Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 113 of 343
Found at i:38096209 original size:13 final size:13
Alignment explanation
Indices: 38096191--38096215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38096181 GATATAAATT
38096191 CACAAAAAATAAA
1 CACAAAAAATAAA
38096204 CACAAAAAATAA
1 CACAAAAAATAA
38096216 TTTTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CACAAAAAATAAA
Found at i:38099272 original size:101 final size:99
Alignment explanation
Indices: 38099089--38099272 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 99
38099079 CTGGTACGCA
** * *
38099089 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTCCACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCCGGTACACATAGTAGCCTACACTTA
* *
38099154 GTACTGCACACGTGACCTAACCATTTGATACACG
66 GTACTACACACGCGACCTAACCATTTGATACACG
* * * * *
38099188 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACACGA-CCAA-TTATCCGGTACACATAGTAGCCTACACT
*
38099253 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
38099273 CACAATAGAT
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 28 0.39
100 3 0.04
101 40 0.56
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAATTATCCGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATTTGATACACG
Found at i:38105000 original size:101 final size:98
Alignment explanation
Indices: 38104817--38105000 Score: 244
Period size: 101 Copynumber: 1.8 Consensus size: 98
38104807 CTGGTACGCA
* * *
38104817 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTCCACGTAGTAGCCTGGACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGT-CACGTAGTAGCCTGCACTTA
*
38104882 GTACTACAAAAGTGACCTAACCATTTGATACACG
65 GTACTACAAAAGCGACCTAACCATTTGATACACG
* *
38104916 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGT-ACGTATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCAGGTCACG--TAGTAGCCTGCAC
* *
38104980 TTAGTACTACACATGCGACCT
62 TTAGTACTACAAAAGCGACCT
38105001 CACAATAGAT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
99 32 0.44
100 3 0.04
101 38 0.52
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGGTCACGTAGTAGCCTGCACTTAG
TACTACAAAAGCGACCTAACCATTTGATACACG
Found at i:38110598 original size:49 final size:50
Alignment explanation
Indices: 38110530--38110669 Score: 174
Period size: 51 Copynumber: 2.8 Consensus size: 50
38110520 AAGCAATCTG
*
38110530 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCCA
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCCA
* * * * * **
38110579 GTACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAGTTATCCA
* *
38110630 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
38110670 TCACAATAGA
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
49 33 0.45
50 4 0.05
51 37 0.50
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCCA
Found at i:38136308 original size:50 final size:49
Alignment explanation
Indices: 38136240--38136369 Score: 197
Period size: 50 Copynumber: 2.6 Consensus size: 49
38136230 AAAACTGTGA
* *
38136240 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATGGT-AGG
* *
38136290 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATGGTAGG
* *
38136339 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
38136370 TGCGTACTAG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
49 31 0.42
50 43 0.58
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATGGTAGG
Found at i:38136377 original size:49 final size:49
Alignment explanation
Indices: 38136187--38136381 Score: 185
Period size: 50 Copynumber: 3.9 Consensus size: 49
38136177 TCTATTGTGA
* * * * * * *
38136187 GGTCGCATGTGTAGTACTAAATGCATGCTACTATGCGTACCCGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA--C-TAGATTGTT
* * * * * *
38136238 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTAGATTGT-T
* **
38136288 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACTAGATTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTAGATTGTT
* *
38136337 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGAT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTAGAT
38136382 AGCTTCGGCT
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
48 3 0.03
49 40 0.34
50 44 0.37
51 32 0.27
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACTAGATTGTT
Found at i:38139245 original size:28 final size:28
Alignment explanation
Indices: 38139167--38139248 Score: 146
Period size: 28 Copynumber: 2.9 Consensus size: 28
38139157 GCTTAGTAAT
* *
38139167 CTCGTACCAAAAACATCAATAGGATAAG
1 CTCGTACCAAAAACATCAACAGTATAAG
38139195 CTCGTACCAAAAACATCAACAGTATAAG
1 CTCGTACCAAAAACATCAACAGTATAAG
38139223 CTCGTACCAAAAACATCAACAGTATA
1 CTCGTACCAAAAACATCAACAGTATA
38139249 TAAAATATGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.18
Consensus pattern (28 bp):
CTCGTACCAAAAACATCAACAGTATAAG
Found at i:38146505 original size:28 final size:28
Alignment explanation
Indices: 38146445--38146522 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
38146435 TAGTAATATT
*
38146445 GTACCAAAAACATCAATAGTATAAACTC
1 GTACCAAAAACATCAACAGTATAAACTC
**
38146473 -TACCAAAAACATCAACAGTATAAGTTC
1 GTACCAAAAACATCAACAGTATAAACTC
**
38146500 GTACCAAAAACATTGACAGTATA
1 GTACCAAAAACATCAACAGTATA
38146523 TAAAATATGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.49, C:0.21, G:0.09, T:0.22
Consensus pattern (28 bp):
GTACCAAAAACATCAACAGTATAAACTC
Found at i:38152560 original size:6 final size:6
Alignment explanation
Indices: 38152542--38152635 Score: 68
Period size: 6 Copynumber: 15.3 Consensus size: 6
38152532 AAGAAACATT
* * *
38152542 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCATA ATCAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
38152590 ATTAGGTA A-CAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
38152636 GGGAATGCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 5 0.07
6 56 0.81
7 5 0.07
8 3 0.04
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:38152563 original size:18 final size:18
Alignment explanation
Indices: 38152553--38152635 Score: 80
Period size: 19 Copynumber: 4.5 Consensus size: 18
38152543 TCAGAACTAG
38152553 AATCAGAATCAGAATCAA
1 AATCAGAATCAGAATCAA
*
38152571 AATCATAATCAGAATCAA
1 AATCAGAATCAGAATCAA
* *
38152589 AATTAGGTAA-CAGAATCAG
1 AATCA-G-AATCAGAATCAA
*
38152608 TATCAGGTAA-CAGAATCAA
1 AATCA-G-AATCAGAATCAA
38152627 AATCAGAAT
1 AATCAGAAT
38152636 GGGAATGCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.04
18 22 0.41
19 28 0.52
20 2 0.04
ACGTcount: A:0.52, C:0.14, G:0.13, T:0.20
Consensus pattern (18 bp):
AATCAGAATCAGAATCAA
Found at i:38152604 original size:19 final size:19
Alignment explanation
Indices: 38152562--38152632 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
38152552 GAATCAGAAT
38152562 CAGAATCAAAATCA--TAA
1 CAGAATCAAAATCAGGTAA
*
38152579 TCAGAATCAAAATTAGGTAA
1 -CAGAATCAAAATCAGGTAA
**
38152599 CAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGGTAA
38152618 CAGAATCAAAATCAG
1 CAGAATCAAAATCAG
38152633 AATGGGAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
18 13 0.29
19 29 0.64
20 3 0.07
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (19 bp):
CAGAATCAAAATCAGGTAA
Found at i:38153182 original size:27 final size:27
Alignment explanation
Indices: 38153049--38153221 Score: 159
Period size: 27 Copynumber: 6.4 Consensus size: 27
38153039 AGGGGTAAAA
* ** *
38153049 TAGTAATTTTACCCCACAATGGTATCT
1 TAGTAATTTTACCCTACAGGGGTATTT
** ** *
38153076 CGGTAATTCCACCCTACAAGGGTATTT
1 TAGTAATTTTACCCTACAGGGGTATTT
* *
38153103 CAGTAATTCTACCCTACAGGGGTATTT
1 TAGTAATTTTACCCTACAGGGGTATTT
* * *
38153130 TCGTAATTCTACCCTATAGGGGTATTT
1 TAGTAATTTTACCCTACAGGGGTATTT
38153157 TAGTAATTTTACCCTACAGGGGTATTT
1 TAGTAATTTTACCCTACAGGGGTATTT
* * **
38153184 TGGTAATTTCA-CAAATCAGGGGTATTT
1 TAGTAATTTTACCCTA-CAGGGGTATTT
*
38153211 TGGTAATTTTA
1 TAGTAATTTTA
38153222 TTGATCGAGG
Statistics
Matches: 124, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 2 0.02
27 122 0.98
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
TAGTAATTTTACCCTACAGGGGTATTT
Found at i:38153233 original size:27 final size:26
Alignment explanation
Indices: 38153149--38153545 Score: 114
Period size: 27 Copynumber: 14.7 Consensus size: 26
38153139 TACCCTATAG
***
38153149 GGGTATTTTAGTAATTTTA-CCCTACA
1 GGGTATTTTAGTAATTTTATAAAT-CA
* * *
38153175 GGGGTATTTTGGTAATTTCACAAATCA
1 -GGGTATTTTAGTAATTTTATAAATCA
* **
38153202 GGGGTATTTTGGTAATTTTATTGATCGA
1 -GGGTATTTTAGTAATTTTATAAATC-A
* *
38153230 GGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTATAAATC-A
*
38153257 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATC-A
* *** * * *
38153284 AGGTAAAATAGTAATTCTGTCAATCGA
1 GGGTATTTTAGTAATTTTATAAATC-A
*** * * * *
38153311 GGGTAAAATGGTAATTCTGTAAATTGA
1 GGGTATTTTAGTAATTTTATAAA-TCA
**** *
38153338 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATC-A
*** * *
38153365 GGGTAAAATAATAATTCTATAAATCAA
1 GGGTATTTTAGTAATTTTATAAATC-A
*** * *
38153392 GGGTAAAATAGTAATTTTGTAATTCGA
1 GGGTATTTTAGTAATTTTATAAATC-A
* * * *
38153419 GGATACTTT-GATAATTTTACAAGTCGA
1 GGGTATTTTAG-TAATTTTATAAATC-A
* ** *
38153446 GGGTATTTCAGTAATTTTGCAAACTGA
1 GGGTATTTTAGTAATTTTATAAA-TCA
* *
38153473 GGGTATTTTGGTAATTTTACAAATCGA
1 GGGTATTTTAGTAATTTTATAAATC-A
* ** * *
38153500 GGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTTTAGTAATTTTATAAATC-A
* *
38153527 GGGTACTTTGGTAATTTTA
1 GGGTATTTTAGTAATTTTA
38153546 CAACCGGGGG
Statistics
Matches: 296, Mismatches: 66, Indels: 16
0.78 0.17 0.04
Matches are distributed among these distances:
26 3 0.01
27 288 0.97
28 5 0.02
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (26 bp):
GGGTATTTTAGTAATTTTATAAATCA
Found at i:38153283 original size:54 final size:54
Alignment explanation
Indices: 38153203--38153576 Score: 246
Period size: 54 Copynumber: 6.9 Consensus size: 54
38153193 CACAAATCAG
** *
38153203 GGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAACCGA
* * * *** * * *
38153257 GGGTATTTTAGTAATTTTGTAAATCGAAGGTAAAATAGTAATTCTGTCAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAACCGA
*** * * * **** *
38153311 GGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAACCGA
*** ** * * *** **
38153365 GGGTAAAATAATAATTCTATAAATCAAGGGTAAAATAGTAATTTTGTAATTCGA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAACCGA
* * * * * * * *
38153419 GGATACTTTGATAATTTTACAAGTCGAGGGTATTTCAGTAATTTTGCAAACTGA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAACCGA
