Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 116 of 356
Found at i:36977497 original size:23 final size:23
Alignment explanation
Indices: 36977458--36977501 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
36977448 AGCTTACTGT
36977458 TTTCAACTCAATGGAGCTTACCA
1 TTTCAACTCAATGGAGCTTACCA
*
36977481 TTTCAGCTCGAAT-GAGCTTAC
1 TTTCAACTC-AATGGAGCTTAC
36977502 TAATCAGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (23 bp):
TTTCAACTCAATGGAGCTTACCA
Found at i:36977511 original size:22 final size:22
Alignment explanation
Indices: 36977464--36977524 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
36977454 CTGTTTTCAA
* * *
36977464 CTCAATGGAGCTTACCATTTCAG
1 CTCAATAGAGCTTACTA-ATCAG
36977487 CTCGAAT-GAGCTTACTAATCAG
1 CTC-AATAGAGCTTACTAATCAG
*
36977509 CTCAATATAGCTTACT
1 CTCAATAGAGCTTACT
36977525 GTTTCAGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 3 0.09
22 15 0.45
23 12 0.36
24 3 0.09
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (22 bp):
CTCAATAGAGCTTACTAATCAG
Found at i:36977538 original size:23 final size:24
Alignment explanation
Indices: 36977504--36977560 Score: 80
Period size: 23 Copynumber: 2.4 Consensus size: 24
36977494 GAGCTTACTA
*
36977504 ATCAGCTCAATATAGCTTACTGTT
1 ATCAGCTTAATATAGCTTACTGTT
*
36977528 -TCAGCTTAATATAGCTTCCTGTT
1 ATCAGCTTAATATAGCTTACTGTT
36977551 CATCAGCTTA
1 -ATCAGCTTA
36977561 GGAGGAGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 21 0.72
25 8 0.28
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (24 bp):
ATCAGCTTAATATAGCTTACTGTT
Found at i:36979098 original size:22 final size:23
Alignment explanation
Indices: 36979064--36979120 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
36979054 TTAAAACATA
*
36979064 AAAGTAAATGAAACAAAAGA-AAT-
1 AAAG-AAAAGAAA-AAAAGAGAATG
36979087 AAAGAAAAG-AAAAAAGAGAATG
1 AAAGAAAAGAAAAAAAGAGAATG
36979109 AAAGAAACAGAA
1 AAAGAAA-AGAA
36979121 TGTTTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.21
21 5 0.17
22 11 0.38
23 6 0.21
24 1 0.03
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.07
Consensus pattern (23 bp):
AAAGAAAAGAAAAAAAGAGAATG
Found at i:36984949 original size:50 final size:50
Alignment explanation
Indices: 36984884--36985232 Score: 344
Period size: 50 Copynumber: 6.9 Consensus size: 50
36984874 ACCAAAGCTC
* *
36984884 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTA
** * *
36984934 TCTGGTACGTTTAGTAGCATGCACTTAGTACTACACACGTGACCTAACCA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTA
* * * *
36984984 TCTGATA--CATGAAGTAGCATGCACTTAGTACTACACACGTGATCAAAGCTA
1 TCTGGTACGCAT--AGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTA
* * * *
36985035 T-TGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCT-GGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTA
* * * * * * *
36985085 TCTGGTACACATAGTAGCTTACACTTAGTACTACACACGTGATCAAAGTTG
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTA
* * * * * **
36985136 TCGGGTATGCATAGTAGTCTACACTTAGTACTACACATGCAACCTAACTA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTA
* * * *
36985186 TCTAGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
36985233 AACCATCTTA
Statistics
Matches: 239, Mismatches: 52, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.00
50 161 0.67
51 74 0.31
53 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (50 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTA
Found at i:36985070 original size:101 final size:100
Alignment explanation
Indices: 36984896--36985227 Score: 382
Period size: 101 Copynumber: 3.3 Consensus size: 100
36984886 TGGTACGCAT
* * * * * * ** *
36984896 AGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATCT-GGTACGTTTAGTAGCATGCACT
1 AGTAGCTTGCACTTAGTACTACACACGTGATCAAAGCTAT-TGGGTATGCATAGTAGCCTGCACT
* * *
36984959 TAGTACTACACACGTGACCTAACCATCTGATACATGA
65 TAGTACTACACATGCGACCTAACAATCTGATACA-GA
*
36984996 AGTAGCATGCACTTAGTACTACACACGTGATCAAAGCTATTGGGTATGCATAGTAGCCTGCACTT
1 AGTAGCTTGCACTTAGTACTACACACGTGATCAAAGCTATTGGGTATGCATAGTAGCCTGCACTT
* *
36985061 AGTACTACACATGCGACCTAACAATCTGGTACACA
66 AGTACTACACATGCGACCTAACAATCTGATACAGA
* * * * * *
36985096 TAGTAGCTTACACTTAGTACTACACACGTGATCAAAGTTGTCGGGTATGCATAGTAGTCTACACT
1 -AGTAGCTTGCACTTAGTACTACACACGTGATCAAAGCTATTGGGTATGCATAGTAGCCTGCACT
* * *
36985161 TAGTACTACACATGCAACCTAACTATCT-AGTACACGT
65 TAGTACTACACATGCGACCTAACAATCTGA-TACA-GA
36985198 AGTAGCTTGCACTTAGTACTACACACGTGA
1 AGTAGCTTGCACTTAGTACTACACACGTGA
36985228 CCTAAAACCA
Statistics
Matches: 200, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
100 33 0.17
101 167 0.83
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (100 bp):
AGTAGCTTGCACTTAGTACTACACACGTGATCAAAGCTATTGGGTATGCATAGTAGCCTGCACTT
AGTACTACACATGCGACCTAACAATCTGATACAGA
Found at i:36985201 original size:151 final size:150
Alignment explanation
Indices: 36984873--36985274 Score: 400
Period size: 151 Copynumber: 2.7 Consensus size: 150
36984863 CCACCCTTCT
* *
36984873 AACCAAAGCTCTCTG-GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
1 AACCAAAGCTAT-TGAGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCT
*** * * *
36984937 GGTACGTTTAGTAGCATGCACTTAGTACTACACACGTGACCTAACCATCTGATACATGAAGTAGC
65 GGTACACATAGTAGCATACACTTAGTACTACACACGTGACCAAACCATCGGATACAT-AAGTAGC
* *
36985002 ATGCACTTAGTACTACACACGT
129 ATACACTTAGTACTACACACGC
* * * ** *
36985024 GATCAAAGCTATTGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTG
1 AACCAAAGCTATTGAGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
* * *** *
36985089 GTACACATAGTAGCTTACACTTAGTACTACACACGTGATCAAAGTTGTCGGGTATGCAT-AGTAG
66 GTACACATAGTAGCATACACTTAGTACTACACACGTGACCAAA-CCATC-GG-ATACATAAGTAG
*
36985153 TC-TACACTTAGTACTACACATGC
128 -CATACACTTAGTACTACACACGC
* * * * *
36985176 AACCTAA-CTATCT-AGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAAACCAT
1 AACCAAAGCTAT-TGAGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACAAT
*** *
36985239 CTTAAACACATAGTAGCATACACATAGTACTACACA
63 CTGGTACACATAGTAGCATACACTTAGTACTACACA
36985275 TGTGTTCTCA
Statistics
Matches: 207, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
150 2 0.01
151 132 0.64
152 30 0.14
153 38 0.18
154 5 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (150 bp):
AACCAAAGCTATTGAGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTG
GTACACATAGTAGCATACACTTAGTACTACACACGTGACCAAACCATCGGATACATAAGTAGCAT
ACACTTAGTACTACACACGC
Found at i:36985274 original size:12 final size:14
Alignment explanation
Indices: 36985244--36985275 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36985234 ACCATCTTAA
36985244 ACACATAGTAGCAT
1 ACACATAGTAGCAT
36985258 ACACATAGTA-C-T
1 ACACATAGTAGCAT
36985270 ACACAT
1 ACACAT
36985276 GTGTTCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.44, C:0.25, G:0.09, T:0.22
Consensus pattern (14 bp):
ACACATAGTAGCAT
Found at i:36996438 original size:22 final size:22
Alignment explanation
Indices: 36996411--36996453 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36996401 AATTAAGTGA
*
36996411 AAATTTAAGAGGGACTTGAGAG
1 AAATTTAAGAGAGACTTGAGAG
*
36996433 AAATTTAAGAGAGATTTGAGA
1 AAATTTAAGAGAGACTTGAGA
36996454 ATGTGAGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.26
Consensus pattern (22 bp):
AAATTTAAGAGAGACTTGAGAG
Found at i:36997151 original size:18 final size:18
Alignment explanation
Indices: 36997128--36997164 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36997118 TAATAAAGTG
36997128 TGTATAATAAA-ATTAAAA
1 TGTATAA-AAACATTAAAA
36997146 TGTATAAAAACATTAAAA
1 TGTATAAAAACATTAAAA
36997164 T
1 T
36997165 AAATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (18 bp):
TGTATAAAAACATTAAAA
Found at i:37003236 original size:30 final size:30
Alignment explanation
Indices: 37003202--37003263 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
37003192 AGTCACTTAC
37003202 AAATTGGAAGAATACTTGAAAACATTAAAG
1 AAATTGGAAGAATACTTGAAAACATTAAAG
* *
37003232 AAATTGGAAGAGTACTTTAAAACATTAAAG
1 AAATTGGAAGAATACTTGAAAACATTAAAG
37003262 AA
1 AA
37003264 CTTTAGGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.06, G:0.16, T:0.24
Consensus pattern (30 bp):
AAATTGGAAGAATACTTGAAAACATTAAAG
Found at i:37012603 original size:52 final size:49
Alignment explanation
Indices: 37012420--37012612 Score: 191
Period size: 47 Copynumber: 4.0 Consensus size: 49
37012410 TGCACATAGT
* * * * *
37012420 CACATATCACA-TACCGAGGCCATAGCGCAGCTATGGTCTTACACGG-AT
1 CACATATCACACT-CCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* * * *
37012468 CACGTATCACACT--GATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
37012515 CACATATCACA--CCGATGCCATATCCCGGATATGGTCTTATACGGAAG
1 CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
* *
37012562 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 CACATATCACA---CTCCGATGCCATAGCCCAGATATGGTCTTATACGGAA
37012613 ATCACATTTC
Statistics
Matches: 120, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
46 25 0.21
47 53 0.44
48 10 0.08
49 1 0.01
52 31 0.26
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
CACATATCACACTCCGATGCCATAGCCCAGATATGGTCTTATACGGAAG
Found at i:37014833 original size:23 final size:24
Alignment explanation
Indices: 37014803--37014855 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
37014793 AGACCAGATA
*
37014803 AGCTTCCCAATA-GGCTCTT-TATG
1 AGCTTCCCAAAATGGCT-TTATATG
37014826 AGCTTCCCAAAATGGCTTTATATG
1 AGCTTCCCAAAATGGCTTTATATG
37014850 AGCTTC
1 AGCTTC
37014856 TCGTTACAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (24 bp):
AGCTTCCCAAAATGGCTTTATATG
Found at i:37015735 original size:18 final size:18
Alignment explanation
Indices: 37015712--37015982 Score: 167
Period size: 18 Copynumber: 14.6 Consensus size: 18
37015702 GAATAATTAT
*
37015712 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
37015730 TTATTCAGTAACAAG-CAA
1 TTATTCAGTAAC-AGTCAA
* * ** *
37015748 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAA
*
37015766 TTATTCAGTATC-GATCAA
1 TTATTCAGTAACAG-TCAA
37015784 TTGATCGGTTATCCAGTAACAGTCAA
1 TT-A-----T-T-CAGTAACAGTCAA
*
37015810 TTATTCAGTAA-AATCAA
1 TTATTCAGTAACAGTCAA
* *
37015827 ATATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
*
37015845 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
37015863 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
* *
37015882 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAGTCAA
* * *
37015900 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
37015918 TTATTCAGTAACAGT-ATA
1 TTATTCAGTAACAGTCA-A
* *
37015936 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
37015954 TTATCCAATAACAGTCAA
1 TTATTCAGTAACAGTCAA
37015972 TTATTCAGTAA
1 TTATTCAGTAA
37015983 TAATAAGTTA
Statistics
Matches: 197, Mismatches: 36, Indels: 40
0.72 0.13 0.15
Matches are distributed among these distances:
17 19 0.10
18 142 0.72
19 19 0.10
20 1 0.01
24 1 0.01
25 2 0.01
26 12 0.06
27 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:37015927 original size:72 final size:70
Alignment explanation
Indices: 37015793--37015994 Score: 235
Period size: 72 Copynumber: 2.8 Consensus size: 70
37015783 ATTGATCGGT
* * *
37015793 TATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAGTAACTATTAAGTTATTCAGTAGC
1 TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAA-TATTAAGTTATTCAGTAAC
37015858 AGTCAT-
65 AGT-ATA
* * * *
37015864 TCATTCAGTGACAATCAGTTATTCAGTAATAATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTAAGTTATTCAGTAA
37015929 CAGTATAA
64 CAGTAT-A
* * * * *
37015937 TATCCAGTAACAGTCAATTATCCAATAACAGTCAATTATTCAGTAATAATAAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTAAGTTATT
37015995 TTATACCTTT
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
71 3 0.03
72 90 0.82
73 17 0.15
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (70 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTAAGTTATTCAGTAACA
GTATA
Found at i:37016211 original size:45 final size:45
Alignment explanation
Indices: 37016162--37016401 Score: 374
Period size: 45 Copynumber: 5.3 Consensus size: 45
37016152 ATCCAGAATA
* *
37016162 GTAACAGTAACAGTAACAATATTCAACACACAAAGTGCGGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
37016207 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
37016252 GTAAC-GATAATAGTAACAATATTCGACACACACAGTGCCAAATCG
1 GTAACAG-TAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
37016297 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* *
37016342 GTAATAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
37016387 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
37016402 GCGGTAACAG
Statistics
Matches: 180, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.01
45 178 0.99
46 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:37018238 original size:16 final size:16
Alignment explanation
Indices: 37018217--37018250 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
37018207 TATTTAATTA
37018217 ATTAATATAAAATAAT
1 ATTAATATAAAATAAT
*
37018233 ATTAATATAATATAAT
1 ATTAATATAAAATAAT
37018249 AT
1 AT
37018251 AATTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAATATAAAATAAT
Found at i:37018243 original size:5 final size:5
Alignment explanation
Indices: 37018211--37018253 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
37018201 TTTATTTATT
*
37018211 TAAT- TAAT- TAATA TAAAA TAATA TTAATA TAATA TAATA TAAT
1 TAATA TAATA TAATA TAATA TAATA -TAATA TAATA TAATA TAAT
37018254 TATTATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
4 8 0.23
5 22 0.63
6 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:37020812 original size:13 final size:13
Alignment explanation
Indices: 37020794--37020819 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37020784 GCACACAAAA
37020794 CTGAGGAATTAAG
1 CTGAGGAATTAAG
37020807 CTGAGGAATTAAG
1 CTGAGGAATTAAG
37020820 TAAAGAGAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
CTGAGGAATTAAG
Found at i:37023245 original size:27 final size:26
Alignment explanation
Indices: 37023215--37023353 Score: 179
Period size: 27 Copynumber: 5.2 Consensus size: 26
37023205 GTGACCAAGT
*
37023215 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGA-ACAGATATTGTGGCATAGC
*
37023242 CACCAAAACAGATATATGTGGCATAGC
1 CACCAGAACAGATAT-TGTGGCATAGC
*
37023269 CACCAGAACAGATAATCGTGGCATAGC
1 CACCAGAACAGAT-ATTGTGGCATAGC
*
37023296 CACCAGAACAGATATATGTGGCAAAGC
1 CACCAGAACAGATAT-TGTGGCATAGC
* *
37023323 CACCAGATCAGATAATTGTTGCATAGC
1 CACCAGAACAGAT-ATTGTGGCATAGC
37023350 CACC
1 CACC
37023354 TGGACGCTTC
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 85 0.86
28 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (26 bp):
CACCAGAACAGATATTGTGGCATAGC
Found at i:37023297 original size:54 final size:54
Alignment explanation
Indices: 37023215--37023353 Score: 208
Period size: 54 Copynumber: 2.6 Consensus size: 54
37023205 GTGACCAAGT
* *
37023215 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAAAACAGATATATGTGGCATAGC
1 CACCAGA-ACAGATAATTGTGGCATAGCCACCAAAACAGATATATGTGGCAAAGC
* *
37023269 CACCAGAACAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAAAGC
1 CACCAGAACAGATAATTGTGGCATAGCCACCAAAACAGATATATGTGGCAAAGC
* *
37023323 CACCAGATCAGATAATTGTTGCATAGCCACC
1 CACCAGAACAGATAATTGTGGCATAGCCACC
37023354 TGGACGCTTC
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 6 0.08
54 71 0.92
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (54 bp):
CACCAGAACAGATAATTGTGGCATAGCCACCAAAACAGATATATGTGGCAAAGC
Found at i:37023522 original size:28 final size:26
Alignment explanation
Indices: 37023461--37023534 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
37023451 AAATTAACCC
* * * *
37023461 TAGGGGTACAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
37023487 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
* *
37023515 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
37023535 AGCTACTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 20 0.50
28 20 0.50
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:37025008 original size:26 final size:26
Alignment explanation
Indices: 37024977--37025084 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
37024967 TGAAATGCCC
*
37024977 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
37025003 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
37025029 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
37025055 ATCATGGAACATTTAGCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
37025081 ATCA
1 ATCA
37025085 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:37034339 original size:19 final size:19
Alignment explanation
Indices: 37034304--37034361 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
37034294 CTGGAGCATG
*
37034304 AAGCGCATACC-AACACATA
1 AAGCGCAT-CCTAGCACATA
* *
37034323 AAGTGCATCCTAGCACACA
1 AAGCGCATCCTAGCACATA
*
37034342 AGGCGCATCCTAGCACATA
1 AAGCGCATCCTAGCACATA
37034361 A
1 A
37034362 GCACATAACC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 2 0.06
19 30 0.94
ACGTcount: A:0.40, C:0.31, G:0.16, T:0.14
Consensus pattern (19 bp):
AAGCGCATCCTAGCACATA
Found at i:37034497 original size:17 final size:18
Alignment explanation
Indices: 37034468--37034502 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
37034458 TAATTCAGTA
*
37034468 CATATACCATATTTCAAT
1 CATATACCATATTACAAT
37034486 CATATA-CATATTACAAT
1 CATATACCATATTACAAT
37034503 TCAAATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
CATATACCATATTACAAT
Found at i:37035437 original size:16 final size:16
Alignment explanation
Indices: 37035379--37035438 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
37035369 ATAATTAAGC
37035379 TTAA-TTAATCATTTAA
1 TTAATTTAATCA-TTAA
* * *
37035395 CTAAATT-ATGATTAA
1 TTAATTTAATCATTAA
37035410 TTAAACTTTAATCATTAA
1 TT-AA-TTTAATCATTAA
37035428 TTAATTTAATC
1 TTAATTTAATC
37035439 TAATGACGTC
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
15 5 0.14
16 15 0.43
17 6 0.17
18 9 0.26
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (16 bp):
TTAATTTAATCATTAA
Found at i:37041588 original size:42 final size:42
Alignment explanation
Indices: 37041524--37041730 Score: 180
Period size: 42 Copynumber: 4.8 Consensus size: 42
37041514 TGTCGGTACA
* * **
37041524 GATGTCATGTCCTAGACATGGTCTTACATGGGACCTCACATC
1 GATGCCATGTCCCAGACATGGTCTTACATGAAACCTCACATC
* ** * * *
37041566 GATGCCATGTCCTAGACATGGTCTTATTTGAAATCTTATGTTAGTGC
1 GATGCCATGTCCCAGACATGGTCTTACATGAAACCTCA---CA-T-C
* * **
37041613 AAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCACATC
1 -GATGCCATGTCCCAGACATGGTCTTACATGAAACCTCACATC
* * *
37041656 GATGCCCTGTCCCAGACATGGTCTTACATGAAATCTCATATC
1 GATGCCATGTCCCAGACATGGTCTTACATGAAACCTCACATC
* * *
37041698 AATGCCATATCCCAGATATGGTCTTACATGAAA
1 GATGCCATGTCCCAGACATGGTCTTACATGAAA
37041731 TCACATACCG
Statistics
Matches: 130, Mismatches: 29, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
42 95 0.73
43 1 0.01
44 1 0.01
45 2 0.02
46 1 0.01
47 1 0.01
48 29 0.22
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (42 bp):
GATGCCATGTCCCAGACATGGTCTTACATGAAACCTCACATC
Found at i:37041592 original size:90 final size:90
Alignment explanation
Indices: 37041433--37041727 Score: 338
Period size: 90 Copynumber: 3.4 Consensus size: 90
37041423 CATAAAATGC
* * * * *
37041433 CAAAT-CCATGTCCCCGACATGGTCTTACATGAG-TCT-ACATACCGATGCCATATCCTAGATAT
1 CAAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACAT--CGATGCCATGTCCTAGACAT
*
37041495 GGTCTTATTTGAAATCTTATGTCGGTA
64 GGTCTTATTTGAAATCTTATGTCAGTA
* * *
37041522 CAGATGTCATGTCCTAGACATGGTCTTACATGGGACCTCACATCGATGCCATGTCCTAGACATGG
1 CAAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCGATGCCATGTCCTAGACATGG
* *
37041587 TCTTATTTGAAATCTTATGTTAGTG
66 TCTTATTTGAAATCTTATGTCAGTA
* * *
37041612 CAAATGCCATGTCCCAGACATGGTCTTACACGGGACCTCACATCGATGCCCTGTCCCAGACATGG
1 CAAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCGATGCCATGTCCTAGACATGG
** *
37041677 TCTTACATGAAATCTCA--T-A-T-
66 TCTTATTTGAAATCTTATGTCAGTA
* *
37041697 C-AATGCCATATCCCAGATATGGTCTTACATG
1 CAAATGCCATGTCCCAGACATGGTCTTACATG
37041728 AAATCACATA
Statistics
Matches: 180, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
84 27 0.15
85 1 0.01
86 1 0.01
87 1 0.01
88 1 0.01
89 4 0.02
90 139 0.77
91 2 0.01
92 4 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (90 bp):
CAAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCGATGCCATGTCCTAGACATGG
TCTTATTTGAAATCTTATGTCAGTA
Found at i:37041731 original size:42 final size:42
Alignment explanation
Indices: 37041438--37041774 Score: 163
Period size: 42 Copynumber: 7.6 Consensus size: 42
37041428 AATGCCAAAT
* * * * *
37041438 CCATGTCCCCGACATGGTCTTACATG-AGTCTACATACCGATG
1 CCATATCCCAGACATGGTCTTACATGAAATCT-CATATCAATG
* * ** * *
37041480 CCATATCCTAGATATGGTCTTATTTGAAATCTTATGTCGGTACAGATG
1 CCATATCCCAGACATGGTCTTACATGAAATCTCA--T--AT-CA-ATG
* * * ** * * *
37041528 TCATGTCCTAGACATGGTCTTACATGGGACCTCACATCGATG
1 CCATATCCCAGACATGGTCTTACATGAAATCTCATATCAATG
* * ** *
37041570 CCATGTCCTAGACATGGTCTTATTTGAAATCTTATGTTAGTGCAAATG
1 CCATATCCCAGACATGGTCTTACATGAAATCTCA---TA-T-C-AATG
* * ** * * *
37041618 CCATGTCCCAGACATGGTCTTACACGGGACCTCACATCGATG
1 CCATATCCCAGACATGGTCTTACATGAAATCTCATATCAATG
* *
37041660 CCCTGTCCCAGACATGGTCTTACATGAAATCTCATATCAATG
1 CCATATCCCAGACATGGTCTTACATGAAATCTCATATCAATG
* *
37041702 CCATATCCCAGATATGGTCTTACATGAAATCACATACCGATGCAAATG
1 CCATATCCCAGACATGGTCTTACATGAAATCTCAT----AT-C-AATG
* *
37041750 CCATATCCTAGATATGGTCTTACAT
1 CCATATCCCAGACATGGTCTTACAT
37041775 TGGCACACAT
Statistics
Matches: 222, Mismatches: 54, Indels: 32
0.72 0.18 0.10
