Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold12
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: 2382857
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 280777 characters in sequence are not A, C, G, or T
File 8 of 12
Found at i:1457303 original size:22 final size:22
Alignment explanation
Indices: 1457277--1457323 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1457267 TTAGGAGTAT
1457277 GTTCGTCCTTTA-AGTCCTCTAG
1 GTTCGT-CTTTATAGTCCTCTAG
* *
1457299 GTTCGTTTTTATATTCCTCTAG
1 GTTCGTCTTTATAGTCCTCTAG
1457321 GTT
1 GTT
1457324 TCTAGTGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (22 bp):
GTTCGTCTTTATAGTCCTCTAG
Found at i:1459338 original size:11 final size:11
Alignment explanation
Indices: 1459322--1459355 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
1459312 AATTAATCAA
1459322 AATAAAAAATC
1 AATAAAAAATC
1459333 AATAAAAAATAC
1 AATAAAAAAT-C
*
1459345 AAAAAAAAATC
1 AATAAAAAATC
1459356 TAGATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (11 bp):
AATAAAAAATC
Found at i:1459350 original size:20 final size:20
Alignment explanation
Indices: 1459304--1459349 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
1459294 TCATTCGTAA
1459304 AAAAAATCAATTAATCAAAAT
1 AAAAAATCAATTAA-CAAAAT
1459325 AAAAAATCAA-TAA-AAAAT
1 AAAAAATCAATTAACAAAAT
1459343 ACAAAAA
1 A-AAAAA
1459350 AAAATCTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.25
19 5 0.21
20 3 0.12
21 10 0.42
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAAAATCAATTAACAAAAT
Found at i:1460711 original size:44 final size:44
Alignment explanation
Indices: 1460598--1460703 Score: 212
Period size: 44 Copynumber: 2.4 Consensus size: 44
1460588 AAAAACCAGC
1460598 ATTTGATTCTGATCATTAATGTGTCAACATTGAATCTTTATTTG
1 ATTTGATTCTGATCATTAATGTGTCAACATTGAATCTTTATTTG
1460642 ATTTGATTCTGATCATTAATGTGTCAACATTGAATCTTTATTTG
1 ATTTGATTCTGATCATTAATGTGTCAACATTGAATCTTTATTTG
1460686 ATTTGATTCTGATCATTA
1 ATTTGATTCTGATCATTA
1460704 TTATGTCATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.27, C:0.11, G:0.13, T:0.48
Consensus pattern (44 bp):
ATTTGATTCTGATCATTAATGTGTCAACATTGAATCTTTATTTG
Found at i:1461453 original size:20 final size:20
Alignment explanation
Indices: 1461428--1461496 Score: 88
Period size: 20 Copynumber: 3.4 Consensus size: 20
1461418 GATGACAGGA
1461428 AGAGAGATAGGAGAGATAAT
1 AGAGAGATAGGAGAGATAAT
1461448 AGAGAGATGAGG-GATGATAGGA-
1 AGAGAGAT-AGGAGA-GATA--AT
1461470 AGAGAGATAGGAGAGATAAT
1 AGAGAGATAGGAGAGATAAT
1461490 AGAGAGA
1 AGAGAGA
1461497 GGAGGGATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.02
20 17 0.40
21 14 0.33
22 10 0.23
23 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.39, T:0.13
Consensus pattern (20 bp):
AGAGAGATAGGAGAGATAAT
Found at i:1461460 original size:42 final size:42
Alignment explanation
Indices: 1461406--1461511 Score: 185
Period size: 42 Copynumber: 2.5 Consensus size: 42
1461396 AGAAAGAAGA
* *
1461406 AGAGATAGGAGGGATGACAGGAAGAGAGATAGGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAAGAGAGATAGGAGAGATAAT
*
1461448 AGAGAGATGAGGGATGATAGGAAGAGAGATAGGAGAGATAAT
1 AGAGAGAGGAGGGATGATAGGAAGAGAGATAGGAGAGATAAT