* * ** * *
38153473 GGGTATTTTGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCGG
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAACCGA
* * * * * *
38153527 GGGTACTTTGGTAATTTTA-CAACCGGGGGTATTTCAGTAATTTAGTAAAC
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAAC
38153577 TAAAGTATTC
Statistics
Matches: 254, Mismatches: 66, Indels: 1
0.79 0.21 0.00
Matches are distributed among these distances:
53 23 0.09
54 231 0.91
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.37
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAGTAATTTTGTAAACCGA
Found at i:38153298 original size:81 final size:81
Alignment explanation
Indices: 38153238--38153413 Score: 226
Period size: 81 Copynumber: 2.2 Consensus size: 81
38153228 GAGGGTATTT
**** *
38153238 TAGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAAGGTAAAATAGTAATTCTG
1 TAGTAATTTTGTAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAAGGTAAAATAGTAATTCTA
*
38153303 TCAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * *** * *
38153319 TGGTAATTCTGTAAATTGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTA
1 TAGTAATTTTGTAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAAGGTAAAATAGTAATTCTA
*
38153384 TAAATCAAGGGTAAAA
66 TAAATCGAGGGTAAAA
38153400 TAGTAATTTTGTAA
1 TAGTAATTTTGTAA
38153414 TTCGAGGATA
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.34
Consensus pattern (81 bp):
TAGTAATTTTGTAAACCAAGGGTAAAACAGTAATTTTGTAAATCGAAGGTAAAATAGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:38153436 original size:81 final size:81
Alignment explanation
Indices: 38153266--38153423 Score: 228
Period size: 81 Copynumber: 2.0 Consensus size: 81
38153256 AGGGTATTTT
* * * * * *
38153266 AGTAATTTTGTAAATCGAAGGTAAAATAGTAATTCTGTCAATCGAGGGTAAAATGGTAATTCTGT
1 AGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAATAGTAATTCTGT
*
38153331 AAATTGAGGGTAAAAC
66 AAATTGAGGATAAAAC
*
38153347 AGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAATAGTAATTTTGT
1 AGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAATAGTAATTCTGT
38153412 -AATTCGAGGATA
66 AAATT-GAGGATA
38153424 CTTTGATAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 4 0.06
81 64 0.94
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.32
Consensus pattern (81 bp):
AGTAATTTTGTAAATCGAGGGTAAAATAATAATTCTATAAATCAAGGGTAAAATAGTAATTCTGT
AAATTGAGGATAAAAC
Found at i:38153566 original size:26 final size:26
Alignment explanation
Indices: 38153430--38153569 Score: 120
Period size: 27 Copynumber: 5.2 Consensus size: 26
38153420 GATACTTTGA
* *
38153430 TAATTTTACAAGTCGAGGGTATTTCAG
1 TAATTTTACAA-CCGAGGGTATTTCGG
* * *
38153457 TAATTTTGCAAACTGAGGGTATTTTGG
1 TAATTTTAC-AACCGAGGGTATTTCGG
* * *
38153484 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTAC-AACCGAGGGTATTTCGG
* *
38153511 TAATTTTATAAACCGGGGGTACTTT-GG
1 TAATTTTA-CAACCGAGGGTA-TTTCGG
* *
38153538 TAATTTTACAACCGGGGGTATTTCAG
1 TAATTTTACAACCGAGGGTATTTCGG
38153564 TAATTT
1 TAATTT
38153570 AGTAAACTAA
Statistics
Matches: 93, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
25 3 0.03
26 18 0.19
27 67 0.72
28 5 0.05
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (26 bp):
TAATTTTACAACCGAGGGTATTTCGG
Found at i:38162872 original size:23 final size:23
Alignment explanation
Indices: 38162846--38162921 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
38162836 CCTCACACGT
38162846 CCGTGTGGAGGCAATGCACACAC
1 CCGTGTGGAGGCAATGCACACAC
*
38162869 CCGTGTGGAGGCAATGCACACGC
1 CCGTGTGGAGGCAATGCACACAC
*
38162892 CCGTGTGGAGGCGATGCACACGA-
1 CCGTGTGGAGGCAATGCACAC-AC
38162915 CCGTGTG
1 CCGTGTG
38162922 CATTGGGACA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.21, C:0.29, G:0.36, T:0.14
Consensus pattern (23 bp):
CCGTGTGGAGGCAATGCACACAC
Found at i:38168427 original size:40 final size:39
Alignment explanation
Indices: 38168383--38168461 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
38168373 AGTGACCATA
*
38168383 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
38168423 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
38168462 AAACTGTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 26 0.72
40 10 0.28
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38175185 original size:39 final size:41
Alignment explanation
Indices: 38175084--38175267 Score: 197
Period size: 39 Copynumber: 4.6 Consensus size: 41
38175074 TTGAATGATG
* *
38175084 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
38175124 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
38175164 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* * *
38175203 TCCGGGTTAAGTCCCGAA-GCAATTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
38175242 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38175268 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
38 1 0.01
39 68 0.55
40 42 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:38175220 original size:79 final size:80
Alignment explanation
Indices: 38175084--38175267 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
38175074 TTGAATGATG
* *
38175084 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAA-GCAAT
38175148 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
38175163 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGCAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGCAA
*
38175225 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
38175242 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38175268 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 27 0.30
79 45 0.50
80 18 0.20
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGCAATT
GTGCGAGATACTATA
Found at i:38175290 original size:78 final size:78
Alignment explanation
Indices: 38175137--38175299 Score: 188
Period size: 78 Copynumber: 2.1 Consensus size: 78
38175127 GGACTAAGAT
* * **
38175137 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAA-GCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
38175202 ATCCGGGTTAAGTC
65 ATCCGGGTTAAATC
* *
38175216 CCGAAGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCT
1 CCGAAGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CT
* *
38175279 ATATCC-GGTTAAATT
63 AAATCCGGGTTAAATC
38175294 CCGAAG
1 CCGAAG
38175300 GTACGTGATT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
77 2 0.03
78 40 0.56
79 30 0.42
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (78 bp):
CCGAAGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAA
TCCGGGTTAAATC
Found at i:38180270 original size:49 final size:49
Alignment explanation
Indices: 38180208--38180448 Score: 266
Period size: 49 Copynumber: 4.9 Consensus size: 49
38180198 CAAAGCTATT
* * * *
38180208 TGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC
* * * * * **
38180257 CGGTACATGTAGTAGCTTGCAGTTAGTACTACACACGTGACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATC
* * *
38180307 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATC
* * * * *
38180358 AGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC
* *
38180407 TGGTACACGTAGTAGCCTGCACTCAGTACTACACACGTGACC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
38180449 TCACAATAGA
Statistics
Matches: 155, Mismatches: 34, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
49 73 0.47
50 45 0.29
51 37 0.24
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC
Found at i:38180435 original size:100 final size:99
Alignment explanation
Indices: 38180208--38180448 Score: 286
Period size: 100 Copynumber: 2.4 Consensus size: 99
38180198 CAAAGCTATT
* * * * * * **
38180208 TGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGC
* * * *
38180273 TTGCAGTTAGTACTACACACGTGACCTAACCATC
66 CTACACTTAGTACTACACACGCGACCTAACCATC
* * *
38180307 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCATAGTA
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATAGTA
* **
38180372 GCCTACACTTAGTACTACACATGCGACC-AATTATC
64 GCCTACACTTAGTACTACACACGCGACCTAACCATC
*
38180407 TGGTACACGTAGTAGCCTGCACTCAGTACTACACACGTGACC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
38180449 TCACAATAGA
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
99 35 0.29
100 46 0.39
101 38 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (99 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGTAGC
CTACACTTAGTACTACACACGCGACCTAACCATC
Found at i:38190677 original size:53 final size:55
Alignment explanation
Indices: 38190609--38190753 Score: 170
Period size: 53 Copynumber: 2.7 Consensus size: 55
38190599 TTGCTTTTTA
* * *
38190609 AACTTACCATTGCCATGTCTTGACATGTTCTTACGTGGTATCCTTT-CCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGAT-CTTTGCCTTATAGC
* * *
38190662 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGC
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATAGC
** * *
38190717 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATG
38190754 ATTTTATTTC
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
52 4 0.05
53 41 0.54
54 1 0.01
55 30 0.39
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGGATCTTTGCCTTATAGC
Found at i:38193116 original size:29 final size:29
Alignment explanation
Indices: 38193074--38193195 Score: 165
Period size: 29 Copynumber: 4.2 Consensus size: 29
38193064 CGTATCAACA
*
38193074 ACCATCGAATATGAAAAGGGATGGCTTCG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
* * * **
38193103 ACCATCAAATATGAAAAGAGATAGTGACG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
38193132 ACCATCGAATATG-AAAGGGAATGGTTTCG
1 ACCATCGAATATGAAAAGGG-ATGGTTTCG
*
38193161 ATCATCGAATATGAAAAGGGATGGTTTCG
1 ACCATCGAATATGAAAAGGGATGGTTTCG
38193190 ACCATC
1 ACCATC
38193196 ATTTAGCACA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
28 5 0.06
29 67 0.86
30 6 0.08
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (29 bp):
ACCATCGAATATGAAAAGGGATGGTTTCG
Found at i:38200110 original size:94 final size:94
Alignment explanation
Indices: 38199949--38200120 Score: 263
Period size: 94 Copynumber: 1.8 Consensus size: 94
38199939 GGATAGTTGA
* * * * * *
38199949 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGGTGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAACGCCCGAACTCATTGAGT
38200014 TGAGTCCGAGTTCGTGAGATGTAACATAG
66 TGAGTCCGAGTTCGTGAGATGTAACATAG
* * *
38200043 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGTGAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAACGCCCGAACTCATTGAGT
38200108 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38200121 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (94 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACCTACGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACATAG
Found at i:38200386 original size:19 final size:20
Alignment explanation
Indices: 38200349--38200386 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38200339 ATAAGGTGGT
38200349 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38200369 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38200387 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38206768 original size:16 final size:16
Alignment explanation
Indices: 38206720--38206762 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
38206710 GTAGATCGGC
* **
38206720 AAAAGCCGAAATGCTG
1 AAAAGCCAAAATATTG
*
38206736 AAAAGCTAAAATATTG
1 AAAAGCCAAAATATTG
38206752 AAAAGCCAAAA
1 AAAAGCCAAAA
38206763 GTTTGACTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (16 bp):
AAAAGCCAAAATATTG
Found at i:38207031 original size:28 final size:28
Alignment explanation
Indices: 38206967--38207055 Score: 126
Period size: 28 Copynumber: 3.1 Consensus size: 28
38206957 TGAGCATGAC
*
38206967 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCTAATGGGCCA
*
38206996 TATAAATGTGATTTGGGCTTAAT-GGCCA
1 TATAAATGTGA-TTGGGCCTAATGGGCCA
*
38207024 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAATGGGCCA
38207052 TATA
1 TATA
38207056 CAGGTATGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 9 0.17
28 26 0.48
29 19 0.35
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.31
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAATGGGCCA
Found at i:38210611 original size:27 final size:27
Alignment explanation
Indices: 38210577--38210873 Score: 389
Period size: 27 Copynumber: 11.0 Consensus size: 27
38210567 ATAAAGTACT
*
38210577 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
38210604 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
38210631 GAAATACCCCTATAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
38210658 GAAATACCCCTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
38210685 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
38210712 GAAATACCTCTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
38210739 GAAATACCCCTATAGGGTAGAATTAAC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
38210766 GAAACACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
38210793 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
38210820 AAAATACCCCTGTAGGGTGGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
38210847 GAGATACCCTTGT-GAGGTAAAATTACC
1 GAAATACCCCTGTAG-GGTAGAATTACC
38210874 ATTTTGCCCC
Statistics
Matches: 234, Mismatches: 35, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 233 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:38211321 original size:31 final size:31
Alignment explanation
Indices: 38211276--38211354 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
38211266 TTGCATTCCC
* * * *
38211276 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGACTCTGATTCTGTCACCTGATACTA
* *
38211307 ATTCTGACTCTGATTTTGTCACCTGATTCTA
1 ATTCTGACTCTGATTCTGTCACCTGATACTA
*
38211338 ATTCTGACTCTGGTTCT
1 ATTCTGACTCTGATTCT
38211355 AGTTCTGATA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGACTCTGATTCTGTCACCTGATACTA
Found at i:38213317 original size:28 final size:28
Alignment explanation
Indices: 38213235--38213324 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 28
38213225 TGAGCATGAC
*
38213235 TATAAATGTGAACTGGGCCT-GATGGGCCA
1 TATAAATGTG-ATTGGGCCTAG-TGGGCCA
* *
38213264 TATAAATGTAATTTGGGCCTAATGGGCCA
1 TATAAATGTGA-TTGGGCCTAGTGGGCCA
38213293 TATAAATGTGATTGGGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTAGTGGGCCA
38213321 TATA
1 TATA
38213325 CAGGTATGTG
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
28 21 0.39
29 33 0.61
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
TATAAATGTGATTGGGCCTAGTGGGCCA
Found at i:38214936 original size:46 final size:46
Alignment explanation
Indices: 38214880--38215052 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
38214870 TGGTTGAGCA
38214880 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
38214926 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
38214971 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
38215019 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38215053 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.55
47 29 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:38215036 original size:93 final size:93
Alignment explanation
Indices: 38214877--38215047 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
38214867 GGATGGTTGA
*
38214877 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
*
38214942 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * *
38214970 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
38215035 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
38215048 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:38218745 original size:15 final size:15
Alignment explanation
Indices: 38218725--38218753 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
38218715 TGAAACTATG
38218725 TTTGAATATGTTTAA
1 TTTGAATATGTTTAA
38218740 TTTGAATATGTTTA
1 TTTGAATATGTTTA
38218754 GATCAAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (15 bp):
TTTGAATATGTTTAA
Found at i:38219115 original size:43 final size:42
Alignment explanation
Indices: 38219067--38219221 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
38219057 TGTGTTCTCA
38219067 TGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-ATATGTGATTACG
* * * * *
38219110 TGTAAGACCATGTCTGGGACATCGGTATCATATTTGATT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATGTGATTACG
* * * * * *
38219151 TGTAAGACC-CTGTCTAGGATAG-AGGCAACGATATGAGA-TAGCA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATC-ATATGTGATTA-CG
38219194 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
38219222 TGTACGATAT
Statistics
Matches: 86, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
41 23 0.27
42 16 0.19
43 46 0.53
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATGTGATTACG
Found at i:38231844 original size:48 final size:48
Alignment explanation
Indices: 38231769--38231861 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
38231759 TCTGGGACAT
* *
38231769 GGCATTGATATGAGATCCCGTATAAGACCATATCTGGGATATGGCATC
1 GGCATCGATATGAGATCCCGTATAAGACCATATCTGGAATATGGCATC
**
38231817 GGCATCGATATGAGATTTCGTGA-AAGACCATATCTGGAATATGGC
1 GGCATCGATATGAGATCCCGT-ATAAGACCATATCTGGAATATGGC
38231862 TTTAGTATGA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (48 bp):
GGCATCGATATGAGATCCCGTATAAGACCATATCTGGAATATGGCATC
Found at i:38236376 original size:47 final size:47
Alignment explanation
Indices: 38236269--38236989 Score: 1131
Period size: 47 Copynumber: 15.1 Consensus size: 47
38236259 GAAATGATAG
38236269 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
38236318 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38236365 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38236412 TAAGGCCTAATGGCCGATGTGATGAGTGTGAAAGTGTATATATAGATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT--ATGTGA
38236463 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATCTATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA--TATATGTGA
38236512 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGA
* *
38236563 TAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
38236610 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38236657 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38236704 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
38236753 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
38236800 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38236847 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38236894 T-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
38236940 -CAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
38236986 TAAG
1 TAAG
38236990 TCCCGAAGGG
Statistics
Matches: 633, Mismatches: 25, Indels: 30
0.92 0.04 0.04
Matches are distributed among these distances:
46 84 0.13
47 330 0.52
49 130 0.21
51 87 0.14
53 2 0.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:38236781 original size:143 final size:143
Alignment explanation
Indices: 38236269--38236989 Score: 1166
Period size: 143 Copynumber: 5.0 Consensus size: 143
38236259 GAAATGATAG
38236269 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
38236334 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
38236399 TGTATATATGAGA
131 TGTATATATGAGA
*
38236412 TAAGGCCTAATGGCCGATGTGATGAGTGTGAAAGTGTATATATAGATGTGATAAGGCCTAATGGC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--ATGTGATAAGGCCTAATGGC
38236477 CGATGTGATGAATGTGAAAGTGTATCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
64 CGATGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
38236542 AAAGTGTATATATATATGTGA
127 AAAGTG----TATATATGAGA
* *
38236563 TAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
38236626 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38236691 CGTATATATGAGA
131 TGTATATATGAGA
38236704 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* *
38236769 ATGTGATGAATGTGAAAGCGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
38236834 CGTATATATGAGA
131 TGTATATATGAGA
38236847 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGAT-AGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
* * * * * *
38236909 ATGTGATGAATGTGAAAGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
38236973 TGTATAAATGTGA
131 TGTATATATGAGA
38236986 TAAG
1 TAAG
38236990 TCCCGAAGGG
Statistics
Matches: 543, Mismatches: 25, Indels: 24
0.92 0.04 0.04
Matches are distributed among these distances:
139 41 0.08
140 43 0.08
141 57 0.10
143 179 0.33
145 87 0.16
147 87 0.16
149 5 0.01
151 44 0.08
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGAGA
Found at i:38237164 original size:37 final size:37
Alignment explanation
Indices: 38237108--38237186 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38237098 CCGAGCTCTA
* * *
38237108 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
38237145 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38237182 AAGAC
1 AAGAC
