GCGTACCTGA
*
28007602 ACCCTCATGTGATAAAATGATGATTTT
1 ACCCTCATGTGATAAAATGACGATTTT
* *
28007629 ACCCTTATATGATAAAATGACGATTTT
1 ACCCTCATGTGATAAAATGACGATTTT
** * *
28007656 GTCCTCACGTGATAAAATGATGATTTT
1 ACCCTCATGTGATAAAATGACGATTTT
* * *
28007683 TCCCTTATGTGATAAAATGACGACTTAT
1 ACCCTCATGTGATAAAATGACGA-TTTT
28007711 ACCCTCAT
1 ACCCTCAT
28007719 AGGGTAAAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
27 63 0.88
28 9 0.12
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (27 bp):
ACCCTCATGTGATAAAATGACGATTTT
Found at i:28007787 original size:27 final size:27
Alignment explanation
Indices: 28007709--28007841 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 27
28007699 ATGACGACTT
**
28007709 ATACCCTCATAGGGTAAAATGAGTGAA
1 ATACCCTCATAGGGTAAAATGACCGAA
*
28007736 ATACCCTATATAGGGGTAAAATGACCGAA
1 ATACCCT-CATA-GGGTAAAATGACCGAA
* *
28007765 ATACCCTCATAGGGTAGAATGACCAAA
1 ATACCCTCATAGGGTAAAATGACCGAA
* * *
28007792 ATACCC-CTATAAGGTAAAATGACTGCA
1 ATACCCTC-ATAGGGTAAAATGACCGAA
* ** *
28007819 ATATCCTGGTAAGGTAAAATGAC
1 ATACCCTCATAGGGTAAAATGAC
28007842 AGATTTGTTC
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 60 0.68
28 6 0.07
29 21 0.24
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (27 bp):
ATACCCTCATAGGGTAAAATGACCGAA
Found at i:28007794 original size:56 final size:54
Alignment explanation
Indices: 28007709--28007841 Score: 142
Period size: 54 Copynumber: 2.4 Consensus size: 54
28007699 ATGACGACTT
***
28007709 ATACCCTCATAGGGTAAAATGAGTGAAATA-CCCTATATAGGGGTAAAATGACCGAA
1 ATACCCTCATAGGGTAAAATGACCAAAATACCCCTATA-A--GGTAAAATGACCGAA
* * *
28007765 ATACCCTCATAGGGTAGAATGACCAAAATACCCCTATAAGGTAAAATGACTGCA
1 ATACCCTCATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCGAA
* ** *
28007819 ATATCCTGGTAAGGTAAAATGAC
1 ATACCCTCATAGGGTAAAATGAC
28007842 AGATTTGTTC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 31 0.48
56 27 0.42
57 7 0.11
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (54 bp):
ATACCCTCATAGGGTAAAATGACCAAAATACCCCTATAAGGTAAAATGACCGAA
Found at i:28008204 original size:18 final size:18
Alignment explanation
Indices: 28008181--28008238 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
28008171 TCTACTTGCA
28008181 TACTGCACTGATTACTAT
1 TACTGCACTGATTACTAT
* * *
28008199 TACTGCATTGATCA-TGGT
1 TACTGCACTGATTACT-AT
**
28008217 TACTATACTGATTACTAT
1 TACTGCACTGATTACTAT
28008235 TACT
1 TACT
28008239 AAAACGAGCT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (18 bp):
TACTGCACTGATTACTAT
Found at i:28008272 original size:34 final size:34
Alignment explanation
Indices: 28008229--28008298 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
28008219 CTATACTGAT
28008229 TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
1 TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
* * * *
28008263 TACTATTACTAAAATGGGCTAAGGCCTAGACTGC
1 TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
28008297 TA
1 TA
28008299 GTGTCACTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (34 bp):
TACTATTACTAAAACGAGCTAAAGCCCAGACTGC
Found at i:28012523 original size:22 final size:20
Alignment explanation
Indices: 28012493--28012532 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
28012483 CAATTGGGTA
*
28012493 TGTGTTTTTTATCGGTTTTTTT
1 TGTGATTTTTA-C-GTTTTTTT
28012515 TGTGATTTTTACGTTTTT
1 TGTGATTTTTACGTTTTT
28012533 GAAATCGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.07, C:0.05, G:0.17, T:0.70
Consensus pattern (20 bp):
TGTGATTTTTACGTTTTTTT
Found at i:28013259 original size:40 final size:40
Alignment explanation
Indices: 28013165--28013259 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
28013155 GACTATGTTC
* *
28013165 GGCACTAAGTGTGCGATTTGAAATAGCTTTGGCTATAAAT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
* * * **
28013205 AGCACTAAGAGTGCGAATTGGAATAGCTTCGGCTATATGT
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
*
28013245 GGCAATAAGTGTGCG
1 GGCACTAAGTGTGCG
28013260 GTATTGAGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAAT
Found at i:28015561 original size:55 final size:54
Alignment explanation
Indices: 28015474--28015728 Score: 226
Period size: 55 Copynumber: 4.8 Consensus size: 54
28015464 ATTAGGATTT
*
28015474 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * ** * *
28015529 AAGGATACCATCTAAGACCATGTCAAGACATGGC-ATTTATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* *
28015584 AAAGG-T-CCTATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*** * *
28015637 AAGGATACCATGTAAGACCATGTTGAGACATGG-AAATGGTAAGCTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
28015686 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
28015729 GTACCTATGT
Statistics
Matches: 164, Mismatches: 26, Indels: 26
0.76 0.12 0.12
Matches are distributed among these distances:
49 35 0.21
50 2 0.01
52 7 0.04
53 36 0.22
54 14 0.09
55 66 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Done.