Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 120 of 135
Found at i:39916555 original size:39 final size:36
Alignment explanation
Indices: 39916512--39916591 Score: 115
Period size: 36 Copynumber: 2.1 Consensus size: 36
39916502 ATTTTAAAAT
39916512 TTTACAAAATAAGTCCATTAAATCATCATAAAACAATTA
1 TTTACAAAAT--GT-CATTAAATCATCATAAAACAATTA
**
39916551 TTTACTTAATGTCATTAAATCATCATAAAACAATTA
1 TTTACAAAATGTCATTAAATCATCATAAAACAATTA
39916587 TTTAC
1 TTTAC
39916592 TTAATGTTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
36 29 0.74
37 2 0.05
39 8 0.21
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (36 bp):
TTTACAAAATGTCATTAAATCATCATAAAACAATTA
Found at i:39916567 original size:36 final size:36
Alignment explanation
Indices: 39916527--39916598 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
39916517 AAAATAAGTC
39916527 CATTAAATCATCATAAAACAATTATTTACTTAATGT
1 CATTAAATCATCATAAAACAATTATTTACTTAATGT
39916563 CATTAAATCATCATAAAACAATTATTTACTTAATGT
1 CATTAAATCATCATAAAACAATTATTTACTTAATGT
39916599 TCCATCAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (36 bp):
CATTAAATCATCATAAAACAATTATTTACTTAATGT
Found at i:39918200 original size:24 final size:24
Alignment explanation
Indices: 39918160--39918221 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
39918150 TAGAGTAATA
* *
39918160 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
39918184 AGATTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
39918208 AGAGTTTAACTGAA
1 AGAGTTTAACTGAA
39918222 GATTATTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:39920211 original size:24 final size:24
Alignment explanation
Indices: 39920150--39920212 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
39920140 CAGAGTAATA
* *
39920150 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
*
39920174 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
39920198 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
39920213 GATTATTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:39920439 original size:11 final size:11
Alignment explanation
Indices: 39920423--39920480 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
39920413 ACCATTTCAC
39920423 TATTAAAATAT
1 TATTAAAATAT
39920434 TATTAAAATAT
1 TATTAAAATAT
* **
39920445 CTAATTTATTTAT
1 -T-ATTAAAATAT
*
39920458 TATTAATATAT
1 TATTAAAATAT
39920469 TATTTAAAATAT
1 TA-TTAAAATAT
39920481 CACTAACATC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
11 21 0.55
12 10 0.26
13 7 0.18
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:39920818 original size:2 final size:2
Alignment explanation
Indices: 39920811--39920864 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
39920801 ATATCTCACA
39920811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39920853 AT AT AT AT AT AT
1 AT AT AT AT AT AT
39920865 TTTATAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39924350 original size:30 final size:31
Alignment explanation
Indices: 39924316--39924380 Score: 91
Period size: 30 Copynumber: 2.1 Consensus size: 31
39924306 CATTTAACAC
39924316 AACAGTCACTCAAC-TT-T-GAAAATGTGACAA
1 AACAGTCACT-AACGTTATCGAAAA-GTGACAA
39924346 AACAGTCACTAACGTTATCGAAAAGTGACAA
1 AACAGTCACTAACGTTATCGAAAAGTGACAA
39924377 AACA
1 AACA
39924381 ATCATTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 3 0.09
30 12 0.38
31 12 0.38
32 5 0.16
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (31 bp):
AACAGTCACTAACGTTATCGAAAAGTGACAA
Found at i:39924553 original size:29 final size:28
Alignment explanation
Indices: 39924521--39924584 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
39924511 ATCAAAATCC
39924521 AATCGAAATCGAAAT-AACCCTAAATAAAA
1 AATCGAAATCG-AATGAACCCTAAAT-AAA
* *
39924550 AATCAAAATCGAATGAACCCTAAATGAA
1 AATCGAAATCGAATGAACCCTAAATAAA
39924578 AATCGAA
1 AATCGAA
39924585 TGAACTCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.56, C:0.17, G:0.09, T:0.17
Consensus pattern (28 bp):
AATCGAAATCGAATGAACCCTAAATAAA
Found at i:39924579 original size:22 final size:22
Alignment explanation
Indices: 39924549--39924601 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
39924539 CCTAAATAAA
39924549 AAATCAAAATCGAATGAACCCT
1 AAATCAAAATCGAATGAACCCT
* *
39924571 AAATGAAAATCGAATGAACTCT
1 AAATCAAAATCGAATGAACCCT
39924593 AAATCAAAA
1 AAATCAAAA
39924602 ATCACAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.55, C:0.17, G:0.09, T:0.19
Consensus pattern (22 bp):
AAATCAAAATCGAATGAACCCT
Found at i:39924781 original size:13 final size:14
Alignment explanation
Indices: 39924760--39924789 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
39924750 GTGTTTTTAA
*
39924760 AATTTTTTATTTTC
1 AATTTTTAATTTTC
39924774 AATTTTTAATTTTC
1 AATTTTTAATTTTC
39924788 AA
1 AA
39924790 AATTAAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
AATTTTTAATTTTC
Found at i:39925045 original size:47 final size:47
Alignment explanation
Indices: 39924947--39925045 Score: 121
Period size: 47 Copynumber: 2.1 Consensus size: 47
39924937 TGATTGTGAT
* ** *
39924947 TTTGATTTAGGGTTTATTCAATTTTGATTTGAATTCTGATTTTTATT
1 TTTGATTTAGGGTTTATTCAATTTTGATTAGAATTCTGATTGCTATA
*
39924994 TTTGATTTAGGG-TTATTTCGATTTTGATTAG-ATTCTGATTGCTACTA
1 TTTGATTTAGGGTTTA-TTCAATTTTGATTAGAATTCTGATTGCTA-TA
39925041 TTTGA
1 TTTGA
39925046 GATTTAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
46 14 0.31
47 31 0.69
ACGTcount: A:0.21, C:0.06, G:0.17, T:0.56
Consensus pattern (47 bp):
TTTGATTTAGGGTTTATTCAATTTTGATTAGAATTCTGATTGCTATA
Found at i:39925222 original size:30 final size:31
Alignment explanation
Indices: 39925155--39925225 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 31
39925145 AACTATAATA
39925155 AGTGACTGTTTTGTCACTTTTCGATAACGTT
1 AGTGACTGTTTTGTCACTTTTCGATAACGTT
39925186 AGTGACTGTTTTGTCACATTTTC-A-AA-GTT
1 AGTGACTGTTTTGTCAC-TTTTCGATAACGTT
39925215 GAGTGACTGTT
1 -AGTGACTGTT
39925226 GTGTTAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
29 3 0.08
30 12 0.32
31 18 0.47
32 5 0.13
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTCGATAACGTT
Found at i:39930565 original size:164 final size:168
Alignment explanation
Indices: 39929996--39930829 Score: 852
Period size: 167 Copynumber: 5.0 Consensus size: 168
39929986 CAGAATTGAC
* * * * * * *
39929996 CAGATCAACACATAAGAA-A-AACCCAAGTCCAATCTGTAACAAACATAAATTCATTTTGAGATA
1 CAGATCAACACATAA-AAGATAATCTAAATCCAATCCGTAACAAACATAAATTCAATTCGAGAAA
* * *
39930059 TACAAATTTGAGCAAACCAACAAACT-CGAGTCACTTCTGAG-TTCCT-GATCAGATGACACTAC
65 TACAAATCTGAGCAAACCAACGAACTACGA--C-CTTCCGAGATT--TAGATCAGATGACACTAC
* *
39930121 GTGAATAATTCAAAATTCAAAAGATTTG--AC-ACAATTTCTGAG
125 -CGAATAATTGAAAATTCAAAAGATTTGACACAACAATTTCTGAG
* * * * *
39930163 CAGATCAACGCGTAAAA-AGAAGCTAAATCCAATCCGTAACAAACATAAATTCAAATCGAGAAAT
1 CAGATCAACACATAAAAGATAATCTAAATCCAATCCGTAACAAACATAAATTCAATTCGAGAAAT
** * * *
39930227 ACAAATCCAAGCAAACCAAGGAACTCACGACGCTTCTGAGAATTAGATCAGATGACACTACGCGA
66 ACAAATCTGAGCAAACCAACGAACT-ACGAC-CTTCCGAGATTTAGATCAGATGACACTAC-CGA
* *
39930292 ATAATTTAAAATTCAAAAGATTTGACACGACAATTTCTGAG
128 ATAATTGAAAATTCAAAAGATTTGACACAACAATTTCTGAG
* *
39930333 CAGATCAACA-A-AAAAGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTAGA-AAAG
1 CAGATCAACACATAAAAGATAATCTAAATCCAATCCGTAACAAACATAAATTCAATTCGAGAAA-
*
39930395 TACAAATCTGAGCAAACCAACGAACT-C-A-CTTCCGAGATTTAGATCAGATGACA-TGA-C-AC
65 TACAAATCTGAGCAAACCAACGAACTACGACCTTCCGAGATTTAGATCAGATGACACT-ACCGAA
* * *
39930454 TACTCGAATAATTCAAAATGATTTGAAACAACAATTTCTGAG
129 TAATTGAA-AATTCAAAA-GATTTGACACAACAATTTCTGAG
*
39930496 CAGAGT-AACACATGAAAA-ATAATCTAAATCCAAT-TGTAACAAACATAAATTCAATTCGAGAA
1 CAGA-TCAACACAT-AAAAGATAATCTAAATCCAATCCGTAACAAACATAAATTCAATTCGAGAA
* * * * *
39930558 TTACAAATCTGAGCAAACCAACGAACTCAAGA---TCAGAGATTCAGATCAGATAACACTACGCG
64 ATACAAATCTGAGCAAACCAACGAACT-ACGACCTTCCGAGATTTAGATCAGATGACACTAC-CG
* * * *
39930620 AATAATTGAAAATACAAAAGATTTTACACACCAATTTTTGAG
127 AATAATTGAAAATTCAAAAGATTTGACACAACAATTTCTGAG
* * *
39930662 CAGATCAACACTTAAAAGAGAAATCTAAATCCAATCCATAACAAACATAAATTCAATTCGAGAAA
1 CAGATCAACACATAAAAGA-TAATCTAAATCCAATCCGTAACAAACATAAATTCAATTCGAGAAA
** * * *
39930727 TACAAATCTGAGCTGACGAACGAACTCACGACGCTTCCGAGATTTAGATCAGATTAAACTACGCG
65 TACAAATCTGAGCAAACCAACGAACT-ACGAC-CTTCCGAGATTTAGATCAGATGACACTAC-CG
* *
39930792 AAGAATTCAAAATTCAAAAGATTTGACACAACAATTTC
127 AATAATTGAAAATTCAAAAGATTTGACACAACAATTTC
39930830 GAAACAAAAT
Statistics
Matches: 564, Mismatches: 70, Indels: 61
0.81 0.10 0.09
Matches are distributed among these distances:
161 6 0.01
162 10 0.02
163 30 0.05
164 76 0.13
165 44 0.08
166 40 0.07
167 146 0.26
168 68 0.12
169 65 0.12
170 21 0.04
172 58 0.10
ACGTcount: A:0.45, C:0.20, G:0.13, T:0.23