38237187 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38240811 original size:40 final size:40
Alignment explanation
Indices: 38240767--38240842 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
38240757 CAGCTAAGAA
38240767 TGGCACTT-A-GTGTGCAGTTTGAAATAGCTTCAGCTAAATG
1 TGGCACTTGATGTGTG-A-TTTGAAATAGCTTCAGCTAAATG
* *
38240807 TGGCACTTGATGTGTGATTTGAGATAGCTTCGGCTA
1 TGGCACTTGATGTGTGATTTGAAATAGCTTCAGCTA
38240843 TATACATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
40 25 0.78
41 2 0.06
42 5 0.16
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (40 bp):
TGGCACTTGATGTGTGATTTGAAATAGCTTCAGCTAAATG
Found at i:38240932 original size:28 final size:28
Alignment explanation
Indices: 38240865--38240935 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
38240855 TATATGTGGC
* * *
38240865 ACTTAGTGTGCAAAATATTGAGAATGGC
1 ACTTAGTGTGCGAGATATTGAGAATGGA
* * **
38240893 ATTTGGTGTGCGAGATATTGAGTTTGGA
1 ACTTAGTGTGCGAGATATTGAGAATGGA
38240921 ACTTAGTGTGCGAGA
1 ACTTAGTGTGCGAGA
38240936 CATCGAAGAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.31, T:0.32
Consensus pattern (28 bp):
ACTTAGTGTGCGAGATATTGAGAATGGA
Found at i:38253175 original size:11 final size:11
Alignment explanation
Indices: 38253159--38253185 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38253149 CTATGGACAC
38253159 ATTCGACAATG
1 ATTCGACAATG
38253170 ATTCGACAATG
1 ATTCGACAATG
38253181 ATTCG
1 ATTCG
38253186 GCATTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (11 bp):
ATTCGACAATG
Found at i:38255519 original size:39 final size:39
Alignment explanation
Indices: 38255451--38255600 Score: 248
Period size: 39 Copynumber: 3.8 Consensus size: 39
38255441 CCGGATATAA
*
38255451 CACGAATGCCTTCGAGG-CTTAACCCGGATATAACACCAG
1 CACGAATGCCTTCG-GGACTTAGCCCGGATATAACACCAG
*
38255490 CACGAATGCCTTCGGGACTTAGCCTGGATATAACACCAG
1 CACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
*
38255529 CACGAATGCCTTCGGAACTTAGCCCGGATATAACACCAG
1 CACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
*
38255568 CACGAATGCCTTCAGGACTTAGCCCGGATATAA
1 CACGAATGCCTTCGGGACTTAGCCCGGATATAA
38255601 TTCTCCATTA
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 2 0.02
39 102 0.98
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
CACGAATGCCTTCGGGACTTAGCCCGGATATAACACCAG
Found at i:38256126 original size:110 final size:110
Alignment explanation
Indices: 38255940--38256152 Score: 399
Period size: 110 Copynumber: 1.9 Consensus size: 110
38255930 AGGCTACTTG
*
38255940 ATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCGTCTTTGCTCTTGAGCTTTAAATTTAAACAA
1 ATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATTTAAACAA
38256005 ATGAATTTGTTTAATTACCTACTCAACTTTAATTCTATCTACTCA
66 ATGAATTTGTTTAATTACCTACTCAACTTTAATTCTATCTACTCA
38256050 ATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATTTAAACAA
1 ATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATTTAAACAA
* *
38256115 ATGAATTTGTTTAATTACTTACTCAAGTTTAATTCTAT
66 ATGAATTTGTTTAATTACCTACTCAACTTTAATTCTAT
38256153 AATAGTCACA
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 100 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.46
Consensus pattern (110 bp):
ATTGCTTTCTCCTTTCCCCTATCTGATTTAGTTCCTCTTTGCTCTTGAGCTTTAAATTTAAACAA
ATGAATTTGTTTAATTACCTACTCAACTTTAATTCTATCTACTCA
Found at i:38260673 original size:25 final size:25
Alignment explanation
Indices: 38260644--38260691 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38260634 TTATAACATG
* *
38260644 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
38260669 AAAATGACTATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
38260692 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:38260794 original size:20 final size:20
Alignment explanation
Indices: 38260728--38260794 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
38260718 ATTTTGATAA
*
38260728 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38260748 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
38260768 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
38260788 ACGTGAT
1 ACATGAT
38260795 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38260964 original size:23 final size:23
Alignment explanation
Indices: 38260845--38260962 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
38260835 AGGAAGTGAA
*
38260845 AAAGGGCTTGTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38260868 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38260891 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38260914 AAAGGGCTTATACCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38260937 AAAAGGGCTTTTG-CCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
38260960 AAA
1 AAA
38260963 AGAGGCTAGG
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
22 3 0.03
23 77 0.86
24 10 0.11
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:38261212 original size:31 final size:31
Alignment explanation
Indices: 38261177--38261240 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
38261167 CGTTTACAGT
* *
38261177 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
38261208 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
38261239 AA
1 AA
38261241 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:38266771 original size:69 final size:70
Alignment explanation
Indices: 38266660--38266807 Score: 228
Period size: 70 Copynumber: 2.1 Consensus size: 70
38266650 GGGGAATCAT
* *
38266660 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTT-TCATTTCAAATATACAATGGA
1 CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATACAATGGA
38266724 TATCG
66 TATCG
***
38266729 CACTTAGCAACCCCTCGGGGG-ATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATACAATGG
38266793 ATATCG
65 ATATCG
38266799 CACTTAGCA
1 CACTTAGCA
38266808 CCACCAATGA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 32 0.44
70 40 0.56
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (70 bp):
CACTTAGCAACCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAAGATACAATGGA
TATCG
Found at i:38266911 original size:104 final size:101
Alignment explanation
Indices: 38266728--38266935 Score: 346
Period size: 104 Copynumber: 2.0 Consensus size: 101
38266718 AATGGATATC
38266728 GCACTTAGCAACCCCTCGGGGGATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
1 GCACTTAGCAACCCCTCGGGGGATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
* *
38266793 ATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 ATATCGCACATAGCACCACC-ATAAACCGGGGAATCA
38266830 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGG-ATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATATGGT
*
38266895 GGATCA-CGCACATAGCACCACCATAAATCGGGGAATCA
64 GGAT-ATCGCACATAGCACCACCATAAACCGGGGAATCA
38266933 GCA
1 GCA
38266936 ACAGCAACCT
Statistics
Matches: 100, Mismatches: 3, Indels: 5
0.93 0.03 0.05
Matches are distributed among these distances:
102 22 0.22
103 32 0.32
104 45 0.45
105 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (101 bp):
GCACTTAGCAACCCCTCGGGGGATCAGCACATAGCAACCCCTTTCACATTTCAAAGATATGGTGG
ATATCGCACATAGCACCACCATAAACCGGGGAATCA
Found at i:38267092 original size:10 final size:10
Alignment explanation
Indices: 38267070--38267108 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
38267060 ATTTTAATTC
*
38267070 CAAATAATCT
1 CAAATAATAT
38267080 CAACAT-ATAT
1 CAA-ATAATAT
38267090 CAAATAATAT
1 CAAATAATAT
38267100 CAAATAATA
1 CAAATAATA
38267109 CATTAAGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.28
Consensus pattern (10 bp):
CAAATAATAT
Found at i:38273061 original size:27 final size:27
Alignment explanation
Indices: 38273006--38273176 Score: 193
Period size: 27 Copynumber: 6.3 Consensus size: 27
38272996 ATATTGAGTC
* * *
38273006 CGCACACTCAGTGCTA-ATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38273032 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38273059 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38273087 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38273114 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38273141 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38273168 CGCACACTT
1 CGCACACTT
38273177 TAGACTGTAC
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
26 15 0.12
27 86 0.69
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38273097 original size:55 final size:54
Alignment explanation
Indices: 38273006--38273176 Score: 202
Period size: 55 Copynumber: 3.2 Consensus size: 54
38272996 ATATTGAGTC
* * * *
38273006 CGCACACTCAGTGCTA-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
38273059 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
38273114 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
38273168 CGCACACTT
1 CGCACACTT
38273177 TAGACTGTAC
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
53 15 0.15
54 40 0.40
55 45 0.45
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:38273125 original size:82 final size:81
Alignment explanation
Indices: 38273026--38273176 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
38273016 GTGCTAATAA
* *
38273026 TCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
38273090 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
38273108 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
38273173 ACTT
66 ACTT
38273177 TAGACTGTAC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 10 0.16
82 51 0.82
83 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38283067 original size:26 final size:27
Alignment explanation
Indices: 38283029--38283089 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
38283019 TTAATTATGT
38283029 TATAATATAACATATATTAA-CATATTA
1 TATAATATAACATAT-TTAACCATATTA
* *
38283056 TATAAT-TTACATATTTAACCTTATTA
1 TATAATATAACATATTTAACCATATTA
*
38283082 TAAAATAT
1 TATAATAT
38283090 GAAACCATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 4 0.14
26 18 0.62
27 7 0.24
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (27 bp):
TATAATATAACATATTTAACCATATTA
Found at i:38285372 original size:42 final size:42
Alignment explanation
Indices: 38285325--38285418 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
38285315 TTATGAACTT
*
38285325 AGACCACTCAACGAGCTCGGATGCCACATATATCACGAACCC
1 AGACCACTCAACGAGCTCGGATGCCACATATATCACAAACCC
* *
38285367 AGACCACTCAATGAGCTCGGATGCCACATATATCACAAACTC
1 AGACCACTCAACGAGCTCGGATGCCACATATATCACAAACCC
38285409 AGACCACTCA
1 AGACCACTCA
