Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold479
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: 1265690
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 9
Found at i:3071 original size:33 final size:33
Alignment explanation
Indices: 3029--3097 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
3019 CCGTTAGAAG
*
3029 CAATGTATCGATACAAT-TCATCATATATCGATA
1 CAATGTATCGATACAATGT-ACCATATATCGATA
*
3062 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATATATCGATA
3095 CAA
1 CAA
3098 ACAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATATATCGATA
Found at i:3072 original size:13 final size:13
Alignment explanation
Indices: 3054--3081 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3044 ATTCATCATA
3054 TATCGATACAATG
1 TATCGATACAATG
3067 TATCGATACAATG
1 TATCGATACAATG
3080 TA
1 TA
3082 CCATGTATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:7337 original size:157 final size:156
Alignment explanation
Indices: 7010--7359 Score: 349
Period size: 157 Copynumber: 2.2 Consensus size: 156
7000 TTTCCTTATA
* *
7010 AAAG-CAAATCATCAATATCATGTATCCTAATGAGGAAACGTGTTTATGGTGCCAATCACGAAAC
1 AAAGCCAAACCATCAATATCATGTAT-CTAATGAGGAAACGTGTTTATGGTGCCAATCACGAAAA
7074 TAATGAAGATCATTACTAGAATCCATATTTGTCTCATTTGAGGCACGAACTTAGACTTTATGGAA
65 TAATGAAGATCATTACTAGAATCCATATTTGTCTCATTTGAGGCAC-AACTTAGACTTTATGGAA
* *
7139 AATGGTGGGAAGAAAAGCCTTTCTTGTG
129 AATGGTGGGAAAAAAAGCCTTTCTTGTC
* * * ** **
7167 AAA-CTAAAGCATCAATATCACGTATGCTAATGA-GATGATTGTGTTTATGGTGCCTAATCTTGA
1 AAAGCCAAACCATCAATATCATGTAT-CTAATGAGGA--AACGTGTTTATGGTGCC-AATCACGA
* * * * *
7230 AAATAATGGAGATTATTA-TGAGAATCCATATTTGTCTTATTTAAGAGTCA-AACTTTGA-TTCT
62 AAATAATGAAGATCATTACT-AGAATCCATATTTGTCTCATTT--GAGGCACAACTTAGACTT-T
* * * *
7292 AT-G-TAATGGTGGTAAAAAAATCTTTTCTTG-C
123 ATGGAAAATGGTGGGAAAAAAAGCCTTTCTTGTC
*
7323 AAAGCCAAACCATCAATGTCATGTATCTGAATGAGGA
1 AAAGCCAAACCATCAATATCATGTATCT-AATGAGGA
7360 TTTTTGGTGC
Statistics
Matches: 158, Mismatches: 24, Indels: 21
0.78 0.12 0.10
Matches are distributed among these distances:
156 7 0.04
157 73 0.46
158 21 0.13
159 52 0.33
161 5 0.03
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (156 bp):
AAAGCCAAACCATCAATATCATGTATCTAATGAGGAAACGTGTTTATGGTGCCAATCACGAAAAT
AATGAAGATCATTACTAGAATCCATATTTGTCTCATTTGAGGCACAACTTAGACTTTATGGAAAA
TGGTGGGAAAAAAAGCCTTTCTTGTC
Found at i:8656 original size:159 final size:159
Alignment explanation
Indices: 7725--9714 Score: 850
Period size: 159 Copynumber: 12.7 Consensus size: 159
7715 AAGTCCATGT
* * * * *
7725 ACTTTGATTTTTAAGGAAAAATGGGGCAAAGAAAGGCTTTCCTTGCG-AAGCCAAAGCATCAATA
1 ACTTTGA-CTTTAAGG-AAAATGGGGTAAAGAAAAGCTTTTCTTGCGAAAG-CAAACCATCAATA
*
7789 TCTTGTATCCTAATGAGGAGAATAG-GTTTATGGTGCCCAAT-ATTGAAAAGAATGAAGATCATT
63 TCATGTATCCTAATGAGGAGAAT-GTGTTTATGGTGCCCAATCA-TGAAAAGAATGAAGATCATT
*
7852 ACTAGAATCTATGTTTGTCTCATTTGAGGCG-TGA
126 ACTAGAATCCATGTTTGTCTCATTTGAGG-GATGA
* * * ** * *
7886 ACTTAGACTCTATA-GAAAATAGTGG--AAGAAAAGCTTTTCTTTTGAAATCAAAGCATCAATAT
1 ACTTTGACTTTA-AGGAAAAT-GGGGTAAAGAAAAGCTTTTCTTGCGAAAGCAAACCATCAATAT
* * * ** * * * *
7948 CATGTATCCTAATAAGAAGAATATGTTTATGGTGCCTTATCTTGAAAAAAAT-AGGGATTATTA-
64 CATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGA-AGATCATTAC
* * * *
8011 TGAGAATCTATGTTTGTCTCGTTTTAGAGATGA
128 T-AGAATCCATGTTTGTCTCATTTGAGGGATGA
* * * * * * * *
8044 ACTTTG-GTTCTATGAAAAATGGTGGTTAA-AAAAGCTTTTCTTGTG-AAGCCAAACCACCAGTT
1 ACTTTGACTT-TAAGGAAAATGG-GGTAAAGAAAAGCTTTTCTTGCGAAAG-CAAACCATCAATA
* * * * ** *
8106 TCATGTATCCCAAT-A--AGGAT-T-TTCA--GTGCCCTATCACAAAAAGAATGGAGA-CTATTA
63 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGAAGATC-ATTA
* **
8163 -TAAGAATCCATG-TTGTGTCATTTGAGGGACAA
127 CT-AGAATCCATGTTTGTCTCATTTGAGGGATGA
* * **
8195 ACTTTGA-TGTTAGGGAAAAT-AGGTCAAAGAAAAGCTTTTCTTGC-AAAGTCAAAGAATCAATA
1 ACTTTGACT-TTAAGGAAAATGGGGT-AAAGAAAAGCTTTTCTTGCGAAAG-CAAACCATCAATA
** ** * * * * **
8257 TTGTGTATTGTAATAAGGAGAACGTGTTTATGGTGCCTAGA-C-TCAAAA-AATGGAA-ATTGTT
63 TCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCA-ATCATGAAAAGAAT-GAAGATCATT
* ** * *
8318 A-TGAAAATCCCCGTTTGTCTCATTTAAGGG-TCAA
126 ACT-AGAATCCATGTTTGTCTCATTTGAGGGAT-GA
** * ** * * * * *
8352 AC-TCCATTTTCTATTGAAAATGGTGG-AAAGAATAGTTTTTCTTAC-AACACCAAAGTC-TCAA
1 ACTTTGA-CTT-TAAGGAAAATGG-GGTAAAGAAAAGCTTTTCTTGCGAA-AGCAAA-CCATCAA
* ** * ** * * * *
8413 TGTCATGTAT-CTCAATGAAAAGAACATGT-TTTTTGGTTTCTAATC-TCAAAAATAATGGAGA-
61 TATCATGTATCCT-AATGAGGAG-A-ATGTGTTTATGGTGCCCAATCAT-GAAAAGAATGAAGAT
*
8474 CTATTA-T-GTAATCCTTGTTTGTCTCA-TTGAAGGGATGA
122 C-ATTACTAG-AATCCATGTTTGTCTCATTTG-AGGGATGA
8512 ACTTTGACTTTAAGGAAAATGGGGTAAAGAAAAGCTTTTCTTGCGAAAGCAAACCATCAATATCA
1 ACTTTGACTTTAAGGAAAATGGGGTAAAGAAAAGCTTTTCTTGCGAAAGCAAACCATCAATATCA
* * *
8577 TGTATCCTAATGAGGAGAATGTGTTTACGGTGCCCAATAACGAAAAGAATGAAGATCATTACTAG
66 TGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGAAGATCATTACTAG
* *
8642 AATCCATGTTTGTCTCATTTGAGGCACGA
131 AATCCATGTTTGTCTCATTTGAGGGATGA
* * * ** *
8671 ACTTAGACTTT--GCTAATAGTGGTGG--AAGAAAAGCCTTTTCTTGTTAAATG-AAAGCATCAA
1 ACTTTGACTTTAAG-GAA-AATGG-GGTAAAGAAAAG-CTTTTCTTGCGAAA-GCAAACCATCAA
* * * * * * ** *
8731 TATCATGTATCCTAATAAGAAGAATGTGTTTATGGCGCCTAATCTTGAAAGGAATGGGGATTATT
61 TATCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGAAGATCATT
* * * * * **
8796 -TTAAGAATCCTTGTTAGTCTCATTTAAGAGACAA
126 ACT-AGAATCCATGTTTGTCTCATTTGAGGGATGA
* * * * *
8830 ACTTTGA-TTCTATGAAAAAAGGTGGT-AATAAAAGCTTTTCTTGC-AAAGCCAAACCATCAATG
1 ACTTTGACTT-TAAGGAAAATGG-GGTAAAGAAAAGCTTTTCTTGCGAAAG-CAAACCATCAATA
* ** *
8892 TCATGTAT-CTGAAT-A--AGAAT-T-TTTA--GTGCCCAATCACGAAAAGAATGGGGACCATTA
63 TCATGTATCCT-AATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGAAGATCATTA
* * * * *
8949 CAAGAATCCTTTTTTGTCTCATTTAAGAGATGA
127 CTAGAATCCATGTTTGTCTCATTTGAGGGATGA
* * * * *
8982 ACTTTGA-TTCTATGAAAAATGGTGGTTAAA-AAAA-CTTTTCTTGTG-AAGCCAAACCATTAGT
1 ACTTTGACTT-TAAGGAAAATGG-GG-TAAAGAAAAGCTTTTCTTGCGAAAG-CAAACCATCAAT
* * * ** *
9043 GTCATGTATCCAAATGA-G-GAA----TTT-TGGTGCCCTATCATGACCAGAAT-AGAGACCATT
62 ATCATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGA-AGATCATT
* *
9100 ACAAGAATCCATGTTTGCCTCATTTGAGGGATGA
126 ACTAGAATCCATGTTTGTCTCATTTGAGGGATGA
* * * * * * *
9134 ACTTTGATTTTAAGGAAAATGAGCTAAAGAAAAGTTTTTCTTACG-AAGTCGAACTATCAATATC
1 ACTTTGACTTTAAGGAAAATGGGGTAAAGAAAAGCTTTTCTTGCGAAAG-CAAACCATCAATATC
* ** * * * * *
9198 ATGTATCGTAAAAAGGAGAACGTGTTTATGGTG-CCAAGCTTGAAAAG-ATGGAGATTATTA-TG
65 ATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGAAGATCATTACT-
* * *
9260 ACAATCCAAGTTTGTCTCATTTGA-GGATTAA
129 AGAATCCATGTTTGTCTCATTTGAGGGA-TGA
* * * * * * * * * * ** *
9291 ACTCTAATTCTCTCA--AAACTAGTGG-AAAGAAGAG-TTTT-TT--TACACCAAATTA-CAATG
1 ACTTTGA--CTTTAAGGAAAAT-GGGGTAAAGAAAAGCTTTTCTTGCGAAAGCAAACCATCAATA
* * * * * ** *
9348 TCATGTGTCCCAATGAAGG-GAATGTGTTTTTGGTTCCGAATTTTGAAAAGAATGGAGA-CTATT
63 TCATGTATCCTAATG-AGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGAAGATC-ATT
* * ** * *
9411 AC-AAAATCCTTGTTTACCTCA-TTGAAAGGATAA
126 ACTAGAATCCATGTTTGTCTCATTTG-AGGGATGA
* * * * * * * *
9444 ACTTTGATTTTATGGAAAATGGGGAAAAGAAAAGCTTTCCTTACAAAAGCAAACCATAAATTTCA
1 ACTTTGACTTTAAGGAAAATGGGGTAAAGAAAAGCTTTTCTTGCGAAAGCAAACCATCAATATCA
* * * ***
9509 TGTATCCTAATGAGGAAAATATGTTTATGGTGCCCAATCATGAAAAGATTGAAGATTGGTACTAG
66 TGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGAAGATCATTACTAG
* ** *
9574 AATCCATATTTGTCTCATTTTGAGGCTTGG
131 AATCCATGTTTGTCTCA-TTTGAGGGATGA
* * * * * * * * *
9604 A-TTTAGACTCTACGAAAAAT--GGCAAGAAAAAAGCCTTTCTTGCAAAACCAAAGCATCAATAT
1 ACTTT-GACTTTAAGGAAAATGGGGTAA-AGAAAAGCTTTTCTTGCGAAAGCAAACCATCAATAT
* * * * *
9666 CGTGTATCCTAATGAGAAGAATGTGTTTATTGTGCCTAATCTTGAAAAG
64 CATGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAG
9715 GAATAAGGAT
Statistics
Matches: 1377, Mismatches: 328, Indels: 250
0.70 0.17 0.13
Matches are distributed among these distances:
149 3 0.00
150 6 0.00
151 73 0.05
152 277 0.20
153 67 0.05
154 33 0.02
155 7 0.01
156 36 0.03
157 96 0.07
158 291 0.21
159 387 0.28
160 79 0.06
161 22 0.02
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (159 bp):
ACTTTGACTTTAAGGAAAATGGGGTAAAGAAAAGCTTTTCTTGCGAAAGCAAACCATCAATATCA
TGTATCCTAATGAGGAGAATGTGTTTATGGTGCCCAATCATGAAAAGAATGAAGATCATTACTAG
AATCCATGTTTGTCTCATTTGAGGGATGA
Found at i:14264 original size:52 final size:52
Alignment explanation
Indices: 14186--14314 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
14176 CGAAATATAA
14186 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGGC
* * *
14238 AAATTTCCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGGC
14290 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
14315 AAGATCAATG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGGC
Found at i:14327 original size:52 final size:51
Alignment explanation
Indices: 14186--14335 Score: 187
Period size: 52 Copynumber: 2.9 Consensus size: 51
14176 CGAAATATAA
* *
14186 AAATTTGCCTGCATGTATCGATAC-ATTTCATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAATATCA-A-TGTATCGATACATCTGGGC
* * *
14238 AAATTTCCCTGCATGTATCGATACATTTTAT-AGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--ATATCAATGTATCGATACATCTGGGC
*
14290 AAATTTGCCTGCATGTATCGATACAAAGATCAATGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATAC-AATATCAATGTATCGATACAT
14336 TGTATCGATA
Statistics
Matches: 84, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
51 2 0.02
52 78 0.93
53 1 0.01
54 1 0.01
55 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAATATCAATGTATCGATACATCTGGGC
Found at i:14341 original size:13 final size:13
Alignment explanation
Indices: 14323--14349 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14313 CAAAGATCAA
14323 TGTATCGATACAT
1 TGTATCGATACAT
14336 TGTATCGATACAT
1 TGTATCGATACAT
14349 T
1 T
14350 TAAGTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14413 original size:18 final size:18
Alignment explanation
Indices: 14390--14454 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 18
14380 TAGCTTAGAT
14390 TGTATCGATACAAACTTA
1 TGTATCGATACAAACTTA
14408 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
14421 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
14441 TGTATCGATACAAA
1 TGTATCGATACAAA
14455 TTGTTGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 11 0.28
19 2 0.05
20 13 0.32
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:14426 original size:13 final size:13
Alignment explanation
Indices: 14408--14432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14398 TACAAACTTA
14408 TGTATCGATACAT
1 TGTATCGATACAT
14421 TGTATCGATACA
1 TGTATCGATACA
14433 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14426 original size:31 final size:33
Alignment explanation
Indices: 14388--14452 Score: 116
Period size: 31 Copynumber: 2.0 Consensus size: 33
14378 AGTAGCTTAG
14388 ATTGTATCGATACAA-AC-TTATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
14419 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACACTTTATGTATCGATAC
14452 A
1 A
14453 AATTGTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 15 0.47
32 2 0.06
33 15 0.47
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACACTTTATGTATCGATAC
Found at i:15429 original size:92 final size:97
Alignment explanation
Indices: 15191--15478 Score: 376
Period size: 92 Copynumber: 3.0 Consensus size: 97
15181 CGAAGAATGA
* * * *
15191 CAATGTGCTGCTTCATGGCCAGCGACATT-GATCTTAAAGATGATGGTGCCAATATGCTGATCCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGACGGTGCCAATATGCTGATTCA
* **
15255 AAGCCAGCGATACCGGACTTAAAGATGAAGATGC
65 AGGCCAGCGATATTGGACTTAAAGATG-AGATGC
*
15289 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGATTCAA
15354 GGCCAGCGATATTGGACTT-AA-A-G-G-TGC
66 GGCCAGCGATATTGGACTTAAAGATGAGATGC
* * * *
15381 CAATGTGTTGGTTCAAGGCCAGTGACATTGGACTTAAAGATGACGGTGCCAATATGCGGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGATTCAA
*
15446 GGCCAGCGATATTGGATTTAGAAGA--AGATGC
66 GGCCAGCGATATTGGACTTA-AAGATGAGATGC
15477 CA
1 CA
15479 CCAACTTGTG
Statistics
Matches: 170, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
92 81 0.48
93 1 0.01
94 2 0.01
95 3 0.02
96 6 0.04
97 2 0.01
98 74 0.44
99 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (97 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGATGAGATGC
Found at i:15460 original size:49 final size:49
Alignment explanation
Indices: 15191--15470 Score: 304
Period size: 49 Copynumber: 5.8 Consensus size: 49
15181 CGAAGAATGA
* * * *
15191 CAATGTGCTGCTTCATGGCCAGCGACATT-GATCTTAAAGATGATGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGACGGTGC
* * * ** * *
15240 CAATATGCTGATCCAAAGCCAGCGATACCGGACTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
* *
15289 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
*
15338 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--A-GGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
* * * *
15381 CAATGTGTTGGTTCAAGGCCAGTGACATTGGACTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
* * *
15430 CAATATGCGGATTCAAGGCCAGCGATATTGGATTTAGAAGA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
15471 AGATGCCACC
Statistics
Matches: 189, Mismatches: 34, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
43 35 0.19
44 1 0.01
45 1 0.01
46 2 0.01
47 1 0.01
48 1 0.01
49 142 0.75
50 6 0.03
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
Found at i:15527 original size:28 final size:28
Alignment explanation
Indices: 15487--15617 Score: 156
Period size: 28 Copynumber: 4.6 Consensus size: 28
15477 CACCAACTTG
*
15487 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
* * *
15515 TGTGGGCTTTTGAAAAGATACCACTAACT
1 TGTGGGCTTTTG-AAGGTTGCCACTAACT
*
15544 TGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGGTTGCCACTAACT
* *
15572 TATGGGC-TTTGAAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTG---AAGGTTGCCACTAACT
15602 TGTGGGCTTTTGAAGG
1 TGTGGGCTTTTGAAGG
15618 GTGAGGAATA
Statistics
Matches: 86, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
27 4 0.05
28 34 0.40
29 24 0.28
30 20 0.23
31 4 0.05
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGGTTGCCACTAACT
Found at i:15560 original size:57 final size:58
Alignment explanation
Indices: 15487--15617 Score: 212
Period size: 57 Copynumber: 2.3 Consensus size: 58
15477 CACCAACTTG
*
15487 TGTGGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTTG-AAAA-GATACCACTAACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGC-TTTGAAAAAGGATACCACTAACT