Matches are distributed among these distances:
42 120 0.54
43 6 0.03
44 3 0.01
45 2 0.01
46 3 0.01
47 3 0.01
48 85 0.38
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGACATGGTCTTACATGAAATCTCATATCAATG
Found at i:37041784 original size:48 final size:48
Alignment explanation
Indices: 37041698--37041826 Score: 143
Period size: 48 Copynumber: 2.7 Consensus size: 48
37041688 ATCTCATATC
** * *
37041698 AATGCCATATCCCAGATATGGTCTTACATGAAATCACATACCGATGCA
1 AATGCCATATCCCAGATATGGTCTTACATGGCATCACATACCAACGCA
* * *
37041746 AATGCCATATCCTAGATATGGTCTTACATTGGCA-CACATATCAACGCC
1 AATGCCATATCCCAGATATGGTCTTACA-TGGCATCACATACCAACGCA
* * *
37041794 GATGCCATGTCCCAGACATGGTCTTACACTGGC
1 AATGCCATATCCCAGATATGGTCTTACA-TGGC
37041827 TCTCATCTCG
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 65 0.96
49 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (48 bp):
AATGCCATATCCCAGATATGGTCTTACATGGCATCACATACCAACGCA
Found at i:37056916 original size:26 final size:27
Alignment explanation
Indices: 37056886--37056939 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
37056876 CTTGCGTCTC
* *
37056886 AGCCC-TCATCAGAATCAATTGGGCCT
1 AGCCCATCAACAGAATCAAGTGGGCCT
* *
37056912 AGCCCATTAACAGAATCAGGTGGGCCT
1 AGCCCATCAACAGAATCAAGTGGGCCT
37056939 A
1 A
37056940 AGTCCAATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (27 bp):
AGCCCATCAACAGAATCAAGTGGGCCT
Found at i:37056951 original size:27 final size:27
Alignment explanation
Indices: 37056895--37056957 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
37056885 CAGCCCTCAT
** *
37056895 CAGAATCAATTGGGCCTAGCCCATTAA
1 CAGAATCAGGTGGGCCTAGCCCAATAA
*
37056922 CAGAATCAGGTGGGCCTAAGTCCAAT-A
1 CAGAATCAGGTGGGCCT-AGCCCAATAA
*
37056949 CAGATTCAG
1 CAGAATCAG
37056958 TATCAGATGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 24 0.80
28 6 0.20
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (27 bp):
CAGAATCAGGTGGGCCTAGCCCAATAA
Found at i:37060598 original size:27 final size:27
Alignment explanation
Indices: 37060560--37060615 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
37060550 AAGATTCAAC
37060560 TAGCCCTTTAGCATATATAGCACAAAA
1 TAGCCCTTTAGCATATATAGCACAAAA
37060587 TAGCCCTTTAGCATATATAGCACAAAA
1 TAGCCCTTTAGCATATATAGCACAAAA
37060614 TA
1 TA
37060616 TGATTGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (27 bp):
TAGCCCTTTAGCATATATAGCACAAAA
Found at i:37061309 original size:40 final size:40
Alignment explanation
Indices: 37061249--37061386 Score: 190
Period size: 40 Copynumber: 3.5 Consensus size: 40
37061239 AAGCCAAGTA
* * * * *
37061249 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
37061288 CGTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
37061328 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
37061368 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
37061387 TTATCATCCA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 11 0.12
40 77 0.88
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:37069207 original size:40 final size:40
Alignment explanation
Indices: 37069159--37069242 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
37069149 CGGGATTTAA
* *
37069159 CCGGATATAGCT-ACTCACTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCACACAAATGCCTTCGGGACATAGC
* *
37069199 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCACACAAATGCCTTCGGGACATAGC
37069239 CCGG
1 CCGG
37069243 TTATCATCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.03
40 38 0.97
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACTCACACAAATGCCTTCGGGACATAGC
Found at i:37072258 original size:34 final size:34
Alignment explanation
Indices: 37072215--37072283 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
37072205 AGATGTTATG
* *
37072215 ACATCAATCCTTTAGCTTAGATTCTCTCTTGTAA
1 ACATCAATCCTTTAGCCTAGATTCTCTCATGTAA
37072249 ACATCAATCCTTTAGCCTAGATTCTCTCATGTAA
1 ACATCAATCCTTTAGCCTAGATTCTCTCATGTAA
37072283 A
1 A
37072284 TTCAGTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (34 bp):
ACATCAATCCTTTAGCCTAGATTCTCTCATGTAA
Found at i:37085516 original size:29 final size:29
Alignment explanation
Indices: 37085441--37085531 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 29
37085431 GTCCACTTGA
* * *
37085441 CCCAA-TCTCATTCATAT-AGCCTATCAGG
1 CCCAATTCACATTCATATGA-CCCATTAGG
* * *
37085469 CCCAATTCACATTTATATGGCCCCTTAGG
1 CCCAATTCACATTCATATGACCCATTAGG
* *
37085498 CCCAATTCATATTCATATGACCCATTAGT
1 CCCAATTCACATTCATATGACCCATTAGG
37085527 CCCAA
1 CCCAA
37085532 ATCGCCTTTA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 5 0.10
29 45 0.90
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.30
Consensus pattern (29 bp):
CCCAATTCACATTCATATGACCCATTAGG
Found at i:37089006 original size:44 final size:44
Alignment explanation
Indices: 37088956--37089043 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
37088946 TCTTGAATGT
37088956 ATGAAACTTTAGATATTCATTGCATGATAATCCATGAAATGTGC
1 ATGAAACTTTAGATATTCATTGCATGATAATCCATGAAATGTGC
37089000 ATGAAACTTTAGATATTCATTGCATGATAATCCATGAAATGTGC
1 ATGAAACTTTAGATATTCATTGCATGATAATCCATGAAATGTGC
37089044 TAGTGTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (44 bp):
ATGAAACTTTAGATATTCATTGCATGATAATCCATGAAATGTGC
Found at i:37090668 original size:13 final size:13
Alignment explanation
Indices: 37090650--37090674 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37090640 AGGCCGTGTG
37090650 AGGGACACGGGCC
1 AGGGACACGGGCC
37090663 AGGGACACGGGC
1 AGGGACACGGGC
37090675 GTGTGTTTGG
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:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:37101844 original size:80 final size:79
Alignment explanation
Indices: 37101760--37101931 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
37101750 GGACTAAGAT
*
37101760 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
37101824 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * * *
37101840 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
37101905 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
37101919 CCGAAGGCATTTG
1 CCGAAGGCATTTG
37101932 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:37101917 original size:39 final size:39
Alignment explanation
Indices: 37101760--37101929 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
37101750 GGACTAAGAT
* * *
37101760 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
37101800 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
* *
37101840 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
37101880 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
37101919 CCGAAGGCATT
1 CCGAAGGCATT
37101930 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 37 0.32
40 74 0.64
41 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:37129453 original size:51 final size:50
Alignment explanation
Indices: 37129405--37129505 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 50
37129395 CCGAAGCTAC
*
37129405 CACA-TAACATGTAA-CACATCCATAATGAACTTGGACCTCTCAACAAGCT
1 CACAGTAACATG-AATCACATCCATAATGAACTTGGACCACTCAACAAGCT
* * * * *
37129454 CAGATGTTACATGAATCTCATCCATCATGAACTTGGACCACTCAACGAGCT
1 CACA-GTAACATGAATCACATCCATAATGAACTTGGACCACTCAACAAGCT
37129505 C
1 C
37129506 GGATTCTTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
49 3 0.07
50 2 0.05
51 38 0.88
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.24
Consensus pattern (50 bp):
CACAGTAACATGAATCACATCCATAATGAACTTGGACCACTCAACAAGCT
Found at i:37130596 original size:41 final size:41
Alignment explanation
Indices: 37130549--37130650 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
37130539 TGCAACATTG
* * *
37130549 GTGGCTTGTCCACAATACTGGTAGTTTATCTGCAATTACTA
1 GTGGCTTGTCCACAATACTAGAAGTTTATCTACAATTACTA
* * *
37130590 GTGGCTTGACCGCAATACTAGAAGTTTATCTACAATTACTG
1 GTGGCTTGTCCACAATACTAGAAGTTTATCTACAATTACTA
37130631 GTGGCTTGTCCACAA-ACTAG
1 GTGGCTTGTCCACAATACTAG
37130651 TGTGTTATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 5 0.09
41 48 0.91
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (41 bp):
GTGGCTTGTCCACAATACTAGAAGTTTATCTACAATTACTA
Found at i:37130645 original size:21 final size:20
Alignment explanation
Indices: 37130547--37130645 Score: 54
Period size: 21 Copynumber: 4.8 Consensus size: 20
37130537 TCTGCAACAT
37130547 TGGTGGCTTGTCCACAATAC
1 TGGTGGCTTGTCCACAATAC
* * * **
37130567 TGGTAGTTTATCTGCAATTAC
1 TGGTGGCTTGTCCACAA-TAC
* * *
37130588 TAGTGGCTTGACCGCAATAC
1 TGGTGGCTTGTCCACAATAC
* ** * * *
37130608 TAGAAGTTTATCTACAATTAC
1 TGGTGGCTTGTCCACAA-TAC
37130629 TGGTGGCTTGTCCACAA
1 TGGTGGCTTGTCCACAA
37130646 ACTAGTGTGT
Statistics
Matches: 53, Mismatches: 24, Indels: 3
0.66 0.30 0.04
Matches are distributed among these distances:
20 25 0.47
21 28 0.53
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (20 bp):
TGGTGGCTTGTCCACAATAC
Found at i:37132571 original size:38 final size:38
Alignment explanation
Indices: 37132529--37132627 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 38
37132519 CGAATGTAGT
* * *
37132529 AATTATAATTACCATAATTATAATAATGTTTGATCAAA
1 AATTATAATTACAATAATTATAATAATATTCGATCAAA
* * * ***
37132567 AATTACACTTACAATCATTATAATAATATTCGATTGTA
1 AATTATAATTACAATAATTATAATAATATTCGATCAAA
37132605 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
37132628 CAAGGATTTC
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.39
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCGATCAAA
Found at i:37134731 original size:7 final size:7
Alignment explanation
Indices: 37134719--37134744 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37134709 CTCTAAATAA
37134719 AAATATC
1 AAATATC
37134726 AAATATC
1 AAATATC
37134733 AAATATC
1 AAATATC
37134740 AAATA
1 AAATA
37134745 ATAAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATATC
Found at i:37134750 original size:14 final size:14
Alignment explanation
Indices: 37134713--37134752 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
37134703 TACAGTCTCT
37134713 AAATAA-AAATATC
1 AAATAATAAATATC
37134726 AAAT-ATCAAATATC
1 AAATAAT-AAATATC
37134740 AAATAATAAATAT
1 AAATAATAAATAT
37134753 ATAATTTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 4 0.17
14 17 0.71
15 2 0.08
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAATAAATATC
Found at i:37135523 original size:34 final size:34
Alignment explanation
Indices: 37135485--37135568 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
37135475 GCAATATGGC
* *
37135485 ATGCTTATAATAGATCGATACGGT-AGCAATTAAT
1 ATGCTTATAACAGATCAATA-GGTAAGCAATTAAT
* * * *
37135519 ATGCTAATAACAAATAAATATGTAAGCAATTAAT
1 ATGCTTATAACAGATCAATAGGTAAGCAATTAAT
37135553 ATGCTTATAACAGATC
1 ATGCTTATAACAGATC
37135569 TGTACAAAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
33 2 0.05
34 38 0.95
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (34 bp):