Consensus pattern (168 bp):
CAGATCAACACATAAAAGATAATCTAAATCCAATCCGTAACAAACATAAATTCAATTCGAGAAAT
ACAAATCTGAGCAAACCAACGAACTACGACCTTCCGAGATTTAGATCAGATGACACTACCGAATA
ATTGAAAATTCAAAAGATTTGACACAACAATTTCTGAG
Found at i:39930802 original size:332 final size:326
Alignment explanation
Indices: 39930134--39930804 Score: 835
Period size: 332 Copynumber: 2.0 Consensus size: 326
39930124 AATAATTCAA
* *
39930134 AATTCAAAA-GATTTGACACAATTTCTGAGCAGATCAACGCGTAAAAAGAAGCTAAATCCAATCC
1 AATTCAAAATGATTTGACACAATTTCTGAGCAGATCAACACATAAAAAGAAGCTAAATCCAATCC
* *
39930198 GTAACAAACATAAATTCAAATCGAGAAATACAAATCCAAGCAAACCAAGGAACTCACGACGCTTC
66 GTAACAAACATAAATTCAAATCGAGAAATACAAATCCAAGCAAACCAACGAACTCAC-ACGCATC
* * * *
39930263 TGAGAATTAGATCAGATGACACTACGCGAATAATTTAAAATTCAAAAGATTTGACACGACAATTT
130 AGAGAATTAGATCAGATAACACTACGCGAATAATTGAAAATACAAAAGATTTGACACGACAATTT
**
39930328 CTGAGCAGATCAACAAAAAAGATAATCTAAATCCAATCTGTAACAAACATAAATTCAATTAGAAA
195 CTGAGCAGATCAACAAAAAAGATAATCTAAATCCAATCCATAACAAACATAAATTCAATTAGAAA
* *
39930393 AGTACAAATCTGAGCAAACCAACGAACTCACTTCCGAGATTTAGATCAGATGACATGACACTACT
260 AGTACAAATCTGAGCAAACCAACGAACTCACTTCCGAGATTTAGATCAGAT---ATGAAACTACG
*
39930458 CGAAT
322 CGAAG
* *
39930463 AATTCAAAATGATTTGAAACAACAATTTCTGAGCAGAGT-AACACATGAAAAATAATCTAAATCC
1 AATTCAAAATGATTTG--AC-ACAATTTCTGAGCAGA-TCAACACAT-AAAAAGAAGCTAAATCC
* * * **
39930527 AAT-TGTAACAAACATAAATTCAATTCGAGAATTACAAATCTGAGCAAACCAACGAACTCA-A-G
61 AATCCGTAACAAACATAAATTCAAATCGAGAAATACAAATCCAAGCAAACCAACGAACTCACACG
*
39930589 -ATCAGAG-ATTCAGATCAGATAACACTACGCGAATAATTGAAAATACAAAAGATTTTACAC-AC
126 CATCAGAGAATT-AGATCAGATAACACTACGCGAATAATTGAAAATACAAAAGATTTGACACGA-
*
39930651 CAATTTTTGAGCAGATCAACACTTAAAAGAGA-AATCTAAATCCAATCCATAACAAACATAAATT
189 CAATTTCTGAGCAGATCAACA---AAAA-AGATAATCTAAATCCAATCCATAACAAACATAAATT
* ** *
39930715 CAATTCGAGAAA-TACAAATCTGAGCTGACGAACGAACTCACGACGCTTCCGAGATTTAGATCAG
250 CAATTAGA-AAAGTACAAATCTGAGCAAACCAACGAACT--C-A--CTTCCGAGATTTAGATCAG
39930779 AT-T-AAACTACGCGAAG
309 ATATGAAACTACGCGAAG
39930795 AATTCAAAAT
1 AATTCAAAAT
39930805 TCAAAAGATT
Statistics
Matches: 298, Mismatches: 26, Indels: 33
0.83 0.07 0.09
Matches are distributed among these distances:
328 4 0.01
329 79 0.27
330 7 0.02
331 1 0.00
332 86 0.29
333 79 0.27
334 20 0.07
335 1 0.00
337 21 0.07
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.22
Consensus pattern (326 bp):
AATTCAAAATGATTTGACACAATTTCTGAGCAGATCAACACATAAAAAGAAGCTAAATCCAATCC
GTAACAAACATAAATTCAAATCGAGAAATACAAATCCAAGCAAACCAACGAACTCACACGCATCA
GAGAATTAGATCAGATAACACTACGCGAATAATTGAAAATACAAAAGATTTGACACGACAATTTC
TGAGCAGATCAACAAAAAAGATAATCTAAATCCAATCCATAACAAACATAAATTCAATTAGAAAA
GTACAAATCTGAGCAAACCAACGAACTCACTTCCGAGATTTAGATCAGATATGAAACTACGCGAA
G
Found at i:39934281 original size:16 final size:16
Alignment explanation
Indices: 39934257--39934290 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39934247 AAAATTCATA
*
39934257 TTATTTATTTTATATT
1 TTATATATTTTATATT
*
39934273 TTATATATTTTTTATT
1 TTATATATTTTATATT
39934289 TT
1 TT
39934291 TATTAAGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATATATTTTATATT
Found at i:39935133 original size:24 final size:24
Alignment explanation
Indices: 39935106--39935155 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
39935096 AAACATATCA
* * *
39935106 TATTAATACAATAATATTTATATT
1 TATTAACACAACAATATCTATATT
*
39935130 TATTGACACAACAATATCTATATT
1 TATTAACACAACAATATCTATATT
39935154 TA
1 TA
39935156 ATATATCCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (24 bp):
TATTAACACAACAATATCTATATT
Found at i:39944427 original size:20 final size:20
Alignment explanation
Indices: 39944399--39944436 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
39944389 GAAGTGTTAT
39944399 AAAAAGAGA-CTGAAAAGGG
1 AAAAAGAGACCTGAAAAGGG
39944418 AAAAAGGAGACCTGAAAAG
1 AAAAA-GAGACCTGAAAAG
39944437 AAGAAAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.58, C:0.08, G:0.29, T:0.05
Consensus pattern (20 bp):
AAAAAGAGACCTGAAAAGGG
Found at i:39955487 original size:2 final size:2
Alignment explanation
Indices: 39955405--39955470 Score: 82
Period size: 2 Copynumber: 33.5 Consensus size: 2
39955395 TAAGTCAGAA
39955405 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
39955446 -T AGT AT AT GT AT AA AT AT AG AT AT A
1 AT A-T AT AT AT AT AT AT AT AT AT AT A
39955471 AAATTTGTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.04
2 51 0.93
3 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:39955499 original size:2 final size:2
Alignment explanation
Indices: 39955494--39955538 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
39955484 TATAAAAAAT
39955494 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
39955536 TC T
1 TC T
39955539 ATATATATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:39955598 original size:2 final size:2
Alignment explanation
Indices: 39955538--39955581 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
39955528 TCTCTCTCTC
39955538 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39955580 TA
1 TA
39955582 CATACATCAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39964048 original size:36 final size:36
Alignment explanation
Indices: 39963964--39964034 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
39963954 TTTTAATTAA
* *
39963964 AAAAATCAATCTATTTTTTGATCTAAAATACAATAG
1 AAAAATTAATTTATTTTTTGATCTAAAATACAATAG
39964000 AAAAATTAATTTATTTTTTGATCTAAAATACAATA
1 AAAAATTAATTTATTTTTTGATCTAAAATACAATA
39964035 ATTAATATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.39
Consensus pattern (36 bp):
AAAAATTAATTTATTTTTTGATCTAAAATACAATAG
Found at i:39964845 original size:2 final size:2
Alignment explanation
Indices: 39964838--39964873 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
39964828 ACATGCATAC
39964838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39964874 TTAAAAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39969218 original size:31 final size:32
Alignment explanation
Indices: 39969177--39969249 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
39969167 AATTTATATC
*
39969177 TTTATAATTTTTAAAGGATT-AAATCAAATTT
1 TTTATTATTTTTAAAGGATTAAAATCAAATTT
* * *
39969208 TTTATTATTTTTAAGGGGTTAAAATGAAATTT
1 TTTATTATTTTTAAAGGATTAAAATCAAATTT
*
39969240 TATCATTATT
1 T-TTATTATT
39969250 AATTTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 17 0.49
32 11 0.31
33 7 0.20
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.51
Consensus pattern (32 bp):
TTTATTATTTTTAAAGGATTAAAATCAAATTT
Found at i:39969821 original size:3 final size:3
Alignment explanation
Indices: 39969813--39969845 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
39969803 TGTAGCTGCA
39969813 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
39969846 TTAATGGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GTG
Found at i:39971349 original size:21 final size:21
Alignment explanation
Indices: 39971325--39971364 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39971315 AAGATTGTGA
* *
39971325 ATATATAAAATACAGAATAAG
1 ATATAAAAAATAAAGAATAAG
39971346 ATATAAAAAATAAAGAATA
1 ATATAAAAAATAAAGAATA
39971365 TTATTCTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (21 bp):
ATATAAAAAATAAAGAATAAG
Found at i:39971549 original size:29 final size:31
Alignment explanation
Indices: 39971507--39971567 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
39971497 TAGTAAAAAT
* **
39971507 AAAATTATATTTTAATTTTTTAAAAA-TATA
1 AAAATTATAATTTAATCCTTTAAAAATTATA
39971537 AAAATT-TAATTTAATCCTTTAAAAATTATA
1 AAAATTATAATTTAATCCTTTAAAAATTATA
39971567 A
1 A
39971568 TCATATAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (31 bp):
AAAATTATAATTTAATCCTTTAAAAATTATA
Found at i:39971894 original size:20 final size:21
Alignment explanation
Indices: 39971866--39971905 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
39971856 TAGTGCTCCT
*
39971866 AAATTATTTGAG-TTTGATTA
1 AAATAATTTGAGATTTGATTA
*
39971886 AAATAATTTGGGATTTGATT
1 AAATAATTTGAGATTTGATT
39971906 CGGCATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.47
Consensus pattern (21 bp):
AAATAATTTGAGATTTGATTA
Found at i:39973661 original size:18 final size:17
Alignment explanation
Indices: 39973627--39973662 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
39973617 ATAGTTTTTT
39973627 TTTATTTTTTAAATTTA
1 TTTATTTTTTAAATTTA
*
39973644 TTTATTTATTTGAATTTA
1 TTTATTT-TTTAAATTTA
39973662 T
1 T
39973663 CAAACCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTATTTTTTAAATTTA
Found at i:39979749 original size:31 final size:31
Alignment explanation
Indices: 39979711--39979802 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 31
39979701 ATTAATACCT