* *
15544 TGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTGAAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTGAAAAAGGATACCACTAACT
15602 TGTGGGCTTTTGAAGG
1 TGTGGGCTTTTGAAGG
15618 GTGAGGAATA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
56 4 0.06
57 38 0.55
58 27 0.39
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (58 bp):
TGTGGGCTTTTGAAGGTTGCCACTGACTTATGGGCTTTGAAAAAGGATACCACTAACT
Found at i:17036 original size:15 final size:14
Alignment explanation
Indices: 17018--17079 Score: 79
Period size: 15 Copynumber: 4.2 Consensus size: 14
17008 ATCCGGACCC
*
17018 TTTTTGTTGTTTTT
1 TTTTTTTTGTTTTT
17032 TTTTTGTTTGTTTTGT
1 TTTTT-TTTGTTTT-T
*
17048 TTGTTTTTGTTTTT
1 TTTTTTTTGTTTTT
17062 TGTTTTTTTGTTTTT
1 T-TTTTTTTGTTTTT
17077 TTT
1 TTT
17080 GTGGAGGATG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.21
15 28 0.67
16 5 0.12
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTTTTTGTTTTT
Found at i:17045 original size:9 final size:9
Alignment explanation
Indices: 17020--17081 Score: 60
Period size: 9 Copynumber: 7.1 Consensus size: 9
17010 CCGGACCCTT
17020 TTTGTTGTT-
1 TTTGTT-TTG
*
17029 TTTTTTTTG
1 TTTGTTTTG
17038 TTTGTTTTG
1 TTTGTTTTG
17047 TTTGTTTT-
1 TTTGTTTTG
17055 TGTT-TTTTG
1 T-TTGTTTTG
17064 TTT-TTTTG
1 TTTGTTTTG
*
17072 TTTTTTTTG
1 TTTGTTTTG
17081 T
1 T
17082 GGAGGATGCC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
8 17 0.36
9 30 0.64
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (9 bp):
TTTGTTTTG
Found at i:17060 original size:30 final size:30
Alignment explanation
Indices: 17024--17081 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
17014 ACCCTTTTTG
17024 TTGTTTTTT-TTTTGTTTGTTTTGTTTGTTT
1 TTGTTTTTTGTTTT-TTTGTTTTGTTTGTTT
*
17054 TTGTTTTTTGTTTTTTTGTTTTTTTTGT
1 TTGTTTTTTGTTTTTTTGTTTTGTTTGT
17082 GGAGGATGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (30 bp):
TTGTTTTTTGTTTTTTTGTTTTGTTTGTTT
Found at i:17073 original size:34 final size:33
Alignment explanation
Indices: 17018--17081 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
17008 ATCCGGACCC
17018 TTTTTGTTGTTTTTTTTTTGTTTGTTTTGTTTG
1 TTTTTGTTGTTTTTTTTTTGTTTGTTTTGTTTG
* *
17051 TTTTTGTTTTTTGTTTTTTTGTTTTTTTTGT
1 TTTTTGTTGTTT-TTTTTTTGTTTGTTTTGT
17082 GGAGGATGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (33 bp):
TTTTTGTTGTTTTTTTTTTGTTTGTTTTGTTTG
Found at i:17975 original size:309 final size:309
Alignment explanation
Indices: 17416--18036 Score: 1181
Period size: 309 Copynumber: 2.0 Consensus size: 309
17406 TGAGCTGGTC
17416 GTATCTATTCTTGATCCAGTCAGCCTCTTCAAGTTTAGCTTCCATCAAGACTCTAAGAGAAGGGA
1 GTATCTATTCTTGATCCAGTCAGCCTCTTCAAGTTTAGCTTCCATCAAGACTCTAAGAGAAGGGA
17481 TCTTGACTTCGATTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAACGGGGTAGCACCTATG
66 TCTTGACTTCGATTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAACGGGGTAGCACCTATG
17546 GAGGTGCGAACTGAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGTA
131 GAGGTGCGAACTGAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGTA
17611 CATCTCAGTCATTTTCTCAACTATTCTCTTGATGTTTTTGTTTGCTGCCTCAACTGCCCCATTCA
196 CATCTCAGTCATTTTCTCAACTATTCTCTTGATGTTTTTGTTTGCTGCCTCAACTGCCCCATTCA
17676 TCTTTGGACGGTAAGGGGCAGAATTATGATGCTGGATCTTAAACTGAGA
261 TCTTTGGACGGTAAGGGGCAGAATTATGATGCTGGATCTTAAACTGAGA
* *
17725 GTATCTATTCTTGATCATAG-CAGCCTCTTCAAGTTTAGCTTCCATCAAGACTCTGAGAGAAGGG
1 GTATCTATTCTTGATC-CAGTCAGCCTCTTCAAGTTTAGCTTCCATCAAGACTCTAAGAGAAGGG
*
17789 ATCTTGACTTCGATTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAATGGGGTAGCACCTAT
65 ATCTTGACTTCGATTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAACGGGGTAGCACCTAT
*
17854 GGAGGTGCGAATTGAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGT
130 GGAGGTGCGAACTGAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGT
17919 ACATCTCAGTCATTTTCTCAACTATTCTCTTGATGTTTTTGTTTGCTGCCTCAACTGCCCCATTC
195 ACATCTCAGTCATTTTCTCAACTATTCTCTTGATGTTTTTGTTTGCTGCCTCAACTGCCCCATTC
*
17984 ATCTTTGGACGGTAAGGGGTAGAATTATGATGCTGGATCTTAAACTGAGA
260 ATCTTTGGACGGTAAGGGGCAGAATTATGATGCTGGATCTTAAACTGAGA
18034 GTA
1 GTA
18037 GACTGCTTGC
Statistics
Matches: 306, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
309 304 0.99
310 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (309 bp):
GTATCTATTCTTGATCCAGTCAGCCTCTTCAAGTTTAGCTTCCATCAAGACTCTAAGAGAAGGGA
TCTTGACTTCGATTGGCAAAACGGCTTCCATGCCATAGACAAGAGAGAACGGGGTAGCACCTATG
GAGGTGCGAACTGAGGTCCGATAGGCATGAAGTGCAAAAGGTAGCTTCTCATGCCAGTCTTTGTA
CATCTCAGTCATTTTCTCAACTATTCTCTTGATGTTTTTGTTTGCTGCCTCAACTGCCCCATTCA
TCTTTGGACGGTAAGGGGCAGAATTATGATGCTGGATCTTAAACTGAGA
Found at i:31274 original size:13 final size:13
Alignment explanation
Indices: 31256--31280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31246 CAAAGATCAG
31256 TGTATCGATACAA
1 TGTATCGATACAA
31269 TGTATCGATACA
1 TGTATCGATACA
31281 TTTAAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:31359 original size:32 final size:32
Alignment explanation
Indices: 31318--31385 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
31308 GGCAGTAGCT
* *
31318 TACATTGTATTGATACAAAACTTATTTATCAA
1 TACATTGTATCGATACAAAACTTATGTATCAA
* *
31350 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCAA
31382 TACA
1 TACA
31386 ATACTTTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCAA
Found at i:31379 original size:19 final size:20
Alignment explanation
Indices: 31355--31406 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
31345 ATCAATACAT
31355 TGTATCGATACAACAC-TTA
1 TGTATCGATACAACACTTTA
*
31374 TGTATCGATACAATACTTTA
1 TGTATCGATACAACACTTTA
31394 TGTATCGATACAA
1 TGTATCGATACAA
31407 ATTGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAACACTTTA
Found at i:33896 original size:17 final size:18
Alignment explanation
Indices: 33874--33910 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
33864 TGTTTAAAGA
33874 ACAAA-GAAGAAATTCTC
1 ACAAAGGAAGAAATTCTC
33891 ACAAAGTGAAGAAATTCTC
1 ACAAAG-GAAGAAATTCTC
33910 A
1 A
33911 AGATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
19 13 0.72
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (18 bp):
ACAAAGGAAGAAATTCTC
Found at i:36841 original size:13 final size:13
Alignment explanation
Indices: 36823--36848 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36813 TACACAAAGT
36823 ATGTATCGATACA
1 ATGTATCGATACA
36836 ATGTATCGATACA
1 ATGTATCGATACA
36849 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:36846 original size:32 final size:33
Alignment explanation
Indices: 36805--36868 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
36795 TAGCCAAACT
**
36805 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
36837 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
36869 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:43049 original size:13 final size:13
Alignment explanation
Indices: 43031--43055 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43021 CATTTTTCTT
43031 TGTATCGATACAC
1 TGTATCGATACAC
43044 TGTATCGATACA
1 TGTATCGATACA
43056 GGGGGATTAT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:43209 original size:20 final size:20
Alignment explanation
Indices: 43166--43211 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
43156 AAATCTTTTG
43166 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
43187 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
43207 CAAAA
1 CAAAA
43212 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:45635 original size:13 final size:13
Alignment explanation
Indices: 45617--45642 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45607 TACAAAAAGT
45617 ATGTATCGATACA
1 ATGTATCGATACA
45630 ATGTATCGATACA
1 ATGTATCGATACA
45643 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:45640 original size:32 final size:33
Alignment explanation
Indices: 45599--45662 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
45589 TAGCCAAACT
*
45599 TGTATCGAT--ACAAAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
45631 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
45663 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 9 0.31
33 12 0.41
34 8 0.28
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:48742 original size:247 final size:250
Alignment explanation
Indices: 48300--48802 Score: 592
Period size: 247 Copynumber: 2.0 Consensus size: 250
48290 TTCTATCAAA
* *
48300 AATGGTGGAAAAAAAGTTTTTCTTGCAATACCAAAGCATCAATGTCATGTATCCCAATGAAGGGA
1 AATGGTGGAAAAAAAGCTTTTCTTGCAATACCAAACCATCAATGTCATGTATCCCAATGAAGGG-
* * ** * * * *
48365 ACATGATTTTGGTCCTCAATCTCAAAAAGAATGGAGACTATTATGAGAGTCTATGTTTGTTTGAT
65 A-ATGATTTTGGTCCTCAATCACAAAAAGAATAGAGACTATTACAAGAATCTATGTTTATCTCAT
** ** * *
48430 CTACTGGATGAACTTTGATTTTAAGGAAAATGGGCTAAAGAAAAGCTTTCCTTATGAAAGCAAAT
129 CTAAAGGACAAACTTTGATTTTAAGCAAAATGGGCTAAAAAAAAGCTTTCCTTATGAAAGCAAAT
* * * *
48495 CATCAATATCTTGTATCCTAATGAGGAGAACGTGTTTTTGGTGCCAAATAATGAAAAG
194 CATCAATATCCTGTAT-CTAATAAGGAAAACGTGTTTATGGTGCCAAATAATGAAAAG
* *
48553 AATGGTGGTAAAAAAGCTTTTCTTGCAA-AGCCAAACCATCAATGTCATGTATCCTAATG-A-GG
1 AATGGTGGAAAAAAAGCTTTTCTTGCAATA-CCAAACCATCAATGTCATGTATCCCAATGAAGGG
* * * *
48615 -AT-TTTTTTGTACCT-AATCACTAAAAGAATAGAGACTGTTACAAGAATCTATGTTTATCTCAT
65 AATGATTTTGGT-CCTCAATCACAAAAAGAATAGAGACTATTACAAGAATCTATGTTTATCTCAT
* *
48677 TTAAAGGACAAACTTTGATTTTAAGCTAAATGGGGC-AAAAAAAAGCTTT-CTTGGA-GAAAGCA
129 CTAAAGGACAAACTTTGATTTTAAGCAAAAT-GGGCTAAAAAAAAGCTTTCCTT--ATGAAAGCA
* **
48739 AATCATCAATATCCTGTATCTAATAAGGAAAACGTGTTTATGGTGCCTAATCCTGAAAAG
191 AATCATCAATATCCTGTATCTAATAAGGAAAACGTGTTTATGGTGCCAAATAATGAAAAG
48799 AATG
1 AATG
48803 AAGATCATTA
Statistics
Matches: 214, Mismatches: 31, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
246 42 0.20
247 105 0.49
248 10 0.05
251 2 0.01
252 2 0.01
253 53 0.25
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.31
Consensus pattern (250 bp):
AATGGTGGAAAAAAAGCTTTTCTTGCAATACCAAACCATCAATGTCATGTATCCCAATGAAGGGA
ATGATTTTGGTCCTCAATCACAAAAAGAATAGAGACTATTACAAGAATCTATGTTTATCTCATCT
AAAGGACAAACTTTGATTTTAAGCAAAATGGGCTAAAAAAAAGCTTTCCTTATGAAAGCAAATCA
TCAATATCCTGTATCTAATAAGGAAAACGTGTTTATGGTGCCAAATAATGAAAAG
Found at i:48835 original size:158 final size:158
Alignment explanation
Indices: 48652--48995 Score: 364
Period size: 158 Copynumber: 2.2 Consensus size: 158
48642 ATAGAGACTG
* * * * *
48652 TTACAAGAATCTATGTTTATCTCATTTAAAGGACA-AACTT-TGATTTTAAGCTAAATGG-GGCA
1 TTACTAGAATCCATGTTTATCTCATTTAAAGG-CAGAACTTATG-CTGTAAG-AAAATGGTGG-A
* * *
48714 AAAAAAAG-CTTTCTTGGAGAAAGCAAATCATCAATATCCTGTA-TCTAATAAGGAA-AACGTGT
62 AAAAAAAGCCTTTCTTGCA-AAACCAAAGCATCAATATCCTGTATTCTAATAA-GAAGAACGTGT
48776 TTATGGTGCCTAATCCTGAAAAGAATGAAGATCA
125 TTATGGTGCCTAATCCTGAAAAGAATGAAGATCA
* * * * *
48810 TTACTAGAATCCATGTTTGTCTCATTT-GAGGCATGAACTTATGCTGTACGAAAATGGTGGGAAG
1 TTACTAGAATCCATGTTTATCTCATTTAAAGGCA-GAACTTATGCTGTAAGAAAATGGTGGAAAA
* * * *
48874 AAAAGCCTTTCTTTCAAAACCAAAGCATCAATATCGTGTATTCTAATGAGAAGAATGTGTTTATG
65 AAAAGCCTTTCTTGCAAAACCAAAGCATCAATATCCTGTATTCTAATAAGAAGAACGTGTTTATG
* ** *
48939 GTGCCTAATCTTGAAAAGAATGGGGATTA
130 GTGCCTAATCCTGAAAAGAATGAAGATCA
48968 TTA-TGAGAAT-CATGTTTATCTCATTTAA
1 TTACT-AGAATCCATGTTTATCTCATTTAA
48996 GAGATGAGCA
Statistics
Matches: 154, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
156 2 0.01
157 56 0.36
158 94 0.61
159 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (158 bp):
TTACTAGAATCCATGTTTATCTCATTTAAAGGCAGAACTTATGCTGTAAGAAAATGGTGGAAAAA
AAAGCCTTTCTTGCAAAACCAAAGCATCAATATCCTGTATTCTAATAAGAAGAACGTGTTTATGG
TGCCTAATCCTGAAAAGAATGAAGATCA
Found at i:51069 original size:157 final size:156
Alignment explanation
Indices: 50031--52829 Score: 1048
Period size: 158 Copynumber: 17.9 Consensus size: 156
50021 TTGTTATGAA
* ** * * * *
50031 AATCCATGTTTGTCTTATTTGA-GGATGAACTTTGATTCTATCAAAAACGATGG-AAACAAAAGT
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATT-TATGGAAAATG-GGGCAAAGAAAAGC
* * * * * *
50094 TTTTCTTGCGATA-CCAAGCATCAATGTCATGTATCCCAATGAAGGGAATGTGATTT-TGGTCCC
64 TTTTCTTG-AAAAGCAAAGCATCAATATCATGTATCCTAAT-AAGGGAATGTG-TTTATGGTGCC
* * * *
50157 CAATCTCGAAAAGAATGGAGACAATTATGAG
126 TAATCTTGAAAAGAATGGAGACTATTACGAG
* * * * * * *
50188 AATCCATGTATGTCTCATCTAAGGGATAAACTTTAATTTTAAGGAAAATAGGGCAAAGAAAAGCT
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGA-TTTATGGAAAATGGGGCAAAGAAAAGCT
* * * * * * **
50253 TTCCTT-ATGAAAGGAAATCATCAATATCCTATATCCTAATGAAGGGGATGTGTTTATGAAGCCT
65 TTTCTTGA--AAAGCAAAGCATCAATATCATGTATCCTAAT-AAGGGAATGTGTTTATGGTGCCT
** * *
50317 AATAATGAAAAGAATGAAGA-TCATTACTAG
127 AATCTTGAAAAGAATGGAGACT-ATTACGAG
* * * * *
50347 AATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTGTGAAAAATGGTGG--AAGAAAAGC
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGA-TTTATGGAAAATGG-GGCAAAGAAAAGC
* * * * * *
50410 CTTTCTTGTGAAAA-TAAAGCATCAAGATCATATATTCTAA-AGAGAAGAATGTGTTTATGGTGC
64 TTTTC-T-TGAAAAGCAAAGCATCAATATCATGTATCCTAATA-AG-GGAATGTGTTTATGGTGC
* * * * **
50473 GTGATCTTG-AAAGAAATGGGGATTATTGTGAG
125 CTAATCTTGAAAAG-AATGGAGACTATTACGAG
* * * * *
50505 -ATCCACGTATGTCTCATTT-AGGAGATGAACTTTTATTCTAT-GAAATATGGCAGTAAA-AAGA
1 AATCCATGTTTGTCTCATTTGAGG-GATGAACTTTGATT-TATGGAAA-ATGG-GGCAAAGAA-A
* * * * * *
50566 A-CTTTTTCTTGAAATGAAAACCATCAATGTCATGTATCCCAATGA-GG-A----TTT-TGGTGC
61 AGC-TTTTCTTGAAAAGCAAAGCATCAATATCATGTATCCTAATAAGGGAATGTGTTTATGGTGC
**
50623 CTAATCGCGAAAAGAATGGAGAC---TAC-ATG
125 CTAATCTTGAAAAGAATGGAGACTATTACGA-G
* * **
50652 AATCCATGTTTGTCTCATTTGAAGGTTGAACTTTGATTT-TGGGTAAAATGGCTCAAAGAAAAGC
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATTTAT-GG-AAAATGGGGCAAAGAAAAGC
** * * * * * *
50716 TTTTCTTGAAAAGCCAAAGCATCAATATCACATATCCCAATGAGGAAAACGTATTTACGGTGGCC
64 TTTTCTTGAAAAG-CAAAGCATCAATATCATGTATCCTAATAAGG-GAATGTGTTTATGGT-GCC
* * * *
50781 -AATCTTGAAAAG-ATGGAGATTGTTATGAT
126 TAATCTTGAAAAGAATGGAGACTATTACGAG
* ** ** ***
50810 AATCCAAGTTTGTCTCATTTGAGGGACAAACTTTGATTTTATCAAAAATGGCAAAAAGAAAAG-T
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGA-TTTATGGAAAATGGGGCAAAGAAAAGCT
* * * * * * *
50874 TTTCTT-AAGATAG-AAAGCATCAATGTCACGTATTCTAATAAAGGGAATGTGTTTTTGATTCCA
65 TTTCTTGAA-A-AGCAAAGCATCAATATCATGTATCCTAAT-AAGGGAATGTGTTTATGGTGCCT
*
50937 AATCTTGAAAAGTATGGAGACTATTACGAG
127 AATCTTGAAAAGAATGGAGACTATTACGAG
*
50967 AATCCATGTTGGTCTCATTT-AGGGGATGAACTTTGATTT-TGGAAAATGGGGCAAAGAAAAGCT
1 AATCCATGTTTGTCTCATTTGA-GGGATGAACTTTGATTTATGGAAAATGGGGCAAAGAAAAGCT