ATGCTTATAACAGATCAATAGGTAAGCAATTAAT
Found at i:37138848 original size:6 final size:6
Alignment explanation
Indices: 37138830--37138942 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
37138820 AAGAAACATT
* *
37138830 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
37138879 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ACCGGT ATCAGGTA A-CAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
37138929 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
37138943 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 6 0.08
6 62 0.77
7 9 0.11
8 3 0.04
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:37138875 original size:25 final size:25
Alignment explanation
Indices: 37138844--37138942 Score: 99
Period size: 25 Copynumber: 3.7 Consensus size: 25
37138834 GAACTAGAAT
* *
37138844 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
37138869 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
37138894 CAGAATCAAAATCAGAACCGGTATCAGGTAA
1 CAGAATCAGAATCAG-A-----ATCAGGTAA
*
37138925 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
37138943 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
25 38 0.60
30 1 0.02
31 24 0.38
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:37138907 original size:31 final size:31
Alignment explanation
Indices: 37138872--37138942 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
37138862 TAGGTGACAG
37138872 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
* *
37138903 AATCAGAACCGGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAGAATCAA
37138934 AATCAGAAT
1 AATCAGAAT
37138943 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAA
Found at i:37139376 original size:27 final size:27
Alignment explanation
Indices: 37139344--37139674 Score: 457
Period size: 27 Copynumber: 12.3 Consensus size: 27
37139334 GGGGCAAAAT
* * *
37139344 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
37139371 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
37139398 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37139425 GGTATTTCTACGCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
37139452 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
37139479 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
37139506 GGTAATTCTACCCCACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37139533 GGTCATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
37139560 AGTAATTCAACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
37139587 GGTAATTCTACCCGA-AAGGGGTATTTC
1 GGTAATTCTACCCTACAA-GGGTATTTC
* *
37139614 AGTAATTCTACCCTACAAAGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
37139641 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
37139668 GGTAATT
1 GGTAATT
37139675 ACACAAAGGA
Statistics
Matches: 269, Mismatches: 33, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 266 0.99
28 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:37139783 original size:27 final size:27
Alignment explanation
Indices: 37139656--37139784 Score: 132
Period size: 27 Copynumber: 4.8 Consensus size: 27
37139646 TTCTACCCTA
* ** * *
37139656 CAAGGGTATTTCGGTAATTACACAAAG
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
37139683 GAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* ** *
37139710 CAATGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
37139737 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
37139764 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
37139785 CTACATTGAG
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:37139796 original size:27 final size:27
Alignment explanation
Indices: 37139685--37140218 Score: 185
Period size: 27 Copynumber: 19.7 Consensus size: 27
37139675 ACACAAAGGA
* * *
37139685 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAATCG
* **
37139712 ATGGTATTTTGGTAATTTTATTGATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* * *
37139739 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAATCG
* * * *
37139766 AGGGTATTTTAGTAATTTTCTACATTG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * *
37139793 AGGGTAAAATGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * *
37139820 AGGGTAAGACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* *** *
37139847 AGGATAAAATAGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * * *
37139874 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * *
37139901 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * * *
37139928 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * *
37139955 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
**** * *
37139982 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * *
37140009 AGGGTAAAAATAGTAATTCTATAAATCG
1 AGGGT-ATTTTGGTAATTTTATAAATCG
**** * * *
37140037 AGGGTAAAAAGATAATTCTGTAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
*** * **
37140064 AGGGTAAAATGGTAATTCTATCTTAT--
1 AGGGTATTTTGGTAATTTTAT-AAATCG
** *
37140090 AGGAGTATTTCAGTAATTTTACAAATCG
1 AGG-GTATTTTGGTAATTTTATAAATCG
** **
37140118 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTTGGTAATTTTATAAATC-G
* *
37140145 ATGGTATTTCT-GTAATTTTACAAATCG
1 AGGGTATTT-TGGTAATTTTATAAATCG
* *
37140172 AGGATATTTGGGTAATTTTATAAATCG
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
37140199 GGGGTACTTTGGTAATTTTA
1 AGGGTATTTTGGTAATTTTA
37140219 CAAGTTGAAG
Statistics
Matches: 410, Mismatches: 88, Indels: 18
0.79 0.17 0.03
Matches are distributed among these distances:
26 6 0.01
27 374 0.91
28 30 0.07
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:37139820 original size:81 final size:81
Alignment explanation
Indices: 37139749--37140082 Score: 339
Period size: 81 Copynumber: 4.1 Consensus size: 81
37139739 AGGGTATTTT
* * *** * * * * *
37139749 GGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTCTACATTGAGGGTAAAATGGTAATTCTGT
1 GGTAATTCTGTAAACCAAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGT
37139814 AAATCGAGGGTAAGAC
66 AAATCGAGGGTAAGAC
* *
37139830 GGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGT
1 GGTAATTCTGTAAACCAAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGT
* *
37139895 AAATCGAGGGTAAAAT
66 AAATCGAGGGTAAGAC
* * * * * * * * *
37139911 AGTAATTCTATAAATCGAGGGTAAAA-CGATAATTCTGTAAATCGAGGGTAAAA-TAGTAATTCT
1 GGTAATTCTGTAAACCAAGGATAAAATAG-TAATTTTATAAATCGAGGGTAAAACGA-TAATTCT
* *
37139974 ATAAATCGAGGGTAAAAC
64 GTAAATCGAGGGTAAGAC
* * * * *
37139992 GGTAATTCTGTAAATCGAGGGTAAAAATAGTAATTCTATAAATCGAGGGTAAAAAGATAATTCTG
1 GGTAATTCTGTAAACCAAGGAT-AAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTG
* *
37140057 TAAATCGAGGGTAAAAT
65 TAAATCGAGGGTAAGAC
37140074 GGTAATTCT
1 GGTAATTCT
37140083 ATCTTATAGG
Statistics
Matches: 218, Mismatches: 30, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
80 2 0.01
81 155 0.71
82 59 0.27
83 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (81 bp):
GGTAATTCTGTAAACCAAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGT
AAATCGAGGGTAAGAC
Found at i:37139835 original size:54 final size:54
Alignment explanation
Indices: 37139792--37140084 Score: 496
Period size: 54 Copynumber: 5.4 Consensus size: 54
37139782 TTTCTACATT
* * * *
37139792 GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAGACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
* *
37139846 GAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
37139900 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
*
37139954 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
*
37140008 GAGGGTAAAAATAGTAATTCTATAAATCGAGGGTAAAAAGATAATTCTGTAAATC
1 GAGGGT-AAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
*
37140063 GAGGGTAAAATGGTAATTCTAT
1 GAGGGTAAAATAGTAATTCTAT
37140085 CTTATAGGAG
Statistics
Matches: 226, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
54 174 0.77
55 52 0.23
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.28
Consensus pattern (54 bp):
GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
Found at i:37140152 original size:54 final size:54
Alignment explanation
Indices: 37140094--37140243 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
37140084 TCTTATAGGA
* *
37140094 GTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAA-CTGATG
1 GTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATC-GAGG
* * ** * *
37140148 GTATTTCTGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGG
1 GTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGG
* * * *
37140202 GTACTTT-GGTAATTTTACAAGTTGAAGGTATTTCAGTAATTT
1 GTA-TTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
37140244 GGTAAACTAA
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 75 0.95
55 4 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAATCGAGG
Found at i:37140180 original size:81 final size:82
Alignment explanation
Indices: 37140090--37140243 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 82
37140080 TCTATCTTAT
* *
37140090 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTA-TTTCAGTAATTTTGCAAACTGATGGTATTT
1 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTACTTT-AGTAATTTTACAAACTGAAGGTATTT
*
37140154 CTGTAATTTTACAAATCG
65 CAGTAATTTTACAAATCG
** * * * **
37140172 AGGA-TATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAAGGTATTTC
1 AGGAGTATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAAGGTATTTC
37140236 AGTAATTT
66 AGTAATTT
37140244 GGTAAACTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
81 54 0.89
82 7 0.11
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (82 bp):
AGGAGTATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAAGGTATTTC
AGTAATTTTACAAATCG
Found at i:37140240 original size:27 final size:27
Alignment explanation
Indices: 37140094--37140243 Score: 144
Period size: 27 Copynumber: 5.6 Consensus size: 27
37140084 TCTTATAGGA
*
37140094 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAAG
* *
37140121 GTATTTCAGTAATTTTGCAAA-CTGATG
1 GTATTTCAGTAATTTTACAAATC-GAAG
*
37140148 GTATTTCTGTAATTTTACAAATCG-AG
1 GTATTTCAGTAATTTTACAAATCGAAG
** * **
37140174 GATATTTGGGTAATTTTATAAATCGGGG
1 G-TATTTCAGTAATTTTACAAATCGAAG
* * *
37140202 GTACTTT-GGTAATTTTACAAGTTGAAG
1 GTA-TTTCAGTAATTTTACAAATCGAAG
37140229 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
37140244 GGTAAACTAA
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.06
27 90 0.88
28 6 0.06
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAAG
Found at i:37142252 original size:6 final size:6
Alignment explanation
Indices: 37142221--37142333 Score: 54
Period size: 6 Copynumber: 18.3 Consensus size: 6
37142211 AAGAAACATT
* * *
37142221 ATCAGA A-CTAGA ACCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
37142270 ATTAGT ATCAAGTA A-CAGA ATCAAA ATCAGA ATCGGT ATCAGGTA A-CAGA