1461490 AGAGAGAGGAGGGATGATAGGA
1 AGAGAGAGGAGGGATGATAGGA
1461512 GGAGGAGAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.44, C:0.01, G:0.42, T:0.12
Consensus pattern (42 bp):
AGAGAGAGGAGGGATGATAGGAAGAGAGATAGGAGAGATAAT
Found at i:1461497 original size:24 final size:24
Alignment explanation
Indices: 1461401--1461491 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 24
1461391 CAAAGAGAAA
* * *
1461401 GAAGAAGAGATAGGAGGGATGACAG
1 GAAG-AGAGATAGGAGAGATAATAG
1461426 GAAGAGAGATAGGAGAGATAAT--
1 GAAGAGAGATAGGAGAGATAATAG
* *
1461448 --AGAGAGAT--GAGGGATGATAG
1 GAAGAGAGATAGGAGAGATAATAG
1461468 GAAGAGAGATAGGAGAGATAATAG
1 GAAGAGAGATAGGAGAGATAATAG
1461492 AGAGAGGAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
18 8 0.15
20 8 0.15
22 8 0.15
24 25 0.47
25 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.41, T:0.12
Consensus pattern (24 bp):
GAAGAGAGATAGGAGAGATAATAG
Found at i:1470283 original size:12 final size:12
Alignment explanation
Indices: 1470263--1470335 Score: 54
Period size: 12 Copynumber: 6.6 Consensus size: 12
1470253 AAGAGAAAGA
1470263 AGAGATAGGAGG
1 AGAGATAGGAGG
1470275 -GATGATAGGAGG
1 AGA-GATAGGAGG
1470287 AGAGATAGGA--
1 AGAGATAGGAGG
*
1470297 A-AGAT---AGT
1 AGAGATAGGAGG
1470305 AGAGATAGGAGG
1 AGAGATAGGAGG
*
1470317 -GATAATAGGAGG
1 AGA-GATAGGAGG
1470329 AGAGATA
1 AGAGATA
1470336 AGAGAGATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 20
0.68 0.04 0.28
Matches are distributed among these distances:
6 1 0.02
8 1 0.02
9 8 0.17
10 1 0.02
11 4 0.08
12 29 0.60
13 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (12 bp):
AGAGATAGGAGG
Found at i:1470294 original size:24 final size:24
Alignment explanation
Indices: 1470263--1470335 Score: 77
Period size: 24 Copynumber: 3.3 Consensus size: 24
1470253 AAGAGAAAGA
1470263 AGAGATAGGAGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
* *
1470287 AGAGATAGGA---AAGAT---AGT
1 AGAGATAGGAGGGATGATAGGAGG
*
1470305 AGAGATAGGAGGGATAATAGGAGG
1 AGAGATAGGAGGGATGATAGGAGG
1470329 AGAGATA
1 AGAGATA
1470336 AGAGAGATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
18 12 0.32
21 7 0.18
24 19 0.50
ACGTcount: A:0.44, C:0.00, G:0.42, T:0.14
Consensus pattern (24 bp):
AGAGATAGGAGGGATGATAGGAGG
Found at i:1470312 original size:42 final size:42
Alignment explanation
Indices: 1470263--1470382 Score: 168
Period size: 42 Copynumber: 2.8 Consensus size: 42
1470253 AAGAGAAAGA
* *
1470263 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAAAGATAGT
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAAGAAAGATAAT
* *
1470305 AGAGATAGGAGGGATAATAGGAGGAGAGATAAGAGAGATAAT
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAAGAAAGATAAT
* * *
1470347 AGAGAGAGGAGGGATGACAGGAGGAGGAGAGAAGAA
1 AGAGATAGGAGGGATGATAGGAGGA-GAGATAAGAA
1470383 GATGAAAGAG
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
42 60 0.88
43 8 0.12
ACGTcount: A:0.45, C:0.01, G:0.43, T:0.11
Consensus pattern (42 bp):
AGAGATAGGAGGGATGATAGGAGGAGAGATAAGAAAGATAAT
Found at i:1476090 original size:107 final size:107
Alignment explanation
Indices: 1475904--1476106 Score: 397