** * **
51030 TTTCTTGCAAAAGCAAATAATCAATATCATGTATCCTAATGAGGAGAACATGTTTATGGTGTCC-
65 TTTCTTG-AAAAGCAAAGCATCAATATCATGTATCCTAATAAGG-GAATGTGTTTATGGTG-CCT
* * * *
51094 AATCATGAAAAGAATGAAGA-TCGTTACTAG
127 AATCTTGAAAAGAATGGAGACT-ATTACGAG
* * * * *** *
51124 AATCCATATTTATCTCATTTGA-GGAAGAA-TTTAGACTCTACAAAAAATGGAGG-AAAGAAAGT
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTT-GA-TTTATGGAAAATGG-GGCAAAGAAA-A
* * * * * *
51186 GTTTATGATGCCTAATTAGAAACCAAAGCATCAATATCATGTATCCTAATTAGAAGAAAGTGTTT
62 GCTT-T--T--CT--TGA-AAAGCAAAGCATCAATATCATGTATCCTAATAAG-GGAATGTGTTT
* * * *
51251 ATGATGCCTAATCTTG-AAAGAAATGGGGATTATTATGAG
118 ATGGTGCCTAATCTTGAAAAG-AATGGAGACTATTACGAG
* * * *
51290 AATCCATGTTTTTCTTATTT-AGGGGATGAACTTTGATTCTATGAAAAATGGTGGTAAA-AAAAG
1 AATCCATGTTTGTCTCATTTGA-GGGATGAACTTTGATT-TATGGAAAATGG-GGCAAAGAAAAG
** * * * * * *
51353 CTTTTCTTGAACTGAAAAACCATCAATGTCATGCATCCCAATGA-GG-A---GTTT-TGGTGTCC
63 CTTTTCTTGAAAAG-CAAAGCATCAATATCATGTATCCTAATAAGGGAATGTGTTTATGGTG-CC
*
51412 -AATCATGAAAAGAATGGAGAC---TAC-ATG
126 TAATCTTGAAAAGAATGGAGACTATTACGA-G
* * * * * * * *
51439 -A---AT-TTTGTTTTATTTGAGGGTTTAACTTTGATTTTAAGGGAAATAGGTCAAAGAAAA-CT
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGA-TTTATGGAAAATGGGGCAAAGAAAAGCT
* * * * * * *
51498 TTTCTTGCAAAGCCAAAGCATCAATATCACGTATCCAAATGAGGAGAATATGTTGATGGTGCCCA
65 TTTCTTGAAAAG-CAAAGCATCAATATCATGTATCCTAATAAGG-GAATGTGTTTATGGTGCCTA
* * * * *
51563 ATCTTAAAAAG-GTGGAGATTGTTACGAC
128 ATCTTGAAAAGAATGGAGACTATTACGAG
* * ** ** ** *
51591 AATCCAAGTTTATCTCATTTGAGGGAAAAACTTTGATTCTATAAAAAATGTTG-AAA-AAAAGTT
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATT-TATGGAAAATGGGGCAAAGAAAAGCT
* * * * * ** * * * * *
51654 TTTTTTGAGACACCAAAGCATCAATGTCATATATTTTAATGAAGGAAATGCGTTT-TAGTTCCCA
65 TTTCTTGA-AAAGCAAAGCATCAATATCATGTATCCTAAT-AAGGGAATGTGTTTATGGTGCCTA
* *
51718 AT-TTCGAAAAGTAA-GGAGACTATAATGAG
128 ATCTT-GAAAAG-AATGGAGACTATTACGAG
* *
51747 AATCCATG-TTGTTCTCATTTAAGGGATGAACTTTGA-TT-T------T--GG-AAA-AAATGCT
1 AATCCATGTTTG-TCTCATTTGAGGGATGAACTTTGATTTATGGAAAATGGGGCAAAGAAAAGCT
* * * * *
51799 TTCCTTGCGAAAGCAAATCATCATATCATCAATATCATGCATCCTAATTAGGAGAATGTGTTTAT
65 TTTCTT--G--A--AAAGCA--A-AGCATCAATATCATGTATCCTAATAAGG-GAATGTGTTTAT
* **** * * *
51864 AGTGCCTAATAACAAAAAAAATGAAGA-TCATTACTAG
120 GGTGCCTAATCTTGAAAAGAATGGAGACT-ATTACGAG
** * * * * * *
51901 AATTTATG-TT-TCTCATTTGAGGAATGAACTTAGACTCTACGAAAAATGGTGG--AGGAAAAGC
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGA-TTTATGGAAAATGG-GGCAAAGAAAAGC
** * * * * * * *** *
51962 CATTCTTCCAAGACCTAAGCATCAACATCATGTATCTTAATTAAAAAAATGTCTTTATGGTGCCT
64 TTTTCTT-GAAAAGCAAAGCATCAATATCATGTATCCTAA-TAAGGGAATGTGTTTATGGTGCCT
* * ** *
52027 AAT-ATGATAAGAATAGG-GACTCCTATGAG
127 AATCTTGAAAAGAAT-GGAGACTATTACGAG
* ** * * * * ** *
52056 AATCTATACTTGTATCATTTAAGAGATGAATTTTGATTCTATAAAAAATGGTGGTGAAA-AAAAG
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATT-TATGGAAAATGG-GG-CAAAGAAAAG
* * * * *
52120 CTTTTCTTGTAAAGCAAAACCATCAATATCACGTA-ACTCAATGA-GG-A--T-TTT-TGGTG-C
63 CTTTTCTTGAAAAGC-AAAGCATCAATATCATGTATCCT-AATAAGGGAATGTGTTTATGGTGCC
*
52177 TCAATCATGAAAAGAATGGAGACTATTAC-AGG
126 T-AATCTTGAAAAGAATGGAGACTATTACGA-G
** * ** * *
52209 AATCCATGTTCATCTTATTTGAGGGATGAACTTTGATTTTAAAGAAAATAGGGCAGAG-AAAGCT
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGA-TTTATGGAAAATGGGGCAAAGAAAAGCT
* * * * ** * *
52273 TTCCTTGCAAAAGCAAATCATCAATATCATGTATTCTAATGAGAAAAAGGTGTTTATGGTGGCTA
65 TTTCTTG-AAAAGCAAAGCATCAATATCATGTATCCTAATAAG-GGAATGTGTTTATGGTGCCTA
* **
52338 ATCTTGAAAAGAATGGAGATTATTATAAG
128 ATCTTGAAAAGAATGGAGACTATTACGAG
* * ** * * * * *
52367 AATCCATGTTTGTCTCATTTAAGAGACAAACTTTGATTCTATCGAAAATGGTGAAACAAAAAAGT
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATT-TATGGAAAATGGGGCAA-AGAAAAGC
* * * * * * ** * *
52432 TTTTCTTGAGAGACCAAAGCATCATTGTCATGTATCCCAATGAAGCGAACATGTTTTTGGTTCCT
64 TTTTCTTGA-AAAGCAAAGCATCAATATCATGTATCCTAAT-AAGGGAATGTGTTTATGGTGCCT
** * *
52497 AATCTTGAAAAGAATTAAGACAATTA-TAGG
127 AATCTTGAAAAGAATGGAGACTATTACGA-G
* * ** * ** * *
52527 AATCCTTGTTTGTCTCATTTAACAGATGAACTTTGATTTAAGGAAAATAAGGAAAAGAAAGGCTT
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATTTATGGAAAATGGGGCAAAGAAAAGCTT
* * * * * * * ** *
52592 TCCTTGAGAAAGTAAACCATAAATATCATTTATCCTAATGAGAAGAACATGTTTATGATGCAC-A
66 TTCTTGA-AAAGCAAAGCATCAATATCATGTATCCTAATAAG-GGAATGTGTTTATGGTGC-CTA
* * * *
52656 ATCATGAAAAGAATGAAGA-TCATTACTAC
128 ATCTTGAAAAGAATGGAGACT-ATTACGAG
* * * * * *** * * *
52685 AATCCATATTTGTCTCATTTGAGGCAAGAACTTAGACTCTACAAAAAAAT-GGTCAGACGAAATG
1 AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGA-TTTA-TGGAAAATGGGGCA-AAGAAAAG
* ** * * **
52749 CCTTTCTTGCGAAGCCAAAGCATCAATATCATGTAGCATAATAAAAAGAATGTGTTTATGGTGCC
63 CTTTTCTTGAAAAG-CAAAGCATCAATATCATGTATCCTAAT-AAGGGAATGTGTTTATGGTGCC
52814 TAATCTTGAAAAGAAT
126 TAATCTTGAAAAGAAT
52830 AAGGATTAAC
Statistics
Matches: 1946, Mismatches: 508, Indels: 373
0.69 0.18 0.13
Matches are distributed among these distances:
143 38 0.02
144 35 0.02
145 19 0.01
146 3 0.00
147 22 0.01
148 63 0.03
149 21 0.01
150 37 0.02
151 46 0.02
152 65 0.03
153 97 0.05
154 38 0.02
155 73 0.04
156 217 0.11
157 270 0.14
158 371 0.19
159 205 0.11
160 180 0.09
161 8 0.00
162 1 0.00
163 3 0.00
164 13 0.01
165 9 0.00
166 82 0.04
167 24 0.01
168 6 0.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (156 bp):
AATCCATGTTTGTCTCATTTGAGGGATGAACTTTGATTTATGGAAAATGGGGCAAAGAAAAGCTT
TTCTTGAAAAGCAAAGCATCAATATCATGTATCCTAATAAGGGAATGTGTTTATGGTGCCTAATC
TTGAAAAGAATGGAGACTATTACGAG
Found at i:52757 original size:318 final size:318
Alignment explanation
Indices: 52171--52829 Score: 672
Period size: 318 Copynumber: 2.1 Consensus size: 318
52161 TGAGGATTTT
* * * * * **
52171 TGGTG-CTCAATCATGAAAAGAATGGAGACTATTACAGGAATCCATGTTCATCTTATTTGAGGGA
1 TGGTGCCT-AATCTTGAAAAGAATGAAGACAATTACAGGAATCCATGTTCATCTCATTTAACAGA
* * * * *
52235 TGAACTTTGATTTTAAAGAAAATAGGGCAGAGAAAGCTTTCCTTGCAAAAGCAAATCATCAATAT
65 TGAACTTTGATTTTAAAGAAAATAAGGAAAAGAAAGCTTTCCTTGCAAAAGCAAACCATAAATAT
* ** * * * * *
52300 CATGTATTCTAATGAGAAAAAGGTGTTTATGGTGGCTAATCTTGAAAAGAATGGAGATTATTATA
130 CATGTATCCTAATGAGAAAAACATGTTTATGATGGCCAATCATGAAAAGAATGAAGATCATTATA
* * * * * *
52365 AGAATCCATGTTTGTCTCATTTAAGAGACAAACTTTGATTCTATCGAAAATGGTGAAACAAAAAA
195 ACAATCCATATTTGTCTCATTTAAGAGACAAACTTAGACTCTATCAAAAATGGTCAAACAAAAAA
** * * * * * ** *
52430 GTTTTTCTTGAG-AGACCAAAGCATCATTGTCATGTATCCCAATGAAGCGAACATGTTTT
260 GCCTTTCTTGAGAAG-CCAAAGCATCAATATCATGTAGCACAATAAAAAGAACATGTTTA
* * * * **
52489 TGGTTCCTAATCTTGAAAAGAATTAAGACAATTATAGGAATCCTTGTTTGTCTCATTTAACAGAT
1 TGGTGCCTAATCTTGAAAAGAATGAAGACAATTACAGGAATCCATGTTCATCTCATTTAACAGAT
* *
52554 GAACTTTGA-TTTAAGGAAAATAAGGAAAAGAAAGGCTTTCCTTG-AGAAAGTAAACCATAAATA
66 GAACTTTGATTTTAAAGAAAATAAGGAAAAGAAA-GCTTTCCTTGCA-AAAGCAAACCATAAATA
* *
52617 TCATTTATCCTAATGAGAAGAACATGTTTATGAT-GCACAATCATGAAAAGAATGAAGATCATTA
129 TCATGTATCCTAATGAGAAAAACATGTTTATGATGGC-CAATCATGAAAAGAATGAAGATCATTA
* *
52681 CT-ACAATCCATATTTGTCTCATTT--GAGGCAAGAACTTAGACTCTA-CAAAAAAATGGTCAGA
193 -TAACAATCCATATTTGTCTCATTTAAGAGAC-A-AACTTAGACTCTATC--AAAAATGGTCAAA
* * * * **
52742 C-GAAATGCCTTTCTTGCGAAGCCAAAGCATCAATATCATGTAGCATAATAAAAAGAATGTGTTT
253 CAAAAAAGCCTTTCTTGAGAAGCCAAAGCATCAATATCATGTAGCACAATAAAAAGAACATGTTT
52806 A
318 A
52807 TGGTGCCTAATCTTGAAAAGAAT
1 TGGTGCCTAATCTTGAAAAGAAT
52830 AAGGATTAAC
Statistics
Matches: 276, Mismatches: 55, Indels: 20
0.79 0.16 0.06
Matches are distributed among these distances:
316 4 0.01
317 25 0.09
318 231 0.84
319 16 0.06
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (318 bp):
TGGTGCCTAATCTTGAAAAGAATGAAGACAATTACAGGAATCCATGTTCATCTCATTTAACAGAT
GAACTTTGATTTTAAAGAAAATAAGGAAAAGAAAGCTTTCCTTGCAAAAGCAAACCATAAATATC
ATGTATCCTAATGAGAAAAACATGTTTATGATGGCCAATCATGAAAAGAATGAAGATCATTATAA
CAATCCATATTTGTCTCATTTAAGAGACAAACTTAGACTCTATCAAAAATGGTCAAACAAAAAAG
CCTTTCTTGAGAAGCCAAAGCATCAATATCATGTAGCACAATAAAAAGAACATGTTTA
Found at i:58992 original size:25 final size:24
Alignment explanation
Indices: 58964--59014 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
58954 TTCTGCCAAC
* *
58964 ATTTTTTTTGTCAACTTTTTCTTTG
1 ATTTCTTTTGCCAACTTTTT-TTTG
58989 ATTTCTTTTGCCAACTTTTTTTTG
1 ATTTCTTTTGCCAACTTTTTTTTG
59013 AT
1 AT
59015 ATGAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.14, C:0.14, G:0.08, T:0.65
Consensus pattern (24 bp):
ATTTCTTTTGCCAACTTTTTTTTG
Found at i:60369 original size:253 final size:258
Alignment explanation
Indices: 60046--60560 Score: 655
Period size: 257 Copynumber: 2.0 Consensus size: 258
60036 TTGAGGCATG
* *
60046 AACCTAGACTCTACGAAAAATGGTGTAAAAAAAGCCATTCTTGTGAAACCAAAGCATCAACATTA
1 AACCTAGACTCTACGAAAAATGGTGAAAAAAAAGCCATTCTTGTGAAACCAAAGCATCAACATCA
* * * *
60111 TGTAT-CT-TAAAAAGAGTGCGTTTA-CGTGCCTAATCTTGAAAAAAATGGGGATTATTATGAAA
66 TGTATCCTATAAAAAGAATACGTTTATCGTGCCTAATCTTGAAAAAAATGAGAATTATTATGAAA
* * * * *
60173 ATACATGTTTGTCTCATTTAAGAGACGAACTTTGATTCTATAAAAAATGGTGATAAAAAAA-ATT
131 ATACAAGTTTATCTCATTTAAGAGACAAACTTTGACTCTATAAAAAATAGTGATAAAAAAACATT
* *
60237 T-TAGCAAAGCCAAACCATCAATGTCATGTATCCCAATTAGGA-TTTTGGTGCCCAATCACAA
196 TCTAGCAAAGCCAAACCATCAATGTCATGTATCACAATGAGGATTTTTGGTGCCCAATCACAA
* * *
60298 AACCTAGCCTCTATGAAAAATGGTGAAAAAAAAAGCCATTCTTGTGAAACCAAAGCATCAATATC
1 AACCTAGACTCTACGAAAAATGGTG-AAAAAAAAGCCATTCTTGTGAAACCAAAGCATCAACATC
* * * * *
60363 ATGTATCCTAATAAGAAGAATATGTTTATGGTGCCTAATCTTGAAAATAATGAGAATTATTATGG
65 ATGTATCCT-ATAAAAAGAATACGTTTATCGTGCCTAATCTTGAAAAAAATGAGAATTATTATGA
* * ** *
60428 GAATCCAAGTTTATCTCATTTAAGAGACAAACTTTGACTCTATGGAAAATAGTGGTAAAAAAAGC
129 AAATACAAGTTTATCTCATTTAAGAGACAAACTTTGACTCTATAAAAAATAGTGATAAAAAAA-C
* * * * * * * *
60493 TTTTCTTGTAAAGCTAAACCATCAATGTCATGTATCATAATGAGTATTTTTGGTGCCTAATCGCA
193 ATTTCTAGCAAAGCCAAACCATCAATGTCATGTATCACAATGAGGATTTTTGGTGCCCAATCACA
60558 A
258 A
60559 AA
1 AA
60561 AGAATGGTGA
Statistics
Matches: 220, Mismatches: 34, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
252 23 0.10
253 42 0.19
254 2 0.01
256 13 0.06
257 84 0.38
259 3 0.01
260 34 0.15
261 19 0.09
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (258 bp):
AACCTAGACTCTACGAAAAATGGTGAAAAAAAAGCCATTCTTGTGAAACCAAAGCATCAACATCA
TGTATCCTATAAAAAGAATACGTTTATCGTGCCTAATCTTGAAAAAAATGAGAATTATTATGAAA
ATACAAGTTTATCTCATTTAAGAGACAAACTTTGACTCTATAAAAAATAGTGATAAAAAAACATT
TCTAGCAAAGCCAAACCATCAATGTCATGTATCACAATGAGGATTTTTGGTGCCCAATCACAA
Found at i:61734 original size:81 final size:80
Alignment explanation
Indices: 61590--61833 Score: 237
Period size: 81 Copynumber: 3.0 Consensus size: 80
61580 GCTGAAATGC
* *
61590 CCCCTCA-AAATACATGA--TTGGAGTACCCCTGATGGTGAGAAATTCGAT-ATTTTGGAAGTAA
1 CCCCTCAGAAATA-ATGAGGTTGGAGTAACCCTAATGGTGA-AAATTCGATAATTTTGGAAGTAA
*
61651 AAACTGGGTTGGAGTAT
64 AAACTGGGTTAGAGTAT
** ** * * *
61668 CCTTTTGGAAATAATGGGGTTGGAGTAACCCTAATGGTGAAAAGTTCAATAATTTTAGAAGTAAA
1 CCCCTCAGAAATAATGAGGTTGGAGTAACCCTAATGGTGAAAA-TTCGATAATTTTGGAAGTAAA
61733 AA-TGGGGTTAGAGTAT
65 AACT-GGGTTAGAGTAT
* * * * * * *
61749 CCCCTCAGAAATGATGAGGCTAGAGTATCCCCAATGGTGAAAATTTTGATATTTTTGGAAGTAAA
1 CCCCTCAGAAATAATGAGGTTGGAGTAACCCTAATGGTGAAAA-TTCGATAATTTTGGAAGTAAA
* *
61814 AACGGGGTCAGAGTAT
65 AACTGGGTTAGAGTAT
61830 CCCC
1 CCCC
61834 GATGATGAAA
Statistics
Matches: 132, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
78 6 0.05
79 8 0.06
80 25 0.19
81 93 0.70
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (80 bp):
CCCCTCAGAAATAATGAGGTTGGAGTAACCCTAATGGTGAAAATTCGATAATTTTGGAAGTAAAA
ACTGGGTTAGAGTAT
Found at i:61874 original size:133 final size:130
Alignment explanation
Indices: 61721--61964 Score: 346
Period size: 133 Copynumber: 1.9 Consensus size: 130
61711 GTTCAATAAT
*
61721 TTTAGAAGTAAAAATGGGGTTAGAGTATCCCCTCAGAAATGAT-GAGGCTAGAGTATCCCCAATG
1 TTTAGAAGTAAAAACGGGGTTAGAGTATCCCCTCAGAAATGATAG-GGCTAGAGTATCCCCAATG
* * *
61785 GTGAAAATTTTGATATTTTTGGAAGTAAAAACGGGGTCAGAGTATCCCCGATGATGAAAATTTTG
65 GTGAAAA-ATCGATA-TTTTGGAAATAAAAACGGGGTCAGAGTATCCCCGATGATGAAAATTTTG
61850 ATA
128 ATA
* ** * *
61853 TTTAGGAAGTAAAAACGGGGTTGGAGTATCCCCTTGGAAATGATAGGGTTGGAGTATCCCCAATG
1 TTTA-GAAGTAAAAACGGGGTTAGAGTATCCCCTCAGAAATGATAGGGCTAGAGTATCCCCAATG
* *
61918 GTGAAAAATCGATATTTTGGAAATAAAAATGGGGTTAGAGTATCCCC
65 GTGAAAAATCGATATTTTGGAAATAAAAACGGGGTCAGAGTATCCCC
61965 TAGGAAATGA
Statistics
Matches: 99, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
131 30 0.30
132 9 0.09
133 59 0.60
134 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (130 bp):
TTTAGAAGTAAAAACGGGGTTAGAGTATCCCCTCAGAAATGATAGGGCTAGAGTATCCCCAATGG
TGAAAAATCGATATTTTGGAAATAAAAACGGGGTCAGAGTATCCCCGATGATGAAAATTTTGATA
Found at i:61883 original size:52 final size:53
Alignment explanation
Indices: 61770--61885 Score: 180
Period size: 52 Copynumber: 2.2 Consensus size: 53
61760 TGATGAGGCT
* *
61770 AGAGTATCCCCAATGGTGAAAATTTTGATATTTTTGGAAGTAAAAACGGGGTC
1 AGAGTATCCCCAATGATGAAAATTTTGATATTTTAGGAAGTAAAAACGGGGTC
* *
61823 AGAGTATCCCCGATGATGAAAATTTTGATA-TTTAGGAAGTAAAAACGGGGTT
1 AGAGTATCCCCAATGATGAAAATTTTGATATTTTAGGAAGTAAAAACGGGGTC
*
61875 GGAGTATCCCC
1 AGAGTATCCCC
61886 TTGGAAATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
52 30 0.52
53 28 0.48
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (53 bp):
AGAGTATCCCCAATGATGAAAATTTTGATATTTTAGGAAGTAAAAACGGGGTC
Found at i:61952 original size:79 final size:80
Alignment explanation
Indices: 61824--61990 Score: 237
Period size: 79 Copynumber: 2.1 Consensus size: 80
61814 AACGGGGTCA
* * * * * *
61824 GAGTATCCCCGATGATGAAAATTTTGATATTTAGGAAGTAAAAACGGGGTTGGAGTATCCCCTTG
1 GAGTATCCCCAATGATGAAAATATCGATATTTAGGAAATAAAAACGGGGTTAGAGTATCCCCTAG
61889 GAAATGATAGGGTTG
66 GAAATGATAGGGTTG
* * *
61904 GAGTATCCCCAATGGTGAAAA-ATCGATATTTTGGAAATAAAAATGGGGTTAGAGTATCCCCTAG
1 GAGTATCCCCAATGATGAAAATATCGATATTTAGGAAATAAAAACGGGGTTAGAGTATCCCCTAG
*
61968 GAAATGATGGGGTTG
66 GAAATGATAGGGTTG
61983 GAGTATCC
1 GAGTATCC
61991 AATAAGATGA
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 58 0.75
80 19 0.25
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (80 bp):
GAGTATCCCCAATGATGAAAATATCGATATTTAGGAAATAAAAACGGGGTTAGAGTATCCCCTAG
GAAATGATAGGGTTG
Found at i:62002 original size:79 final size:79
Alignment explanation
Indices: 61824--62020 Score: 236
Period size: 79 Copynumber: 2.5 Consensus size: 79
61814 AACGGGGTCA
* * * * * * *
61824 GAGTATCCCCGATGATGAAAATTTTGATATTTAGGAAGTAAAAACGGGGTTGGAGTATCCCCTTG
1 GAGTAT-CCCAATGATGAAAAATTCGATATTTTGGAAATAAAAACGGGGTTAGAGTATCCCCTAG