*
39979711 ATTTAAATAAAAATTTTCGAAAAGTTCAGTG
1 ATTTAAATAAAAATTTTCGAAAAGTTCAATG
* * * *
39979742 ATTTAAATGAAACTTTTTGAATAGTTCAATG
1 ATTTAAATAAAAATTTTCGAAAAGTTCAATG
* * *
39979773 ACTTAAACAAAAACTTTCGAATAA-TTCAAT
1 ATTTAAATAAAAATTTTCGAA-AAGTTCAAT
39979803 AATCATTGTG
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
31 47 0.98
32 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (31 bp):
ATTTAAATAAAAATTTTCGAAAAGTTCAATG
Found at i:39980630 original size:16 final size:17
Alignment explanation
Indices: 39980609--39980648 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
39980599 ACCGCTATGT
*
39980609 AATAAATATAT-TTATA
1 AATAAATATATGTTAAA
*
39980625 AATAAATTTATGTTAAA
1 AATAAATATATGTTAAA
39980642 AATAAAT
1 AATAAAT
39980649 GAGTATGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (17 bp):
AATAAATATATGTTAAA
Found at i:39981794 original size:20 final size:21
Alignment explanation
Indices: 39981756--39981794 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
39981746 ATTCAATCTT
39981756 TAATAATTATATATCTTTTAC
1 TAATAATTATATATCTTTTAC
* *
39981777 TAAT-ATTATGTATTTTTT
1 TAATAATTATATATCTTTT
39981795 TTCTTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (21 bp):
TAATAATTATATATCTTTTAC
Found at i:39984190 original size:17 final size:17
Alignment explanation
Indices: 39984152--39984190 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
39984142 TTATTTTCAC
* *
39984152 AATTTTATAATTTTTAA
1 AATTTTATAATTATAAA
*
39984169 TATTTTATAATTATAAA
1 AATTTTATAATTATAAA
39984186 AATTT
1 AATTT
39984191 GAATTTTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTATAATTATAAA
Found at i:39984444 original size:16 final size:15
Alignment explanation
Indices: 39984415--39984457 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
39984405 ATCATTGCTC
*
39984415 TAAATATTTAAAATTT
1 TAAA-ATTTAAAATAT
*
39984431 TACAATTATAAAATAT
1 TAAAATT-TAAAATAT
39984447 TAAAATTTAAA
1 TAAAATTTAAA
39984458 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAAATTTAAAATAT
Found at i:39989460 original size:9 final size:9
Alignment explanation
Indices: 39989446--39989529 Score: 67
Period size: 9 Copynumber: 9.8 Consensus size: 9
39989436 GTAAATGATT
39989446 TTAAAATTA
1 TTAAAATTA
39989455 TTAAAATTA
1 TTAAAATTA
39989464 TT----TT-
1 TTAAAATTA
*
39989468 TTAAAAATA
1 TTAAAATTA
39989477 -TAAAATTA
1 TTAAAATTA
39989485 TTAAAATTA
1 TTAAAATTA
39989494 TTTTAAAATTAA
1 --TTAAAATT-A
39989506 TTTAAAA-TA
1 -TTAAAATTA
39989515 -TAAAATTA
1 TTAAAATTA
39989523 TTAAAAT
1 TTAAAAT
39989530 AATCATTTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
7 5 0.08
8 10 0.16
9 26 0.42
10 1 0.02
11 15 0.24
12 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TTAAAATTA
Found at i:39989480 original size:21 final size:22
Alignment explanation
Indices: 39989444--39989486 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
39989434 CAGTAAATGA
*
39989444 TTTTAAAATTATTAAAATTATT
1 TTTTAAAAATATTAAAATTATT
39989466 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
39989487 AAAATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAATATTAAAATTATT
Found at i:39989522 original size:38 final size:38
Alignment explanation
Indices: 39989446--39989529 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 38
39989436 GTAAATGATT
*
39989446 TTAAAATTATTAAAATTATTTTTTAAAAATATAAAATTA
1 TTAAAATTATTAAAATTA-TATTTAAAAATATAAAATTA
39989485 TTAAAATTATTTTAAAATTA-ATTT-AAAATATAAAATTA
1 TTAAAATTA--TTAAAATTATATTTAAAAATATAAAATTA
39989523 TTAAAAT
1 TTAAAAT
39989530 AATCATTTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
38 21 0.50
39 12 0.29
41 9 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (38 bp):
TTAAAATTATTAAAATTATATTTAAAAATATAAAATTA
Found at i:39989597 original size:19 final size:19
Alignment explanation
Indices: 39989569--39989605 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39989559 TTTTCTGTTC
39989569 CCCTTCCCCCCTTCCCTTT
1 CCCTTCCCCCCTTCCCTTT
* *
39989588 CCCTTTCCCCTTTCCCTT
1 CCCTTCCCCCCTTCCCTT
39989606 CCTAGATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (19 bp):
CCCTTCCCCCCTTCCCTTT
Found at i:39992098 original size:3 final size:3
Alignment explanation
Indices: 39992090--39992115 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
39992080 TTTGGTATGG
39992090 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
39992116 GTGCCATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:39993473 original size:24 final size:25
Alignment explanation
Indices: 39993420--39993473 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
39993410 TCATCATTTT
* *
39993420 AAATATTCAAGAATTTATAATTATA
1 AAATATTCAAAAATTTATAAATATA
39993445 AAATATT-AAAAATTTA-AAATATA
1 AAATATTCAAAAATTTATAAATATA
39993468 ATAATA
1 A-AATA
39993474 ATAAGTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 12 0.46
25 7 0.27
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATATTCAAAAATTTATAAATATA
Found at i:39994150 original size:24 final size:25
Alignment explanation
Indices: 39994119--39994166 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
39994109 AGGTTATTTT
39994119 TATTTTTA-AATCATTTTAGGTTTG
1 TATTTTTATAATCATTTTAGGTTTG
*
39994143 TATTTTTATTAATCATTTTGGGTT
1 TATTTTTA-TAATCATTTTAGGTT
39994167 ATCTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
26 13 0.62
ACGTcount: A:0.23, C:0.04, G:0.12, T:0.60
Consensus pattern (25 bp):
TATTTTTATAATCATTTTAGGTTTG
Found at i:39994386 original size:74 final size:74
Alignment explanation
Indices: 39994263--39994410 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
39994253 TTTTAAATTC
*
39994263 AGATTATTTGGATTTGTTAATCAATTCATCAAATGAAGTTTTGGGTCATTCTCATTTTCAAATCA
1 AGATTATTTGGATTTGTTAATCAATTCATCAAATGAAGTTTTGGATCATTCTCATTTTCAAATCA
39994328 CTTTTGATA
66 CTTTTGATA
39994337 AGATTATTTGGATTTGTTAATCAATTCATCAAATGAAGTTTTGGATCATTCTCATTTTCAAATCA
1 AGATTATTTGGATTTGTTAATCAATTCATCAAATGAAGTTTTGGATCATTCTCATTTTCAAATCA
39994402 CTTTTGATA
66 CTTTTGATA
39994411 CATGAGTTTG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (74 bp):
AGATTATTTGGATTTGTTAATCAATTCATCAAATGAAGTTTTGGATCATTCTCATTTTCAAATCA
CTTTTGATA
Found at i:39998265 original size:11 final size:11
Alignment explanation
Indices: 39998238--39998278 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
39998228 GATCAAGCAA
39998238 AAAAAATTAAC
1 AAAAAATTAAC
39998249 AGAAAAATTAAC
1 A-AAAAATTAAC
39998261 AAAAAATTTAA-
1 AAAAAA-TTAAC
39998272 AAAAAAT
1 AAAAAAT
39998279 CGATCTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.04
11 12 0.43
12 15 0.54
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (11 bp):
AAAAAATTAAC
Found at i:40005587 original size:23 final size:21
Alignment explanation
Indices: 40005539--40005614 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
40005529 AAACAACGTT
* *
40005539 AAAAACAACAAAAATAATAGC
1 AAAAACAACAAAAATAACAAC
40005560 AAAAACAACATGAAAATAACAAC
1 AAAAACAACA--AAAATAACAAC
* *
40005583 CAAAACAGTA-AAAAATAGC-AC
1 AAAAACA--ACAAAAATAACAAC
*
40005604 CAAAACAACAA
1 AAAAACAACAA
40005615 TATAATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 19 0.41
22 7 0.15
23 15 0.33
24 1 0.02
25 1 0.02
ACGTcount: A:0.68, C:0.18, G:0.05, T:0.08
Consensus pattern (21 bp):
AAAAACAACAAAAATAACAAC
Found at i:40006270 original size:27 final size:29
Alignment explanation
Indices: 40006224--40006326 Score: 97
Period size: 27 Copynumber: 3.4 Consensus size: 29
40006214 TTAAAATAAT
*
40006224 ATTAAGATAACTATATAAAAATT-TTAATAA
1 ATTAAAATAA-TATATAAAAATTATTAA-AA
40006254 A-TAAAA-AATATAT-AAAATTATTAAAA
1 ATTAAAATAATATATAAAAATTATTAAAA
*
40006280 ATTAAAATAATATAATAAAAATATTTTTAAAAA
1 ATTAAAATAATAT-AT-AAAA-ATTATT-AAAA
40006313 ATTAAAAATAATAT
1 ATT-AAAATAATAT
40006327 GAGCGATCCT
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
26 9 0.15
27 14 0.23
28 7 0.11
29 6 0.10
30 1 0.02
31 3 0.05
32 5 0.08
33 7 0.11
34 10 0.16
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (29 bp):
ATTAAAATAATATATAAAAATTATTAAAA
Found at i:40006309 original size:25 final size:23
Alignment explanation
Indices: 40006281--40006326 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 23
40006271 TTATTAAAAA
40006281 TTAAAATAATATAATAAA-AATATTT
1 TTAAAA-AAT-TAA-AAATAATATTT
40006306 TTAAAAAATTAAAAATAATAT
1 TTAAAAAATTAAAAATAATAT
40006327 GAGCGATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 3 0.15
25 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TTAAAAAATTAAAAATAATATTT
Found at i:40008480 original size:22 final size:23
Alignment explanation
Indices: 40008453--40008497 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
40008443 GCCACGTCAA
40008453 CAATTAATTAA-TTTTTAAATTT