Period size: 107 Copynumber: 1.9 Consensus size: 107
1475894 TTTCTACTTC
*
1475904 TTTCAATTTTTGTTCTTGCATTAATAATTCTGTTTGTTGTTAGAAATCCATCTCAAGATCATTAT
1 TTTCAATTTTTGTTCTTGCATTAATAATTCTGTTTGTTGTTAGAAATCCATCTCAAAATCATTAT
1475969 TTAGGCAACCTTGGATCATGGTTGTCATCAATTGGTAGTTTT
66 TTAGGCAACCTTGGATCATGGTTGTCATCAATTGGTAGTTTT
1476011 TTTCAATTTTTGTTCTTGCATTAATAATTCTGTTTGTTGTTAGAAATCCATCTCAAAATCATTAT
1 TTTCAATTTTTGTTCTTGCATTAATAATTCTGTTTGTTGTTAGAAATCCATCTCAAAATCATTAT
1476076 TTAGGCAACCTTGGATCATGGTTGTCATCAA
66 TTAGGCAACCTTGGATCATGGTTGTCATCAA
1476107 AACTCAAAAT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 95 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.45
Consensus pattern (107 bp):
TTTCAATTTTTGTTCTTGCATTAATAATTCTGTTTGTTGTTAGAAATCCATCTCAAAATCATTAT
TTAGGCAACCTTGGATCATGGTTGTCATCAATTGGTAGTTTT
Found at i:1477022 original size:17 final size:17
Alignment explanation
Indices: 1477000--1477041 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
1476990 TGTTTAACGA
*
1477000 ACAAAGAAGAAGTTCTC
1 ACAAAGAAGAAGCTCTC
1477017 ACAAAGGGAAGAAGCTCTC
1 ACAAA--GAAGAAGCTCTC
1477036 A-AAAGA
1 ACAAAGA
1477042 TTTTATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
16 2 0.09
17 5 0.23
18 3 0.14
19 12 0.55
ACGTcount: A:0.50, C:0.17, G:0.21, T:0.12
Consensus pattern (17 bp):
ACAAAGAAGAAGCTCTC
Found at i:1477029 original size:19 final size:18
Alignment explanation
Indices: 1477005--1477040 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1476995 AACGAACAAA
*
1477005 GAAGAAGTTCTCACAAAGG
1 GAAGAAGCTCTCA-AAAGG
1477024 GAAGAAGCTCTCAAAAG
1 GAAGAAGCTCTCAAAAG
1477041 ATTTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (18 bp):
GAAGAAGCTCTCAAAAGG
Found at i:1481330 original size:42 final size:42
Alignment explanation
Indices: 1481276--1481376 Score: 175
Period size: 42 Copynumber: 2.4 Consensus size: 42
1481266 AAGAGAAAGA
1481276 AGAGATAAGAGGGATGATAAGAGGAGAGATAGGAGAGATAAT
1 AGAGATAAGAGGGATGATAAGAGGAGAGATAGGAGAGATAAT
* *
1481318 AGAGATATGAGGGATGATAGGAGGAGAGATAGGAGAGATAAT
1 AGAGATAAGAGGGATGATAAGAGGAGAGATAGGAGAGATAAT
*
1481360 AGAGAAAAGAGGGATGA
1 AGAGATAAGAGGGATGA
1481377 CAGGAAGAGG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.47, C:0.00, G:0.40, T:0.14
Consensus pattern (42 bp):
AGAGATAAGAGGGATGATAAGAGGAGAGATAGGAGAGATAAT
Found at i:1481423 original size:21 final size:20
Alignment explanation
Indices: 1481379--1481423 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
1481369 AGGGATGACA
*
1481379 GGAAGAGGAGAGAAAAAGAT
1 GGAAGAGGAGAGAAAAAGAG
*
1481399 GGAAGAGTGAGAGAAAATGAG
1 GGAAGAG-GAGAGAAAAAGAG
1481420 GGAA
1 GGAA
1481424 TTGGTGGAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.51, C:0.00, G:0.42, T:0.07
Consensus pattern (20 bp):
GGAAGAGGAGAGAAAAAGAG
Found at i:1481484 original size:49 final size:49
Alignment explanation
Indices: 1481430--1481527 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
1481420 GGAATTGGTG
1481430 GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
1 GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
1481479 GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