61889 GAAATGATAGGGTTG
65 GAAATGATAGGGTTG
* *
61904 GAGTATCCCCAATGGTGAAAAA-TCGATATTTTGGAAATAAAAATGGGGTTAGAGTATCCCCTAG
1 GAGTAT-CCCAATGATGAAAAATTCGATATTTTGGAAATAAAAACGGGGTTAGAGTATCCCCTAG
*
61968 GAAATGATGGGGTTG
65 GAAATGATAGGGTTG
*
61983 GAGTAT-CCAATAAGATGAAAAATTCGATGCTTTTGGAA
1 GAGTATCCCAAT--GATGAAAAATTCGAT-ATTTTGGAA
62021 GGAAAAATTT
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
77 5 0.05
79 64 0.63
80 24 0.24
81 8 0.08
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.28
Consensus pattern (79 bp):
GAGTATCCCAATGATGAAAAATTCGATATTTTGGAAATAAAAACGGGGTTAGAGTATCCCCTAGG
AAATGATAGGGTTG
Found at i:64398 original size:51 final size:51
Alignment explanation
Indices: 64327--64454 Score: 177
Period size: 51 Copynumber: 2.5 Consensus size: 51
64317 AGCTTGCATT
* * * *
64327 TATCTATACATTGAAGAATGTAT-GATACATTTGGGTCAAAAACCCAGAATG
1 TATCGATACAATGAAAAATGTATCGATACATTTGGG-CAAAAACCCAAAATG
* * *
64378 TATTGATACAATGAAAAATGTATCGATATATTTGGGCTAAAACCCAAAATG
1 TATCGATACAATGAAAAATGTATCGATACATTTGGGCAAAAACCCAAAATG
64429 TATCGATACAATGAAAAATGTATCGA
1 TATCGATACAATGAAAAATGTATCGA
64455 CCCATTTACT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 57 0.84
52 11 0.16
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (51 bp):
TATCGATACAATGAAAAATGTATCGATACATTTGGGCAAAAACCCAAAATG
Found at i:66185 original size:159 final size:156
Alignment explanation
Indices: 65946--66347 Score: 424
Period size: 156 Copynumber: 2.6 Consensus size: 156
65936 AATAGGGTCA
* * * * * *
65946 GAGTATCCCCTT-AAAAATAACGAGGTTGAAGTGTCCTTGATGGTGAAAAATCGATGTTTTGGAA
1 GAGTAT-CCCTTCGAAAATAATGAGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTTGAAA
* * * **
66010 ATAAAA-TTGAGATTGGAGTATCCCCTCGAAAATAATAGGGTTGGGAGTAT-CTCTAATGGCAGA
65 ATAAAACTAG-GGTTGGAGTATCCCCTCGAAAATAA-AGGGGTCAGAG-ATCCT-TAATGG-AGA
66073 AAATCGACGT-TTTGA-AAATAAAATCGAGGTTG
125 AAATCG--GTATTTGAGAAATAAAATCGAGGTTG
* *
66105 GAGTATCCCTTCGAAAATAATGAGGTTGGAGTATCCCTGATTGTGAAAAATTGATGTTTTGAAAA
1 GAGTATCCCTTCGAAAATAATGAGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTTGAAAA
* * * * *
66170 TAAAACTAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTCAGAGATCCTTGATGGTGGAAATCG
66 TAAAACTAGGGTTGGAGTATCCCCTCGAAAATAAAGGGGTCAGAGATCCTTAATGGAGAAAATCG
* *
66235 GTATTTTAGAAATAAAATCGGGGTTG
131 GTATTTGAGAAATAAAATCGAGGTTG
* * * *
66261 GAGTATCCCCTCGGAAATAAT-AGGGTTGGAGTATCCCTCATGGT-AGAAAATCAATGTTTT-AT
1 GAGTATCCCTTCGAAAATAATGA-GGTTGGAGTATCCCTGATGGTGA-AAAATCGATGTTTTGA-
*
66323 AAATAAAACTGGGGTTGGAGTATCC
63 AAATAAAACTAGGGTTGGAGTATCC
66348 TTTTAAAAAT
Statistics
Matches: 208, Mismatches: 27, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
154 2 0.01
155 7 0.03
156 97 0.47
157 7 0.03
158 14 0.07
159 79 0.38
160 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (156 bp):
GAGTATCCCTTCGAAAATAATGAGGTTGGAGTATCCCTGATGGTGAAAAATCGATGTTTTGAAAA
TAAAACTAGGGTTGGAGTATCCCCTCGAAAATAAAGGGGTCAGAGATCCTTAATGGAGAAAATCG
GTATTTGAGAAATAAAATCGAGGTTG
Found at i:66293 original size:156 final size:158
Alignment explanation
Indices: 66088--66409 Score: 413
Period size: 156 Copynumber: 2.1 Consensus size: 158
66078 GACGTTTTGA
* * *
66088 AAATAAAATCGAGGTTGGAGTATCCCTTCGAAAATAATGAGGTTGGAGTATCCCTGATTGT-GAA
1 AAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAATGAGGTTGGAGTATCCCTCATGGTAG-A
** * *
66152 AAATTGATGTTTTGA-AAATAAAACTAGGGTTGGAGTATCCCTTCGAAAATAA-CGGGGTCAGAG
65 AAATCAATGTTTT-ATAAATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAATC-AGGTCAGAG
**
66215 -ATCCTTGATGGTGG-AAATCGGTATTTTAG
128 TATCCCCGATGGTGGAAAATCGGTATTTTAG
* *
66244 AAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAAT-AGGGTTGGAGTATCCCTCATGGTAGA
1 AAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAATGA-GGTTGGAGTATCCCTCATGGTAGA
* * * **
66308 AAATCAATGTTTTATAAATAAAACTGGGGTTGGAGTATCCTTTTAAAAATAATCAGGTTGGAGTA
65 AAATCAATGTTTTATAAATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAATCAGGTCAGAGTA
*
66373 TCCCCGATGGTGGAAAATCGGTGTTTTAG
130 TCCCCGATGGTGGAAAATCGGTATTTTAG
66402 AAATAAAA
1 AAATAAAA
66410 CCATCAATGA
Statistics
Matches: 143, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
155 2 0.01
156 105 0.73
157 14 0.10
158 22 0.15
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (158 bp):
AAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAATGAGGTTGGAGTATCCCTCATGGTAGAA
AATCAATGTTTTATAAATAAAACTAGGGTTGGAGTATCCCTTCAAAAATAATCAGGTCAGAGTAT
CCCCGATGGTGGAAAATCGGTATTTTAG
Found at i:66359 original size:235 final size:237
Alignment explanation
Indices: 65979--66410 Score: 595
Period size: 235 Copynumber: 1.8 Consensus size: 237
65969 GGTTGAAGTG
* * *
65979 TCCTTGATGGTGAAAAATCGATGTTTTGGAAATAAAATTGAGATTGGAGTATCCCCTCGAAAATA
1 TCCTTGATGGTGAAAAATCGATATTTTAGAAATAAAATCGAGATTGGAGTATCCCCTCGAAAATA
* *
66044 ATAGGGTTGGGAGTATCTCTAATGGCAGAAAATCGACGTTTTGAAAATAAAATCGAGGTTGGAGT
66 ATAGGGTTGGGAGTATCCCTAATGGCAGAAAATCAACGTTTTGAAAATAAAATCGAGGTTGGAGT
* * * * *
66109 ATCCCTTCGAAAATAATGAGGTTGGAGTATCCCTGATTGTGAAAAATTGATGTTTT-GAAAATAA
131 ATCCCTTCAAAAATAATCAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAG-AAATAA
66173 AACTAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTCAGAGA
195 AACTAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTCAGAGA
* * * * *
66216 TCCTTGATGGTG-GAAATCGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATA
1 TCCTTGATGGTGAAAAATCGATATTTTAGAAATAAAATCGAGATTGGAGTATCCCCTCGAAAATA
* * * *
66280 ATAGGGTT-GGAGTATCCCTCATGGTAGAAAATCAATGTTTT-ATAAATAAAA-CTGGGGTTGGA
66 ATAGGGTTGGGAGTATCCCTAATGGCAGAAAATCAACGTTTTGA-AAATAAAATC-GAGGTTGGA
* * * *
66342 GTATCCTTTTAAAAATAATCAGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATA
129 GTATCCCTTCAAAAATAATCAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATA
66407 AAAC
194 AAAC
66411 CATCAATGAA
Statistics
Matches: 169, Mismatches: 23, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
234 2 0.01
235 102 0.60
236 53 0.31
237 12 0.07
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (237 bp):
TCCTTGATGGTGAAAAATCGATATTTTAGAAATAAAATCGAGATTGGAGTATCCCCTCGAAAATA
ATAGGGTTGGGAGTATCCCTAATGGCAGAAAATCAACGTTTTGAAAATAAAATCGAGGTTGGAGT
ATCCCTTCAAAAATAATCAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAAATAAA
ACTAGGGTTGGAGTATCCCTTCGAAAATAACGGGGTCAGAGA
Found at i:66410 original size:79 final size:79
Alignment explanation
Indices: 65946--66410 Score: 419
Period size: 79 Copynumber: 5.9 Consensus size: 79
65936 AATAGGGTCA
** * * * * *
65946 GAGTATCCCCTTAAAAATAA-CGAGGTTGAAGTGTCCTTGATGGTGAAAAATCGATGTTTTGGAA
1 GAGTATCCCCTCGAAAATAATC-AGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAA
* * *
66010 ATAAAATTGAGATTG
65 ATAAAACTGGGGTTG
* * ** *
66025 GAGTATCCCCTCGAAAATAAT-AGGGTTGGGAGTATCTCTAATGGCAGAAAATCGACGTTTT-GA
1 GAGTATCCCCTCGAAAATAATCA-GGTT-GGAGTATCCCTGATGGTGGAAAATCGATGTTTTAG-
*
66088 AAATAAAA-TCGAGGTTG
63 AAATAAAACT-GGGGTTG
* * * * *
66105 GAGTATCCCTTCGAAAATAATGAGGTTGGAGTATCCCTGATTGTGAAAAATTGATGTTTT-GAAA
1 GAGTATCCCCTCGAAAATAATCAGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAG-AA
*
66169 ATAAAACTAGGGTTG
65 ATAAAACTGGGGTTG
* * ** * * *
66184 GAGTATCCCTTCGAAAATAA-CGGGGTCAGAG-ATCCTTGATGGTGG-AAATCGGTATTTTAGAA
1 GAGTATCCCCTCGAAAATAATC-AGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAA
66246 ATAAAA-TCGGGGTTG
65 ATAAAACT-GGGGTTG
* * * * *
66261 GAGTATCCCCTCGGAAATAAT-AGGGTTGGAGTATCCCTCATGGTAGAAAATCAATGTTTTATAA
1 GAGTATCCCCTCGAAAATAATCA-GGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAA
66325 ATAAAACTGGGGTTG
65 ATAAAACTGGGGTTG
** ** * *
66340 GAGTATCCTTTTAAAAATAATCAGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAA
1 GAGTATCCCCTCGAAAATAATCAGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAA
66405 TAAAAC
66 TAAAAC
66411 CATCAATGAA
Statistics
Matches: 313, Mismatches: 57, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
76 1 0.00
77 48 0.15
78 24 0.08
79 174 0.56
80 65 0.21
81 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
GAGTATCCCCTCGAAAATAATCAGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAA
TAAAACTGGGGTTG
Found at i:66984 original size:35 final size:35
Alignment explanation
Indices: 66864--66996 Score: 142
Period size: 35 Copynumber: 3.7 Consensus size: 35
66854 AAAGGCATCT
*
66864 TGCTCTTTGAGGACAAAGGAAAAA-GAGTACGTCC
1 TGCTCTTTGAGGACAAAGGAAAAAGGAGTACGTCA
* * * *
66898 TGCTCTTCGAGGACAAAGGAAAAGAGAATGAAATAGGTCT
1 TGCTCTTTGAGGACAAAGGAAAA-AG---G-AGTACGTCA
*
66938 TGCTCCTTGAGGACAAAGGAAAAAGGAGTACGTCA
1 TGCTCTTTGAGGACAAAGGAAAAAGGAGTACGTCA
* *
66973 TGCTCTTTGAGGATAAAAGAAAAA
1 TGCTCTTTGAGGACAAAGGAAAAA
66997 AGGAAATTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
34 22 0.27
35 28 0.35
36 1 0.01
39 3 0.04
40 27 0.33
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.20
Consensus pattern (35 bp):
TGCTCTTTGAGGACAAAGGAAAAAGGAGTACGTCA
Found at i:67000 original size:43 final size:42
Alignment explanation
Indices: 66970--67127 Score: 203
Period size: 42 Copynumber: 3.8 Consensus size: 42
66960 AAGGAGTACG
* *
66970 TCATGCTCTTTGAGGATAAAAGAAAAAAGGAAATTAAA-TGCA
1 TCATGCTCTTTGAGGACAAAGGAAAAAAGGAAA-TAAAGTGCA
* *
67012 TCCTGCTCTTTGAGGACAAAGGAAAAGAAGGAAATGAAGTGCA
1 TCATGCTCTTTGAGGACAAAGGAAAA-AAGGAAATAAAGTGCA
* * **
67055 TCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTGTG
1 TCATGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGCA
*
67097 TCATGCTCTTTGAGGACAAAGG-GAAAAGGAA
1 TCATGCTCTTTGAGGACAAAGGAAAAAAGGAA
67128 TTGAGTCTTG
Statistics
Matches: 105, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
41 9 0.09
42 60 0.57
43 36 0.34
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (42 bp):
TCATGCTCTTTGAGGACAAAGGAAAAAAGGAAATAAAGTGCA
Found at i:67457 original size:62 final size:62
Alignment explanation
Indices: 67263--67699 Score: 602
Period size: 62 Copynumber: 7.1 Consensus size: 62
67253 GGACAAATGA
*
67263 GAAAAGGAAATGG-GTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * *
67325 -AAAA-AAAAGGCGTCCTGCTCGTTGAAGACT-AAAGGGTGCCACCAACTCATGTGGGCTTT
1 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * *
67384 GAAAAGAAAAAGGCGTCTTACTCTTTAAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * * * *
67447 GAAAAGAAAAGGTGTCCTGCTTTTTGAGGAGTACAAGGGTGCCACCAACTCATGTGGGCTTT
1 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
* * *
67509 GAAAA-AAGAAAGTGTCCTACTCTTTGAGGAC-AAAAGGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAAGAA-AAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
* *
67570 GAAAAGGAAAAGGCGTCCTGCTCTTTGAGGA-AAAAAAGGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
* *
67632 GAAAAGGAAAAGGCGTCCTGCTTTTTGAGGACCAAAA-GGTGCCACCAACTCGTGTGGGCTTT
1 GAAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
67694 GAAAAG
1 GAAAAG
67700 GACTATTTTG
Statistics
Matches: 335, Mismatches: 30, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
59 33 0.10
60 21 0.06
61 40 0.12
62 201 0.60
63 40 0.12
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (62 bp):
GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGGTGCCACCAACTCGTGTGGGCTTT
Found at i:69027 original size:156 final size:155
Alignment explanation
Indices: 68684--69886 Score: 1034
Period size: 156 Copynumber: 7.8 Consensus size: 155
68674 TCATTGGGTC
* * *
68684 TGCTTTTATGCCAAAGGTGGGTATTTAGGATAAGTTCATCCCATTTCTAGTCCTTTTTAAGTCTT
1 TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTCTAGTCCTTTTTAAGTCTT
** * * *
68749 TTAGATGTACCAGGATACTTTCACGTCCAAGGTATCCCTA-GGAGCATTTTCATAATTTTTTAAA
66 TTAGGGGTATCAGGATACTTTCACGTCGAAGGTATCCCTATGG-GCATTTTCATAATTTTTTAGA
* * *
68813 ATCGAATCCTAAGTTATAACCG-GATG
130 ATCGAGTCCTAGGTTATAACCGAG-TA
**
68839 TGCTTTTATGTGGAAGGTGGGTATTTAGGATAGGTTCA-CCTCTTTTCTAGTCCTTTTTAAGT-T
1 TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCC-CTTTTCTAGTCCTTTTTAAGTCT
** * **
68902 CTTTAGGGGTATGGGGATACTTTCACGTTGAAGGTATCCTCTATGGGCATTTTTGTAATTTTTTA
65 -TTTAGGGGTATCAGGATACTTTCACGTCGAAGGTATCC-CTATGGGCATTTTCATAATTTTTTA
* *
68967 GAATCGAGTCCTAAGTTATAATCGAGTA
128 GAATCGAGTCCTAGGTTATAACCGAGTA
* * *
68995 TGCTTTTATGCCAAAAGTGGGTATTTATGATAGGTTCA-CCCTTTTTCTAGTCCTTTTTAAGTCT
1 TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCC-TTTTCTAGTCCTTTTTAAGTCT
* * * *
69059 TTTAGGGGTATAAGGATACTTTCAAGTCGAAGGTATCCCCTAAGGGTATTTTCATAATTTTATTA
65 TTTAGGGGTATCAGGATACTTTCACGTCGAAGGTAT-CCCTATGGGCATTTTCATAATTTT-TTA
* * *
69124 GAATCGAGTCCTAGGTTATCACCGGGTC
128 GAATCGAGTCCTAGGTTATAACCGAGTA
* * * *
69152 TGATTTTCTGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTCTAGTCCTTTTTAAGTCTT
1 TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTCTAGTCCTTTTTAAGTCTT
* * * * * *
69217 TTAAGAGTA-CTGGGATACTTTCACGTCGAAGGTATCTCTTAAGGGCATTTTCATAATTTTTCAG
66 TTAGGGGTATC-AGGATACTTTCACGTCGAAGGTATC-CCTATGGGCATTTTCATAATTTTTTAG
* * * *
69281 AATTGAGTCCTAGGTTGTCACCGAGTT
129 AATCGAGTCCTAGGTTATAACCGAGTA
* * * * ** * * * **
69308 TACTTTTATGCCGAAGGTAGATAATTAGGATAGGTTCATCCCTTTTAAAATCCTCTTTAAATCCC
1 TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTCTAGTCCTTTTTAAGTCTT
* * * * *
69373 TTAGGGGT-TC-GGGTACTTTTACGTCAAAGG--------TGGCGTATTTTCGTAATTTTTTAGA
66 TTAGGGGTATCAGGATACTTTCACGTCGAAGGTATCCCTATGG-GCATTTTCATAATTTTTTAGA
* * * * * *
69428 ACCAAGTCCTAAGTTATAATCGGGTC
130 ATCGAGTCCTAGGTTATAACCGAGTA
* * * * *
69454 CGCTTTTATGCCGAAGGTGGGTATTTATGATAGATTCATCCCTTTGAC-AG-CCTTTTTAAGTCC
1 TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTT-TCTAGTCCTTTTTAAGTCT
* ** * * * *
69517 TTTAGGGGTATCAGG-TACTTTTACGTTAAAAGTATCCCTAGGGGGTATTTTCATAA-TTTTCAG
65 TTTAGGGGTATCAGGATACTTTCACGTCGAAGGTATCCCTA-TGGGCATTTTCATAATTTTTTAG
* * *
69580 AACCGAGTCCTAGGTTATCACCG-GTT
129 AATCGAGTCCTAGGTTATAACCGAGTA
* * * * * * * * *
69606 TCGCTTTTATGTCGAAGGTAGGTATTTAGGACAAGTTTAGCCCTTTTATAATCCTTTTTAAGTCA
1 T-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTCTAGTCCTTTTTAAGTCT
** * * * ** *
69671 TTTAGGACTACCAAGATACTTTCACATCGAAGACATCCC-ATAGGAGCATTTTCGTAATTTTTTA
65 TTTAGGGGTATCAGGATACTTTCACGTCGAAGGTATCCCTAT-GG-GCATTTTCATAATTTTTTA
* * **
69735 GAATCAAGTCTTAGGTTATAA-TTAGGTA
128 GAATCGAGTCCTAGGTTATAACCGA-GTA
* * ** * * *
69763 CGTTTTTATGCCGAATATGGGCATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAATTCTT
1 TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTCTAGTCCTTTTTAAGTCTT
* * * * *
69828 TTAGGGGTATTAGG-TAC-TTCTATGTCGAAGGTATCCCCAAGAGGCATTTTCGTAATTTT
66 TTAGGGGTATCAGGATACTTTC-ACGTCGAAGGTATCCCTATG-GGCATTTTCATAATTTT
69887 CCTTGAAGTT