38285419 CTGAGTTCAG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.35, C:0.34, G:0.15, T:0.16
Consensus pattern (42 bp):
AGACCACTCAACGAGCTCGGATGCCACATATATCACAAACCC
Found at i:38292646 original size:40 final size:41
Alignment explanation
Indices: 38292602--38292681 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 41
38292592 AAGGTTTTTA
*
38292602 GACACGGGCTA-GGACATGGGCG-TGTCATGGCCGTGTGAGG
1 GACACGGGCTATGGACACGGGCGATGTCA-GGCCGTGTGAGG
38292642 GACACGGGCTATGGACACGGGCGCATGTCAGGCCGTGTGA
1 GACACGGGCTATGGACACGGGCG-ATGTCAGGCCGTGTGA
38292682 AAACCCCTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
40 11 0.31
41 10 0.28
42 10 0.28
43 5 0.14
ACGTcount: A:0.19, C:0.23, G:0.42, T:0.16
Consensus pattern (41 bp):
GACACGGGCTATGGACACGGGCGATGTCAGGCCGTGTGAGG
Found at i:38292824 original size:21 final size:21
Alignment explanation
Indices: 38292800--38292860 Score: 106
Period size: 21 Copynumber: 3.0 Consensus size: 21
38292790 GTTATAACGA
38292800 CCACACGAGCGTGTTGCCCTT
1 CCACACGAGCGTGTTGCCCTT
38292821 CCACACGAGCGTGTTGCCCTT
1 CCACACGAGCGTGTTGCCCTT
*
38292842 CCACACGGGCGTG-TGCCCT
1 CCACACGAGCGTGTTGCCCT
38292861 GTTTCAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
20 6 0.15
21 33 0.85
ACGTcount: A:0.13, C:0.39, G:0.26, T:0.21
Consensus pattern (21 bp):
CCACACGAGCGTGTTGCCCTT
Found at i:38296084 original size:12 final size:12
Alignment explanation
Indices: 38296067--38296092 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38296057 GCTTAGATAC
38296067 GAAAATTGTTAA
1 GAAAATTGTTAA
38296079 GAAAATTGTTAA
1 GAAAATTGTTAA
38296091 GA
1 GA
38296093 GTTTCTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (12 bp):
GAAAATTGTTAA
Found at i:38303185 original size:18 final size:19
Alignment explanation
Indices: 38303137--38303190 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
38303127 AAAACTACTC
38303137 AAAATTCAAAAAATA-TAT
1 AAAATTCAAAAAATATTAT
* *
38303155 ATAATATCTAAAATATATTA-
1 AAAAT-TC-AAAAAATATTAT
38303175 AAAATTCAAAAAATAT
1 AAAATTCAAAAAATAT
38303191 ACAAATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 12 0.41
19 4 0.14
20 11 0.38
21 2 0.07
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATTCAAAAAATATTAT
Found at i:38303299 original size:141 final size:137
Alignment explanation
Indices: 38303147--38303417 Score: 305
Period size: 141 Copynumber: 1.9 Consensus size: 137
38303137 AAAATTCAAA
* * * * *
38303147 AAATATATATAATA-TCTAAAATATATTAAAAATTCAAAAAATATA-CAAATTTATTAAGTTCAA
1 AAATATATATAA-ACTCGAAAA-ACA-TAAAAATTCAAAAAATATATAAAATTTATGAAATT-AA
*** *
38303210 AA-AGTTTAATTTTTAAAAATATATAAATTATTTAAAATAAAAAAATTATAAAGACATTATACAA
62 AATAGTTTAAAAATT-AAAATATATAAATTATATAAAAT-AAAAAATTATAAA-ACATTATACAA
*
38303274 TATATAAAAAACAC
124 AATATAAAAAACAC
*
38303288 AAATATATATAAACTCGGAAAACATAAAAATTCAAAAAATATATTAAAATTTATGAAATTAAAAT
1 AAATATATATAAACTCGAAAAACATAAAAATTCAAAAAATATA-TAAAATTTATGAAATTAAAAT
** * * *
38303353 TTTTTAAAAATTATAATATATTAATTATATAAAATAAAAAATTATAAAACATTATATAAAATATA
65 AGTTTAAAAATTAAAATATATAAATTATATAAAATAAAAAATTATAAAACATTATACAAAATATA
38303418 GATAATTCAA
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
138 15 0.14
139 32 0.29
140 27 0.25
141 36 0.33
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (137 bp):
AAATATATATAAACTCGAAAAACATAAAAATTCAAAAAATATATAAAATTTATGAAATTAAAATA
GTTTAAAAATTAAAATATATAAATTATATAAAATAAAAAATTATAAAACATTATACAAAATATAA
AAAACAC
Found at i:38305216 original size:17 final size:19
Alignment explanation
Indices: 38305190--38305224 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
38305180 AAACAAACAA
38305190 CTTTTGAAA-CCAAAAGCG
1 CTTTTGAAACCCAAAAGCG
38305208 CTTTT-AAACCCAAAAGC
1 CTTTTGAAACCCAAAAGC
38305225 ATATGCAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (19 bp):
CTTTTGAAACCCAAAAGCG
Found at i:38311766 original size:25 final size:25
Alignment explanation
Indices: 38311676--38311766 Score: 103
Period size: 25 Copynumber: 3.6 Consensus size: 25
38311666 CATTTTCCTT
* * *
38311676 GCTCGTGTGAGTATTCTGATTTACA
1 GCTCGTGTGAGCATACCGATTTACA
38311701 GCTCGTGTGAGCAT-CTCGATTTACA
1 GCTCGTGTGAGCATAC-CGATTTACA
* *
38311726 GCTTGTGAGAGCATACCGATTTACA
1 GCTCGTGTGAGCATACCGATTTACA
* *
38311751 ACTCGTGTGAGAATAC
1 GCTCGTGTGAGCATAC
38311767 ATGTACAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 54 0.96
26 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (25 bp):
GCTCGTGTGAGCATACCGATTTACA
Found at i:38312441 original size:20 final size:20
Alignment explanation
Indices: 38312408--38312451 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
38312398 TAAAGATAGT
* *
38312408 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAATAATA
38312428 AAATGCAAAT-GAAAATAATA
1 AAATGC-AATGGAAAATAATA
38312448 AAAT
1 AAAT
38312452 TTGAAAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.20
Consensus pattern (20 bp):
AAATGCAATGGAAAATAATA
Found at i:38312876 original size:20 final size:20
Alignment explanation
Indices: 38312843--38312881 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38312833 GATATATGGT
38312843 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
38312863 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
38312882 TTTGAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:38315278 original size:46 final size:46
Alignment explanation
Indices: 38315228--38315403 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
38315218 TGGTTGAGCA
38315228 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38315274 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38315319 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38315367 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38315404 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38315384 original size:93 final size:93
Alignment explanation
Indices: 38315225--38315396 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
38315215 GGATGGTTGA
* *
38315225 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38315290 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
38315318 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38315383 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
38315397 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38324434 original size:24 final size:24
Alignment explanation
Indices: 38324379--38324436 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
38324369 AATAACAACT
*
38324379 AAACTAAAATTACAACTAGAAAGAA
1 AAACT-AAATTACAACTAGAAAAAA
* *
38324404 AACCTAAATTACAAGTA-AAAAATA
1 AAACTAAATTACAACTAGAAAAA-A
38324428 AAACTAAAT
1 AAACTAAAT
38324437 AGTAGACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 20 0.71
25 4 0.14
ACGTcount: A:0.64, C:0.12, G:0.05, T:0.19
Consensus pattern (24 bp):
AAACTAAATTACAACTAGAAAAAA
Found at i:38326357 original size:43 final size:43
Alignment explanation
Indices: 38326291--38326460 Score: 134
Period size: 43 Copynumber: 4.0 Consensus size: 43
38326281 AGCTCGTACA
* * *
38326291 ATGCCAATGTCCCA-AACGAGGTCTTACATGTAATCA-ATTATCG
1 ATGCCAATGTCCCAGAAAGAGGTCTTACACGAAATCATA-TAT-G
*
38326334 ATGCCACTGTCCCAGAAAG-GGTCTTACACGAAATCATATATG
1 ATGCCAATGTCCCAGAAAGAGGTCTTACACGAAATCATATATG
* * * * *
38326376 ATGCCAATGTCCCAGACA-TGTTCTTACACGTAAATCTTAAATCG
1 ATGCCAATGTCCCAGAAAGAGGTCTTACACG-AAATCATATAT-G
* * * * * *
38326420 ATGCCAACGTCCCA-AACGTGGTATTACACAAAATCACATAT
1 ATGCCAATGTCCCAGAAAGAGGTCTTACACGAAATCATATAT
38326461 CGGAATACTA
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 27 0.26
43 49 0.48
44 27 0.26
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGAAAGAGGTCTTACACGAAATCATATATG
Found at i:38332927 original size:38 final size:38
Alignment explanation
Indices: 38332884--38332960 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
38332874 GTGTTGAAAG
38332884 TAAGTATAATTATGATGATTTAAATGTTCAATATTAAT
1 TAAGTATAATTATGATGATTTAAATGTTCAATATTAAT
*
38332922 TAAGTATAATTATGATGTTTTAAATGTTCAATATTAAT
1 TAAGTATAATTATGATGATTTAAATGTTCAATATTAAT
38332960 T
1 T
38332961 CGACATGGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (38 bp):
TAAGTATAATTATGATGATTTAAATGTTCAATATTAAT
Found at i:38333309 original size:64 final size:63
Alignment explanation
Indices: 38333190--38333470 Score: 258
Period size: 64 Copynumber: 4.3 Consensus size: 63
38333180 CGGGATGCAT
* *
38333190 ACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACTATGTG
1 ACCATGTG-ACAAGAGAGCTACG-G-GA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTG
38333255 TAC
61 TAC
38333258 ACCATGTCGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTAC
1 ACCATGT-GACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTAC
* * * * * * * * * *
38333322 ACCATGCAGACAAGAGAGCTACGGGATAAATGTAGCTAGGTTGCGTGTGTGGTTCCAGGTGAAGG
1 ACCATG-TGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGT
38333387 AC
62 AC
* * * * * * * * *
38333389 ACCATGTATACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACGTGGGTGGTACTAAGTGTTC
1 ACCATGT-GACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTAC
38333452 ACCATGTGTACAAGAGAGC
1 ACCATGTG-ACAAGAGAGC
38333471 CAAAATTATG
Statistics
Matches: 179, Mismatches: 27, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
63 19 0.11
64 83 0.46
65 3 0.02
66 24 0.13
67 28 0.16
68 21 0.12
69 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.23
Consensus pattern (63 bp):
ACCATGTGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTAC
Found at i:38335763 original size:42 final size:42
Alignment explanation
Indices: 38335703--38335861 Score: 149
Period size: 42 Copynumber: 3.6 Consensus size: 42
38335693 GAGTGCCAAA
* * * *
38335703 GCCATGTCCCAGACATGGTCTTACATGGGTCCGCATATCGAT
1 GCCATATCCCAGACATGGTCTTATACGGGTCCTCATATCGAT
* * *
38335745 GCCATATCCCAGATATGGTTTTATACGAAGT-CTCATATTGGTGCCGAT
1 GCCATATCCCAGACATGGTCTTATACG-GGTCCTCATA----T--CGAT
*
38335793 GCCATATCCCAGACATGGTCTTATACGGGACCTCATATCGAT
1 GCCATATCCCAGACATGGTCTTATACGGGTCCTCATATCGAT
* * *
38335835 GCCATGTCCCAAAAATGGTCTTATACG
1 GCCATATCCCAGACATGGTCTTATACG
38335862 AAATCACTTA
Statistics
Matches: 95, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
42 55 0.58
43 2 0.02
44 1 0.01
46 1 0.01
47 1 0.01
48 35 0.37
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTATACGGGTCCTCATATCGAT
Found at i:38335817 original size:48 final size:48
Alignment explanation
Indices: 38335741--38335953 Score: 174
Period size: 48 Copynumber: 4.6 Consensus size: 48