1 GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
1481528 AAACTTAGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (49 bp):
GAGTAAAAATAAAGATCCCTAGTTTTCATGGAAGGAATGATGTTGAAGC
Found at i:1489923 original size:2 final size:2
Alignment explanation
Indices: 1489916--1489950 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1489906 TTGATGAATG
1489916 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1489951 GTCTGATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1491200 original size:21 final size:20
Alignment explanation
Indices: 1491172--1491210 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1491162 CACTTTTTTG
1491172 TCCAAATGTATCGATACATT
1 TCCAAATGTATCGATACATT
1491192 TCCAGAATGTATCGATACA
1 TCCA-AATGTATCGATACA
1491211 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (20 bp):
TCCAAATGTATCGATACATT
Found at i:1491293 original size:19 final size:19
Alignment explanation
Indices: 1491269--1491323 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
1491259 AAACAGTAAA
1491269 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1491288 TGTATCAATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1491307 TGTATCGATACAAAAGT
1 TGTATCGATACATAAGT
1491324 TACCCTACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1491370 original size:20 final size:20
Alignment explanation
Indices: 1491345--1491382 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1491335 CTGCCAAAGA
1491345 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
1491365 AATGTATCGATACATTAT
1 AATGTATCGATACATTAT
1491383 GCAGGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:1498346 original size:22 final size:22
Alignment explanation
Indices: 1498321--1498373 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1498311 AGTCAAAAGT
1498321 AAAAACACAAA-AAAAAACAAAC
1 AAAAACA-AAATAAAAAACAAAC
*
1498343 AAAAACAAAATAAAAAACACAC
1 AAAAACAAAATAAAAAACAAAC
1498365 AAAAA-AAAA
1 AAAAACAAAA
1498374 GAATGCAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 7 0.24
22 22 0.76
ACGTcount: A:0.83, C:0.15, G:0.00, T:0.02
Consensus pattern (22 bp):
AAAAACAAAATAAAAAACAAAC
Found at i:1499603 original size:32 final size:33
Alignment explanation
Indices: 1499562--1499985 Score: 394
Period size: 32 Copynumber: 13.6 Consensus size: 33
1499552 CAATTCTTCA
* *
1499562 CATCTCTTTTC-TCAAGGTCCACAACTCAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
* *
1499594 CATCTC-TTT-TT-AAAGTCCACAACTCCGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
* *
1499624 CATC-CTTTTCTTCCAAGTCCATGACTCAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
* * *
1499656 CATC-ATTTTCTTCCAAGTCCATGACTCAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
*
1499688 CATCT-TTTTCTTCAAAGTCCATGACAT-AGTGG
1 CATCTCTTTTCTTCAAAGTCCACGAC-TCAGTGG
* * *
1499720 CA--TCTTGTC-CCAAAGTCCATGACTCAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
* * * * *
1499750 CA--TCTTTTCTTCAAAGTTCGCAATTAAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
* * *
1499781 CTTCTCTTTTC-TCAAAGTCCATGACTCAATGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
*
1499813 CA--TCTTTTCTTCAAAGTCCACAACTCAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