Statistics
Matches: 840, Mismatches: 170, Indels: 76
0.77 0.16 0.07
Matches are distributed among these distances:
145 21 0.03
146 91 0.11
147 2 0.00
152 2 0.00
153 62 0.07
154 60 0.07
155 146 0.17
156 315 0.38
157 138 0.16
158 3 0.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (155 bp):
TGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTCTAGTCCTTTTTAAGTCTT
TTAGGGGTATCAGGATACTTTCACGTCGAAGGTATCCCTATGGGCATTTTCATAATTTTTTAGAA
TCGAGTCCTAGGTTATAACCGAGTA
Found at i:69265 original size:313 final size:312
Alignment explanation
Indices: 68684--69886 Score: 907
Period size: 313 Copynumber: 3.9 Consensus size: 312
68674 TCATTGGGTC
* *
68684 TGCTTTTATGCCAAAGGTGGGTATTTAGGATAAGTTCATCCC-ATTTCTAGTCCTTTTTAAGTCT
1 TGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTTCTAGTCCTTTTTAAGTCT
* * *
68748 TTTAGATGTACCAGGATACTTTCACGTCCAAGGTATCCCTAGGAGCATTTTCATAATTTTTTAAA
66 TTTAGAGGTACAAGGATACTTTCAAGTCCAAGGTATCCCTAGGAGCATTTTCATAATTTTTTAAA
* * *
68813 ATCGAATCCTAAGTTATAACCGGATGTGCTTTTATGTGGAAGGTGGGTATTTAGGATAGGTTCAC
131 ATCGAATCCTAAGTTATAACCGGATCTGATTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCAC
* * * *
68878 CTCTTTTCTAGTCCTTTTTAAGTTCTTTAGGGGTATGGGGATACTTTCACGTTGAAGGTATCCTC
196 CTCATTTCTAGTCCTTTTTAAGTTCTTTAAGAGTATGGGGATACTTTCACGTCGAAGGTATCCTC
* ** * *
68943 TATGGGCATTTTTGTAATTTTTTAGAATCGAGTCCTAAGTTATAATCGAGTA
261 TAAGGGCATTTTCATAATTTTTCAGAATCGAGTCCTAAGTTATAACCGAGTA
* *
68995 TGCTTTTATGCCAAAAGTGGGTATTTATGATAGGTTCA-CCCTTTTTCTAGTCCTTTTTAAGTCT
1 TGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTTCTAGTCCTTTTTAAGTCT
* * * *
69059 TTTAGGGGTATAAGGATACTTTCAAGTCGAAGGTATCCCCTAAGG-GTATTTTCATAATTTTATT
66 TTTAGAGGTACAAGGATACTTTCAAGTCCAAGGTAT-CCCT-AGGAGCATTTTCATAATTTT-TT
* * * * * *
69123 AGAATCGAGTCCTAGGTTATCACCGGGTCTGATTTTCTGTCGAAGGTGGGTATTTAGGATAGGTT
128 AAAATCGAATCCTAAGTTATAACCGGATCTGATTTTATGTCGAAGGTGGGTATTTAGGATAGGTT
69188 CATCC-CATTTCTAGTCCTTTTTAAG-TCTTTTAAGAGTACT-GGGATACTTTCACGTCGAAGGT
193 CA-CCTCATTTCTAGTCCTTTTTAAGTTC-TTTAAGAGTA-TGGGGATACTTTCACGTCGAAGGT
* * * * *
69250 AT-CTCTTAAGGGCATTTTCATAATTTTTCAGAATTGAGTCCTAGGTTGTCACCGAGTT
255 ATCCTC-TAAGGGCATTTTCATAATTTTTCAGAATCGAGTCCTAAGTTATAACCGAGTA
* * * * * ** * * * *
69308 TACTTTTATGCCGAAGGTAGATAATTAGGATAGGTTCATCCC-TTTTAAAATCCTCTTTAAATCC
1 TGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTTCTAGTCCTTTTTAAGTCT
* * * * * * * * * * *
69372 CTTAGGGGTTC--GGGTACTTTTACGTCAAAGG------T-GGCGTATTTTCGTAATTTTTTAGA
66 TTTAGAGGTACAAGGATACTTTCAAGTCCAAGGTATCCCTAGGAGCATTTTCATAATTTTTTAAA
* * * * * * * *
69428 A-CCAAGTCCTAAGTTATAATCGGGTCCGCTTTTATGCCGAAGGTGGGTATTTATGATAGATTCA
131 ATCGAA-TCCTAAGTTATAACCGGATCTGATTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCA
* * * ** * ** *
69492 TCC-C-TTTGAC-AG-CCTTTTTAAGTCCTTTAGGGGTATCAGG-TACTTTTACGTTAAAAGTAT
195 -CCTCATTT--CTAGTCCTTTTTAAGTTCTTTAAGAGTATGGGGATACTTTCACGTCGAAGGTAT
* * * * * *
69552 CC-CTAGGGGGTATTTTCATAA-TTTTCAGAACCGAGTCCTAGGTTATCACCG-GTT
257 CCTCTA-AGGGCATTTTCATAATTTTTCAGAATCGAGTCCTAAGTTATAACCGAGTA
* * * * * * * * *
69606 TCGCTTTTATGTCGAAGGTAGGTATTTAGGACAAGTTTAGCCC-TTTTATAATCCTTTTTAAGTC
1 T-GCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTTCTAGTCCTTTTTAAGTC
* * * ** *
69670 ATTTAG-GACTACCAA-GATACTTTCACA-TCGAAGACATCCCATAGGAGCATTTTCGTAATTTT
65 TTTTAGAG-GTA-CAAGGATACTTTCA-AGTCCAAGGTATCCC-TAGGAGCATTTTCATAATTTT
* * * ** * * ** *
69732 TTAGAATC-AAGTCTTAGGTTATAATTAGG-TAC-GTTTTTATGCCGAATATGGGCATTTAGGAT
126 TTAAAATCGAA-TCCTAAGTTATAA-CCGGAT-CTGATTTTATGTCGAAGGTGGGTATTTAGGAT
* * * * ** *
69794 AGGTTCATCC-CTTTTATAGTCCTTTTTAA-TTCTTTTAGGGGTATTAGG-TAC-TTCTATGTCG
188 AGGTTCA-CCTCATTTCTAGTCCTTTTTAAGTTC-TTTAAGAGTATGGGGATACTTTC-ACGTCG
* *
69855 AAGGTATCC-CCAAGAGGCATTTTCGTAATTTT
250 AAGGTATCCTCTAAG-GGCATTTTCATAATTTT
69887 CCTTGAAGTT
Statistics
Matches: 729, Mismatches: 122, Indels: 82
0.78 0.13 0.09
Matches are distributed among these distances:
298 5 0.01
299 85 0.12
300 32 0.04
301 39 0.05
302 64 0.09
303 16 0.02
304 1 0.00
308 1 0.00
309 80 0.11
310 61 0.08
311 105 0.14
312 24 0.03
313 210 0.29
314 6 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (312 bp):
TGCTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTTCTAGTCCTTTTTAAGTCT
TTTAGAGGTACAAGGATACTTTCAAGTCCAAGGTATCCCTAGGAGCATTTTCATAATTTTTTAAA
ATCGAATCCTAAGTTATAACCGGATCTGATTTTATGTCGAAGGTGGGTATTTAGGATAGGTTCAC
CTCATTTCTAGTCCTTTTTAAGTTCTTTAAGAGTATGGGGATACTTTCACGTCGAAGGTATCCTC
TAAGGGCATTTTCATAATTTTTCAGAATCGAGTCCTAAGTTATAACCGAGTA
Found at i:69772 original size:455 final size:459
Alignment explanation
Indices: 68950--69809 Score: 1065
Period size: 455 Copynumber: 1.9 Consensus size: 459
68940 CTCTATGGGC
* * * *
68950 ATTTTTGTAATTTTTTAGAATCGAGTCCTAAGTTATAATCGAGTATGCTTTTATGCCAAAAGTGG
1 ATTTTCGTAATTTTTTAGAACCAAGTCCTAAGTTATAATCGAGTACGCTTTTATGCCAAAAGTGG
* ** *
69015 GTATTTATGATAGGTTCACCCTTTTTCTAGTCCTTTTTAAGTCTTTTAGGGGTATAAGGATACTT
66 GTATTTATGATAGATTCACCCTTTGACTAGTCCTTTTTAAGTCCTTTAGGGGTATAAGGATACTT
* * * *
69080 TCAAGTCGAAGGTATCCCCTAAGGGTATTTTCATAATTTTATTAGAATCGAGTCCTAGGTTATCA
131 TCAAGTCAAAAGTATCCCCTAAGGGTATTTTCATAATTTTATCAGAACCGAGTCCTAGGTTATCA
* * * * * * *
69145 CCGGGTCTGATTTTCTGTCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTCTAGTCCTTTTT
196 CCGGGTCTGATTTTATGTCGAAGGTAGGTATTTAGGACAAGTTCAGCCCATTTATAATCCTTTTT
* * *** * ** * *
69210 AAGTCTTTTAAGAGTACTGGGATACTTTCACGTCGAAGGTATCTCTTAAGGGCATTTTCATAATT
261 AAGTCATTTAAGACTACCAAGATACTTTCACATCGAAGACATCCCATAAGGGCATTTTCATAATT
** * * * * *
69275 TTTCAGAATTGAGTCCTAGGTTGTCACCGAGTTTACTTTTATGCCGAAGGTAGATAATTAGGATA
326 TTTCAGAATCAAGTCCTAGGTTATCAACGAGTGTACTTTTATGCCGAAGATAGACAATTAGGATA
69340 GGTTCATCCCTTTTAAAATCCTCTTTAAATCCCTTAGGGGTTCGGGTACTTTTACGTCAAAGGTG
391 GGTTCATCCCTTTTAAAATCCTCTTTAAATCCCTTAGGGGTTCGGGTACTTTTACGTCAAAGGTG
69405 GCGT
456 GCGT
* * * *
69409 ATTTTCGTAATTTTTTAGAACCAAGTCCTAAGTTATAATCGGGTCCGCTTTTATGCCGAAGGTGG
1 ATTTTCGTAATTTTTTAGAACCAAGTCCTAAGTTATAATCGAGTACGCTTTTATGCCAAAAGTGG
*
69474 GTATTTATGATAGATTCATCCCTTTGAC-AG-CCTTTTTAAGTCCTTTAGGGGTATCAGG-TACT
66 GTATTTATGATAGATTCA-CCCTTTGACTAGTCCTTTTTAAGTCCTTTAGGGGTATAAGGATACT
* * * *
69536 TTTACGTTAAAAGTAT-CCCTAGGGGGTATTTTCATAA-TTT-TCAGAACCGAGTCCTAGGTTAT
130 TTCAAGTCAAAAGTATCCCCTA-AGGGTATTTTCATAATTTTATCAGAACCGAGTCCTAGGTTAT
* * * *
69598 CACC-GGTTTCGCTTTTATGTCGAAGGTAGGTATTTAGGACAAGTTTAGCCCTTTTATAATCCTT
194 CACCGGGTCT-GATTTTATGTCGAAGGTAGGTATTTAGGACAAGTTCAGCCCATTTATAATCCTT
* *
69662 TTTAAGTCATTTAGGACTACCAAGATACTTTCACATCGAAGACATCCCAT-AGGAGCATTTTCGT
258 TTTAAGTCATTTAAGACTACCAAGATACTTTCACATCGAAGACATCCCATAAGG-GCATTTTCAT
* * ** * * * *
69726 AATTTTTTAGAATCAAGTCTTAGGTTAT-AATTAG-GTACGTTTTTATGCCGAATATGGGCATTT
322 AATTTTTCAGAATCAAGTCCTAGGTTATCAACGAGTGTAC--TTTTATGCCGAAGATAGACAATT
69789 AGGATAGGTTCATCCCTTTTA
385 AGGATAGGTTCATCCCTTTTA
69810 TAGTCCTTTT
Statistics
Matches: 336, Mismatches: 59, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
453 3 0.01
454 10 0.03
455 177 0.53
456 8 0.02
457 29 0.09
458 26 0.08
459 76 0.23
460 7 0.02
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.38
Consensus pattern (459 bp):
ATTTTCGTAATTTTTTAGAACCAAGTCCTAAGTTATAATCGAGTACGCTTTTATGCCAAAAGTGG
GTATTTATGATAGATTCACCCTTTGACTAGTCCTTTTTAAGTCCTTTAGGGGTATAAGGATACTT
TCAAGTCAAAAGTATCCCCTAAGGGTATTTTCATAATTTTATCAGAACCGAGTCCTAGGTTATCA
CCGGGTCTGATTTTATGTCGAAGGTAGGTATTTAGGACAAGTTCAGCCCATTTATAATCCTTTTT
AAGTCATTTAAGACTACCAAGATACTTTCACATCGAAGACATCCCATAAGGGCATTTTCATAATT
TTTCAGAATCAAGTCCTAGGTTATCAACGAGTGTACTTTTATGCCGAAGATAGACAATTAGGATA
GGTTCATCCCTTTTAAAATCCTCTTTAAATCCCTTAGGGGTTCGGGTACTTTTACGTCAAAGGTG
GCGT
Found at i:75556 original size:17 final size:17
Alignment explanation
Indices: 75534--75576 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
75524 ACAATTTTTA
75534 AAAATAAA-AAATATAAT
1 AAAATAAATAAA-ATAAT
75551 AAAATAAATAAAATAAT
1 AAAATAAATAAAATAAT
75568 -AAATAAATA
1 AAAATAAATA
75577 TTATTTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.36
17 13 0.52
18 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAATAAATAAAATAAT
Found at i:75560 original size:21 final size:21
Alignment explanation
Indices: 75535--75574 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
75525 CAATTTTTAA
75535 AAATAAAA-AATATAATAAAAT
1 AAATAAAATAATA-AATAAAAT
75556 AAATAAAATAATAAATAAA
1 AAATAAAATAATAAATAAA
75575 TATTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAAAATAATAAATAAAAT
Found at i:75626 original size:183 final size:177
Alignment explanation
Indices: 75251--75688 Score: 618
Period size: 183 Copynumber: 2.4 Consensus size: 177
75241 CATTTTAATC
* * *
75251 ATTTTTATATATTTCTATT-TTTTATGGTTGTCCATAAAGATATAGAAATATTTAAAACATTTCG
1 ATTTTTATATATTTTTATTATTTTATGGTTGTCCATAAAGGTATAGAAATATTTAAAACTTTTCG
*
75315 TATCTTTTCGGTTTTCCATTAAAGTACGAAATAAAATTTCAAAAATTAAAAATAAAATAAATAAA
66 TATCTTTTCGGTTTTCCATTAAAGTACGAAATAAAATTTCAAAAATAAAAAATAAAATAAATAAA
75380 ATAATAACAAAATATTATTTTATCACTAAATTAAAATTATTATCTTA
131 ATAATAACAAAATATTATTTTATCACTAAATTAAAATTATTATCTTA
* *
75427 ATTTTTATATATTTTTATTATTCTTATGGTTATCCATAAGGGTATAGAAATATTTAAAA-TTGTT
1 ATTTTTATATATTTTTATTATT-TTATGGTTGTCCATAAAGGTATAGAAATATTTAAAACTT-TT
* * *
75491 CGTATATTTTCGGTTTTCCATT-AAGTTACG-AATACAATTTTTAAAAATAAAAAATATAATAAA
64 CGTATCTTTTCGGTTTTCCATTAAAG-TACGAAATA-AAATTTCAAAAAT---AAA-A-AATAAA
75554 ATAAATAAAATAATAA-ATAAATATTATTTTATCACTAAATTAAAATTATTATCTTAA
122 ATAAATAAAATAATAACA-AAATATTATTTTATCACTAAATTAAAATTATTATCTT-A
* *
75611 ATTTTTA-AGATTTTTATTATTGTTATGGTTGTCCGTAAAGGTATAGAAATATTTAAAACTTTTC
1 ATTTTTATATATTTTTATTATT-TTATGGTTGTCCATAAAGGTATAGAAATATTTAAAACTTTTC
*
75675 GTATCTTTTTGGTT
65 GTATCTTTTCGGTT
75689 CTCTATTTAG
Statistics
Matches: 233, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
176 18 0.08
177 10 0.04
178 71 0.30
181 2 0.01
182 2 0.01
183 120 0.52
184 10 0.04
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (177 bp):
ATTTTTATATATTTTTATTATTTTATGGTTGTCCATAAAGGTATAGAAATATTTAAAACTTTTCG
TATCTTTTCGGTTTTCCATTAAAGTACGAAATAAAATTTCAAAAATAAAAAATAAAATAAATAAA
ATAATAACAAAATATTATTTTATCACTAAATTAAAATTATTATCTTA
Found at i:82312 original size:48 final size:49
Alignment explanation
Indices: 82246--82346 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 49
82236 AATTTGAAAA
82246 TAAGAAAACAAAAATTTGAAAAATAATATTCTTTTGTTCAACCTTTGCT
1 TAAGAAAACAAAAATTTGAAAAATAATATTCTTTTGTTCAACCTTTGCT
82295 TAAG-AAACAAAAATTTGAAAAATAATATTCTTTTGTTCAACCTTTGCT
1 TAAGAAAACAAAAATTTGAAAAATAATATTCTTTTGTTCAACCTTTGCT
82343 TAAG
1 TAAG
82347 CTTAAAAGGT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 48 0.92
49 4 0.08
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.37
Consensus pattern (49 bp):
TAAGAAAACAAAAATTTGAAAAATAATATTCTTTTGTTCAACCTTTGCT
Found at i:85774 original size:13 final size:13
Alignment explanation
Indices: 85756--85781 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85746 TACAGCAAGT
85756 ATGTATCGATACA
1 ATGTATCGATACA
85769 ATGTATCGATACA
1 ATGTATCGATACA
85782 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:88043 original size:21 final size:22
Alignment explanation
Indices: 87997--88041 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
87987 TTGCAAGTTG
87997 AAATAAAGAAGTTAGCTAATGA
1 AAATAAAGAAGTTAGCTAATGA
*
88019 AAATAATG-AGTTAGCTAA-GA
1 AAATAAAGAAGTTAGCTAATGA
88039 AAA
1 AAA
88042 ATGAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 10 0.45
22 7 0.32
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAATGA
Found at i:89865 original size:15 final size:15
Alignment explanation
Indices: 89845--89875 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
89835 TAAAAATGTC
*
89845 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
89860 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
89875 C
1 C
89876 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:91972 original size:13 final size:13
Alignment explanation
Indices: 91954--91992 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
91944 ACATTTTTCC
91954 TTGTATCGATACA
1 TTGTATCGATACA
91967 TTGTATCGATACA
1 TTGTATCGATACA
91980 TTGTATCGATACA
1 TTGTATCGATACA
91993 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:92156 original size:20 final size:20
Alignment explanation
Indices: 92113--92158 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
92103 AAATCTTTTG
92113 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
92134 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
92154 CAAAA
1 CAAAA
92159 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:94553 original size:13 final size:13
Alignment explanation
Indices: 94535--94560 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94525 TACAGCAAGT
94535 ATGTATCGATACA
1 ATGTATCGATACA
94548 ATGTATCGATACA
1 ATGTATCGATACA
94561 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:95475 original size:22 final size:20
Alignment explanation
Indices: 95445--95485 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
95435 TAGTTGTAGA
95445 AAATATAAATTAGCTATAAATT
1 AAATATAAATT-GCTA-AAATT
*
95467 AAATGTAAATTGCTAAAAT
1 AAATATAAATTGCTAAAAT
95486 CATGGGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 10 0.56
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (20 bp):
AAATATAAATTGCTAAAATT
Found at i:98990 original size:155 final size:156
Alignment explanation
Indices: 98722--99018 Score: 404
Period size: 155 Copynumber: 1.9 Consensus size: 156
98712 AATTTTTCTT
* * *
98722 AAAAGTATTAATTCAATTTAATATTATTTATTTCGAAAATACCATTTTGTACCCTAATGGAAGCC
1 AAAAGTATTAATTCAATTCAATATTATTTATTTCGAAAATAACATTTCGTACCCTAATGGAAGCC
* * ** * * *
98787 CGAAAGGATAGGAAAGGTTTTTGAAATCTTTTATACCCTTACGGATGCCCATAAGAATATAAAAG
66 CAAAAGGATAGCAAACATTTTTAAAATCTTTTATACCCCTACGAATGCCCATAAGAATATAAAAG
98852 ATTTA-AAAAAATTAAAACTTATCCTG
131 A-TTAGAAAAAATTAAAACTTATCCTG
* * *
98878 AAAA-TATTAATTCACTTCGATTTTATTTACTTTCGAAAATAACATTTCGTA-CCTAATGGAAGC
1 AAAAGTATTAATTCAATTCAATATTATTTA-TTTCGAAAATAACATTTCGTACCCTAATGGAAGC
* *
98941 TCAAAAGGATA-CAAATCATTTTTAAAATCTTTTATACCCCTACGAATGCCCATAGGAATATAAA
65 CCAAAAGGATAGCAAA-CATTTTTAAAATCTTTTATACCCCTACGAATGCCCATAAGAATATAAA
99005 AGATTAGAAAAAAT
129 AGATTAGAAAAAAT
99019 AATAAACATG
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
154 6 0.05
155 94 0.76
156 23 0.19
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.33
Consensus pattern (156 bp):
AAAAGTATTAATTCAATTCAATATTATTTATTTCGAAAATAACATTTCGTACCCTAATGGAAGCC
CAAAAGGATAGCAAACATTTTTAAAATCTTTTATACCCCTACGAATGCCCATAAGAATATAAAAG