38335731 GTCCGCATAT
* * *
38335741 CGATGCCATATCCCAGATATGGTTTTATACGAAG-TCTCATATTGGTGC
1 CGATGCCATATCCCAGACATGGTCTTATACGAAGATCACATATT-GTGC
* * *
38335789 CGATGCCATATCCCAGACATGGTCTTATACG-GGACCTCATA---T--
1 CGATGCCATATCCCAGACATGGTCTTATACGAAGATCACATATTGTGC
* * * * **
38335831 CGATGCCATGTCCCAAAAATGGTCTTATACGAA-ATCACTTAACGATGC
1 CGATGCCATATCCCAGACATGGTCTTATACGAAGATCACATATTG-TGC
* * * *
38335879 CGAAGCCATATCCCTGATATGGTCTTATAC-AGGATCACATATTGTTGC
1 CGATGCCATATCCCAGACATGGTCTTATACGAAGATCACATATTG-TGC
* *
38335927 TGATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATATCCCAGACATGGTCTTA
38335954 CACAGGATCT
Statistics
Matches: 130, Mismatches: 26, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
42 33 0.25
44 1 0.01
46 1 0.01
47 2 0.02
48 93 0.72
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (48 bp):
CGATGCCATATCCCAGACATGGTCTTATACGAAGATCACATATTGTGC
Found at i:38335853 original size:90 final size:90
Alignment explanation
Indices: 38335696--38335908 Score: 255
Period size: 90 Copynumber: 2.4 Consensus size: 90
38335686 CCAAATAGAG
* * * * * * *
38335696 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGTCCGCATATCGATGCCATATCCCAGATAT
1 TGCCGAAGCCATATCCCAGACATGGTCTTATACGGGACCGCATATCGATGCCATATCCCAAAAAT
* * * ** *
38335761 GGTTTTATACGAAGTCTCATATTGG
66 GGTCTTATACGAAATCACATAACGA
* * *
38335786 TGCCGATGCCATATCCCAGACATGGTCTTATACGGGACCTCATATCGATGCCATGTCCCAAAAAT
1 TGCCGAAGCCATATCCCAGACATGGTCTTATACGGGACCGCATATCGATGCCATATCCCAAAAAT
*
38335851 GGTCTTATACGAAATCACTTAACGA
66 GGTCTTATACGAAATCACATAACGA
* *
38335876 TGCCGAAGCCATATCCCTGATATGGTCTTATAC
1 TGCCGAAGCCATATCCCAGACATGGTCTTATAC
38335909 AGGATCACAT
Statistics
Matches: 103, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 103 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (90 bp):
TGCCGAAGCCATATCCCAGACATGGTCTTATACGGGACCGCATATCGATGCCATATCCCAAAAAT
GGTCTTATACGAAATCACATAACGA
Found at i:38335877 original size:42 final size:42
Alignment explanation
Indices: 38335789--38335879 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 42
38335779 ATATTGGTGC
* * ** * *
38335789 CGATGCCATATCCCAGACATGGTCTTATACGGGACCTCATAT
1 CGATGCCATATCCCAAAAATGGTCTTATACGAAACCACATAA
* * *
38335831 CGATGCCATGTCCCAAAAATGGTCTTATACGAAATCACTTAA
1 CGATGCCATATCCCAAAAATGGTCTTATACGAAACCACATAA
38335873 CGATGCC
1 CGATGCC
38335880 GAAGCCATAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
CGATGCCATATCCCAAAAATGGTCTTATACGAAACCACATAA
Found at i:38348394 original size:40 final size:40
Alignment explanation
Indices: 38348346--38348561 Score: 380
Period size: 40 Copynumber: 5.4 Consensus size: 40
38348336 GGACTAAGAT
38348346 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGAT-
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAG-TC
38348386 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
38348426 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
*
38348466 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
* *
38348506 CCGAAGGCATTTGTGCTAGTGACTATGTCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
*
38348546 CCGAAGGCATTCGTGC
1 CCGAAGGCATTTGTGC
38348562 GAGTTGCTAT
Statistics
Matches: 172, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 1 0.01
40 171 0.99
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
Found at i:38353893 original size:47 final size:47
Alignment explanation
Indices: 38353772--38353941 Score: 232
Period size: 47 Copynumber: 3.6 Consensus size: 47
38353762 TACGTGTAAT
* * * * *
38353772 GTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAAC
* *
38353820 GTGGTGCTAAGTGGATATGCCGCGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
**
38353867 GTGGTGCTAAGTGGATATTTCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
* *
38353914 ATGGTACTAAGTGGATATACCACGGTTA
1 GTGGTGCTAAGTGGATATACCACGGTTA
38353942 AACATGTAAT
Statistics
Matches: 108, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 71 0.66
48 37 0.34
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (47 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAAC
Found at i:38357285 original size:15 final size:15
Alignment explanation
Indices: 38357239--38357285 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
38357229 GCTATAAATG
*
38357239 GGATTTCCTTATCAT
1 GGATTTCCTTATCTT
*
38357254 GGATTTCTTTATCTT
1 GGATTTCCTTATCTT
*
38357269 GGATTTCCTTATTTT
1 GGATTTCCTTATCTT
38357284 GG
1 GG
38357286 GCTTCTCCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (15 bp):
GGATTTCCTTATCTT
Found at i:38360006 original size:38 final size:40
Alignment explanation
Indices: 38359955--38360243 Score: 178
Period size: 38 Copynumber: 6.8 Consensus size: 40
38359945 GAATGAAAAA
*
38359955 AACGTGGTGCTAAGTGGATATACCACGGTTATA-A-GTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATATATGT
* * *
38359993 AACGTGGTGCTAAGTGAATATACCATGATTACACATATTGATATATGT
1 AACGTGGTGCTAAGTGGATATACCACG-GT-----TA-T-ATATATGT
** *
38360041 AACGTGGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATATA-T-A-T--GT
* * * *
38360088 AATGTGGTACTAAGTGGATATACCACGATTA-A-ACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATATATGT
*
38360126 AACGTGGTGCTAAGTGGATATGCCACGGTTACATAGATTGATTCAT-T
1 AACGTGGTGCTAAGTGGATATACCACGGTT--AT--A-T-A-T-ATGT
* * *
38360173 AACATGGTGTTAAGTGGATATACTACGGTTA-A-ATATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATATATATGT
*
38360211 AACGTGGTGCTAAGTGGATATGCCACGGTTATA
1 AACGTGGTGCTAAGTGGATATACCACGGTTATA
38360244 CATGTTAATT
Statistics
Matches: 192, Mismatches: 30, Indels: 57
0.69 0.11 0.20
Matches are distributed among these distances:
37 2 0.01
38 81 0.42
39 3 0.02
40 2 0.01
41 1 0.01
42 5 0.03
43 4 0.02
44 5 0.03
45 4 0.02
46 2 0.01
47 55 0.29
48 28 0.15
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (40 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATATATATGT
Found at i:38360187 original size:85 final size:85
Alignment explanation
Indices: 38360037--38360241 Score: 329
Period size: 85 Copynumber: 2.4 Consensus size: 85
38360027 ATATTGATAT
* * **
38360037 ATGTAACGTGGTGCTAAGTGGATATGTCACGGTTACATATATTGATTCATTAATGTGGTACTAAG
1 ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATAGATTGATTCATTAACATGGTACTAAG
38360102 TGGATATACCACGATTAAAC
66 TGGATATACCACGATTAAAC
**
38360122 ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATAGATTGATTCATTAACATGGTGTTAAG
1 ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATAGATTGATTCATTAACATGGTACTAAG
* * *
38360187 TGGATATACTACGGTTAAAT
66 TGGATATACCACGATTAAAC
38360207 ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
38360242 TACATGTTAA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
85 111 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (85 bp):
ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATAGATTGATTCATTAACATGGTACTAAG
TGGATATACCACGATTAAAC
Found at i:38364121 original size:47 final size:49
Alignment explanation
Indices: 38364052--38364229 Score: 193
Period size: 49 Copynumber: 3.7 Consensus size: 49
38364042 TATAATGCCG
* * *
38364052 ATGCCATGTCCCAGACATGGTCTTACTCTGGCTCAT-ATC-TCAAGTC-A
1 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCATCAAGGCTA
38364099 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCAAGGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCAAGGCTA
* * * * * * **
38364148 ATGCCATGTCCAAGACATGGTCTTACAATAACTCTCATATATC-TGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCAT-CATCAAG-GCTA
*
38364198 ATGCCATGTCCTAGACATGGTCTTACACTGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC
38364230 ACATCTTGTA
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
46 2 0.02
47 34 0.30
48 6 0.05
49 36 0.32
50 34 0.30
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCAAGGCTA
Found at i:38364312 original size:46 final size:46
Alignment explanation
Indices: 38364051--38364407 Score: 185
Period size: 46 Copynumber: 7.6 Consensus size: 46
38364041 TTATAATGCC
* * *
38364051 GATGCCATGTCCCAGACATGGTCTTACTCTGGCTCAT-ATCTCAAGTC-
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCGTCTCAAGGCT
* * * *
38364098 AATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCATCAAGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTC-TCAAGGCT
* * * ** * * * *
38364147 AATGCCATGTCCAAGACATGGTCTTACAATAACTCTCATAT-ATCTGTGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTCTCA--AG-GCT
* * * ** *
38364197 GATGCCATGTCCTAGACATGGTCTTACACTGACACATC-T-TGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCGTCTCAAGGCT
* *
38364243 GATGCATGTCCCAGA-ATGTCTTACATTGGCT-TACGTCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAAGGCT
* * *
38364288 GATGCATGTTCTAGACATGTCTTACACTGGCTCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCT
* * * **
38364334 GATGCTTGTCCCAAACATGTCTTACACTGGCTCTCATACT-GTGGC-
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGT-CTCAAGGCT
* *
38364379 CACTGCATGTCCCAAACATGTCTTACACT
1 GA-TGCATGTCCCAGACATGTCTTACACT
38364408 AGCACACAAA
Statistics
Matches: 253, Mismatches: 41, Indels: 33
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 12 0.05
44 4 0.02
45 26 0.10
46 92 0.36
47 38 0.15
48 7 0.03
49 37 0.15
50 33 0.13
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGCT
Found at i:38369675 original size:79 final size:82
Alignment explanation
Indices: 38369564--38369748 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
38369554 ACTACTCGTT
* * *
38369564 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
38369627 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
38369644 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCACACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
38369707 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
38369724 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38369749 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:38369748 original size:40 final size:40
Alignment explanation
Indices: 38369564--38369748 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
38369554 ACTACTCGTT
* * *
38369564 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
38369604 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
*
38369644 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT-AGCA
* * *
38369683 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
38369724 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38369749 CATCATTCGA
Statistics
Matches: 124, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.24