* * *
1499844 CA--TCTTGTC-CCAAAGTCCATGACTCAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
* *
1499874 CA--TCTTTTCTTCAAAGTCCACAACTTAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
1499905 CATCTC--TT-TTCAAAGTCCACGACTCAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
* *
1499935 CATC-CTTTTCTTCCAAGTCCACGACTTAGTGG
1 CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
*
1499967 CATCTTTTTTCTTCAAAGT
1 CATCTCTTTTCTTCAAAGT
1499986 TCACAACTTT
Statistics
Matches: 328, Mismatches: 45, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
29 3 0.01
30 108 0.33
31 74 0.23
32 121 0.37
33 22 0.07
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (33 bp):
CATCTCTTTTCTTCAAAGTCCACGACTCAGTGG
Found at i:1499880 original size:61 final size:60
Alignment explanation
Indices: 1499566--1499973 Score: 426
Period size: 61 Copynumber: 6.6 Consensus size: 60
1499556 TCTTCACATC
* *** ** *
1499566 TCTTTTC-TCAAGGTCCACAACTCAGTGGCATCTCTTTTTAAAGTCCACAACTCCGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCT-TTCCCAAAGTCCATGACTCAGTGGCA
* **
1499626 TCCTTTTCTTCCAAGTCCATGACTCAGTGGCATCATTTTCTTCC-AAGTCCATGACTCAGTGGCA
1 T-CTTTTCTTCAAAGTCCACAACTCAGTGGCATC--TTTC--CCAAAGTCCATGACTCAGTGGCA
**
1499690 TCTTTTTCTTCAAAGTCCATGACAT-AGTGGCATCTTGTCCCAAAGTCCATGACTCAGTGGCA
1 TC-TTTTCTTCAAAGTCCACAAC-TCAGTGGCATCTT-TCCCAAAGTCCATGACTCAGTGGCA
* * * * * * *
1499752 TCTTTTCTTCAAAGTTCGCAATTAAGTGGCTTCTCTTTTCTCAAAGTCCATGACTCAATGGCA
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGC--ATC-TTTCCCAAAGTCCATGACTCAGTGGCA
1499815 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTGTCCCAAAGTCCATGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTT-TCCCAAAGTCCATGACTCAGTGGCA
* ** *
1499876 TCTTTTCTTCAAAGTCCACAACTTAGTGGCATCTCTTTTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCT-TTCCCAAAGTCCATGACTCAGTGGCA
* * *
1499937 TCCTTTTCTTCCAAGTCCACGACTTAGTGGCATCTTT
1 T-CTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTT
1499974 TTTCTTCAAA
Statistics
Matches: 299, Mismatches: 32, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
60 4 0.01
61 112 0.37
62 77 0.26
63 56 0.19
64 49 0.16
65 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (60 bp):
TCTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTCCCAAAGTCCATGACTCAGTGGCA
Found at i:1500000 original size:33 final size:31
Alignment explanation
Indices: 1499566--1500061 Score: 381
Period size: 32 Copynumber: 16.0 Consensus size: 31
1499556 TCTTCACATC
* *
1499566 TCTTTTC-TCAAGGTCCACAACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTTAGTGGCA
**
1499596 TCTCTTT-TT-AAAGTCCACAACTCCGTGGCA
1 TCT-TTTCTTCAAAGTCCACAACTTAGTGGCA
* ** *
1499626 TCCTTTTCTTCCAAGTCCATGACTCAGTGGCA
1 T-CTTTTCTTCAAAGTCCACAACTTAGTGGCA
* ** *
1499658 TCATTTTCTTCCAAGTCCATGACTCAGTGGCA
1 TC-TTTTCTTCAAAGTCCACAACTTAGTGGCA
** *
1499690 TCTTTTTCTTCAAAGTCCATGACATAGTGGCA
1 TC-TTTTCTTCAAAGTCCACAACTTAGTGGCA
* * ** *
1499722 TCTTGTC-CCAAAGTCCATGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTTAGTGGCA
* * *
1499752 TCTTTTCTTCAAAGTTCGCAA-TTAAGTGGCT
1 TCTTTTCTTCAAAGTCCACAACTT-AGTGGCA