ATTAGAAAAAATTAAAACTTATCCTG
Found at i:102585 original size:33 final size:33
Alignment explanation
Indices: 102540--102605 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
102530 AAATTCCCAG
*
102540 ATGTATCGATACAAAG-ATCAATGTATCGATACA
1 ATGTATCAATACAAAGAAT-AATGTATCGATACA
**
102573 ATGTATCAATACATTGAATAATGTATCGATACA
1 ATGTATCAATACAAAGAATAATGTATCGATACA
102606 TTTGCTTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
ATGTATCAATACAAAGAATAATGTATCGATACA
Found at i:102651 original size:13 final size:13
Alignment explanation
Indices: 102633--102689 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
102623 AAGGTAGCTC
102633 TGTATCGATACAT
1 TGTATCGATACAT
102646 TGTATCGATACAACACT
1 TGTATCGAT---ACA-T
102663 CATGTATCGATACAT
1 --TGTATCGATACAT
102678 TGTATCGATACA
1 TGTATCGATACA
102690 ACACTCATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
15 1 0.03
16 6 0.16
17 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:102670 original size:19 final size:19
Alignment explanation
Indices: 102646--102708 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
102636 ATCGATACAT
102646 TGTATCGATACAACACTCA
1 TGTATCGATACAACACTCA
102665 TGTATCGAT---ACA-T--
1 TGTATCGATACAACACTCA
102678 TGTATCGATACAACACTCA
1 TGTATCGATACAACACTCA
*
102697 TGTATCAATACA
1 TGTATCGATACA
102709 TTTACTGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
15 1 0.03
16 6 0.16
17 1 0.03
19 20 0.54
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAACACTCA
Found at i:102674 original size:32 final size:32
Alignment explanation
Indices: 102633--102710 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
102623 AAGGTAGCTC
102633 TGTATCGATACATTGTATCGATACAACACTCA
1 TGTATCGATACATTGTATCGATACAACACTCA
102665 TGTATCGATACATTGTATCGATACAACACTCA
1 TGTATCGATACATTGTATCGATACAACACTCA
*
102697 TGTATCAATACATT
1 TGTATCGATACATT
102711 TACTGTTAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTCA
Found at i:103438 original size:22 final size:22
Alignment explanation
Indices: 103413--103472 Score: 77
Period size: 22 Copynumber: 2.6 Consensus size: 22
103403 GTTTTTACTA
103413 TTTTTTCTACCTATTT-TCTCTCT
1 TTTTTTCT--CTATTTCTCTCTCT
*
103436 TTTTTTCTCTATTTCTTTCTCT
1 TTTTTTCTCTATTTCTCTCTCT
103458 TTTTTTCTCTCATTT
1 TTTTTTCTCT-ATTT
103473 TTTAGCTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 6 0.18
22 16 0.47
23 12 0.35
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTCTCTATTTCTCTCTCT
Found at i:103441 original size:12 final size:12
Alignment explanation
Indices: 103426--103475 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
103416 TTTCTACCTA
103426 TTTTCTCTCTTT
1 TTTTCTCTCTTT
*
103438 TTTTCTCT-ATT
1 TTTTCTCTCTTT
*
103449 TCTT-TCTCTTT
1 TTTTCTCTCTTT
103460 TTTTCTCTCATTT
1 TTTTCTCTC-TTT
103473 TTT
1 TTT
103476 AGCTGAACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 3 0.10
11 10 0.32
12 12 0.39
13 6 0.19
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTCTCTCTTT
Found at i:103444 original size:10 final size:10
Alignment explanation
Indices: 103426--103467 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
103416 TTTCTACCTA
*
103426 TTTTCTCTCT
1 TTTTTTCTCT
103436 TTTTTTCTCT
1 TTTTTTCTCT
103446 ATTTCTTTCTCT
1 -TTT-TTTCTCT
103458 TTTTTTCTCT
1 TTTTTTCTCT
103468 CATTTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 16 0.55
11 6 0.21
12 7 0.24
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:104349 original size:166 final size:163
Alignment explanation
Indices: 104124--104544 Score: 424
Period size: 166 Copynumber: 2.6 Consensus size: 163
104114 AAAAAAGGGG
* * * *
104124 ATTTCAAAGGAAAAAATCT-AAAATTTATTAAAATGAATTGATCTTTT-AAAACTGATTTAATAT
1 ATTTC-AA-GAAAAAAT-TAAAAACTTATGAAAATTAATTAAT-TTTTGAAAACTGATTTAATAT
*
104187 AGAATAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-CCTC-AAAAA
62 AGAATAAATAATAATATTTGATGAATTTTAAAAATCAAAAACCAAGAAAAATCCTCC-CGAAAAA
* * **
104250 AATTTTCGAAGTAGAAAA-TAACGTATTTCGGTAAAAAGGGA
126 AATTATAG-AGTAGAAAACT-ACGTATTT-GG-AAAAAGAAA
* * *
104291 GTTTTAAGAAAAAAATTAAAAACTTATGAAAATTAATTAATTTTTGAAAACTGATTTAATGGT-G
1 ATTTCAAG-AAAAAATTAAAAACTTATGAAAATTAATTAATTTTTGAAAACTGATTTAAT-ATAG
* ** * * *
104355 ATTGGACAATAATATTTGATAAAATTTAAAAATCAAAAACCAAGAAAAATCCTCCCGAAAAAAAT
64 AATAAATAATAATATTTGATGAATTTTAAAAATCAAAAACCAAGAAAAATCCTCCCGAAAAAAAT
* *
104420 TATAGAGTAGAAAACTCCGTATTTTGAAAAAGAAA
129 TATAGAGTAGAAAACTACGTATTTGGAAAAAGAAA
* * * ** * * *
104455 ATTTCAAGAAAAAATAAAAAACTCATGAAAA-TGATTGAATTTTTGCTAACTAATTTAATCTAAA
1 ATTTCAAGAAAAAATTAAAAACTTATGAAAATTAATT-AATTTTTGAAAACTGATTTAATATAGA
*
104519 ATAAATGATAATATTTGATGAATTTT
65 ATAAATAATAATATTTGATGAATTTT
104545 GATGTTTTGA
Statistics
Matches: 208, Mismatches: 37, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
162 5 0.02
163 60 0.29
164 13 0.06
165 7 0.03
166 105 0.50
167 18 0.09
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (163 bp):
ATTTCAAGAAAAAATTAAAAACTTATGAAAATTAATTAATTTTTGAAAACTGATTTAATATAGAA
TAAATAATAATATTTGATGAATTTTAAAAATCAAAAACCAAGAAAAATCCTCCCGAAAAAAATTA
TAGAGTAGAAAACTACGTATTTGGAAAAAGAAA
Found at i:110449 original size:154 final size:153
Alignment explanation
Indices: 110041--110518 Score: 541
Period size: 154 Copynumber: 3.0 Consensus size: 153
110031 ATAGAAATAT
* * ** *
110041 AAAAGATTAAAATTT-TTCTCAAAAGTATTAATTCAATTTAATTTCAATTATTTCGAAAATACCA
1 AAAAAATTAAAATTTATCCTCAAAA-TATTAATTCAATTTAATTT-TTTTATTTTGAAAATA-CA
* * *
110105 TTTCGTACCCTAATAGAAGCCCGAAAGGATAAGAAATGTTTTTGAAATCTTTTATACCCCTACGG
63 TTTCGTACCCTAATGGAAGCTCGAAAGGATAAGAAACGTTTTTGAAATCTTTTATACCCCTACGG
* * *
110170 ATACCTATAGGAATATAAAAGATTAGAAAAA
128 ATGCCCATAGGAATATAAAAGATT-----TA
* *** *
110201 AACAAATATTAGAATTTATCC-CAAGAATACCGATTCAATTTAATTTTATTTATTTTCAAAAATA
1 AA-AAA-ATTAAAATTTATCCTCAA-AATATTAATTCAATTTAATTTT-TTTATTTT-GAAAATA
* * * * *
110265 CTAATTCGTACCCTACTGGAAGCTTGAAAGGATATGAAAGGTTTTTGAAATCTTTTATA-CCCTA
61 C-ATTTCGTACCCTAATGGAAGCTCGAAAGGATAAGAAACGTTTTTGAAATCTTTTATACCCCTA
* *
110329 CAGATGCCCATAAGAATATAAAAGATTTA
125 CGGATGCCCATAGGAATATAAAAGATTTA
* *
110358 AAAAAATTAAAATTTATCCTCAAAATATTAATTCACTTTGATTTTTTTACTTTTGAAAATAGCAT
1 AAAAAATTAAAATTTATCCTCAAAATATTAATTCAATTTAATTTTTTTA-TTTTGAAAATA-CAT
*
110423 TTCGTACCCTAATGGAAGCTCGAAAGGATACGAAACGTTTTTGAAATCTTTTATACCCCTACGGA
64 TTCGTACCCTAATGGAAGCTCGAAAGGATAAGAAACGTTTTTGAAATCTTTTATACCCCTACGGA
110488 TGCCCATAGGAATATAAAAGA-TTA
129 TGCCCATAGGAATATAAAAGATTTA
*
110512 GAAAAAT
1 AAAAAAT
110519 AATAAACAAG
Statistics
Matches: 270, Mismatches: 37, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
154 71 0.26
155 63 0.23
156 6 0.02
157 3 0.01
160 2 0.01
161 2 0.01
162 63 0.23
163 60 0.22
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (153 bp):
AAAAAATTAAAATTTATCCTCAAAATATTAATTCAATTTAATTTTTTTATTTTGAAAATACATTT
CGTACCCTAATGGAAGCTCGAAAGGATAAGAAACGTTTTTGAAATCTTTTATACCCCTACGGATG
CCCATAGGAATATAAAAGATTTA
Found at i:123485 original size:14 final size:14
Alignment explanation
Indices: 123466--123516 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
123456 CATCCTCTAC
123466 AAAAAAAACAAACA
1 AAAAAAAACAAACA
*
123480 AAAAAAAACAAAAAA
1 AAAAAAAAC-AAACA
123495 AATAAAAAACAAACA
1 AA-AAAAAACAAACA
*
123510 ACAAAAA
1 AAAAAAA
123517 GGGTCCGGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 14 0.44
15 11 0.34
16 7 0.22
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (14 bp):
AAAAAAAACAAACA
Found at i:123490 original size:23 final size:23
Alignment explanation
Indices: 123464--123516 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
123454 GACATCCTCT
123464 ACAAAAAAAACAAACAAA-AAAAA
1 ACAAAAAAAACAAA-AAACAAAAA
* *
123487 ACAAAAAAAATAAAAAACAAACA
1 ACAAAAAAAACAAAAAACAAAAA
123510 ACAAAAA
1 ACAAAAA
123517 GGGTCCGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 3 0.11
23 24 0.89
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (23 bp):
ACAAAAAAAACAAAAAACAAAAA
Found at i:123515 original size:20 final size:19
Alignment explanation
Indices: 123469--123516 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
123459 CCTCTACAAA
*
123469 AAAAACAAACAAAAAAAAAC
1 AAAAA-AAATAAAAAAAAAC
123489 AAAAAAAATAAAAAACAAAC
1 AAAAAAAATAAAAAA-AAAC
*
123509 AACAAAAA
1 AAAAAAAA
123517 GGGTCCGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.02
Consensus pattern (19 bp):
AAAAAAAATAAAAAAAAAC
Found at i:124584 original size:37 final size:37
Alignment explanation
Indices: 124541--124662 Score: 235
Period size: 37 Copynumber: 3.3 Consensus size: 37
124531 TGCCACAATC
124541 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
124578 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
124615 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
*
124652 ATGTATTTGTG
1 ATGCATTTGTG
124663 CTTCATCTTT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 84 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:125118 original size:57 final size:56
Alignment explanation
Indices: 125057--125217 Score: 173
Period size: 57 Copynumber: 2.8 Consensus size: 56
125047 CATCTTATTA
* * *
125057 AAAGCCTACAACTCAGTGGCAACCTTCAGAAGCCCACAAATTGGTGGCACCCCCTTC
1 AAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCCACAAATCGGTGGC-CCCCCTTC
* * ** ** **
125114 AAAGCCCACAAGTCAGTGGCACCCTTTTCA-AAGCCCA-AAGTCAATGGCGTCTTTTC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCAGAAGCCCACAAATCGGTGGCCCCCCTTC
125170 AGAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCCACAAATCGGTGG
1 A-AAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCCACAAATCGGTGG
125218 TGTCGCAATG
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
55 4 0.05
56 12 0.14
57 57 0.68
58 7 0.08
59 4 0.05
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCCCACAAATCGGTGGCCCCCCTTC
Found at i:125123 original size:29 final size:29
Alignment explanation
Indices: 125057--125217 Score: 100
Period size: 28 Copynumber: 5.7 Consensus size: 29
125047 CATCTTATTA
* * *
125057 AAAGCCTACAACTCAGTGGCA--ACCTTC
1 AAAGCCCACAAATCAGTGGCACCCCCTTC
**
125084 AGAAGCCCACAAATTGGTGGCACCCCCTTC
1 A-AAGCCCACAAATCAGTGGCACCCCCTTC
* **
125114 AAAGCCCACAAGTCAGTGGCACCCTTTTC
1 AAAGCCCACAAATCAGTGGCACCCCCTTC
* * ** **
125143 AAAGCCCA-AAGTCAATGGC-GTCTTTTC
1 AAAGCCCACAAATCAGTGGCACCCCCTTC
* *
125170 AGAAGCCCACAAGTCAGTGGCA--ACCTTC
1 A-AAGCCCACAAATCAGTGGCACCCCCTTC
*
125198 AGAAGCCCACAAATCGGTGG
1 A-AAGCCCACAAATCAGTGG
125218 TGTCGCAATG
Statistics
Matches: 109, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
27 8 0.07
28 54 0.50
29 41 0.38
30 6 0.06
ACGTcount: A:0.30, C:0.32, G:0.20, T:0.18
Consensus pattern (29 bp):
AAAGCCCACAAATCAGTGGCACCCCCTTC
Found at i:125217 original size:28 final size:28
Alignment explanation
Indices: 125029--125209 Score: 143
Period size: 29 Copynumber: 6.4 Consensus size: 28
125019 TCACTTTCCA
* * * * *
125029 AAGCCCATAAGTCAGTGGCATCTTATTAA
1 AAGCCCACAAGTCAGTGGCAACCT-TCAG
* *
125058 AAGCCTACAACTCAGTGGCAACCTTCAG
1 AAGCCCACAAGTCAGTGGCAACCTTCAG
* ** *
125086 AAGCCCACAAATTGGTGGCACCCCCTTCA-
1 AAGCCCACAAGTCAGTGGCA--ACCTTCAG
*
125115 AAGCCCACAAGTCAGTGGCACCCTTTTCA-
1 AAGCCCACAAGTCAGTGGCAACC--TTCAG
* ** *
125144 AAGCCCA-AAGTCAATGGCGTCTTTTCAG
1 AAGCCCACAAGTCAGTGGCAAC-CTTCAG
125172 AAGCCCACAAGTCAGTGGCAACCTTCAG
1 AAGCCCACAAGTCAGTGGCAACCTTCAG
125200 AAGCCCACAA
1 AAGCCCACAA
125210 ATCGGTGGTG
Statistics
Matches: 122, Mismatches: 23, Indels: 15
0.76 0.14 0.09
Matches are distributed among these distances:
27 7 0.06
28 51 0.42
29 58 0.48
30 6 0.05
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.19
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTCAG
Found at i:126410 original size:79 final size:80
Alignment explanation
Indices: 126179--126410 Score: 294
Period size: 77 Copynumber: 2.9 Consensus size: 80
126169 TTTTGGAGAT
* * *
126179 AATAACAGGGTTGGAGTATCCTCGATTGTGAAAAGAATCGATGATTTAGAAATAAAATCAGGA-T
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAG--TCGATGTTTTAGAAATAAAATCAGGAGT
126243 TGGAGTATCCCCTAGGA
64 TGGAGTATCCCCTAGGA
* * * * *
126260 AATAACGGGGTTGGAGTAT-CCCG-CTATGAAAAATTGATGTTTTAGAAATAAAACCAGG-GTTG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGTCGATGTTTTAGAAATAAAATCAGGAGTTG
* *
126322 GAGTGTCCCCTCGGA
66 GAGTATCCCCTAGGA
* * *
126337 AATAACGGGGTTGAAGTATCCCCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATC-GGAGTTG
1 AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGTCGATGTTTTAGAAATAAAATCAGGAGTTG
126401 GAGTATCCCC
66 GAGTATCCCC
126411 GATTATGGAA
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
77 56 0.44
78 6 0.05
79 45 0.35
80 3 0.02
81 18 0.14
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (80 bp):
AATAACGGGGTTGGAGTATCCCCGATTGTGAAAAGTCGATGTTTTAGAAATAAAATCAGGAGTTG
GAGTATCCCCTAGGA
Found at i:126524 original size:51 final size:51
Alignment explanation
Indices: 126346--126525 Score: 186
Period size: 51 Copynumber: 3.5 Consensus size: 51
126336 AAATAACGGG
* * *
126346 GTTGAAGTATCCCCGATTGTGAAAAGTCGG-TGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAAT-GGATGTTTTGGAAATAAAATCGGA
* * * *
126397 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGAAAAATGGATGTTTTGGAAATAAAATCGGA
* * * * * *
126448 GGTGGACTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCTGG-
1 GTTGGAGTATCCCCGATTATGAAAAATGGATGTTTTGGAAATAAAATC-GGA
*
126499 GATTGGAGTATCCCCGA-GATGAAAAAT
1 G-TTGGAGTATCCCCGATTATGAAAAAT
126526 CTAGAAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
50 2 0.02
51 89 0.84
52 15 0.14
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATGGATGTTTTGGAAATAAAATCGGA
Found at i:128810 original size:20 final size:19
Alignment explanation
Indices: 128787--128873 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
128777 TATATTATAA
128787 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
128807 AATGTATCG-----AT-AC
1 AATGTATCGATACAATGAC
*
128820 AATGTATCGATACAATAAGC
1 AATGTATCGATACAATGA-C
* *
128840 AATGTATCGACACAATGCAA
1 AATGTATCGATACAATG-AC
128860 AATGTATCGATACA
1 AATGTATCGATACA
128874 TCTGGGTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
13 10 0.18
14 1 0.02
15 2 0.04
18 2 0.04
19 1 0.02
20 38 0.69
21 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:128822 original size:13 final size:13
Alignment explanation
Indices: 128806--128835 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
128796 ATACAATGAG
128806 CAATGTATCGATA
1 CAATGTATCGATA
128819 CAATGTATCGATA
1 CAATGTATCGATA
128832 CAAT
1 CAAT