40 81 0.65
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:38370940 original size:56 final size:56
Alignment explanation
Indices: 38370873--38371048 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
38370863 TATTAGTTTA
38370873 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
38370929 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
38370985 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
38371041 TTGCCCAT
1 TTGCCCAT
38371049 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:38376631 original size:21 final size:21
Alignment explanation
Indices: 38376605--38376644 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38376595 GGACTAAACC
38376605 AAAAACCTCA-AAAATTTTTGG
1 AAAAA-CTCAGAAAATTTTTGG
*
38376626 AAAAACTTAGAAAATTTTT
1 AAAAACTCAGAAAATTTTT
38376645 CCATGACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAAACTCAGAAAATTTTTGG
Found at i:38378462 original size:49 final size:47
Alignment explanation
Indices: 38378384--38378554 Score: 134
Period size: 44 Copynumber: 3.6 Consensus size: 47
38378374 GTATGATGCT
*
38378384 GATGCCATGTTCCAAACATGGTCTTACACTGACTTCTATTTATCGAGGCC
1 GATGCCATGTCCCAAACA-GGTCTTACACTGACTTC-A-TTATCGAGGCC
* * * * * *
38378434 GATGCCATGTCCCAGACAAGTCTTACACTGAC-ACA-TGTC-AAGCA
1 GATGCCATGTCCCAAACAGGTCTTACACTGACTTCATTATCGAGGCC
* * * *
38378478 TATGCCATGTCCCAAACAGGTCTTACACTGGCTTGAATATCTCGAGGCC
1 GATGCCATGTCCCAAACAGGTCTTACACTGACTT-CAT-TATCGAGGCC
* * * *
38378527 GATG-CATATCCTAGACATGTCTTACACT
1 GATGCCATGTCCCAAACAGGTCTTACACT
38378555 AGCTCTTATA
Statistics
Matches: 95, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
44 31 0.33
45 3 0.03
46 1 0.01
47 1 0.01
48 24 0.25
49 19 0.20
50 16 0.17
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAAACAGGTCTTACACTGACTTCATTATCGAGGCC
Found at i:38388718 original size:22 final size:22
Alignment explanation
Indices: 38388674--38388719 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
38388664 AGAAGAACGA
* *
38388674 CTCAACATCATAGACAGGTCGG
1 CTCAACATCATAGACAAGACGG
*
38388696 CTCAACGTCATAGACAAGACGG
1 CTCAACATCATAGACAAGACGG
38388718 CT
1 CT
38388720 AAAGGCCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.22, T:0.17
Consensus pattern (22 bp):
CTCAACATCATAGACAAGACGG
Found at i:38389465 original size:124 final size:124
Alignment explanation
Indices: 38389245--38389501 Score: 496
Period size: 124 Copynumber: 2.1 Consensus size: 124
38389235 AATCCGTGTG
*
38389245 GGGCCTATGAGCTCATTAGGCCCACACGGCCCATTTAGGCCCAACGTGGCCCAGAACTACCTAAG
1 GGGCCTACGAGCTCATTAGGCCCACACGGCCCATTTAGGCCCAACGTGGCCCAGAACTACCTAAG
38389310 TTGTGTGCACGACGTGACAATCTATCTACATCCCACTTAATAGTGAAGTTTACACAAGC
66 TTGTGTGCACGACGTGACAATCTATCTACATCCCACTTAATAGTGAAGTTTACACAAGC
38389369 GGGCCTACGAGCTCATTAGGCCCACACGGCCCATTTAGGCCCAACGTGGCCCAGAACTACCTAAG
1 GGGCCTACGAGCTCATTAGGCCCACACGGCCCATTTAGGCCCAACGTGGCCCAGAACTACCTAAG
*
38389434 TTGTGTGCACGACGTGACAATCTATCTACATCCCACTTAATAGTGAAGTTTAGACAAGC
66 TTGTGTGCACGACGTGACAATCTATCTACATCCCACTTAATAGTGAAGTTTACACAAGC
38389493 GGGCCTACG
1 GGGCCTACG
38389502 GACCAATCGA
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (124 bp):
GGGCCTACGAGCTCATTAGGCCCACACGGCCCATTTAGGCCCAACGTGGCCCAGAACTACCTAAG
TTGTGTGCACGACGTGACAATCTATCTACATCCCACTTAATAGTGAAGTTTACACAAGC
Found at i:38394706 original size:25 final size:25
Alignment explanation
Indices: 38394668--38394737 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
38394658 AGGAAGTGCT
* *
38394668 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38394693 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
38394718 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38394738 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38394750 original size:24 final size:24
Alignment explanation
Indices: 38394667--38394762 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
38394657 GAGGAAGTGC
*
38394667 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
38394692 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
38394716 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
38394740 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
38394763 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:38394761 original size:50 final size:50
Alignment explanation
Indices: 38394668--38394762 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
38394658 AGGAAGTGCT
**
38394668 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
38394718 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
38394763 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:38402339 original size:10 final size:10
Alignment explanation
Indices: 38402324--38402362 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
38402314 TGCATTTGTA
38402324 CATGATATGC
1 CATGATATGC
38402334 CATGATATGC
1 CATGATATGC
*
38402344 ACATGATATAC
1 -CATGATATGC
38402355 CATGATAT
1 CATGATAT
38402363 ATTCACATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:38402370 original size:23 final size:21
Alignment explanation
Indices: 38402323--38402362 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38402313 CTGCATTTGT
*
38402323 ACATGATATGCCATGATATGC
1 ACATGATATACCATGATATGC
38402344 ACATGATATACCATGATAT
1 ACATGATATACCATGATAT
38402363 ATTCACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATGATATACCATGATATGC
Found at i:38402445 original size:25 final size:25
Alignment explanation
Indices: 38402407--38402476 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
38402397 AGGAAGTGCT
* * * *
38402407 AAAAGGTCTATGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
**
38402432 AAAAGGGCTTTGCCCCAGTTTGTCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38402457 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
38402477 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38402489 original size:24 final size:25
Alignment explanation
Indices: 38402432--38402489 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
38402422 CAGTTTACCG
38402432 AAAAG-GGCTTTGCCCCAGTTTGTC
1 AAAAGAGGCTTTGCCCCAGTTTGTC
*
38402456 AAAA-AGGGCTTTGCCCTAGTTAT-T-
1 AAAAGA-GGCTTTGCCCCAGTT-TGTC
38402480 AAAAGAGGCT
1 AAAAGAGGCT
38402490 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
24 12 0.41
25 16 0.55
26 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTGTC
Found at i:38404668 original size:93 final size:93
Alignment explanation
Indices: 38404555--38404726 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
38404545 CGCCCATAAG
* * *
38404555 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
38404620 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
38404648 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
38404713 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
38404727 TCAACCAACC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:38404723 original size:46 final size:46
Alignment explanation
Indices: 38404548--38404723 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
38404538 TGTAACCCGC
* * *
38404548 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
38404594 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
38404644 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* **
38404687 CCATAAGTGAACTTAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
38404724 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38408309 original size:40 final size:40
Alignment explanation
Indices: 38408240--38408417 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
38408230 AACCCAAGTA
**
38408240 CCTTCGGGA-TATAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACT-TAGCCCGGATATAGTAACTCGCACAAATG
38408279 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
**
38408319 CCTTCGGGACTTAGCCCGGATATAGTAACTTACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
38408359 CCTTCGGGACTTAGTCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38408399 CCTTC-GGATCTTAGCCCGG
1 CCTTCGGGA-CTTAGCCCGG
38408418 TTATCATCCG
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 15 0.12
40 112 0.88
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38416255 original size:39 final size:40
Alignment explanation
Indices: 38416201--38416362 Score: 245
Period size: 40 Copynumber: 4.1 Consensus size: 40
38416191 AACCCAAGTA
* ** *
38416201 CCTTCGGGATTTAG-CCGGATATAACAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38416240 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38416280 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
38416320 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38416360 CCT
1 CCT
38416363 CCGGATCTTA
Statistics
Matches: 113, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.12
40 100 0.88
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38419259 original size:16 final size:16
Alignment explanation
Indices: 38419238--38419270 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38419228 GCTTAAATAA
38419238 TGTTTAGTTCTTACTT
1 TGTTTAGTTCTTACTT
38419254 TGTTTAGTTCTTACTT
1 TGTTTAGTTCTTACTT
38419270 T
1 T
38419271 CCCATCTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.64
Consensus pattern (16 bp):
TGTTTAGTTCTTACTT
Found at i:38419656 original size:53 final size:54
Alignment explanation
Indices: 38419588--38419795 Score: 213
Period size: 53 Copynumber: 3.9 Consensus size: 54
38419578 TTTCCTTTTT
* * * * * *
38419588 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * **
38419641 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACACGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * * * *
38419695 GTAACTCATCAATGCCATGTCTTGACATGATCTTACATGATTTTCTTACCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
38419750 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
38419796 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 40 0.31
55 42 0.33
56 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:38419711 original size:55 final size:54
Alignment explanation
Indices: 38419599--38419785 Score: 186
Period size: 55 Copynumber: 3.5 Consensus size: 54
38419589 AACTTACCAT
* * *
38419599 TGCCATGTCTTGACATGGTCTTAC-GTGGTATCC-TTGCTTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACAG-GG-ATCCTTTGCCTTATAGAACTCATCAA
*
38419652 TGCCATGCCTTGGCATGGTCTTACACGGGA-CCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACA-GGGATCCTTTGCCTTATAG-AACTCATCAA
* * * ** * *