1 ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
37142320 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
37142334 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 17, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
5 6 0.08
6 61 0.77
7 9 0.11
8 3 0.04
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:37142266 original size:25 final size:25
Alignment explanation
Indices: 37142235--37142303 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
37142225 GAACTAGAAC
* * *
37142235 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAAGTAA
* *
37142260 CAGAATCAGAATTAGTATCAAGTAA
1 CAGAATCAGAATCAGAATCAAGTAA
*
37142285 CAGAATCAAAATCAGAATC
1 CAGAATCAGAATCAGAATC
37142304 GGTATCAGGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAAGTAA
Found at i:37142298 original size:31 final size:31
Alignment explanation
Indices: 37142263--37142333 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
37142253 TAGGTGACAG
*
37142263 AATCAGAATTAGTATCAAGTAACAGAATCAA
1 AATCAGAATCAGTATCAAGTAACAGAATCAA
* *
37142294 AATCAGAATCGGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAAGTAACAGAATCAA
37142325 AATCAGAAT
1 AATCAGAAT
37142334 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGTATCAAGTAACAGAATCAA
Found at i:37142765 original size:27 final size:27
Alignment explanation
Indices: 37142735--37143092 Score: 484
Period size: 27 Copynumber: 13.3 Consensus size: 27
37142725 GGGGCAAAAT
* * *
37142735 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
37142762 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37142789 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
37142816 GATATTTCTACGCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
37142843 GGTAATTCTACCCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
*
37142870 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
37142897 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
37142924 GGTCGTTCTACTCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
37142951 GGTCATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37142978 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
37143005 GGTAATTCTACCCGATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
37143032 AGTAATTCTTCCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
37143059 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
37143086 GATAATT
1 GGTAATT
37143093 ACACAAAGTA
Statistics
Matches: 291, Mismatches: 38, Indels: 4
0.87 0.11 0.01
Matches are distributed among these distances:
26 4 0.01
27 283 0.97
28 4 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:37143118 original size:27 final size:27
Alignment explanation
Indices: 37143074--37143146 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
37143064 TTCTACCCTA
* * *
37143074 CAAGGGTATTTCGATAATTACACAAAG
1 CAAGGGTATTTTGGTAATTACACAAAC
* * **
37143101 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTACACAAAC
*
37143128 CAATGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
37143147 TTATTGATCG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTACACAAAC
Found at i:37143136 original size:81 final size:81
Alignment explanation
Indices: 37142735--37143146 Score: 278
Period size: 81 Copynumber: 5.1 Consensus size: 81
37142725 GGGGCAAAAT
* * * * *** * *
37142735 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTC-TA
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACAAGATAGGGGTATTTCAGTAATTCTTA
** *
37142799 CCCTACAGGGGTATTTC
66 -CAAACAAGGGTATTTC
* * * * *** * *
37142816 GATATTTCTACGCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGATATTTCAGTAATTC-TA
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACAAGATAGGGGTATTTCAGTAATTCTTA
**
37142880 CCCTACAAGGGTATTTC
66 -CAAACAAGGGTATTTC
* * ** *** * * * *
37142897 GGTAATTCTACCCTACAGGGGTATTTCGGTCGTTCTACTCTACAAGGGTATTTCGGTCATTC-TA
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACAAGATAGGGGTATTTCAGTAATTCTTA
** * *
37142961 CCCTATAGGGGTATTTC
66 -CAAACAAGGGTATTTC
* * * ** *
37142978 GATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCGATAGGGGTATTTCAGTAATTCTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACAAGATAGGGGTATTTCAGTAATTCTTA
**
37143043 CCTACAAGGGTATTTC
66 CAAACAAGGGTATTTC
**
37143059 GGTAATTCTACCCTACAAGGGTATTTCGATAATTAC-ACAA-AGTAGGGGTATTTTGGTAATT-T
1 GGTAATTCTACCCTACAAGGGTATTTCGATAATT-CTACAAGA-TAGGGGTATTTCAGTAATTCT
* *
37143121 TACAAACCAATGGTATTTT
64 TACAAA-CAAGGGTATTTC
37143140 GGTAATT
1 GGTAATT
37143147 TTATTGATCG
Statistics
Matches: 281, Mismatches: 46, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
80 5 0.02
81 274 0.98
82 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACAAGATAGGGGTATTTCAGTAATTCTTA
CAAACAAGGGTATTTC
Found at i:37143147 original size:27 final size:26
Alignment explanation
Indices: 37143105--37143202 Score: 97
Period size: 27 Copynumber: 3.7 Consensus size: 26
37143095 ACAAAGTAGG
*
37143105 GGTATTTTGGTAATTTTACAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * *
37143131 TGGTATTTTGGTAATTTTATTGATCGAA
1 -GGTATTTTGGTAATTTTA-TAAACCAA
* *
37143159 GGTATTTTTGTAATTTTGTAAACCAAA
1 GGTATTTTGGTAATTTTATAAACC-AA
**
37143186 GGTATTTCAGTAATTTT
1 GGTATTTTGGTAATTTT
37143203 CTACATTGAG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 3 0.05
27 51 0.88
28 4 0.07
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:37143225 original size:27 final size:27
Alignment explanation
Indices: 37143210--37143502 Score: 397
Period size: 27 Copynumber: 10.8 Consensus size: 27
37143200 TTTCTACATT
37143210 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * * * *
37143237 AAGGGTAAGACGATAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
37143264 GAGGGCAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
37143291 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
37143318 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
37143345 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
*
37143372 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
37143399 GAGGGTAAAACGGTAATTCTGTAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
*
37143426 GAGGGTAAAAATAGTAATTCTATAAATC
1 GAGGGT-AAAATGGTAATTCTATAAATC
* * *
37143454 GAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
37143481 GAGGGTAAAATGGTAATTCTAT
1 GAGGGTAAAATGGTAATTCTAT
37143503 CTTACAGGAG
Statistics
Matches: 225, Mismatches: 40, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 202 0.90
28 23 0.10
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTATAAATC
Found at i:37143525 original size:54 final size:54
Alignment explanation
Indices: 37143210--37143502 Score: 505
Period size: 54 Copynumber: 5.4 Consensus size: 54
37143200 TTTCTACATT
* * * *
37143210 GAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAGACGATAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
*
37143264 GAGGGCAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
37143318 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
*
37143372 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATT
1 GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
*
37143426 GAGGGTAAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGT-AAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
*
37143481 GAGGGTAAAATGGTAATTCTAT
1 GAGGGTAAAATAGTAATTCTAT
37143503 CTTACAGGAG
Statistics
Matches: 228, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
54 176 0.77
55 52 0.23
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
GAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC
Found at i:37143542 original size:27 final size:27
Alignment explanation
Indices: 37143512--37143661 Score: 151
Period size: 27 Copynumber: 5.6 Consensus size: 27
37143502 TCTTACAGGA
37143512 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* * *
37143539 GTATTTCATTAATTTTGCAAA-CTGATG
1 GTATTTCAGTAATTTTACAAATC-GAGG
*
37143566 GTATTTCTGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* ** * *
37143593 ATATTTGGGTAATTTTATAAATCGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* * * *
37143620 GTACTTT-GGTAATTTTACAAGTTGAAG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
37143647 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
37143662 GGTAAACTAA
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.04
27 92 0.92
28 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:37148100 original size:41 final size:41
Alignment explanation
Indices: 37148055--37148236 Score: 249
Period size: 41 Copynumber: 4.5 Consensus size: 41
37148045 GTGTAAAAGT
* *
37148055 GGCACATATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
* * * * *
37148096 GGCACGTATGTGTAATTTAGGGGTACCGAAGTCCAAACAAG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
*
37148137 GGCACGTATGTGCAATTCA-GGGTACCAAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
* * *
37148177 GGCATGTATGTGCAATTTAGGGGTATCAAAGTACAAACAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
*
37148218 GGCACGTATGTGTAATTCA
1 GGCACGTATGTGCAATTCA
37148237 AGGAATAATT
Statistics
Matches: 120, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 34 0.28
41 86 0.72
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.23
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAACAGG
Found at i:37148194 original size:81 final size:82
Alignment explanation
Indices: 37148055--37148236 Score: 285
Period size: 81 Copynumber: 2.2 Consensus size: 82
37148045 GTGTAAAAGT
* *
37148055 GGCACATATGTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGTAATTTAGGGGT
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGT
* *
37148120 ACCGAAGTCCAAACAAG
66 ACCAAAGTACAAACAAG
*
37148137 GGCACGTATGTGCAATTCA-GGGTACCAAAGTACAAATAGGGGCATGTATGTGCAATTTAGGGGT
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGT
* *
37148201 ATCAAAGTACAAACAGG
66 ACCAAAGTACAAACAAG
*
37148218 GGCACGTATGTGTAATTCA
1 GGCACGTATGTGCAATTCA
37148237 AGGAATAATT
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 74 0.80
82 18 0.20
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.23
Consensus pattern (82 bp):
GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTTAGGGGT
ACCAAAGTACAAACAAG
Found at i:37166991 original size:34 final size:34
Alignment explanation
Indices: 37166946--37167025 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 34
37166936 TAATTGATAA
* * *
37166946 TCAACCTATAAAACTTCTTCCCTTGTTGAAAAAC
1 TCAACCGATAAAACTTCTTCCCTTCTTCAAAAAC
* * *
37166980 TCAACCGATAAAGCTTTTTTCCTTCTTCAAAAAC
1 TCAACCGATAAAACTTCTTCCCTTCTTCAAAAAC
* *
37167014 TCGACTGATAAA
1 TCAACCGATAAA
37167026 TCTTTTTTTC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (34 bp):
TCAACCGATAAAACTTCTTCCCTTCTTCAAAAAC
Found at i:37168868 original size:21 final size:21
Alignment explanation