128836 AAGCAATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:128829 original size:33 final size:33
Alignment explanation
Indices: 128787--128856 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
128777 TATATTATAA
* *
128787 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATAAGCAATGTATCGACAC
128820 AATGTATCGATACAATAAGCAATGTATCGACAC
1 AATGTATCGATACAATAAGCAATGTATCGACAC
128853 AATG
1 AATG
128857 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (33 bp):
AATGTATCGATACAATAAGCAATGTATCGACAC
Found at i:128829 original size:53 final size:52
Alignment explanation
Indices: 128767--128873 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 52
128757 AAAATGCTTG
* * *
128767 AATGTATCGATATATTATAA-AATGTATCGATACAATG-AGCAATGTATCGATAC
1 AATGTATCGATACA--ATAACAATGTATCGACACAATGCA-AAATGTATCGATAC
128820 AATGTATCGATACAATAAGCAATGTATCGACACAATGCAAAATGTATCGATAC
1 AATGTATCGATACAATAA-CAATGTATCGACACAATGCAAAATGTATCGATAC
128873 A
1 A
128874 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
51 4 0.08
53 43 0.90
54 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (52 bp):
AATGTATCGATACAATAACAATGTATCGACACAATGCAAAATGTATCGATAC
Found at i:129752 original size:42 final size:42
Alignment explanation
Indices: 129723--129808 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
129713 AGGATAAAGG
*
129723 GAAAA-AAAATACGTCCTGCTCTTTGAGGACAAAAGAAAAAA
1 GAAAATAAAATACATCCTGCTCTTTGAGGACAAAAGAAAAAA
* * *
129764 GAAAATAAAGTGCATCCTGCTCTTTGAGGACAAAAGAGAAAA
1 GAAAATAAAATACATCCTGCTCTTTGAGGACAAAAGAAAAAA
129806 GAA
1 GAA
129809 GGGAAGGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 5 0.12
42 35 0.88
ACGTcount: A:0.49, C:0.14, G:0.20, T:0.17
Consensus pattern (42 bp):
GAAAATAAAATACATCCTGCTCTTTGAGGACAAAAGAAAAAA
Found at i:129791 original size:119 final size:117
Alignment explanation
Indices: 129582--129797 Score: 262
Period size: 119 Copynumber: 1.8 Consensus size: 117
129572 GGTGTCCCAC
* ** * * *
129582 TTTTTTAAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTTCTTGAGGACAAAGGAAGAGAAA
1 TTTTTCAAGGACAAAGGAAAAGAGAAAAAAATACGTCCTGCTTCTTGAGGACAAAAGAAGAGAAA
129647 AAAAGGAAAGTCTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACATCTCA
66 AAAAGGAAAGTCTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACATCTCA
*
129699 TTTTTCAAGGACAAAGGATAAAGGGAAAAAAAATACGTCCTGC-TCTTTGAGGACAAAAGAA-A-
1 TTTTTCAAGGACAAAGGA-AAAGAG-AAAAAAATACGTCCTGCTTC-TTGAGGACAAAAGAAGAG
*
129761 AAAGAAAA-TAAAGTGCATCCTGC-TCTTTGAGGACAAA
63 AAA-AAAAGGAAAGT-C-TCCTGCTTC-TTGAGGACAAA
129798 AGAGAAAAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
117 25 0.30
118 15 0.18
119 44 0.52
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (117 bp):
TTTTTCAAGGACAAAGGAAAAGAGAAAAAAATACGTCCTGCTTCTTGAGGACAAAAGAAGAGAAA
AAAAGGAAAGTCTCCTGCTTCTTGAGGACAAAGTGAAAAAGAGTACATCTCA
Found at i:129835 original size:45 final size:42
Alignment explanation
Indices: 129734--129839 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 42
129724 AAAAAAAATA
*
129734 CGTCCTGCTCTTTGAGGACAAAAGAAAAAAGAAAATAAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAAGAAAAGAAAGTG
* * *
129776 CATCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAGGAAGTG
1 CGTCCTGCTCTTTGAGGACAAAAGAAAAAAGAA---AAGAAAGTG
*
129821 TGTCCTGCTCTTTGAGGAC
1 CGTCCTGCTCTTTGAGGAC
129840 TGAAAAGTGC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 31 0.56
45 24 0.44
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (42 bp):
CGTCCTGCTCTTTGAGGACAAAAGAAAAAAGAAAAGAAAGTG
Found at i:129918 original size:61 final size:60
Alignment explanation
Indices: 129823--130076 Score: 326
Period size: 61 Copynumber: 4.3 Consensus size: 60
129813 AGGAAGTGTG
129823 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAATGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAATGGCA
* *
129884 TCCTGCCCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAA--GCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT---AAAAGAAATGGCA
* * * * *
129945 TCCTGCTTTTTGAGGACTGAAAAGAGCCACCAACTTGTGTGGGCTTTAAAAGGAGTAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAT-GGCA
* *
130006 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCTTT---A-AAA-GGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAATGGCA
130060 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
130077 AAAAAGGCGA
Statistics
Matches: 171, Mismatches: 17, Indels: 17
0.83 0.08 0.08
Matches are distributed among these distances:
54 20 0.12
56 1 0.01
57 1 0.01
58 6 0.04
60 24 0.14
61 111 0.65
63 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAATGGCA
Found at i:130149 original size:29 final size:29
Alignment explanation
Indices: 130106--130339 Score: 238
Period size: 29 Copynumber: 8.4 Consensus size: 29
130096 GCGTCTACAG
**
130106 GTGGCACCCCCTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTTCAAAGCCCACAAGTTA
130135 GTGGCACCCTTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTTCAAAGCCCACAAGTTA
*
130164 GTGGCACCCTTTTCAAAGCCCATAAGTTA
1 GTGGCACCCTTTTCAAAGCCCACAAGTTA
130193 GTGGCACCCTTTTCAAAGCCCACAAGTTA
1 GTGGCACCCTTTTCAAAGCCCACAAGTTA
** *
130222 GTGGC-GTCTTTTCAAAAGCCCACAAGTCA
1 GTGGCACCCTTTTC-AAAGCCCACAAGTTA
* *
130251 GTGACA-TCTTTTCAAAAGCCCAC-----A
1 GTGGCACCCTTTTC-AAAGCCCACAAGTTA
* *
130275 GTGGCAACC--TTCAAAGTCCACAAGTTA
1 GTGGCACCCTTTTCAAAGCCCACAAGTTA
* * **
130302 GTGGCAACC--TTCAAAGCCTACAAGGCA
1 GTGGCACCCTTTTCAAAGCCCACAAGTTA
*
130329 GTGGCAACCTT
1 GTGGCACCCTT
130340 CAAAAGCACA
Statistics
Matches: 180, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
22 8 0.04
23 3 0.02
24 6 0.03
25 1 0.01
27 33 0.18
28 6 0.03
29 123 0.68
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (29 bp):
GTGGCACCCTTTTCAAAGCCCACAAGTTA
Found at i:130371 original size:106 final size:108
Alignment explanation
Indices: 130175--130380 Score: 247
Period size: 106 Copynumber: 1.9 Consensus size: 108
130165 TGGCACCCTT
* * ** ** *
130175 TTCAAAGCCCATAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCGTCTTTTCAAAAG
1 TTCAAAGCCCACAAGTTAGTGGCAACC-TTTCAAAGCCCACAAGGCAGTGGCAACTCTTCAAAAG
* * *
130240 CCCACAAGTCAGTGACATCTTTTCAAAAGCCCACAGTGGCAACC
65 CACACAAGTCAGTGACACCCTTTCAAAAGCCCACAGTGGCAACC
* *
130284 TTCAAAGTCCACAAGTTAGTGGCAACC-TTCAAAGCCTACAAGGCAGTGGCAAC-CTTCAAAAGC
1 TTCAAAGCCCACAAGTTAGTGGCAACCTTTCAAAGCCCACAAGGCAGTGGCAACTCTTCAAAAGC
* *
130347 ACACAATTCGGTGTA-ACCCTTTCAAAAGCCCACA
66 ACACAAGTCAGTG-ACACCCTTTCAAAAGCCCACA
130381 CAAATTGGTG
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
106 36 0.44
107 22 0.27
109 24 0.29
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.22
Consensus pattern (108 bp):
TTCAAAGCCCACAAGTTAGTGGCAACCTTTCAAAGCCCACAAGGCAGTGGCAACTCTTCAAAAGC
ACACAAGTCAGTGACACCCTTTCAAAAGCCCACAGTGGCAACC
Found at i:130593 original size:98 final size:101
Alignment explanation
Indices: 130415--130594 Score: 233
Period size: 98 Copynumber: 1.8 Consensus size: 101
130405 GTCCAATATC
* * * * *
130415 GCTGGCCTTGAATCAGCATATTGGCCCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTAAAT
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCCAATATCACTGGCCTTAAAT
130480 CAGCACATTAGCACCTTCACCTTTAAGTTTAATGTT
66 CAGCACATTAGCACCTTCACCTTTAAGTTTAATGTT
* * *
130516 GCTGGCCTTGAATCAGCACATTGGTATC-TT-T-ATCTTTAAGCCCAATATCACTGGTCC-TGAA
1 GCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCCAATATCACTGG-CCTTAAA
* *
130577 TCAGCATATTGGCACCTT
65 TCAGCACATTAGCACCTT
130595 TATCACTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
98 39 0.57
99 3 0.04
100 2 0.03
101 24 0.35
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (101 bp):
GCTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAGCCCAATATCACTGGCCTTAAAT
CAGCACATTAGCACCTTCACCTTTAAGTTTAATGTT
Found at i:130596 original size:49 final size:49
Alignment explanation
Indices: 130397--130598 Score: 208
Period size: 49 Copynumber: 4.0 Consensus size: 49
130387 GGTGGCAACT
* *
130397 TCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCCCCTTTGTCA
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TT-T-A
* * * *
130450 TCTTTAAGTCCAATGTCGCTGGCCTTAAATCAGCACATTAGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* ** * * * *
130499 CCTTTAAGTTTAATGTTGCTGGCCTTGAATCAGCACATTGGTATCTTTA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
* * *
130548 TCTTTAAGCCCAATATCACTGGTCC-TGAATCAGCATATTGGCACCTTTA
1 TCTTTAAGTCCAATATCGCTGG-CCTTGAATCAGCACATTGGCACCTTTA
130597 TC
1 TC
130599 ACTTTTCTCA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 79 0.64
50 2 0.02
51 2 0.02
52 36 0.29
53 4 0.03
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.35
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
Found at i:131241 original size:19 final size:21
Alignment explanation
Indices: 131189--131244 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
131179 AATTTCAACA
131189 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** * *
131210 AAATGTATTGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
131230 -TTTGTATCGATACAA
1 ATTTGTATCGATACAA
131245 TGTATCGCTA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:134649 original size:12 final size:12
Alignment explanation
Indices: 134634--134684 Score: 77
Period size: 12 Copynumber: 4.2 Consensus size: 12
134624 TTTCTACCTA
134634 TTTTCTCTCTTT
1 TTTTCTCTCTTT
134646 TTTTCTCTCTTT
1 TTTTCTCTCTTT
134658 TCTTTCTCT-TTT
1 T-TTTCTCTCTTT
*
134670 TTTTTTCTCTTT
1 TTTTCTCTCTTT
134682 TTT
1 TTT
134685 CAGCTGACCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
11 6 0.17
12 23 0.64
13 7 0.19
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTCTCTTT
Found at i:134665 original size:13 final size:13
Alignment explanation
Indices: 134635--134685 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
134625 TTCTACCTAT
134635 TTTCTCTCTTTT-
1 TTTCTCTCTTTTC
134647 TTTCTCTCTTTTC
1 TTTCTCTCTTTTC
* *
134660 TTTCTCTTTTTTT
1 TTTCTCTCTTTTC
*
134673 TTTCTCTTTTTTC
1 TTTCTCTCTTTTC
134686 AGCTGACCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
12 12 0.34
13 23 0.66
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTCTCTTTTC
Found at i:135202 original size:20 final size:19
Alignment explanation
Indices: 135159--135202 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
135149 TCAATGTGTA
135159 CAAAAAAATTTAAAATTTT
1 CAAAAAAATTTAAAATTTT
*
135178 AAAAAATAATTT-AAATTTCT
1 CAAAAA-AATTTAAAATTT-T
135198 CAAAA
1 CAAAA
135203 CAAAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
CAAAAAAATTTAAAATTTT
Found at i:140645 original size:84 final size:84
Alignment explanation
Indices: 140504--140672 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 84
140494 TAGATTTTAG
*
140504 AAAATTACCAAAATGCCCTTAAGGGATACCTTCGACATAAAAGTACCTAATATCCCTAAAGGACT
1 AAAATTACCAAAATACCCTTAAGGGATACCTTCGACATAAAAGTACCTAATATCCCTAAAGGACT
140569 TAAAAACCTGAAGGAATGT
66 TAAAAACCTGAAGGAATGT
140588 AAAATTACCAAAATACCCTTAAGGGATACCTTCGACATAAAAGTACCTAATATCCCTAAAGGACT
1 AAAATTACCAAAATACCCTTAAGGGATACCTTCGACATAAAAGTACCTAATATCCCTAAAGGACT
140653 TAAAAACCTGAAGGAATGT
66 TAAAAACCTGAAGGAATGT
140672 A
1 A
140673 TGAAACTGCC
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (84 bp):
AAAATTACCAAAATACCCTTAAGGGATACCTTCGACATAAAAGTACCTAATATCCCTAAAGGACT
TAAAAACCTGAAGGAATGT
Found at i:141927 original size:11 final size:11
Alignment explanation
Indices: 141913--141964 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
141903 CCCTAATTTT
141913 TCTTTTTTCTC
1 TCTTTTTTCTC
*
141924 TC-TTTTTCTT
1 TCTTTTTTCTC
* *
141934 TCTCTTTTCTT
1 TCTTTTTTCTC
*
141945 TTTTTTTTCTC
1 TCTTTTTTCTC
141956 TCTATTTTT
1 TCT-TTTTT
141965 TTCTTATCTG
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 9 0.27
11 19 0.58
12 5 0.15
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTTTTTCTC
Found at i:141964 original size:17 final size:16
Alignment explanation
Indices: 141909--141966 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
141899 TTTTCCCTAA
141909 TTTTTCTTTTTTCTCTC
1 TTTTT-TTTTTTCTCTC
* * *
141926 TTTTTCTTTCTCT-TT
1 TTTTTTTTTTTCTCTC
141941 TCTTTTTTTTTTCTCTC
1 T-TTTTTTTTTTCTCTC
141958 TATTTTTTT
1 T-TTTTTTT
141967 CTTATCTGCT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 2 0.06
16 16 0.50
17 14 0.44
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTTTTTTCTCTC
Found at i:142878 original size:165 final size:165
Alignment explanation
Indices: 142532--143118 Score: 639
Period size: 164 Copynumber: 3.5 Consensus size: 165
142522 ACAATCTTAC
* * * * *** **
142532 ATGAATTTAAAAAATTTTAAATCGAGAAAAATCCCCCCAAAAAATTTATAAAGTAGAAAACTTGA
1 ATGAATTTTAAAAATTTAAAACCAAGAAAAATCCCCCCAAAAAATTTACGGAGTAGAAAACTCCA
* * * * *** * *
142597 TTTTTTTAAAAAAGGA-AATTTCAAGAAAAAAATAAGCTACTCTTGAAAATGAATGAATTTTAGA
66 TATTTTGAAAATAGAAGAATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGA
* *
142661 AAACGGATTTAATATGAAATAAATAATAATATTTG
131 AAACTGATTTAATATGAAATAAATAATAATATTTA
* *
142696 ATGAATTTTGAAAATTAAAAACCAAGAAAAATGCCCCCCAAAAAATTTACGGAGTAGAAAACTCC
1 ATGAATTTTAAAAATTTAAAACCAAGAAAAAT-CCCCCCAAAAAATTTACGGAGTAGAAAACTCC
*
142761 ATATTTTGAAAATAGAAGAATTTCAAGAAAAAACTAAAAAACTCATGAAAATGAATGAATTTTTG
65 ATATTTTGAAAATAGAAGAATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTG
* *
142826 AAAACTAATTTAATATGAAATAAATTATAAT-TTTA
130 AAAACTGATTTAATATGAAATAAATAATAATATTTA
* ** * * * *
142861 ATGAATTTTAAAAA-TTAAAACTAAGAAAAATTCCTTCGAAAAAATTTATGGAGTAGAAAAATCT
1 ATGAATTTTAAAAATTTAAAACCAAGAAAAA-TCCCCCCAAAAAATTTACGGAGTAGAAAACTCC
* * * *
142925 GTATTTCGAAAACA-AGAGAATTTCAA-AGAAAAATTAAAAAACTCATGAAAATGAATGAATTTT
65 ATATTTTGAAAATAGA-AGAATTTCAAGA-AAAAAATAAAAAACTCATGAAAATGAATGAATTTT
*
142988 TGAAAAACTGATTTAATATGAAATAAATAATAATATTTT
128 TG-AAAACTGATTTAATATGAAATAAATAATAATATTTA
* * * * * *
143027 ATGAATTTTAAAAATTTTAAACCCATG-AAAATCCTCTCCAAAGATTTTACGGAGAAGAAAA-TC
1 ATGAATTTTAAAAA-TTTAAAACCAAGAAAAATCC-CCCCAAAAAATTTACGGAGTAGAAAACTC
* *
143090 CTGTAATTTGAAAATAAGAAGAATTTCAA
64 C-ATATTTTGAAAAT-AGAAGAATTTCAA
143119 AAGAAAGTCA
Statistics
Matches: 356, Mismatches: 54, Indels: 22
0.82 0.12 0.05
Matches are distributed among these distances:
163 2 0.01
164 123 0.35
165 86 0.24
166 91 0.26
167 34 0.10
168 19 0.05
169 1 0.00
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (165 bp):
ATGAATTTTAAAAATTTAAAACCAAGAAAAATCCCCCCAAAAAATTTACGGAGTAGAAAACTCCA
TATTTTGAAAATAGAAGAATTTCAAGAAAAAAATAAAAAACTCATGAAAATGAATGAATTTTTGA
AAACTGATTTAATATGAAATAAATAATAATATTTA