1 CAATTAATTAATTTTTTAAATTT
40008475 CAATTAATTAATTTTTTAAATTT
1 CAATTAATTAATTTTTTAAATTT
40008498 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
CAATTAATTAATTTTTTAAATTT
Found at i:40008518 original size:17 final size:18
Alignment explanation
Indices: 40008496--40008529 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
40008486 TTTTTTAAAT
40008496 TTAAAAAA-TAAAAATTA
1 TTAAAAAATTAAAAATTA
40008513 TTAAAAAATTAAAAATT
1 TTAAAAAATTAAAAATT
40008530 TTATAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TTAAAAAATTAAAAATTA
Found at i:40011789 original size:44 final size:44
Alignment explanation
Indices: 40011655--40011776 Score: 192
Period size: 44 Copynumber: 2.8 Consensus size: 44
40011645 ATAGGTCAAA
*
40011655 TAATATTAAAATAA-CTTACATTAATAAGAGTTTAAGTGAGAAAC
1 TAATATTAAAATAATC-TACATTAATCAGAGTTTAAGTGAGAAAC
* * *
40011699 TAATATTAAAATAATCTACACTAATCAAAGTTTAAGTGAAAAAC
1 TAATATTAAAATAATCTACATTAATCAGAGTTTAAGTGAGAAAC
40011743 TAATATTAAAATAATCTACATTAATCAGAGTTTA
1 TAATATTAAAATAATCTACATTAATCAGAGTTTA
40011777 GATAGGGAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 70 0.99
45 1 0.01
ACGTcount: A:0.50, C:0.09, G:0.08, T:0.33
Consensus pattern (44 bp):
TAATATTAAAATAATCTACATTAATCAGAGTTTAAGTGAGAAAC
Found at i:40013230 original size:28 final size:28
Alignment explanation
Indices: 40013176--40013230 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
40013166 TTAATTCTTA
*
40013176 TATTTTAATTTGATTAATTTAATTTTTC
1 TATTTTAATTTGATTAATTTAAGTTTTC
* * * *
40013204 TATTTTGATTTGGTTCATTTTAGTTTT
1 TATTTTAATTTGATTAATTTAAGTTTT
40013231 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.65
Consensus pattern (28 bp):
TATTTTAATTTGATTAATTTAAGTTTTC
Found at i:40014362 original size:16 final size:17
Alignment explanation
Indices: 40014343--40014376 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
40014333 GTTAAGTTAT
*
40014343 ATGATAT-TTAAATATA
1 ATGATATATAAAATATA
40014359 ATGATATATAAAATATA
1 ATGATATATAAAATATA
40014376 A
1 A
40014377 AGTTTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
ATGATATATAAAATATA
Found at i:40014410 original size:25 final size:24
Alignment explanation
Indices: 40014382--40014461 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 24
40014372 TATAAAGTTT
40014382 AAATACTTTTTAAATAATTAATATA
1 AAATA-TTTTTAAATAATTAATATA
* * *
40014407 AAATATTTCTAAAATTGATGATATATA
1 AAATATTT-TTAAA-TAATTA-ATATA
*
40014434 AAATATTTTTAAA-AATTAAAATA
1 AAATATTTTTAAATAATTAATATA
*
40014457 TAATA
1 AAATA
40014462 AATAAGATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
23 8 0.18
24 6 0.14
25 9 0.20
26 8 0.18
27 13 0.30
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (24 bp):
AAATATTTTTAAATAATTAATATA
Found at i:40014494 original size:31 final size:31
Alignment explanation
Indices: 40014441--40014521 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 31
40014431 ATAAAATATT
*
40014441 TTTAAA-AA-TTAAAAT-ATAATAAATAAGA
1 TTTAAATAATTTAACATAATAATAAATAAGA
** * *
40014469 TTTAAATAATTTATTATAATAATAAATGATA
1 TTTAAATAATTTAACATAATAATAAATAAGA
40014500 TTTAAATAATTTAACATAATAA
1 TTTAAATAATTTAACATAATAA
40014522 AAACACAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 6 0.14
29 2 0.05
30 5 0.11
31 31 0.70
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (31 bp):
TTTAAATAATTTAACATAATAATAAATAAGA
Found at i:40015331 original size:30 final size:31
Alignment explanation
Indices: 40015273--40015335 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 31
40015263 ATTAAATTAA
*
40015273 ATTATTATTAATTTAGAATTAAAATAAAAATTT
1 ATTATTATTAATTTAAAATT--AATAAAAATTT
*
40015306 ATTATTATTAATTTAAAATT-TTAAAAATTT
1 ATTATTATTAATTTAAAATTAATAAAAATTT
40015336 TAAATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.32
33 19 0.68
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
ATTATTATTAATTTAAAATTAATAAAAATTT
Found at i:40018749 original size:17 final size:17
Alignment explanation
Indices: 40018727--40018763 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
40018717 CATTTAGTGT
* *
40018727 AAAAAATTTATTTAAAA
1 AAAAAATTAATCTAAAA
40018744 AAAAAATTAATCTAAAA
1 AAAAAATTAATCTAAAA
40018761 AAA
1 AAA
40018764 TCAAATACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAATTAATCTAAAA
Found at i:40019092 original size:22 final size:22
Alignment explanation
Indices: 40019058--40019099 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
40019048 AATTAGATTT
**
40019058 TTTTTATTTAAGTTATTATAAA
1 TTTTTATCGAAGTTATTATAAA
*
40019080 TTTTTATCGAAGTTTTTATA
1 TTTTTATCGAAGTTATTATA
40019100 TTCTTCACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (22 bp):
TTTTTATCGAAGTTATTATAAA
Found at i:40019326 original size:14 final size:14
Alignment explanation
Indices: 40019303--40019340 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
40019293 TGTTTGACTG
40019303 AAAATGATTTCTGA
1 AAAATGATTTCTGA
*
40019317 AAAATAATTTCTGA
1 AAAATGATTTCTGA
40019331 AAAATGATTT
1 AAAATGATTT
40019341 ATTTTTCTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:40022930 original size:19 final size:18
Alignment explanation
Indices: 40022897--40022932 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
40022887 CAAAAACAGC
*
40022897 AACAAAAATAATAGCAAA
1 AACAAAAAAAATAGCAAA
40022915 AACAACAAAAAATAGCAA
1 AACAA-AAAAAATAGCAA
40022933 TCAAAACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.72, C:0.14, G:0.06, T:0.08
Consensus pattern (18 bp):
AACAAAAAAAATAGCAAA
Found at i:40024606 original size:18 final size:18
Alignment explanation
Indices: 40024571--40024613 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
40024561 TCCAGGAAGA
** *
40024571 GCAAGAAGATGAAGAAAG
1 GCAAGAAGAACAAAAAAG
40024589 GCAAGAAGAACAAAAAAG
1 GCAAGAAGAACAAAAAAG
*
40024607 GTAAGAA
1 GCAAGAA
40024614 ATAGATTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.60, C:0.07, G:0.28, T:0.05
Consensus pattern (18 bp):
GCAAGAAGAACAAAAAAG
Found at i:40033354 original size:31 final size:31
Alignment explanation
Indices: 40033313--40033371 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
40033303 AAATGATCAT
*
40033313 TAAATTATTTGAAAGTTTTCATTTAAGTTAC
1 TAAACTATTTGAAAGTTTTCATTTAAGTTAC
*
40033344 TAAACTATTTGAAAGTTTTTATTTAAGT
1 TAAACTATTTGAAAGTTTTCATTTAAGT
40033372 CATTTGGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (31 bp):
TAAACTATTTGAAAGTTTTCATTTAAGTTAC
Found at i:40033900 original size:6 final size:6
Alignment explanation
Indices: 40033889--40033920 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
40033879 ATAAAAATTT
40033889 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AA
40033921 AGAAGAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:40033931 original size:12 final size:13
Alignment explanation
Indices: 40033892--40033924 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
40033882 AAAATTTAAG
40033892 AAAAAGAAAAAG-
1 AAAAAGAAAAAGA
40033904 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
40033917 AAAAAGAA
1 AAAAAGAA
40033925 GAGAAAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAGA
Found at i:40038611 original size:15 final size:17
Alignment explanation
Indices: 40038584--40038619 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
40038574 ATTTTATTTT
40038584 AATAATAAATTTTAAA-
1 AATAATAAATTTTAAAC
40038600 AATAAT-AATTTTAAAC
1 AATAATAAATTTTAAAC
40038616 AATA
1 AATA
40038620 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAATAAATTTTAAAC
Found at i:40039173 original size:14 final size:14
Alignment explanation
Indices: 40039154--40039186 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
40039144 AAATATTAAT
40039154 TTTTTCAAAAATTA
1 TTTTTCAAAAATTA
*
40039168 TTTTTCGAAAATTA
1 TTTTTCAAAAATTA
40039182 TTTTT
1 TTTTT
40039187 AATGAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTTTCAAAAATTA
Found at i:40040628 original size:18 final size:18
Alignment explanation
Indices: 40040607--40040646 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
40040597 GAAAGAACAC
40040607 AAAAAAGAAAAAAAAAGG
1 AAAAAAGAAAAAAAAAGG
* * *
40040625 AAAAGAGAGAAAAATAGG
1 AAAAAAGAAAAAAAAAGG
40040643 AAAA
1 AAAA
40040647 TGTTATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.03
Consensus pattern (18 bp):
AAAAAAGAAAAAAAAAGG
Found at i:40045411 original size:5 final size:5
Alignment explanation
Indices: 40045401--40045440 Score: 71
Period size: 5 Copynumber: 7.8 Consensus size: 5
40045391 GCAGTACATT
40045401 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC AAAAAC AAAA
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC -AAAAC AAAA
40045441 ACCTTTGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.82, C:0.17, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:40056947 original size:27 final size:29