Indices: 37168842--37168882 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37168832 CATATATCAA
*
37168842 ACAAGACAATGTTTGA-GGTAG
1 ACAAGAAAAT-TTTGATGGTAG
37168863 ACAAGAAAATTTTGATGGTA
1 ACAAGAAAATTTTGATGGTA
37168883 AATCAACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.27
Consensus pattern (21 bp):
ACAAGAAAATTTTGATGGTAG
Found at i:37171744 original size:88 final size:88
Alignment explanation
Indices: 37171595--37171771 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
37171585 TAGACCAAAT
37171595 ATGCAAGTGAAGCAATGACCTGAACACAATTGACAAAAGATCCAAGCATTATAAATAAGAAACAT
1 ATGCAAGTGAAGCAATGACCTGAACACAATTGACAAAAGATCCAAGCATTATAAATAAGAAACAT
37171660 ATTTAGAATAGAAGAAAACTAAC
66 ATTTAGAATAGAAGAAAACTAAC
37171683 ATGCAAGTGAAGCAATGACCTGAACACAATTGACAAAAGATCCAAGCATTATAAATAAGAAACAT
1 ATGCAAGTGAAGCAATGACCTGAACACAATTGACAAAAGATCCAAGCATTATAAATAAGAAACAT
37171748 ATTTAGAATAGAAGAAAACTAAC
66 ATTTAGAATAGAAGAAAACTAAC
37171771 A
1 A
37171772 ATGGCAGACA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (88 bp):
ATGCAAGTGAAGCAATGACCTGAACACAATTGACAAAAGATCCAAGCATTATAAATAAGAAACAT
ATTTAGAATAGAAGAAAACTAAC
Found at i:37177741 original size:16 final size:16
Alignment explanation
Indices: 37177715--37177747 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37177705 CACCATTAAA
37177715 TATTGAAAAGTA-TTG
1 TATTGAAAAGTACTTG
37177730 TATTGAAAAAGTACTTG
1 TATTG-AAAAGTACTTG
37177747 T
1 T
37177748 TGTTAACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (16 bp):
TATTGAAAAGTACTTG
Found at i:37178519 original size:85 final size:85
Alignment explanation
Indices: 37178376--37178554 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
37178366 GGCCGGCCAT
*
37178376 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATATTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATAGCTAAAAACATGTCATAAACATATTGGGGTAGTGCATTAT
37178441 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
37178461 GAGCATGGGTGGACAAGATGTTATAGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATAGCTAAAAACATGTCATAAACATATTGGGGTAGTGCATTAT
37178526 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
37178546 GGGCATGGG
1 GAGCATGGG
37178555 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATAGCTAAAAACATGTCATAAACATATTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:37179877 original size:47 final size:47
Alignment explanation
Indices: 37179823--37180368 Score: 776
Period size: 47 Copynumber: 11.5 Consensus size: 47
37179813 TGAATAAATT
*
37179823 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
*
37179870 TGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGTGATGAATG
1 TGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA-ATGTGATGAATG
* ** *
37179919 TGAAAGTGTATATATGTGATAAGGCCTAAAAGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* * * *
37179966 TGAAAGGGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
37180013 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
*
37180062 TAAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
37180109 TGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
37180158 TGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
37180205 TGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
37180252 TGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
*
37180299 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
* *
37180346 TGGAAGTGTATAAATGTGATAAG
1 TGAAAGTGTATATATGTGATAAG
37180369 TCCCGAAGGG
Statistics
Matches: 465, Mismatches: 24, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 326 0.70
48 3 0.01
49 134 0.29
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATG
Found at i:37179931 original size:96 final size:94
Alignment explanation
Indices: 37179823--37180368 Score: 776
Period size: 96 Copynumber: 5.7 Consensus size: 94
37179813 TGAATAAATT
*
37179823 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATG
*
37179888 TGATAAGGCCTAATGG-CAGATGTGATGAATG
64 TGATAAGGCCGAATGGCCA-ATGTGATGAATG
* ** * *
37179919 TGAAAGTGTATATATGTGATAAGGCCTAAAAGCCGATGTGATGAATGTGAAAGGGTATATATGTG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTG
* * *
37179984 GTAAGGCCTAATGGCCGATGTGATGAATG
66 ATAAGGCCGAATGGCCAATGTGATGAATG
* * *
37180013 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATATG
1 TGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATG
37180078 TGATAAGGCCGAATGGCCAATGTGATGAATG
64 TGATAAGGCCGAATGGCCAATGTGATGAATG
* *
37180109 TGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGT
1 TGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATAT
37180173 GTGATAAGGCCGAATGGCCAATGTGATGAATG
63 GTGATAAGGCCGAATGGCCAATGTGATGAATG
* * *
37180205 TGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGCATATATG
1 TGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATG
*
37180268 AGATAAGGCCGAATGGCCAATGTGATGAATG
64 TGATAAGGCCGAATGGCCAATGTGATGAATG
* * *
37180299 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAATGTG
1 TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTG
37180364 ATAAG
66 ATAAG
37180369 TCCCGAAGGG
Statistics
Matches: 412, Mismatches: 31, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
93 2 0.00
94 182 0.44
95 1 0.00
96 225 0.55
97 2 0.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
TGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTG
ATAAGGCCGAATGGCCAATGTGATGAATG
Found at i:37180081 original size:143 final size:141
Alignment explanation
Indices: 37179823--37180368 Score: 740
Period size: 143 Copynumber: 3.8 Consensus size: 141
37179813 TGAATAAATT
* *
37179823 TGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
1 TGAAAGGGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATG
* * * **
37179888 TGATAAGGCCTAATGG-CAGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAAAGC
64 TGATAAGGCCGAATGGCCA-ATGTGATGAATGTAAAAGTGTATATATGTGATAAGGCCGAATGGC
*
37179952 CGATGTGATGAATG
128 CAATGTGATGAATG
* * *
37179966 TGAAAGGGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 TGAAAGGGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATATATG
* *
37180031 TGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATATGTGATAAGGCCGAATGGCC
64 TGATAAGGCCGAATGGCCAATGTGATGAATGTAAAAGTGTATATATGTGATAAGGCCGAATGGCC
37180096 AATGTGATGAATG
129 AATGTGATGAATG
* * *
37180109 TGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGT
1 TGAAAG-G-GTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATAT
* * *
37180173 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGG
63 GTGATAAGGCCGAATGGCCAATGTGATGAATGT-AAAAGTGTATATATGTGATAAGGCCGAATGG
37180237 CCAATGTGATGAATG
127 CCAATGTGATGAATG
* * *
37180252 TGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
1 TGAA-AGGGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGT
* ** *
37180316 GATAAGGCCGAATGGCCAATGTGATGGATGTGGAAGTGTATAAATGTGATAAG
65 GATAAGGCCGAATGGCCAATGTGATGAATGTAAAAGTGTATATATGTGATAAG
37180369 TCCCGAAGGG
Statistics
Matches: 362, Mismatches: 33, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
140 2 0.01
141 94 0.26
143 217 0.60
144 6 0.02
145 42 0.12
146 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (141 bp):
TGAAAGGGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTG
ATAAGGCCGAATGGCCAATGTGATGAATGTAAAAGTGTATATATGTGATAAGGCCGAATGGCCAA
TGTGATGAATG
Found at i:37180246 original size:22 final size:22
Alignment explanation
Indices: 37180219--37180340 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
37180209 CATGTGTATG
37180219 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
37180241 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
37180266 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
37180288 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
37180313 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
37180335 TGTGAT
1 TGTGAT
37180341 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:37182861 original size:38 final size:38
Alignment explanation
Indices: 37182797--37182871 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
37182787 AATCTGAGTT
*
37182797 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
37182835 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
37182872 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:37182996 original size:40 final size:40
Alignment explanation
Indices: 37182925--37183524 Score: 999
Period size: 40 Copynumber: 15.1 Consensus size: 40
37182915 AGGTCTCGAC
37182925 GATG-ATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
37182963 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
37183003 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
37183043 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
37183083 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
37183123 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
37183163 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
37183203 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
37183243 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
37183283 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
37183323 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
37183363 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
37183403 GATGTATCCGGGCTAAG-CTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTC-CCGAAGAGCATTCATGCTAGT
* * ** * *
37183443 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
37183483 GTTATATCCAGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
37183523 GA
1 GA
37183525 CGTGTATTCA
Statistics
Matches: 532, Mismatches: 26, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
38 4 0.01
39 14 0.03
40 513 0.96
41 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:37184923 original size:85 final size:85
Alignment explanation
Indices: 37184780--37184958 Score: 331
Period size: 85 Copynumber: 2.1 Consensus size: 85
37184770 GGCCGGCCAT
*
37184780 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATATTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATAGCTAAAAACATGTCATAAACATATTGGGGTAGTGCATTAT
37184845 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
37184865 GAGCATGGGTGGACAAGATGTTATAGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATAGCTAAAAACATGTCATAAACATATTGGGGTAGTGCATTAT
37184930 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
37184950 GGGCATGGG
1 GAGCATGGG
37184959 CAATAAAATA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATAGCTAAAAACATGTCATAAACATATTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:37186276 original size:47 final size:47
Alignment explanation
Indices: 37186222--37186818 Score: 887
Period size: 47 Copynumber: 12.6 Consensus size: 47
37186212 TATTTGAATA
*