38419707 TGCCATGTCTTGACATGATCTTACA-TGATTTTCTTACCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACAGGGATCCT-TTGCCTTATAGAACTCATCAA
*
38419761 TGCCATGCCTTGGCATGGTCTTACA
1 TGCCATGCCTTGACATGGTCTTACA
38419786 TGATATCCTT
Statistics
Matches: 112, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 33 0.29
54 35 0.31
55 42 0.38
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACAGGGATCCTTTGCCTTATAGAACTCATCAA
Found at i:38419938 original size:48 final size:48
Alignment explanation
Indices: 38419823--38419931 Score: 200
Period size: 48 Copynumber: 2.3 Consensus size: 48
38419813 GTTCCAAACA
*
38419823 TGGTCTTACGTGGTATCCTTGTCTTAGTGCCAATGTCACATCTTGATG
1 TGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGTCACATCTTGATG
38419871 TGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGTCACATCTTGATG
1 TGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGTCACATCTTGATG
*
38419919 TGGTCTTATATGG
1 TGGTCTTACATGG
38419932 AGTCCTTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.40
Consensus pattern (48 bp):
TGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGTCACATCTTGATG
Found at i:38422131 original size:15 final size:16
Alignment explanation
Indices: 38422111--38422143 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38422101 TTGTGGGCTC
38422111 AGTTCGC-CCCTCGTG
1 AGTTCGCACCCTCGTG
*
38422126 AGTTCGCACGCTCGTG
1 AGTTCGCACCCTCGTG
38422142 AG
1 AG
38422144 GCCTCGAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.24
Consensus pattern (16 bp):
AGTTCGCACCCTCGTG
Found at i:38423056 original size:49 final size:49
Alignment explanation
Indices: 38422998--38423158 Score: 157
Period size: 49 Copynumber: 3.3 Consensus size: 49
38422988 TTCCAAACAT
* * * *
38422998 GGTCTTACACTGACTTCCATATATCAAAGCTGATGCCATGTCCGAGACC
1 GGTCTTACACTGGCTTCCATATATCGAAGCTGATGCCATGTCCCAGACA
* ** *
38423047 GGTCTTACACTGGC-TCTCATCTATCGGTG-TCGATACCATGTCCCAGACA
1 GGTCTTACACTGGCTTC-CATATATCGAAGCT-GATGCCATGTCCCAGACA
* * * * *
38423096 GGCCTTACACTGGCTTGCATATCTCGAGGCTGATG-CATGTCCTAGACA
1 GGTCTTACACTGGCTTCCATATATCGAAGCTGATGCCATGTCCCAGACA
*
38423144 TGTCTTACACTGGCT
1 GGTCTTACACTGGCT
38423159 CTCAAAATGT
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
48 28 0.31
49 60 0.67
50 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.29
Consensus pattern (49 bp):
GGTCTTACACTGGCTTCCATATATCGAAGCTGATGCCATGTCCCAGACA
Found at i:38423889 original size:20 final size:18
Alignment explanation
Indices: 38423852--38423902 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
38423842 CTATAGCAAC
38423852 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
38423869 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
38423889 TTACAACTTTACAA
1 TCACAA-TTTACAA
38423903 AATAATGCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:38426002 original size:13 final size:13
Alignment explanation
Indices: 38425984--38426008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38425974 GAGGAGTTTT
38425984 AGGTGGTGGTTGA
1 AGGTGGTGGTTGA
38425997 AGGTGGTGGTTG
1 AGGTGGTGGTTG
38426009 GTTTGTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.56, T:0.32
Consensus pattern (13 bp):
AGGTGGTGGTTGA
Found at i:38444580 original size:40 final size:40
Alignment explanation
Indices: 38444516--38444690 Score: 287
Period size: 40 Copynumber: 4.4 Consensus size: 40
38444506 CGGATGTAAC
* *
38444516 AACCAGCACGAATGCCTTCAGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
38444556 AACCCGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
38444596 AACCCGCACGAATGCCTTCGGGACTTAACTCGATTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
38444636 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTCTAAA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38444676 AACCCGCACGAATGC
1 AACCCGCACGAATGC
38444691 TATGCACATA
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:38453040 original size:38 final size:40
Alignment explanation
Indices: 38452990--38453160 Score: 278
Period size: 40 Copynumber: 4.4 Consensus size: 40
38452980 CGGATGTAAC
*
38452990 AACCAGCACGAATGCCTTC-GGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38453029 AACCCG-ACGAATGCCTTC-GGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* * *
38453067 AACCCACACGGATGCCTTCGGGACTTAACCCAGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38453107 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38453147 AA-CCGCACGAATGC
1 AACCCGCACGAATGC
38453161 TATGCACATA
Statistics
Matches: 123, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 37 0.30
39 28 0.23
40 58 0.47
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:38460552 original size:53 final size:53
Alignment explanation
Indices: 38460373--38460575 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 53
38460363 ATTAGGGTTT
* * *
38460373 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATGGTAAGGTTTC-TAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AGG-TTCATAAGGC
* * * * * * *
38460427 AAGGAAATCACGTAAGACCATGTCAAGACATGGCATTGATAAGTTACCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAGGTT--CATAAGGC
* * * *
38460482 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTTGGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAGGTTCATAAGGC
*
38460535 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTA
38460576 AGTTTCAAAA
Statistics
Matches: 120, Mismatches: 24, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
52 6 0.05
53 41 0.34
54 33 0.28
55 36 0.30
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAGGTTCATAAGGC
Found at i:38460578 original size:108 final size:109
Alignment explanation
Indices: 38460380--38460579 Score: 296
Period size: 108 Copynumber: 1.8 Consensus size: 109
38460370 TTTAAGGATA
*
38460380 CCATGTAAGACCATGCCAAGGCATGACAATGGTAAGGTTTCTAAGGAAAGGAAATCACGTAAGAC
1 CCATGTAAGACCATGCCAAGGCATGACAATGGTAAGGTTTCTAAGGAAAGGAAACCACGTAAGAC
*
38460445 CATGTCAAGACATGGCATTGATAAGTTACCATAAGGCAAAGGTC
66 CATGTCAAGACATGGCAATGATAAGTTACCATAAGGCAAAGGTC
* * * * * *
38460489 CCATGTAAGACCATGCCAAGGCATGGCATTGGT-TGG-TTCATAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAATGGTAAGGTTTC-TAAGGAAAGGAAACCACGTAAGA
*
38460552 CCATGTCAAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
38460580 TCAAAAGAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 31 0.38
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (109 bp):
CCATGTAAGACCATGCCAAGGCATGACAATGGTAAGGTTTCTAAGGAAAGGAAACCACGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACCATAAGGCAAAGGTC
Found at i:38460838 original size:16 final size:16
Alignment explanation
Indices: 38460817--38460847 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38460807 ATAAATTTGA
38460817 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38460833 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38460848 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38466460 original size:68 final size:66
Alignment explanation
Indices: 38466344--38466593 Score: 228
Period size: 68 Copynumber: 3.8 Consensus size: 66
38466334 TAGATAGTAT
* * ** * *
38466344 GTAGCTAGGTCACATGTGTAATAC-GGGATGTATACCATGTGTATAAGAGAGCTACGAGATATTA
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGCTACGAGATA-TA
38466408 TGA
65 -GA
38466411 GGTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAG--AT
1 -GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGT-GTACAAGAGAGCTACGAGATAT
38466472 AGA
64 AGA
** * * * * * * **
38466475 TGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGAACACCATGTAAACAAGAGAGCTACGAGATA
1 -GTAGCTAGGTCACATGGGTGATACTA--TGATGTACACCATGTGTACAAGAGAGCTACGAGATA
38466540 -A-A
63 TAGA
*
38466542 GTGGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTGTACAAGAGAGC
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGC
38466594 CAAAATTATG
Statistics
Matches: 147, Mismatches: 27, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
63 20 0.14
64 24 0.16
65 2 0.01
66 22 0.15
67 27 0.18
68 49 0.33
69 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (66 bp):
GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGCTACGAGATATAG
A
Found at i:38468964 original size:40 final size:40
Alignment explanation
Indices: 38468885--38469061 Score: 189
Period size: 40 Copynumber: 4.5 Consensus size: 40
38468875 TGGATGATAA
* * **
38468885 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * * * *
38468925 CCGGGCTATGTCCCAAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATAT
*
38468965 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * *
38469005 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
*
38469045 TC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
38469062 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 97 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
Found at i:38469024 original size:80 final size:80
Alignment explanation
Indices: 38468885--38469061 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 80
38468875 TGGATGATAA
* * * *
38468885 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTCCCAAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTA
*
38468950 TGCTAG-TGATTATAT
66 TGCGAGTTG-TTATAT
* * * *
38468965 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCTGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTA
38469030 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
*
38469045 TC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
38469062 ATACTTGGGT
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 69 0.81
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTA
TGCGAGTTGTTATAT
Found at i:38472880 original size:39 final size:39
Alignment explanation
Indices: 38472826--38472904 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
38472816 TTGAACCTTT
38472826 GCAATTTTTAGCCATCACTTTTCTCTTAATTATCTTTAA
1 GCAATTTTTAGCCATCACTTTTCTCTTAATTATCTTTAA
38472865 GCAATTTTTAGCCATCACTTTTCTCTTAATTATCTTTAA
1 GCAATTTTTAGCCATCACTTTTCTCTTAATTATCTTTAA
38472904 G
1 G
38472905 TTGTCATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.06, T:0.48
Consensus pattern (39 bp):
GCAATTTTTAGCCATCACTTTTCTCTTAATTATCTTTAA
Found at i:38475226 original size:5 final size:5
Alignment explanation
Indices: 38475212--38475242 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
38475202 GCATTGGAAC
38475212 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA
38475243 CTTAGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Done.