** * *
1499783 TCTCTTT-TCTCAAAGTCCATGACTCAATGGCA
1 TCT-TTTCT-TCAAAGTCCACAACTTAGTGGCA
*
1499815 TCTTTTCTTCAAAGTCCACAACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTTAGTGGCA
* * ** *
1499846 TCTTGTC-CCAAAGTCCATGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTTAGTGGCA
1499876 TCTTTTCTTCAAAGTCCACAACTTAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTTAGTGGCA
* * *
1499907 TCTCTT-TTCAAAGTCCACGACTCAGTGGCA
1 TCTTTTCTTCAAAGTCCACAACTTAGTGGCA
* *
1499937 TCCTTTTCTTCCAAGTCCACGACTTAGTGGCA
1 T-CTTTTCTTCAAAGTCCACAACTTAGTGGCA
* *
1499969 TCTTTTTTCTTCAAAGTTCACAACTTTGTGGCA
1 TC--TTTTCTTCAAAGTCCACAACTTAGTGGCA
*
1500002 -CCTTT-TT--AAGTCCACAACTCT-GTGGCA
1 TCTTTTCTTCAAAGTCCACAACT-TAGTGGCA
**
1500029 TCTTTTTCCTTTTAAGTCCACAACTCTA-TGGCA
1 TC-TTTT-CTTCAAAGTCCACAACT-TAGTGGCA
1500062 CCCTTTTATG
Statistics
Matches: 387, Mismatches: 54, Indels: 47
0.79 0.11 0.10
Matches are distributed among these distances:
27 17 0.04
28 2 0.01
29 5 0.01
30 105 0.27
31 91 0.24
32 122 0.32
33 45 0.12
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.35
Consensus pattern (31 bp):
TCTTTTCTTCAAAGTCCACAACTTAGTGGCA
Found at i:1500020 original size:27 final size:27
Alignment explanation
Indices: 1499982--1500095 Score: 102
Period size: 27 Copynumber: 4.0 Consensus size: 27
1499972 TTTTTCTTCA
* *
1499982 AAGTTCACAACTTTGTGGCACCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTT
*
1500009 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCA-C-----CTTTTT
* *
1500042 AAGTCCACAACTCTATGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTT
* **
1500069 ATGTCCACAACTCCATGGCACCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTT
1500096 CTTTTTAAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
27 48 0.65
28 1 0.01
32 1 0.01
33 24 0.32
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (27 bp):
AAGTCCACAACTCTGTGGCACCTTTTT
Found at i:1500027 original size:60 final size:60
Alignment explanation
Indices: 1499949--1500114 Score: 172
Period size: 60 Copynumber: 2.8 Consensus size: 60
1499939 CTTTTCTTCC
* * * * * *
1499949 AAGTCCACGACT-TAGTGGCATCTTTTTTCTTCAAAGTTCACAACTTTGTGGCACCTTTTT
1 AAGTCCACAACTCT-GTGGCATCTTTTTCCTTCAAAGTCCACAACTCTATGGCACCCTTTT
**
1500009 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCCTTTT
1 AAGTCCACAACTCTGTGGCATCTTTTTCCTTCAAAGTCCACAACTCTATGGCACCCTTTT
* ** * * * *
1500069 ATGTCCACAACTCCATGGCACCTTTTTCTTTTTAAAGCCCACAACT
1 AAGTCCACAACTCTGTGGCATCTTTTTC-CTTCAAAGTCCACAACT
1500115 TCGTGGTACT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
60 74 0.83
61 15 0.17
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (60 bp):
AAGTCCACAACTCTGTGGCATCTTTTTCCTTCAAAGTCCACAACTCTATGGCACCCTTTT
Found at i:1500129 original size:35 final size:33
Alignment explanation
Indices: 1500005--1500218 Score: 112
Period size: 33 Copynumber: 6.8 Consensus size: 33
1499995 TGTGGCACCT
* ** * *
1500005 TTTTAAGTCCACAACTCTGTGGCATCTTTTTCC
1 TTTTAAGCCCACAACTCCATGGCACCTTTTTTC
* *
1500038 TTTTAAGTCCACAACTCTATGGCACC------C
1 TTTTAAGCCCACAACTCCATGGCACCTTTTTTC
* *
1500065 TTTTATGTCCACAACTCCATGGCACC-TTTTTC
1 TTTTAAGCCCACAACTCCATGGCACCTTTTTTC
* * *