Alignment explanation
Indices: 40056888--40056950 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
40056878 TACTGTTAGT
* *
40056888 TTTTATATTTGAATGAAATTTAAATTTAAA
1 TTTTATATTTGAA-GAAATTAAAATATAAA
*
40056918 TTTTATATTT-AA-AAATTAAAATATATA
1 TTTTATATTTGAAGAAATTAAAATATAAA
40056945 TTTTAT
1 TTTTAT
40056951 GAATTTAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 18 0.60
29 2 0.07
30 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
TTTTATATTTGAAGAAATTAAAATATAAA
Found at i:40061406 original size:15 final size:15
Alignment explanation
Indices: 40061386--40061431 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
40061376 ACAACACGAC
40061386 AACATAAGTGACTAA
1 AACATAAGTGACTAA
* *
40061401 AACATAACGT--TTCA
1 AACATAA-GTGACTAA
40061415 AACATAAGTGACTAA
1 AACATAAGTGACTAA
40061430 AA
1 AA
40061432 TGTAATCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 2 0.08
14 9 0.38
15 11 0.46
16 2 0.08
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (15 bp):
AACATAAGTGACTAA
Found at i:40062159 original size:16 final size:15
Alignment explanation
Indices: 40062138--40062176 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
40062128 ATAACAACTT
40062138 TTTTAATTAAATTAAA
1 TTTTAATTAAA-TAAA
*
40062154 TTTTAA-TAAATATA
1 TTTTAATTAAATAAA
40062168 TTTTAATTA
1 TTTTAATTA
40062177 TATTTACGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 9 0.43
15 6 0.29
16 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTTAATTAAATAAA
Found at i:40063343 original size:22 final size:22
Alignment explanation
Indices: 40063292--40063343 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
40063282 TAAATATTAT
*
40063292 ATAAAAAATAAATATTACTAAA
1 ATAAATAATAAATATTACTAAA
** *
40063314 ATTTATAATAAA-ATTATTAAAA
1 ATAAATAATAAATATTACT-AAA
40063336 ATAAATAA
1 ATAAATAA
40063344 ATGAACTGAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAAATAATAAATATTACTAAA
Found at i:40065131 original size:3 final size:3
Alignment explanation
Indices: 40065123--40065147 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
40065113 TCTTTTTTAA
40065123 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
40065148 CATTCCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:40071877 original size:24 final size:24
Alignment explanation
Indices: 40071799--40071867 Score: 129
Period size: 24 Copynumber: 2.9 Consensus size: 24
40071789 AATCTTTAAG
*
40071799 TTAAACTCTGTTTAATTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
40071823 TTAAACTCTGTTTATTTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
40071847 TTAAACTCTGTTTATTTGTTT
1 TTAAACTCTGTTTATTTGTTT
40071868 GAGTCAAACT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.55
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTCAA
Found at i:40076141 original size:21 final size:21
Alignment explanation
Indices: 40076115--40076155 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
40076105 GTTAATTTAA
*
40076115 TATTTAATAAATATATATATT
1 TATTTAATAAAAATATATATT
* *
40076136 TATTTATTAAAAATTTATAT
1 TATTTAATAAAAATATATAT
40076156 ATAAACATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTAATAAAAATATATATT
Found at i:40077785 original size:17 final size:17
Alignment explanation
Indices: 40077758--40077796 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
40077748 CAATCATTAC
40077758 AAAATTAAAAATTCA-A
1 AAAATTAAAAATTCATA
40077774 AAAATATAAAAATTCATA
1 AAAAT-TAAAAATTCATA
40077792 AAAAT
1 AAAAT
40077797 CAATATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 10 0.48
18 6 0.29
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATTAAAAATTCATA
Found at i:40084361 original size:31 final size:30
Alignment explanation
Indices: 40084318--40084389 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
40084308 ACAACAAGAG
* *
40084318 GACTATTTTGTCACT-TTTCAATAACTTTAGT
1 GACTGTTTTGTCA-TATTTCAA-AACTTGAGT
* *
40084349 GACTGTTTTGTCATATTTCCAAAGTTGAGT
1 GACTGTTTTGTCATATTTCAAAACTTGAGT
40084379 GACTGTTTTGT
1 GACTGTTTTGT
40084390 TAAACATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 19 0.53
31 17 0.47
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (30 bp):
GACTGTTTTGTCATATTTCAAAACTTGAGT
Found at i:40084537 original size:30 final size:31
Alignment explanation
Indices: 40084479--40084545 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
40084469 TGACGGAAAA
*
40084479 GGACTATTTTGTCACATTTTCAAAAGTTGAG
1 GGACTGTTTTGTCACATTTTCAAAAGTTGAG
*
40084510 GGACTGTTTTGTCATATTTTC-AAAGTTGAG
1 GGACTGTTTTGTCACATTTTCAAAAGTTGAG
40084540 GGACTG
1 GGACTG
40084546 AAATATAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 15 0.44
31 19 0.56
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (31 bp):
GGACTGTTTTGTCACATTTTCAAAAGTTGAG
Found at i:40088319 original size:5 final size:5
Alignment explanation
Indices: 40088309--40088333 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
40088299 GGTGCGATAC
40088309 GTTTA GTTTA GTTTA GTTTA GTTTA
1 GTTTA GTTTA GTTTA GTTTA GTTTA
40088334 CTTTTTGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
GTTTA
Found at i:40097696 original size:29 final size:31
Alignment explanation
Indices: 40097662--40097723 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
40097652 CATAAATTTG
*
40097662 AAATTTAATCTTTATAC-TTTT-ATTTTTAA
1 AAATTTAATCTTTATACATTTTAAATTTTAA
* *
40097691 AAATTTAGTTTTTATACATTTTAAATTTTAA
1 AAATTTAATCTTTATACATTTTAAATTTTAA
40097722 AA
1 AA
40097724 TTCAGGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.54
30 4 0.14
31 9 0.32
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (31 bp):
AAATTTAATCTTTATACATTTTAAATTTTAA
Found at i:40103516 original size:21 final size:21
Alignment explanation
Indices: 40103490--40103529 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
40103480 ATCTTTGAGG
*
40103490 ATTTAATGGAATAATTATTTT
1 ATTTAATGAAATAATTATTTT
40103511 ATTTAATGAAATAATTATT
1 ATTTAATGAAATAATTATT
40103530 AGGTGGGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
ATTTAATGAAATAATTATTTT
Found at i:40106748 original size:15 final size:15
Alignment explanation
Indices: 40106728--40106757 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
40106718 CAATTTTTTT
*
40106728 TTATAAATTTGGATA
1 TTATAAATTTAGATA
40106743 TTATAAATTTAGATA
1 TTATAAATTTAGATA
40106758 ATATTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (15 bp):
TTATAAATTTAGATA
Found at i:40109231 original size:31 final size:31
Alignment explanation
Indices: 40109170--40109231 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
40109160 GAAAGTTTAC
* * *
40109170 ATTTTAGTTGTTCAATTATTGGGAAGTTTTT
1 ATTTTAGTTATTAAATTATTGGGAAATTTTT
*
40109201 ATTTTAAGTTATTAAATTATT-TGAAATTTTT
1 ATTTT-AGTTATTAAATTATTGGGAAATTTTT
40109232 TAATCAAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (31 bp):
ATTTTAGTTATTAAATTATTGGGAAATTTTT
Found at i:40109232 original size:32 final size:31
Alignment explanation
Indices: 40109159--40109233 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 31
40109149 ATGGGCTATA
** * *
40109159 GGAAAGTTTACATTTTAGTTGTTCAATTATT
1 GGAAAGTTTTTATTTTAGTTATTAAATTATT
*
40109190 GGGAAGTTTTTATTTTAAGTTATTAAATTATT
1 GGAAAGTTTTTATTTT-AGTTATTAAATTATT
* *
40109222 TGAAATTTTTTA
1 GGAAAGTTTTTA
40109234 ATCAAGTGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 13 0.37
32 22 0.63
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.52
Consensus pattern (31 bp):
GGAAAGTTTTTATTTTAGTTATTAAATTATT
Found at i:40115571 original size:13 final size:13
Alignment explanation
Indices: 40115553--40115580 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
40115543 GAGTAAGTGC
40115553 AAATGTTAAACAA
1 AAATGTTAAACAA
40115566 AAATGTTAAACAA
1 AAATGTTAAACAA
40115579 AA
1 AA
40115581 GAAATAGAAT
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:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AAATGTTAAACAA
Found at i:40132044 original size:31 final size:31
Alignment explanation
Indices: 40131982--40132046 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
40131972 GGTATTTATA
* * *
40131982 TTATTTTTTTTATCAATTTAGCTCTTGTACT
1 TTATTTTTATTATCAATTTAGCTCCTATACT
*
40132013 TTATTTTTATTATCAATTT-GATCCCTATACT
1 TTATTTTTATTATCAATTTAGCT-CCTATACT
40132044 TTA
1 TTA
40132047 ATCCTGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.58
Consensus pattern (31 bp):
TTATTTTTATTATCAATTTAGCTCCTATACT
Found at i:40132180 original size:11 final size:12
Alignment explanation
Indices: 40132164--40132188 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
40132154 TAAAAATATG
40132164 AAAAAAATTAAA
1 AAAAAAATTAAA
40132176 AAAAAAATTAAA