Found at i:146090 original size:12 final size:12
Alignment explanation
Indices: 146075--146099 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
146065 ATATAAATAG
146075 ATGGAATTATGC
1 ATGGAATTATGC
146087 ATGGAATTATGC
1 ATGGAATTATGC
146099 A
1 A
146100 AAAATCCTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (12 bp):
ATGGAATTATGC
Found at i:148202 original size:168 final size:166
Alignment explanation
Indices: 148015--148328 Score: 430
Period size: 167 Copynumber: 1.9 Consensus size: 166
148005 TCAAAATATG
* * * *
148015 GAGTTTTCTATTTCGTAAATTTTTTTAGGAGGATTTTCATTGATCCAAAATTTTTAAAATTCATC
1 GAGTTTTCTACTCCGTAAATTTTTTCAGGAGGATTTTC-TCGATCCAAAATTTTTAAAATTCATC
* * * *
148080 AAATATTATTATTTAATTCATGTTAAATCAATTTTTAAAAATTCATTTATTTTCATAAATGTTTC
65 AAATATTATTATTTAATTCATATTAAATCAATTTTAAAAAATTAATTCATTTTCATAAAT-TTTC
148145 AATTTTTTTCCTTGAAAACCTCTTATTTTTGAAATACA
129 AATTTTTTTCCTTGAAAACCTCTTATTTTTGAAATACA
* * * ***
148183 GAGTTTTCTACTCCGTAAATTTTTTCGGGGGGATTTTCTCGGTTTTAAATTTTTAAAATTCATCA
1 GAGTTTTCTACTCCGTAAATTTTTTCAGGAGGATTTTCTCGATCCAAAATTTTTAAAATTCATCA
* * * * *
148248 AATATTATTATTTGATTCATATTAAATCAGTTTTAAAAAATTAATTCATTTTCATGAGTTTTGAA
66 AATATTATTATTTAATTCATATTAAATCAATTTTAAAAAATTAATTCATTTTCATAAATTTTCAA
*
148313 TTTTTTTCTTTGAAAA
131 TTTTTTTCCTTGAAAA
148329 TCCCTTTTCC
Statistics
Matches: 126, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
166 20 0.16
167 73 0.58
168 33 0.26
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (166 bp):
GAGTTTTCTACTCCGTAAATTTTTTCAGGAGGATTTTCTCGATCCAAAATTTTTAAAATTCATCA
AATATTATTATTTAATTCATATTAAATCAATTTTAAAAAATTAATTCATTTTCATAAATTTTCAA
TTTTTTTCCTTGAAAACCTCTTATTTTTGAAATACA
Found at i:148275 original size:167 final size:167
Alignment explanation
Indices: 148061--148486 Score: 456
Period size: 167 Copynumber: 2.6 Consensus size: 167
148051 TCATTGATCC
*
148061 AAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATGTTAAATCAATTTTTAAAAATTCAT
1 AAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAATTCAT
* * *
148126 TTATTTTCATAAATGTTTCAATTTTTTTCCTTGAAAA-CCTCTTATT-TTTGAAATA-CAGAGTT
66 TTATTTTCATAAAT-TTTAAATTTTTTTCCTTGAAAATCC-CTT-TTCCTTGAAAAATC-GAGTT
* * * *
148188 TTCTACTCCGTAA-ATTTTTTCGGGGGGA-TT-TTCTCGGTTT
127 TCCCACTCCATAACA-TTTTT-AGGGGGATTTGTTCTCGGTTT
* * * * *
148228 TAAATTTTTAAAATTCATCAAATATTATTATTTGATTCATATTAAATCAGTTTTAAAAAATTAAT
1 AAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAATTCAT
* * * * *
148293 TCATTTTCATGAGTTTTGAATTTTTTTCTTTGAAAATCCCTTTTCCTTGAAAAATCGAGTTTCCC
66 TTATTTTCATAAATTTTAAATTTTTTTCCTTGAAAATCCCTTTTCCTTGAAAAATCGAGTTTCCC
*
148358 ACTCCATAAGCATTTTTAGGGGGATTTGTTTTCGGTTT
131 ACTCCATAA-CATTTTTAGGGGGATTTGTTCTCGGTTT
* ** * * * * **
148396 AAAACTTTTGTAATTCATCTAATATTGTT-TTCAACTCCCATTAAATC-ATTTTTGAAAAATTCA
1 AAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTT-AAAAATTC-
148459 ATTTA-TTTCATAAATTTTAAATTTTTTT
64 ATTTATTTTCATAAATTTTAAATTTTTTT
148487 ATATATATCA
Statistics
Matches: 214, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
165 2 0.01
166 55 0.26
167 120 0.56
168 37 0.17
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (167 bp):
AAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATTTTTAAAAATTCAT
TTATTTTCATAAATTTTAAATTTTTTTCCTTGAAAATCCCTTTTCCTTGAAAAATCGAGTTTCCC
ACTCCATAACATTTTTAGGGGGATTTGTTCTCGGTTT
Found at i:151904 original size:19 final size:20
Alignment explanation
Indices: 151861--151911 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
151851 TACAAGCCAA
**
151861 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
*
151881 TGTATCGATACATACTGT-G
1 TGTATCGATACATACTATGG
151900 TGTATCGATACA
1 TGTATCGATACA
151912 AGTTTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:151988 original size:20 final size:20
Alignment explanation
Indices: 151944--151995 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
151934 GCCAATGACT
**
151944 TGTATCGATACATTTTTTCA
1 TGTATCGATACATTTAGTCA
* *
151964 AGTATTGATACATTTAGTCA
1 TGTATCGATACATTTAGTCA
151984 TGTATCGATACA
1 TGTATCGATACA
151996 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTAGTCA
Found at i:152001 original size:13 final size:13
Alignment explanation
Indices: 151983--152007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
151973 ACATTTAGTC
151983 ATGTATCGATACA
1 ATGTATCGATACA
151996 ATGTATCGATAC
1 ATGTATCGATAC
152008 TGTGCAATTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:152669 original size:26 final size:26
Alignment explanation
Indices: 152640--152700 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
152630 AATTGATACC
* *
152640 AATTTCTTTCTCCCCTTTAATCATAA
1 AATTTATTTCTCCCCCTTAATCATAA
*
152666 AATTTATTTCTCCCCCTTAATCGTAA
1 AATTTATTTCTCCCCCTTAATCATAA
152692 AATTTATTT
1 AATTTATTT
152701 ACGCAGATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.28, C:0.23, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTTATTTCTCCCCCTTAATCATAA
Found at i:154347 original size:20 final size:21
Alignment explanation
Indices: 154318--154358 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
154308 TGTTTTTGAT
154318 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
154337 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
154359 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:160712 original size:19 final size:20
Alignment explanation
Indices: 160669--160719 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
160659 TACAAGCCAA
**
160669 TGTATCGATACATTTTATGG
1 TGTATCGATACATACTATGG
*
160689 TGTATCGATACATACTGT-G
1 TGTATCGATACATACTATGG
160708 TGTATCGATACA
1 TGTATCGATACA
160720 AGTTTAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATACTATGG
Found at i:160796 original size:20 final size:20
Alignment explanation
Indices: 160752--160803 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
160742 GCCAATGACT
**
160752 TGTATCGATACATTTTTTCA
1 TGTATCGATACATTTAGTCA
*
160772 AGTATCGATACATTTAGTCA
1 TGTATCGATACATTTAGTCA
*
160792 TGTATTGATACA
1 TGTATCGATACA
160804 ATGTATCGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACATTTAGTCA
Found at i:161369 original size:42 final size:42
Alignment explanation
Indices: 161213--161362 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 42
161203 GAAAACGAAA
* * * * *
161213 TGCGTCTTGCTTTTTGAGGACGAAAGAAAGAGGAAAACAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGAGAGAGGAAAATAAAG
* * ** *
161255 TGTGTCCTGCTCTTTGAGGACAAAAGAGAAAATAAGGGAATGAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGAGAGAGGAA---AATAAAG
* *
161300 TGTGTCGTGCTCTTTGAGGACAAAA-AGGAGAGGAAAATAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGA-GAGAGGAAAATAAAG
*
161342 TGCGTCCTGCTCTTTAAGGAC
1 TGCGTCCTGCTCTTTGAGGAC
161363 TGAAAGGTGC
Statistics
Matches: 86, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 51 0.59
44 1 0.01
45 34 0.40
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (42 bp):
TGCGTCCTGCTCTTTGAGGACAAAAGAGAGAGGAAAATAAAG
Found at i:161533 original size:94 final size:93
Alignment explanation
Indices: 161398--161575 Score: 293
Period size: 94 Copynumber: 1.9 Consensus size: 93
161388 GCTTTGCAAA
* *
161398 GAGAAAGCATCCTGCTCTTTGAAGATGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTC
1 GAGAAAGCATCCTGCTCTTTGAAGATGGGAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGCATC
*
161463 TTGCTCTTTGAGGACTAAAGGGCGAAAG
66 CTGCTCTTTGAGGACTAAAGGGCGAAAG
* * *
161491 GAGAGAGCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTCGAAAGGCAT
1 GAGAAAGCATCCTGCTCTTTGAAGA-TGGGAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGCAT
161556 CCTGCTCTTTGAGGACTAAA
65 CCTGCTCTTTGAGGACTAAA
161576 AAAAAAATGC
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 23 0.29
94 55 0.71
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (93 bp):
GAGAAAGCATCCTGCTCTTTGAAGATGGGAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGCATC
CTGCTCTTTGAGGACTAAAGGGCGAAAG
Found at i:161603 original size:59 final size:55
Alignment explanation
Indices: 161497--161867 Score: 393
Period size: 55 Copynumber: 6.4 Consensus size: 55
161487 AAAGGAGAGA
*** * *
161497 GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTCGAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
161552 GCATCCTGCTCTTTGAGGACTAAAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACT----AAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
* * ** ** *
161611 GCGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTCATGTGGGCTTTAAAAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT--GAAAG
* *
161668 AAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCCCCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 ---GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* *
161732 GCGTCCTGCTCTTTGAGGACTAGAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACT--AAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAG
* * * *
161790 GCGTTCTGCTCTTGGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
161844 GCATCCTGCTCTTTGAGGACTAAA
1 GCATCCTGCTCTTTGAGGACTAAA
161868 GGGTGAAAAG
Statistics
Matches: 268, Mismatches: 31, Indels: 34
0.80 0.09 0.10
Matches are distributed among these distances:
54 45 0.17
55 52 0.19
57 4 0.01
58 23 0.09
59 48 0.18
60 44 0.16
61 20 0.07
63 6 0.02
64 26 0.10
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (55 bp):
GCATCCTGCTCTTTGAGGACTAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:161835 original size:54 final size:55
Alignment explanation
Indices: 161497--161867 Score: 379
Period size: 54 Copynumber: 6.4 Consensus size: 55
161487 AAAGGAGAGA
*** **
161497 GCATCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTCGAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* *
161552 GCATCCTGCTCTTTGAGGACTAAAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACT----AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * **
161611 GCGTCCTACTCTTTGAGGACTGGAAAA-TGCCACCAACTCATGTGGGCTTTAAAAAAG
1 GCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT--AAAAG
*
161668 AAAGCATCCTGCTCTTTGAGGACTAGAAAA-TGCCCCCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 ---GCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAG
*
161732 GCGTCCTGCTCTTTGAGGACTAGAAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCATCCTGCTCTTTGAGGACT---AAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
161790 GCGTTCTGCTCTTGGAGGACT-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
161844 GCATCCTGCTCTTTGAGGACTAAA
1 GCATCCTGCTCTTTGAGGACTAAA
161868 GGGTGAAAAG
Statistics
Matches: 269, Mismatches: 28, Indels: 38
0.80 0.08 0.11
Matches are distributed among these distances:
54 50 0.19
55 44 0.16
56 4 0.01
57 4 0.01
58 24 0.09
59 48 0.18
60 43 0.16
61 20 0.07
63 4 0.01
64 28 0.10
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (55 bp):
GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:161931 original size:94 final size:94
Alignment explanation
Indices: 161790--162010 Score: 309
Period size: 99 Copynumber: 2.3 Consensus size: 94
161780 GCTTTAAAAG
* *
161790 GCGTTCTGCTCTTGGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTT-GAAAGGCATCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCATCCTGCT
*
161854 CTTTGAGGACTAAAGGGTGAAAAGAGATA
66 CTTTGAGGACTAAAGGGTGAAAAGAGAGA
* * * *
161883 GTGTCCTGCTCTTTGAGGACTAGAAGGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAGGCGTC
1 GCGTCCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTT---A-GAAAGGCATC
*
161948 CTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
61 CTGCTCTTTGAGGACTAAAGGGTGAAAAGAGAGA
161982 GCGTCCTGCTCTTTGAGGACTGAAAAGTG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGTG
162011 AAAGGAGAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
93 19 0.17
94 25 0.23
99 66 0.59
100 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (94 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCATCCTGCT
CTTTGAGGACTAAAGGGTGAAAAGAGAGA
Found at i:161987 original size:39 final size:38
Alignment explanation
Indices: 161934--162018 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 38
161924 GTGGGCTTTA
* *
161934 AAAGGAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGGTG
1 AAAGGAGAGGCGTCCTGCTCTTTGAGGACTGAAA-AGTG
161972 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACTGAAAAGTG
1 AAAGGAGAG-GCGTCCTGCTCTTTGAGGACTGAAAAGTG
162011 AAAGGAGA
1 AAAGGAGA
162019 AAGTTTAGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 8 0.19
39 32 0.74
40 3 0.07
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (38 bp):
AAAGGAGAGGCGTCCTGCTCTTTGAGGACTGAAAAGTG
Found at i:162995 original size:1 final size:1
Alignment explanation
Indices: 162991--163078 Score: 77
Period size: 1 Copynumber: 88.0 Consensus size: 1
162981 TTTTCTCTCG
* * * * * * * * *
162991 TTTTTCTTTGTTTTGTTTTTTTCTTTGTTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTGTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
163056 TTTTTTTGTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
163079 AAAAAGAATG
Statistics
Matches: 65, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (1 bp):
T
Found at i:163020 original size:27 final size:24
Alignment explanation
Indices: 162992--163075 Score: 111
Period size: 23 Copynumber: 3.5 Consensus size: 24
162982 TTTCTCTCGT
162992 TTTTCTTTGTTTTGTTTTTTTCTTTG
1 TTTT-TTTGTTTTGTTTTTTT-TTTG
163018 TTTTTTTGTTTT-TTTTTTGTTTT-
1 TTTTTTTGTTTTGTTTTTT-TTTTG
*
163041 TTTGTTT-TTTTGTTTTTTTTTTG
1 TTTTTTTGTTTTGTTTTTTTTTTG
163064 TTTTTTTGTTTT
1 TTTTTTTGTTTT
163076 TTTAAAAAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
22 8 0.15
23 18 0.35
24 13 0.25
25 9 0.17
26 4 0.08
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (24 bp):
TTTTTTTGTTTTGTTTTTTTTTTG
Found at i:163025 original size:8 final size:8
Alignment explanation
Indices: 162991--163078 Score: 90
Period size: 8 Copynumber: 10.6 Consensus size: 8
162981 TTTTCTCTCG
*
162991 TTTTTCTT
1 TTTTTGTT
162999 TGTTTTGTT
1 T-TTTTGTT
*
163008 TTTTTCTT
1 TTTTTGTT
163016 TGTTTT-TT
1 T-TTTTGTT
*
163024 TGTTT-TT
1 TTTTTGTT
163031 TTTTTGTT
1 TTTTTGTT
163039 TTTTTGTT
1 TTTTTGTT
163047 TTTTTGTTTTT
1 TTTTTG---TT
163058 TTTTTGTT
1 TTTTTGTT
163066 TTTTTGTT
1 TTTTTGTT
163074 TTTTT
1 TTTTT
163079 AAAAAGAATG
Statistics
Matches: 70, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
7 9 0.13
8 42 0.60
9 11 0.16
11 8 0.11
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.88
Consensus pattern (8 bp):
TTTTTGTT
Done.