37186222 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37186269 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37186318 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37186365 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
37186412 AATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
37186461 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37186508 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37186557 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37186604 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37186651 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37186698 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
37186745 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
37186792 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
37186819 TCCCGAAGGG
Statistics
Matches: 526, Mismatches: 16, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 387 0.74
49 137 0.26
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:37186407 original size:94 final size:94
Alignment explanation
Indices: 37186222--37186818 Score: 887
Period size: 96 Copynumber: 6.3 Consensus size: 94
37186212 TATTTGAATA
*
37186222 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* *
37186287 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37186318 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
37186383 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
* * *
37186412 AATGTGAAAGTGTATATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
37186477 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
37186508 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
37186572 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
37186604 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
37186667 TGTGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
37186698 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
37186762 ATGTGATAAGGCCGAATGGCCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
37186792 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
37186819 TCCCGAAGGG
Statistics
Matches: 473, Mismatches: 22, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
93 2 0.00
94 233 0.49
96 236 0.50
97 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:37186696 original size:22 final size:22
Alignment explanation
Indices: 37186669--37186790 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
37186659 CATGTGTATG
37186669 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
37186691 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
37186716 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
37186738 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
37186763 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
37186785 TGTGAT
1 TGTGAT
37186791 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:37189979 original size:48 final size:48
Alignment explanation
Indices: 37189925--37190200 Score: 296
Period size: 48 Copynumber: 5.8 Consensus size: 48
37189915 AGGTTGATGA
* * * *
37189925 GATCCCATATAAGACCATATCTGGGATATGACATCGGCATCGATATGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* *
37189973 GATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATC-ATTATGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGA-TATGT
* * * *
37190021 GATCCCATGTAAGATCATGTCTAGGACATGGCATTGGCATCGATATGA
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * * * *
37190069 GA-CATCGTGTAAGACCATAGCTGGG-CTATCGGC-TTCG-AT--ATGTGT
1 GATC-CCATGTAAGACCATATCTGGGAC-AT-GGCATTGGCATCGATATGT
*
37190114 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
* * *
37190162 GGTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA
1 GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
37190201 CCCTACCATG
Statistics
Matches: 188, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
44 3 0.02
45 28 0.15
46 4 0.02
47 5 0.03
48 144 0.77
49 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGATATGT
Found at i:37192487 original size:12 final size:12
Alignment explanation
Indices: 37192470--37192496 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37192460 AATTCAAAGG
37192470 ATACTCGGGTGA
1 ATACTCGGGTGA
37192482 ATACTCGGGTGA
1 ATACTCGGGTGA
37192494 ATA
1 ATA
37192497 ACATCAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (12 bp):
ATACTCGGGTGA
Found at i:37192627 original size:22 final size:23
Alignment explanation
Indices: 37192575--37192651 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
37192565 GCTAATAAAC
37192575 AGTAAGCTCTATTGAGCTGAAAT
1 AGTAAGCTCTATTGAGCTGAAAT
37192598 AGTAAGCTCTATTGAGCTG-AAT
1 AGTAAGCTCTATTGAGCTGAAAT
* * *
37192620 TGTAAGCTCGTA-CGAGCTGAAAC
1 AGTAAGCTC-TATTGAGCTGAAAT
*
37192643 GGTAAGCTC
1 AGTAAGCTC
37192652 CAATTAGCTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.35
23 31 0.65
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAT
Found at i:37194837 original size:50 final size:50
Alignment explanation
Indices: 37194762--37194861 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
37194752 CATTTATTTG
37194762 TATACATTCATATCATTCGTTGTCATATATTTCACATATGGTAATATGAT
1 TATACATTCATATCATTCGTTGTCATATATTTCACATATGGTAATATGAT
37194812 TATACATTCATATCATTCGTTGTCATATATTTCACATATGGTAATATGAT
1 TATACATTCATATCATTCGTTGTCATATATTTCACATATGGTAATATGAT
37194862 ACATACTCAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (50 bp):
TATACATTCATATCATTCGTTGTCATATATTTCACATATGGTAATATGAT
Found at i:37202995 original size:39 final size:39
Alignment explanation
Indices: 37202941--37203141 Score: 341
Period size: 39 Copynumber: 5.2 Consensus size: 39
37202931 TTAAGCCTGA
*
37202941 ATATAATACCAGCACGAATGCCTTCGGGGCTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGGCTTAGCCCGG
*
37202980 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGGCTTAGCCCGG
* *
37203019 ATATAACACCAGCACAAATGCCTTCGGGGCTTAGCCCCG
1 ATATAACACCAGCACGAATGCCTTCGGGGCTTAGCCCGG
*
37203058 ATATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGGGCTTAGCCCGG
37203097 ATATAACACCAGCACGAATGCCTTCGGGAG-TTAGCCCGG
1 ATATAACACCAGCACGAATGCCTTCGGG-GCTTAGCCCGG
37203136 ATATAA
1 ATATAA
37203142 TTCTCCATTA
Statistics
Matches: 152, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 152 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
ATATAACACCAGCACGAATGCCTTCGGGGCTTAGCCCGG
Found at i:37221311 original size:42 final size:42
Alignment explanation
Indices: 37221246--37221327 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
37221236 TATCAAAACG
37221246 AAGTCTCACATCGATGCCATATCCCAGATATGGTCTTACAAA
1 AAGTCTCACATCGATGCCATATCCCAGATATGGTCTTACAAA
* * * *
37221288 AAGTCTCATATTGATGTCGTATCCCAGATATGGTCTTACA
1 AAGTCTCACATCGATGCCATATCCCAGATATGGTCTTACA
37221328 CATAGTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
AAGTCTCACATCGATGCCATATCCCAGATATGGTCTTACAAA
Found at i:37224064 original size:19 final size:17
Alignment explanation
Indices: 37224032--37224069 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
37224022 TAGAAATTTC
37224032 AAAATTTTTAATTTTTT
1 AAAATTTTTAATTTTTT
37224049 AAAATTTTAATAATTTTTT
1 AAAATTTT--TAATTTTTT
37224068 AA
1 AA
37224070 TCAAATTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAAATTTTTAATTTTTT
Found at i:37227181 original size:17 final size:16
Alignment explanation
Indices: 37227161--37227222 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 16
37227151 ACATCAAAAG
37227161 GGAAGATACATGAACTT
1 GGAAGATACATGAA-TT
37227178 GGAAGATACATTGAATT
1 GGAAGATACA-TGAATT
* * *
37227195 GAAAGATTCATGTATT
1 GGAAGATACATGAATT
**
37227211 TTAAGATACATG
1 GGAAGATACATG
37227223 CATGGATGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
16 14 0.37
17 20 0.53
18 4 0.11
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (16 bp):
GGAAGATACATGAATT
Found at i:37232064 original size:30 final size:30
Alignment explanation
Indices: 37232030--37232090 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
37232020 TTCCCGAGCC
37232030 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
37232060 TAGGGGCAAAATTGTAATTCTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
37232090 T
1 T
37232091 GAGTTAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:37238633 original size:46 final size:44
Alignment explanation
Indices: 37238583--37238755 Score: 188
Period size: 46 Copynumber: 3.8 Consensus size: 44
37238573 TTGAGCATCT
37238583 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-GTCC
*** * *
37238629 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAGTCC
*
37238676 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-GTCC
*
37238721 TGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37238756 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 64 0.59
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (44 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAGTCC
Found at i:37238736 original size:93 final size:93
Alignment explanation
Indices: 37238577--37238747 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
37238567 GGATGGTTGA
* *
37238577 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
37238642 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
37238670 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
37238734 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
37238748 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:37242110 original size:22 final size:22
Alignment explanation
Indices: 37242085--37242128 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
37242075 TTGGTAAAGT
37242085 TAGCCTATACATGCCATTATAC
1 TAGCCTATACATGCCATTATAC
37242107 TAGCCTATACATGCCATTATAC
1 TAGCCTATACATGCCATTATAC
37242129 CAAAATGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (22 bp):
TAGCCTATACATGCCATTATAC
Found at i:37243118 original size:34 final size:34
Alignment explanation
Indices: 37243080--37243146 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
37243070 ATTACATATA
*
37243080 TCCATCAAAATTCATCATTCAAACGGAACTTAAC
1 TCCATCAAAATTCATCATTCAAACAGAACTTAAC
* *
37243114 TCCATTAAAATTCATCATTCAAACAGAATTTAA
1 TCCATCAAAATTCATCATTCAAACAGAACTTAA
37243147 TATTTTCCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.30
Consensus pattern (34 bp):
TCCATCAAAATTCATCATTCAAACAGAACTTAAC
Found at i:37250096 original size:24 final size:24
Alignment explanation
Indices: 37250041--37250127 Score: 77
Period size: 24 Copynumber: 3.5 Consensus size: 24
37250031 CTAAGCTAAT
* *
37250041 GAATAGTAAGCTCTATTGAGCT-A
1 GAATAGTAAGCTCTAATGAGTTGA
*
37250064 GAAACAGTAAGCTCTAATGAGTTGA
1 G-AATAGTAAGCTCTAATGAGTTGA
* * *
37250089 GAATAGTAAGATCTTACGAGTTGA
1 GAATAGTAAGCTCTAATGAGTTGA
*
37250113 TATATCAGTAAGCTC
1 GA-AT-AGTAAGCTC
37250128 ATATGAGCTA
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.02
24 38 0.75
25 4 0.08
26 8 0.16
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.29