1 AAAAAAATTAAA
40132188 A
1 A
40132189 TTCCCCAAAA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAATTAAA
Found at i:40132456 original size:22 final size:22
Alignment explanation
Indices: 40132428--40132475 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
40132418 TAAAAAACTC
* *
40132428 AAAATTCCTTAAAAATATAAAA
1 AAAATTCCCTAAAAATACAAAA
*
40132450 AAAATTCCCTAAAAATGCAAAA
1 AAAATTCCCTAAAAATACAAAA
40132472 AAAA
1 AAAA
40132476 AAAACCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAATTCCCTAAAAATACAAAA
Found at i:40132539 original size:20 final size:21
Alignment explanation
Indices: 40132504--40132542 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
40132494 AAAAAATACA
*
40132504 ATAAATTTCTTAATTTTTTTC
1 ATAAAATTCTTAATTTTTTTC
40132525 ATAAAATTC-TAATTTTTT
1 ATAAAATTCTTAATTTTTT
40132543 ATAAAAACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (21 bp):
ATAAAATTCTTAATTTTTTTC
Found at i:40134817 original size:29 final size:28
Alignment explanation
Indices: 40134785--40134880 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 28
40134775 AAAATGTGAC
*
40134785 TTTTGGAAATTTGAAGGCAAAATGGTAA
1 TTTTGGAAATTTGAGGGCAAAATGGTAA
* * *
40134813 TTTTTGGATATTCGAGGGCAAAATGGTGA
1 -TTTTGGAAATTTGAGGGCAAAATGGTAA
*
40134842 TTTTGAAAAAGTTT-AGGGTCAAAATGGTAA
1 TTTTG-GAAA-TTTGAGGG-CAAAATGGTAA
40134872 TTTTGGAAA
1 TTTTGGAAA
40134881 AGTTTGGGGG
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
28 5 0.09
29 33 0.60
30 17 0.31
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.34
Consensus pattern (28 bp):
TTTTGGAAATTTGAGGGCAAAATGGTAA
Found at i:40134818 original size:59 final size:61
Alignment explanation
Indices: 40134755--40134995 Score: 213
Period size: 60 Copynumber: 4.1 Consensus size: 61
40134745 TAAGTCAAAC
* *
40134755 TTTTGGAAAA-TTAG-GGGTCGAAAATGTGACTTTTGGAAA-TTTGAAGG-CAAAATGGTAAT
1 TTTTGGAAAAGTTCGAGGGTC-AAAATGTGATTTTTGGAAAGTTT-AAGGTCAAAATGGTAAT
* * *
40134814 TTTTGG-ATA-TTCGAGGG-CAAAATGGTGA-TTTTGAAAAAGTTTAGGGTCAAAATGGTAA-
1 TTTTGGAAAAGTTCGAGGGTCAAAAT-GTGATTTTTG-GAAAGTTTAAGGTCAAAATGGTAAT
* * * * *
40134872 TTTTGGAAAAGTTTGGGGGTC-AAATATAATTTTTGGAAAGTTTAGAGGTCAAAAT-GTGAT
1 TTTTGGAAAAGTTCGAGGGTCAAAATGTGATTTTTGGAAAGTTTA-AGGTCAAAATGGTAAT
* *
40134932 TTTT-GAAAAGTTCGAGGGTCAAAATGTGATTTTT-GAGAAGTTCAAGGGTCAAAAT-GTGAT
1 TTTTGGAAAAGTTCGAGGGTCAAAATGTGATTTTTGGA-AAGTTTAA-GGTCAAAATGGTAAT
40134992 TTTT
1 TTTT
40134996 AGACAAAATA
Statistics
Matches: 151, Mismatches: 17, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
57 10 0.07
58 22 0.15
59 55 0.36
60 63 0.42
61 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.35
Consensus pattern (61 bp):
TTTTGGAAAAGTTCGAGGGTCAAAATGTGATTTTTGGAAAGTTTAAGGTCAAAATGGTAAT
Found at i:40134964 original size:29 final size:30
Alignment explanation
Indices: 40134769--40134995 Score: 182
Period size: 30 Copynumber: 7.6 Consensus size: 30
40134759 GGAAAATTAG
* * *
40134769 GGGTCGAAAATGTGACTTTTGGAAA-TTTGA
1 GGGTC-AAAATGTGATTTTTGAAAAGTTCGA
* * * *
40134799 AGG-CAAAATGGTAATTTTTGGATA-TTCGA
1 GGGTCAAAAT-GTGATTTTTGAAAAGTTCGA
*
40134828 GGG-CAAAATGGTGA-TTTTGAAAAAGTT-TA
1 GGGTCAAAAT-GTGATTTTTG-AAAAGTTCGA
* * * *
40134857 GGGTCAAAATGGTAATTTTGGAAAAGTTTGG
1 GGGTCAAAAT-GTGATTTTTGAAAAGTTCGA
* * * *
40134888 GGGTC-AAATATAATTTTTGGAAAGTT-TA
1 GGGTCAAAATGTGATTTTTGAAAAGTTCGA
40134916 GAGGTCAAAATGTGATTTTTGAAAAGTTCGA
1 G-GGTCAAAATGTGATTTTTGAAAAGTTCGA
* *
40134947 GGGTCAAAATGTGATTTTTGAGAAGTTCAA
1 GGGTCAAAATGTGATTTTTGAAAAGTTCGA
40134977 GGGTCAAAATGTGATTTTT
1 GGGTCAAAATGTGATTTTT
40134996 AGACAAAATA
Statistics
Matches: 163, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
28 11 0.07
29 52 0.32
30 89 0.55
31 11 0.07
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (30 bp):
GGGTCAAAATGTGATTTTTGAAAAGTTCGA
Found at i:40137235 original size:14 final size:14
Alignment explanation
Indices: 40137216--40137242 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40137206 TAATATAACT
40137216 ATTTCATACAATCA
1 ATTTCATACAATCA
40137230 ATTTCATACAATC
1 ATTTCATACAATC
40137243 TTTTTAGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTTCATACAATCA
Found at i:40138821 original size:19 final size:19
Alignment explanation
Indices: 40138799--40138841 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
40138789 TTTCCCAAAA
*
40138799 AATTTCCCTT-TTTTTATTT
1 AATTT-CCTTATTTTTATTG
*
40138818 AATTTTCTTATTTTTATTG
1 AATTTCCTTATTTTTATTG
40138837 AATTT
1 AATTT
40138842 TAAAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.67
Consensus pattern (19 bp):
AATTTCCTTATTTTTATTG
Found at i:40139328 original size:18 final size:19
Alignment explanation
Indices: 40139289--40139332 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
40139279 CTTTGGATAT
40139289 TTTTAAATTATGATTTAAA
1 TTTTAAATTATGATTTAAA
40139308 TTTTAAA-T-TGATTTCAAA
1 TTTTAAATTATGATTT-AAA
40139326 TTTTAAA
1 TTTTAAA
40139333 ATATTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.25
18 11 0.46
19 7 0.29
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (19 bp):
TTTTAAATTATGATTTAAA
Found at i:40139338 original size:17 final size:17
Alignment explanation
Indices: 40139298--40139343 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
40139288 TTTTTAAATT
40139298 ATGATTTAAATTTTAAA
1 ATGATTTAAATTTTAAA
*
40139315 TTGATTTCAAATTTTAAA
1 ATGATTT-AAATTTTAAA
*
40139333 AT-ATTTTAATT
1 ATGATTTAAATT
40139344 AAATATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 4 0.16
17 10 0.40
18 11 0.44
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (17 bp):
ATGATTTAAATTTTAAA
Found at i:40148621 original size:31 final size:32
Alignment explanation
Indices: 40148565--40148626 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
40148555 CAAAATGATT
*
40148565 ATTGAATTATCTGAAATTTTTTTATTTAAGTG
1 ATTGAATTATCTGAAATGTTTTTATTTAAGTG
*
40148597 ATTGAATTATTTGAAA-GTTTTTATTTAAGT
1 ATTGAATTATCTGAAATGTTTTTATTTAAGT
40148627 CACTGGGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (32 bp):
ATTGAATTATCTGAAATGTTTTTATTTAAGTG
Found at i:40148638 original size:31 final size:29
Alignment explanation
Indices: 40148583--40148647 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
40148573 ATCTGAAATT
* *
40148583 TTTTTATTTAAGTGATTGAATTATTTGAAAG
1 TTTTTATTTAAGTCACTGAATTA-TT-AAAG
**
40148614 TTTTTATTTAAGTCACTGGGTTATTAAAG
1 TTTTTATTTAAGTCACTGAATTATTAAAG
40148643 TTTTT
1 TTTTT
40148648 TAAAAAGTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.30
30 2 0.07
31 19 0.63
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (29 bp):
TTTTTATTTAAGTCACTGAATTATTAAAG
Found at i:40150867 original size:24 final size:24
Alignment explanation
Indices: 40150839--40150902 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
40150829 ATAAAGAATC
40150839 TTTCAGTTAAACTCTTTTTATTTG
1 TTTCAGTTAAACTCTTTTTATTTG
* *
40150863 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTTTTTATTTG
* *
40150887 TTTGAGTCAAACTCTT
1 TTTCAGTTAAACTCTT
40150903 ATTAGTCTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.53
Consensus pattern (24 bp):
TTTCAGTTAAACTCTTTTTATTTG
Found at i:40153779 original size:19 final size:19
Alignment explanation
Indices: 40153757--40153810 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
40153747 TTAAAAAAAC
40153757 TAAAAAATATATAAAATTT
1 TAAAAAATATATAAAATTT
* * *
40153776 T-AAAAATCTAAAAAAATT
1 TAAAAAATATATAAAATTT
* *
40153794 AAAAAAACATATAAAAT
1 TAAAAAATATATAAAAT
40153811 AACTTTAGTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAAATATATAAAATTT
Found at i:40156810 original size:19 final size:19
Alignment explanation
Indices: 40156786--40156823 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
40156776 AAAAAAAAAG
*
40156786 ATAATTAATGATTTAAATT
1 ATAATTAATGAATTAAATT
40156805 ATAATTAATGAATTAAATT
1 ATAATTAATGAATTAAATT
40156824 GGGATTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
ATAATTAATGAATTAAATT
Found at i:40160733 original size:181 final size:181
Alignment explanation
Indices: 40160430--40160757 Score: 438
Period size: 181 Copynumber: 1.8 Consensus size: 181
40160420 AATAAGGAAA
* *
40160430 TAAAATTTTGGAGGGAAAATATTAAAAAAAAATTGGAGGGGGGGAGGAGGAATAGTTTTGGTGTA
1 TAAAATTTTGGAAGGAAAATATTAAAAAAAAATTGGAGGGGGGGAGGAGGAATAGTTTTGGGGTA
*
40160495 GATGGGACTGGGATGGGAGAAGAGTAAAAGTTTTAGGGAGAAAGTGAGAGAGAGTAAAAG-TTTT
66 GATGGGACTGGGATAGGAGAAGAGTAAAAGTTTTAGGGAGAAAGTGAGAGAGAGTAAAAGTTTTT
* *
40160559 GGGGAAAAA-TAAAAAGTTTTTAGGGTTTTTGGGAAAACAAATGGGGGGAG
131 GAGAAAAAAGTAAAAAGTTTTTAGGGTTTTTGGGAAAACAAATGGGGGGAG
*
40160609 TAAAATTTTGGAAGGAAAATATTAAAAGAAAA-TGAGAGGGGGGG-GG-GGAATGAG-TTTGGGG
1 TAAAATTTTGGAAGGAAAATATTAAAAAAAAATTG-GAGGGGGGGAGGAGGAAT-AGTTTTGGGG
* * * *
40160670 TAGATGGGAAGGAGTGGGATAGGAG-GGAAGTAAAAGTTTTGGGGGGAAAGTGAGA-AGGAGTAA
64 TAGAT--G--GGACTGGGATAGGAGAAG-AGTAAAAGTTTTAGGGAGAAAGTGAGAGA-GAGTAA
40160733 AAGTTTTTGAGAAAAAAGTAAAAAG
123 AAGTTTTTGAGAAAAAAGTAAAAAG
40160758 ATTTGAGGTA
Statistics
Matches: 129, Mismatches: 10, Indels: 16
0.83 0.06 0.10
Matches are distributed among these distances:
177 16 0.12
178 6 0.05
179 40 0.31
180 2 0.02
181 47 0.36
182 11 0.09
183 7 0.05
ACGTcount: A:0.40, C:0.01, G:0.38, T:0.22
Consensus pattern (181 bp):
TAAAATTTTGGAAGGAAAATATTAAAAAAAAATTGGAGGGGGGGAGGAGGAATAGTTTTGGGGTA
GATGGGACTGGGATAGGAGAAGAGTAAAAGTTTTAGGGAGAAAGTGAGAGAGAGTAAAAGTTTTT
GAGAAAAAAGTAAAAAGTTTTTAGGGTTTTTGGGAAAACAAATGGGGGGAG
Found at i:40160815 original size:18 final size:18
Alignment explanation
Indices: 40160792--40160828 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
40160782 TATAGTTTAA
*
40160792 TATTCGATTTATTCGAAT
1 TATTCGAGTTATTCGAAT
*
40160810 TATTCGAGTTATTTGAAT
1 TATTCGAGTTATTCGAAT
40160828 T
1 T
40160829 CGAAAACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCGAAT
Found at i:40162725 original size:31 final size:31
Alignment explanation
Indices: 40162687--40162745 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
40162677 GAATTTTTTA
40162687 ATATACTTTCTTTAATTTTTTT-TAATTTCAT
1 ATATACTTT-TTTAATTTTTTTGTAATTTCAT
*
40162718 ATATACTTTTTTAGTTTTTTTGTAATTT
1 ATATACTTTTTTAATTTTTTTGTAATTT
40162746 TATAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.66
Consensus pattern (31 bp):
ATATACTTTTTTAATTTTTTTGTAATTTCAT
Found at i:40162749 original size:29 final size:29
Alignment explanation
Indices: 40162682--40162749 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 29
40162672 TTTATGAATT
40162682 TTTTAATATACTTTCTTTAATTTTTTTTAA
1 TTTT-ATATACTTTCTTTAATTTTTTTTAA
*
40162712 TTTCATATATACTTT-TTTAGTTTTTTTGTAA
1 TTT--TATATACTTTCTTTAATTTTTTT-TAA
40162743 TTTTATA
1 TTTTATA
40162750 AAAATTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 4 0.12
30 14 0.41
31 15 0.44
32 1 0.03
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (29 bp):
TTTTATATACTTTCTTTAATTTTTTTTAA
Found at i:40166866 original size:13 final size:13
Alignment explanation
Indices: 40166848--40166872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40166838 GATAAAACCT
40166848 TATTTTATTTTTA
1 TATTTTATTTTTA
40166861 TATTTTATTTTT
1 TATTTTATTTTT
40166873 TTAACAAATA
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTATTTTTA
Found at i:40178460 original size:16 final size:17
Alignment explanation
Indices: 40178439--40178472 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
40178429 CTATTTTTAA
*
40178439 ATTTT-AATTTTAATTT
1 ATTTTAAATTTAAATTT
40178455 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
40178472 A
1 A
40178473 ATTAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:40178472 original size:22 final size:23
Alignment explanation
Indices: 40178433--40178475 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
40178423 TTGGACCTAT
*
40178433 TTTTAAATTTTAATTTTAATTTA
1 TTTTAAATTTTAAATTTAATTTA
40178456 TTTTAAA-TTTAAATTTAATT
1 TTTTAAATTTTAAATTTAATT
40178476 AAAAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTAAATTTTAAATTTAATTTA
Found at i:40180146 original size:29 final size:28
Alignment explanation
Indices: 40180113--40180335 Score: 107
Period size: 29 Copynumber: 7.7 Consensus size: 28
40180103 CAAAAAAGGT
40180113 CCCTAAACTTTCTAAAAATCATATTTTAA
1 CCCTAAACTTTC-AAAAATCATATTTTAA
* * *
40180142 CCCTAAACATTTCCAAAATTATATTTTGA
1 CCCTAAAC-TTTCAAAAATCATATTTTAA
*
40180171 CCCTTAAAC-TTCATGAAATAT-ATATTTT-T
1 CCC-TAAACTTTCA--AAA-ATCATATTTTAA
* * * **
40180200 CCCTCAAACTTCTCAACAATTACATTTTTT
1 CCCT-AAACTT-TCAAAAATCATATTTTAA
* * *
40180230 CCCTCGAACTTCCAAAAATCACATTTT-A
1 CCCT-AAACTTTCAAAAATCATATTTTAA
* * * *
40180258 CCCCACACTTCCAAAAATCACATTTT-A
1 CCCTAAACTTTCAAAAATCATATTTTAA
* *
40180285 CCCTCGAACTTCTCAAAAATTACAT-TTTTAC
1 CCCT-AAACTT-TCAAAAA-T-CATATTTTAA
* *
40180316 CCCTGAACTTCCAAAAATCA
1 CCCTAAACTTTCAAAAATCA
40180336 CCATTTTGCC
Statistics
Matches: 157, Mismatches: 22, Indels: 32
0.74 0.10 0.15
Matches are distributed among these distances:
27 26 0.17
28 14 0.09
29 64 0.41
30 42 0.27
31 11 0.07
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (28 bp):
CCCTAAACTTTCAAAAATCATATTTTAA
Found at i:40180316 original size:30 final size:29
Alignment explanation
Indices: 40180194--40180399 Score: 171
Period size: 29 Copynumber: 7.2 Consensus size: 29
40180184 TGAAATATAT
* * *
40180194 ATTTTT-CCCTCAAACTTCTCAACAATTAC
1 ATTTTTACCCTCGAACTTC-CAAAAATCAC
*
40180223 ATTTTTTCCCTCGAACTTCCAAAAATCAC
1 ATTTTTACCCTCGAACTTCCAAAAATCAC
40180252 A-TTTTACCC-C-ACACTTCCAAAAATCAC
1 ATTTTTACCCTCGA-ACTTCCAAAAATCAC
*
40180279 A-TTTTACCCTCGAACTTCTCAAAAATTAC
1 ATTTTTACCCTCGAACTTC-CAAAAATCAC
40180308 ATTTTTACCC-CTGAACTTCCAAAAATCACC
1 ATTTTTACCCTC-GAACTTCCAAAAATCA-C
* * *
40180338 A-TTTTGCCCTTTAGAA--TCCAAAAATTAC
1 ATTTTTACCC--TCGAACTTCCAAAAATCAC
* * *
40180366 TATTTTT-CCCTCAAATTTCCAAAAGTCAC
1 -ATTTTTACCCTCGAACTTCCAAAAATCAC
40180395 ATTTT
1 ATTTT
40180400 CAACCCCCAA
Statistics
Matches: 149, Mismatches: 13, Indels: 31
0.77 0.07 0.16
Matches are distributed among these distances:
26 1 0.01
27 28 0.19
28 19 0.13
29 66 0.44
30 32 0.21
31 3 0.02
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (29 bp):
ATTTTTACCCTCGAACTTCCAAAAATCAC
Found at i:40180444 original size:30 final size:30
Alignment explanation
Indices: 40180410--40180470 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
40180400 CAACCCCCAA
* *
40180410 TTTTCCAAAAGTTCGACTTTAATCCCAAAT
1 TTTTCAAAAAGTTCAACTTTAATCCCAAAT
* * *
40180440 TTTTCAAAAATTTCAATTTTGATCCCAAAT
1 TTTTCAAAAAGTTCAACTTTAATCCCAAAT
40180470 T
1 T
40180471 CCTCTAAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (30 bp):
TTTTCAAAAAGTTCAACTTTAATCCCAAAT
Found at i:40183100 original size:6 final size:6
Alignment explanation
Indices: 40183077--40183168 Score: 64
Period size: 6 Copynumber: 15.5 Consensus size: 6
40183067 TTTGAACAAG
* ** * *
40183077 ATTTAA ATTTAT GGTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATGTAAAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT-T-TAA
* * * *
40183126 ACTTAA ATTT-G CTTTAA ATTTAA ATTT-A ATTAAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT
40183169 AATAATAAAA
Statistics
Matches: 63, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
5 11 0.17
6 47 0.75
7 2 0.03
8 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:40183113 original size:17 final size:17
Alignment explanation
Indices: 40183077--40183168 Score: 82
Period size: 17 Copynumber: 5.5 Consensus size: 17
40183067 TTTGAACAAG
*
40183077 ATTTAAATTTATGGTTAA
1 ATTTAAATTTAT-TTTAA
40183095 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
* *
40183112 ATTTAAATGTA---AAA
1 ATTTAAATTTATTTTAA
* **
40183126 ACTTAAATTTGCTTTAA
1 ATTTAAATTTATTTTAA
* *
40183143 ATTTAAATTTAATTAAA
1 ATTTAAATTTATTTTAA
40183160 ATTTAAATT
1 ATTTAAATT
40183169 AATAATAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
14 10 0.17
17 38 0.63
18 12 0.20
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:40185064 original size:29 final size:27
Alignment explanation
Indices: 40185015--40185095 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 27
40185005 ATAAGTCCCT
40185015 AAACTATCCAGAAATTACATTTTGACCCAA
1 AAACT-TCCA-AAATTACATTTT-ACCCAA
**
40185045 AAACTTCCAAAATTACCATTTTACCCCT
1 AAACTTCCAAAATTA-CATTTTACCCAA
*
40185073 AAACTTTCCAAAATTTCATTTTA
1 AAAC-TTCCAAAATTACATTTTA
40185096 AAACCTGATT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 21 0.46
29 20 0.43
30 5 0.11
ACGTcount: A:0.40, C:0.25, G:0.02, T:0.33
Consensus pattern (27 bp):
AAACTTCCAAAATTACATTTTACCCAA
Found at i:40185127 original size:59 final size:59
Alignment explanation
Indices: 40185053--40185446 Score: 401
Period size: 59 Copynumber: 6.7 Consensus size: 59
40185043 AAAAACTTCC
* * *
40185053 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTAAAACC-TGATTTCACCA
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTT-TAACCTTGATTTCACCA
* * *
40185112 AAAATTACCGTTTTACCCCTAAACTTTCTAAAATTCCA-TTTTAACCTTGATTTCA-CA
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTTGATTTCACCA
* * *
40185169 CAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCA
1 -AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTTGATTTCACCA
*
40185229 AAAATTACCATTTTA-CCCTCGAACTTTCCTAAATTCCATTTTTAACCTTGATTTCACCA
1 AAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCTTGATTTCACCA
* * * * * * ** *
40185288 AAAATTACCATTTTACCCTTGAACTTTTCTAAATTCCATTTTTGACC-CGGTTTGGCTA
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTTGATTTCACCA
* * * * ** *
40185346 AAAATCACCGTTTTA-CCCTCGAGC-TTCC-AAATCCCATTTTTAACCCCGATTTTTACCA
1 AAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCTTGA-TTTCACCA
* * * *
40185404 AAAATTATCGTTTTACCCCAGAACCTTT-CAAAATCCCATTTTT
1 AAAATTACCATTTTACCCCTGAA-CTTTCCAAAATTCCATTTTT
40185447 TTAACCTTAA
Statistics
Matches: 285, Mismatches: 37, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
56 15 0.05
57 14 0.05
58 90 0.32
59 146 0.51
60 20 0.07
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTTGATTTCACCA
Found at i:40185173 original size:29 final size:29
Alignment explanation
Indices: 40185141--40185302 Score: 131
Period size: 29 Copynumber: 5.5 Consensus size: 29
40185131 TAAACTTTCT
*
40185141 AAAATT-CCATTTTAACCTTGATTTCACAC
1 AAAATTACCATTTTAACCTCGATTTCAC-C
* *
40185170 AAAATTACCATTTTACCCCCGAACTTT--CC
1 AAAATTACCATTTTAACCTCG-A-TTTCACC
*
40185199 AAAATT-CCATTTTTAACCTCGGTTTCACC
1 AAAATTACCA-TTTTAACCTCGATTTCACC
*
40185228 AAAAATTACCATTTTACCCTCGAACTTT--CC
1 -AAAATTACCATTTTAACCTCG-A-TTTCACC
* *
40185258 TAAATT-CCATTTTTAACCTTGATTTCACC
1 AAAATTACCA-TTTTAACCTCGATTTCACC
40185287 AAAAATTACCATTTTA
1 -AAAATTACCATTTTA
40185303 CCCTTGAACT
Statistics
Matches: 106, Mismatches: 12, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
27 6 0.06
28 7 0.07
29 40 0.38
30 40 0.38
31 7 0.07
32 6 0.06
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAATTACCATTTTAACCTCGATTTCACC
Found at i:40185225 original size:117 final size:118
Alignment explanation
Indices: 40185051--40185446 Score: 434
Period size: 117 Copynumber: 3.4 Consensus size: 118
40185041 CCAAAAACTT
* * * *
40185051 CCAAAATTACCATTTTACCCCTAAACTTTCCAAAATTTCATTTTAAAACCT-GATTTCACCAAAA
1 CCAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTT-TAACCTCGGTTTCACCAAAA
40185115 ATTACCGTTTTACCCCT-AAACTTT-CTAAAATTCCA-TTTTAACCTTGATTTCA
65 ATTACCGTTTTACCCCTCAAACTTTCCT-AAATTCCATTTTTAACCTTGATTTCA
*
40185167 CACAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCAAAA
1 C-CAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCAAAA
* *
40185232 ATTACCATTTTA-CCCTCGAACTTTCCTAAATTCCATTTTTAACCTTGATTTCA
65 ATTACCGTTTTACCCCTCAAACTTTCCTAAATTCCATTTTTAACCTTGATTTCA
* * * * ** *
40185285 CCAAAAATTACCATTTTACCCTTGAACTTTTCTAAATTCCATTTTTGACC-CGGTTTGGCTAAAA
1 CC-AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCAAAA
* * * * ** *
40185349 ATCACCGTTTTA-CCCTCGAGC-TTCC-AAATCCCATTTTTAACCCCGATTTTTA
65 ATTACCGTTTTACCCCTCAAACTTTCCTAAATTCCATTTTTAACCTTGA-TTTCA
* * * *
40185401 CCAAAAATTATCGTTTTACCCCAGAACCTTT-CAAAATCCCATTTTT
1 CC-AAAATTACCATTTTACCCCTGAA-CTTTCCAAAATTCCATTTTT
40185447 TTAACCTTAA
Statistics
Matches: 244, Mismatches: 28, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
115 18 0.07
116 53 0.22
117 111 0.45
118 62 0.25
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.37
Consensus pattern (118 bp):
CCAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCACCAAAAA
TTACCGTTTTACCCCTCAAACTTTCCTAAATTCCATTTTTAACCTTGATTTCA
Found at i:40185362 original size:176 final size:174
Alignment explanation
Indices: 40185053--40185446 Score: 451
Period size: 176 Copynumber: 2.2 Consensus size: 174
40185043 AAAAACTTCC
* *
40185053 AAAATTACCATTTTACCCCTA-AACTTTCCAAAATTTCATTTTAAAACCTGATTTCACCAAAAAT
1 AAAATTACCATTTTACCCC-AGAACTTTCCAAAATTCCATTTT-TAACCTGATTTCACCAAAAAT
* * *
40185117 TACCGTTTTACCCCTAAACTTTCTAAAATTCCATTTTAACCTTGATTTCACACAAAATTACCATT
64 TACCATTTTACCCCTAAACTTTCTAAAATTCCATTTTAACCTCGATTTCACACAAAATCACCATT
* *
40185182 TTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCG-GTTTCACCA
129 TTACCCCCGAAC-TTCC-AAATCCCATTTTTAACCCCGAGTTTCACCA
*
40185229 AAAATTACCATTTTACCCTC-GAACTTTCCTAAATTCCATTTTTAACCTTGATTTCACCAAAAAT
1 AAAATTACCATTTTACCC-CAGAACTTTCCAAAATTCCATTTTTAACC-TGATTTCACCAAAAAT
* * * * **
40185293 TACCATTTTACCCTTGAACTTTTCT-AAATTCCATTTTTGACC-CGGTTTGGCTA-AAAATCACC
64 TACCATTTTACCCCTAAAC-TTTCTAAAATTCCA-TTTTAACCTCGATTTCAC-ACAAAATCACC
* * * * *
40185355 GTTTTACCCTCGAGCTTCCAAATCCCATTTTTAACCCCGATTTTTACCA
126 ATTTTACCCCCGAACTTCCAAATCCCATTTTTAACCCCGAGTTTCACCA
* * *
40185404 AAAATTATCGTTTTACCCCAGAACCTTT-CAAAATCCCATTTTT
1 AAAATTACCATTTTACCCCAGAA-CTTTCCAAAATTCCATTTTT
40185447 TTAACCTTAA
Statistics
Matches: 186, Mismatches: 23, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
174 19 0.10
175 47 0.25
176 106 0.57
177 14 0.08
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.37
Consensus pattern (174 bp):
AAAATTACCATTTTACCCCAGAACTTTCCAAAATTCCATTTTTAACCTGATTTCACCAAAAATTA
CCATTTTACCCCTAAACTTTCTAAAATTCCATTTTAACCTCGATTTCACACAAAATCACCATTTT
ACCCCCGAACTTCCAAATCCCATTTTTAACCCCGAGTTTCACCA
Found at i:40190910 original size:27 final size:27
Alignment explanation
Indices: 40190866--40190926 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
40190856 AGATACAATG
* *
40190866 AAGAAAAAACAAATAAAAAAGGAGAAA
1 AAGAAAAAACAAACAAAAAAAGAGAAA
40190893 AATGAAAAAA-AAACAAAAAAAGAGAAA
1 AA-GAAAAAACAAACAAAAAAAGAGAAA
40190920 AAGAAAA
1 AAGAAAA
40190927 TAGAAAGGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 5 0.16
27 19 0.61
28 7 0.23
ACGTcount: A:0.80, C:0.03, G:0.13, T:0.03
Consensus pattern (27 bp):
AAGAAAAAACAAACAAAAAAAGAGAAA
Found at i:40192267 original size:51 final size:51
Alignment explanation
Indices: 40192206--40192371 Score: 142
Period size: 51 Copynumber: 3.3 Consensus size: 51
40192196 AGGTCCAAGT
40192206 CGCAACGGCAGATCGTATACCTCAAAAGCATGGAAGGGAAAGATCTAAGAC
1 CGCAACGGCAGATCGTATACCTCAAAAGCATGGAAGGGAAAGATCTAAGAC
* * * * * * *
40192257 CGCAATGGCAGATC-CAGTACCGT-AAAAACA-GAAAAGGGAAAGGTATAAG-T
1 CGCAACGGCAGATCGTA-TACC-TCAAAAGCATG-GAAGGGAAAGATCTAAGAC
* * * * * ***
40192307 CGCAACTGCGGACCGTGTACCTCGAAAGCATGGACCAGAAAGATCTAAGAC
1 CGCAACGGCAGATCGTATACCTCAAAAGCATGGAAGGGAAAGATCTAAGAC
40192358 CGCAACGGCAGATC
1 CGCAACGGCAGATC
40192372 CAGTGCCACA
Statistics
Matches: 83, Mismatches: 25, Indels: 14
0.68 0.20 0.11
Matches are distributed among these distances:
49 1 0.01
50 32 0.39
51 49 0.59
52 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (51 bp):
CGCAACGGCAGATCGTATACCTCAAAAGCATGGAAGGGAAAGATCTAAGAC
Found at i:40192368 original size:101 final size:101
Alignment explanation
Indices: 40192192--40192375 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 101
40192182 AACTCAACAA
* * **
40192192 GGAAAGGTCCAAGTCGCAACGGCAGATCGTATACCTCAAAAGCATGGAAGGGAAAGATCTAAGAC
1 GGAAAGGTACAAGTCGCAACGGCAGACCGTATACCTCAAAAGCATGGAACAGAAAGATCTAAGAC
*
40192257 CGCAATGGCAGATCCAGTACCGTAAAAACAGAAAAG
66 CGCAACGGCAGATCCAGTACCGTAAAAACAGAAAAG
* * * * * *
40192293 GGAAAGGTATAAGTCGCAACTGCGGACCGTGTACCTCGAAAGCATGGACCAGAAAGATCTAAGAC
1 GGAAAGGTACAAGTCGCAACGGCAGACCGTATACCTCAAAAGCATGGAACAGAAAGATCTAAGAC
40192358 CGCAACGGCAGATCCAGT
66 CGCAACGGCAGATCCAGT
40192376 GCCACAAAGA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.38, C:0.22, G:0.27, T:0.14
Consensus pattern (101 bp):
GGAAAGGTACAAGTCGCAACGGCAGACCGTATACCTCAAAAGCATGGAACAGAAAGATCTAAGAC
CGCAACGGCAGATCCAGTACCGTAAAAACAGAAAAG
Found at i:40192395 original size:101 final size:100
Alignment explanation
Indices: 40192192--40192398 Score: 254
Period size: 101 Copynumber: 2.0 Consensus size: 100
40192182 AACTCAACAA
* * **
40192192 GGAAAGGTCCAAGTCGCAACGGCAGATCGTATACCTCAAAAGCATGGAAGGGAAAGATCTAAGAC
1 GGAAAGGTACAAGTCGCAACGGCAGACCGTATACCTCAAAAGCATGGAACAGAAAGATCTAAGAC
* **
40192257 CGCAATGGCAGATCCAGTACCGTAAAAACAGAAAAG
66 CGCAACGGCAGATCCAGTACCACAAAAACAG-AAAG
* * * * * *
40192293 GGAAAGGTATAAGTCGCAACTGCGGACCGTGTACCTCGAAAGCATGGACCAGAAAGATCTAAGAC
1 GGAAAGGTACAAGTCGCAACGGCAGACCGTATACCTCAAAAGCATGGAACAGAAAGATCTAAGAC
*
40192358 CGCAACGGCAGATCCAGTGCCACAAAGATACAG-AAG
66 CGCAACGGCAGATCCAGTACCACAAA-A-ACAGAAAG
40192394 GGAAA
1 GGAAA
40192399 TATCTAAGCC
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
101 85 0.94
102 1 0.01
103 4 0.04
ACGTcount: A:0.39, C:0.22, G:0.27, T:0.13
Consensus pattern (100 bp):
GGAAAGGTACAAGTCGCAACGGCAGACCGTATACCTCAAAAGCATGGAACAGAAAGATCTAAGAC
CGCAACGGCAGATCCAGTACCACAAAAACAGAAAG
Found at i:40192435 original size:51 final size:49
Alignment explanation
Indices: 40192344--40192455 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 49
40192334 GCATGGACCA
* * *
40192344 GAAAGATCTAAGACCGCAACGGCAGATCCAGTGCCACAAAGATACAGAAGG
1 GAAATATCTAAGACCGCAACGGCAGATCCAGTACCACAAAG--ACAAAAGG
* * * *
40192395 GAAATATCTAAGCCCGCAACGGCAGATTCAGTATCGCAAAGACAAAAGG
1 GAAATATCTAAGACCGCAACGGCAGATCCAGTACCACAAAGACAAAAGG
*
40192444 GAAATGTCTAAG
1 GAAATATCTAAG
40192456 TCACAATGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 18 0.34
51 35 0.66
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.13
Consensus pattern (49 bp):
GAAATATCTAAGACCGCAACGGCAGATCCAGTACCACAAAGACAAAAGG
Done.