Consensus pattern (24 bp):
GAATAGTAAGCTCTAATGAGTTGA
Found at i:37255207 original size:47 final size:47
Alignment explanation
Indices: 37255101--37255237 Score: 201
Period size: 47 Copynumber: 3.0 Consensus size: 47
37255091 ATGTAACCCG
* *
37255101 TCCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GG-GTGTTCGCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGAATGTTCACA
*
37255147 TCCATAAGTGAACTCCGACTCAACTCAACGAGTTCGGACAT-TTCACA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATGTTCACA
37255194 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGTTCA
1 TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGTTCA
37255238 ACCATCCTAG
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
45 4 0.05
46 37 0.45
47 41 0.49
48 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (47 bp):
TCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGTTCACA
Found at i:37255686 original size:30 final size:30
Alignment explanation
Indices: 37255652--37255712 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
37255642 TCCTTAATAC
37255652 AAACTTTGGCAAAATTAC-CATTTTGCCCCT
1 AAACTTTGGCAAAATTACAC-TTTTGCCCCT
* *
37255682 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
37255712 A
1 A
37255713 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:37257209 original size:45 final size:45
Alignment explanation
Indices: 37257147--37257406 Score: 248
Period size: 45 Copynumber: 5.9 Consensus size: 45
37257137 TAGGATTTCG
*
37257147 ATATGTGATTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * *
37257192 ATATGTGATTTCATGTAAGACTATGTCTGGGACGTTGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
37257237 ATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTAGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * * * * * ***
37257282 ATATGTGGTTACGTGTAAGACCATGTCTAGGACATCGATTTCG-T
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* **
37257326 AT-T-CGA-TTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCGAT
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAT
** * *
37257368 ATGA-G-G-TAGCATTTAAGACCACGTCTGGGACGTTGGCAT
1 AT-ATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
37257407 TGTATGGTAT
Statistics
Matches: 172, Mismatches: 36, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
41 25 0.15
42 5 0.03
43 26 0.15
44 3 0.02
45 113 0.66
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:37262787 original size:39 final size:40
Alignment explanation
Indices: 37262692--37262953 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
37262682 TTGAATGATG
*
37262692 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
37262730 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
37262771 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
37262810 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATATTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
37262849 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
37262888 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
37262927 AACTGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
37262954 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 58 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:37269518 original size:39 final size:40
Alignment explanation
Indices: 37269423--37269684 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
37269413 TTGAATGATG
*
37269423 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
37269461 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
37269502 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
37269541 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
37269580 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
37269619 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* * *
37269658 AACTGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
37269685 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 12, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 58 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:37277440 original size:25 final size:25
Alignment explanation
Indices: 37277410--37277537 Score: 113
Period size: 24 Copynumber: 5.2 Consensus size: 25
37277400 CATCGTATTC
*
37277410 GCTCTTTTGAGCT-ATGATCAGTAA
1 GCTCTTTTGAGCTGATGAACAGTAA
* *
37277434 GCTTCTTCTAAGCTGATGAACAGTAA
1 GC-TCTTTTGAGCTGATGAACAGTAA
*
37277460 GCTCTATTGAGCTG--GAAACAGTAA
1 GCTCTTTTGAGCTGATG-AACAGTAA
**
37277484 GCTCTAATGAGCTGA-GAACAGTAA
1 GCTCTTTTGAGCTGATGAACAGTAA
**
37277508 GCTCTTAAGAGCTGAT-ATATCAGTAA
1 GCTCTTTTGAGCTGATGA-A-CAGTAA
37277534 GCTC
1 GCTC
37277538 ATACGAGTTG
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
23 1 0.01
24 45 0.51
25 20 0.23
26 22 0.25
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (25 bp):
GCTCTTTTGAGCTGATGAACAGTAA
Found at i:37278443 original size:28 final size:28
Alignment explanation
Indices: 37278406--37278462 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
37278396 AAAAAGAGAA
37278406 AGATGATCACAAAATTCATGTTGTTTTT
1 AGATGATCACAAAATTCATGTTGTTTTT
* *
37278434 AGATGGTCACAAAATTCATTTTGTTTTT
1 AGATGATCACAAAATTCATGTTGTTTTT
37278462 A
1 A
37278463 TTTAATTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (28 bp):
AGATGATCACAAAATTCATGTTGTTTTT
Found at i:37281326 original size:15 final size:15
Alignment explanation
Indices: 37281308--37281336 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37281298 TTACTTTTTT
37281308 TTGTGACATTGAGGC
1 TTGTGACATTGAGGC
37281323 TTGTGACATTGAGG
1 TTGTGACATTGAGG
37281337 GTTAATTCTA
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:0.21, C:0.10, G:0.34, T:0.34
Consensus pattern (15 bp):
TTGTGACATTGAGGC
Found at i:37281693 original size:31 final size:31
Alignment explanation
Indices: 37281633--37281693 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
37281623 TAATGACCAT
* *
37281633 AAAAGAAATTTACTAATAGTAGGGTGACTAA
1 AAAAGAAATTTACTAATAGTAGAGCGACTAA
* *
37281664 AAAAGAAATTTGCTAATAGTTGAGCGACTA
1 AAAAGAAATTTACTAATAGTAGAGCGACTA
37281694 TTTTCTAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.20, T:0.26
Consensus pattern (31 bp):
AAAAGAAATTTACTAATAGTAGAGCGACTAA
Found at i:37282110 original size:17 final size:17
Alignment explanation
Indices: 37282088--37282120 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37282078 ATAAGTAAAT
*
37282088 AAATATTTAAAAAATAG
1 AAATATCTAAAAAATAG
37282105 AAATATCTAAAAAATA
1 AAATATCTAAAAAATA
37282121 AAACATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (17 bp):
AAATATCTAAAAAATAG
Found at i:37282803 original size:23 final size:23
Alignment explanation
Indices: 37282753--37282806 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
37282743 ATCTTCTAAA
37282753 AGTTTTAATAATACGTAAAATAT
1 AGTTTTAATAATACGTAAAATAT
* **
37282776 TGTTTTAATAATATTTGAAAAT-T
1 AGTTTTAATAATACGT-AAAATAT
37282799 AGTTTTAA
1 AGTTTTAA
37282807 AACAAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (23 bp):
AGTTTTAATAATACGTAAAATAT
Found at i:37284567 original size:5 final size:5
Alignment explanation
Indices: 37284557--37284588 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
37284547 TTAAATGTGA
37284557 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
37284589 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:37284580 original size:9 final size:9
Alignment explanation
Indices: 37284558--37284588 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
37284548 TAAATGTGAA
37284558 AAATAAAAT
1 AAATAAAAT
37284567 AAAATAAAAT
1 -AAATAAAAT
37284577 AAATAAAAT
1 AAATAAAAT
37284586 AAA
1 AAA
37284589 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:37289018 original size:5 final size:5
Alignment explanation
Indices: 37289008--37289039 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
37288998 CAATTTGTGA
37289008 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
37289040 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:37289033 original size:9 final size:9
Alignment explanation
Indices: 37289009--37289039 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
37288999 AATTTGTGAA
37289009 AAATAAAAT
1 AAATAAAAT
37289018 AAAATAAAAT
1 -AAATAAAAT
37289028 AAATAAAAT
1 AAATAAAAT
37289037 AAA
1 AAA
37289040 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:37294642 original size:52 final size:52
Alignment explanation
Indices: 37294575--37294675 Score: 130
Period size: 52 Copynumber: 1.9 Consensus size: 52
37294565 GTATACAACC
* ** *
37294575 ATCGATGTCGTGAAAACTGCCATCCCATGTCACGACACCAAAATTTGAAGCT
1 ATCGATGTCGCGAAAACCACCATCCCATGTAACGACACCAAAATTTGAAGCT
* * * *
37294627 ATCGATGTTGCGAAAACCACCATCCCATGTAATGACACCTAACTTTGAA
1 ATCGATGTCGCGAAAACCACCATCCCATGTAACGACACCAAAATTTGAA
37294676 CCAAGAGGGA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (52 bp):
ATCGATGTCGCGAAAACCACCATCCCATGTAACGACACCAAAATTTGAAGCT
Found at i:37299007 original size:46 final size:46
Alignment explanation
Indices: 37298954--37299041 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
37298944 TTCGACATGT
*
37298954 TTATGACAATTTTCACGAAAATTCATTAAATCCTTAGAAATCCTTA
1 TTATGACAATTTTCACGAAAATTCATTAAATCCTTAAAAATCCTTA
*
37299000 TTATGACAATTTTCATGAAAATTCATTAAATCCTTAAAAATC
1 TTATGACAATTTTCACGAAAATTCATTAAATCCTTAAAAATC
37299042 GTTAACAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (46 bp):
TTATGACAATTTTCACGAAAATTCATTAAATCCTTAAAAATCCTTA
Found at i:37309046 original size:20 final size:20
Alignment explanation
Indices: 37309021--37309059 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37309011 TAAATTCCAA
37309021 TCCAT-ATTATAATGGTTTTG
1 TCCATAATT-TAATGGTTTTG
*
37309041 TCCATAATTTCATGGTTTT
1 TCCATAATTTAATGGTTTT
37309060 ATCTTGTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (20 bp):
TCCATAATTTAATGGTTTTG
Found at i:37309066 original size:25 final size:27
Alignment explanation
Indices: 37309038--37309096 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
37309028 TATAATGGTT
37309038 TTGTCCATA-ATTTCATGG-TTTTATC
1 TTGTCCATATATTTCATGGTTTTTATC
* * *
37309063 TTGTCTATATTTTTCATGGTTTTTGTC
1 TTGTCCATATATTTCATGGTTTTTATC
37309090 TTGTCCA
1 TTGTCCA
37309097 CTTTATTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.29
26 8 0.29
27 12 0.43
ACGTcount: A:0.15, C:0.15, G:0.14, T:0.56
Consensus pattern (27 bp):
TTGTCCATATATTTCATGGTTTTTATC
Found at i:37309894 original size:8 final size:8
Alignment explanation
Indices: 37309863--37309897 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
37309853 GGAAAATAAA
37309863 AAGGAAAGG
1 AAGGAAA-G
*
37309872 AAGGAAGG
1 AAGGAAAG
37309880 AAGGAAAG
1 AAGGAAAG
37309888 AAGGAAAG
1 AAGGAAAG
37309896 AA
1 AA
37309898 CAAAGCCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 18 0.75
9 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (8 bp):
AAGGAAAG
Done.