1500097 TTTTTAAAGCCCACAACTTCGTGGTACTCTTTTTTC
1 -TTTT-AAGCCCACAACTCCATGGCAC-CTTTTTTC
* **
1500133 TTTTAAGTCCACAACTCTGTGGCACC------C
1 TTTTAAGCCCACAACTCCATGGCACCTTTTTTC
* * * * *
1500160 TTTTAAGTCCACAACTTCGTGGCATCTTTTTCC
1 TTTTAAGCCCACAACTCCATGGCACCTTTTTTC
* *
1500193 TTTTAAGTCCACAACTCCGTGGCACC
1 TTTTAAGCCCACAACTCCATGGCACC
1500219 CTGTTACTTT
Statistics
Matches: 148, Mismatches: 18, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
27 49 0.33
32 1 0.01
33 54 0.36
34 33 0.22
35 5 0.03
36 6 0.04
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (33 bp):
TTTTAAGCCCACAACTCCATGGCACCTTTTTTC
Found at i:1500142 original size:95 final size:93
Alignment explanation
Indices: 1500003--1500216 Score: 304
Period size: 95 Copynumber: 2.3 Consensus size: 93
1499993 TTTGTGGCAC
1500003 CTTTTTAAGTCCACAAC-TCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCCTT
1 CTTTTTAAGTCCACAACTTC-GTGGCATCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCCTT
*
1500067 TTATGTCCACAACTCCATGGCACCTTTTT
65 TTAAGTCCACAACTCCATGGCACCTTTTT
* * * *
1500096 CTTTTTAAAGCCCACAACTTCGTGGTACTCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCT
1 CTTTTT-AAGTCCACAACTTCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCCT
* * *
1500161 TTTAAGTCCACAACTTCGTGGCATCTTTTT
64 TTTAAGTCCACAACTCCATGGCACCTTTTT
* *
1500191 CCTTTTAAGTCCACAACTCCGTGGCA
1 CTTTTTAAGTCCACAACTTCGTGGCA
1500217 CCCTGTTACT
Statistics
Matches: 106, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
93 6 0.06
94 32 0.30
95 68 0.64
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (93 bp):
CTTTTTAAGTCCACAACTTCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCCTTT
TAAGTCCACAACTCCATGGCACCTTTTT
Found at i:1500163 original size:27 final size:27
Alignment explanation
Indices: 1500132--1500220 Score: 99
Period size: 27 Copynumber: 3.1 Consensus size: 27
1500122 ACTCTTTTTT
1500132 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCTGTGGCACC
1500159 CTTTTAAGTCCACAACT-TCGTGGCATCTTTTTC
1 CTTTTAAGTCCACAACTCT-GTGGCA-C-----C
*
1500192 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCTGTGGCACC
1500219 CT
1 CT
1500221 GTTACTTTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
26 1 0.02
27 26 0.49
28 1 0.02
32 1 0.02
33 24 0.45
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCTGTGGCACC
Found at i:1500198 original size:60 final size:62
Alignment explanation
Indices: 1500098--1500220 Score: 196
Period size: 60 Copynumber: 2.0 Consensus size: 62
1500088 ACCTTTTTCT
* * *
1500098 TTTTAAAGCCCACAACTTCGTGGTACTCTTTTTTCTTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
*
1500160 TTTT-AAGTCCACAACTTCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
1500220 T
1 T
1500221 GTTACTTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
60 35 0.61
61 18 0.32
62 4 0.07
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (62 bp):
TTTTAAAGCCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:1504928 original size:51 final size:51
Alignment explanation
Indices: 1504836--1504932 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
1504826 TAGAGTCTTG
* * ** *
1504836 ACTAAACAAGGACAATCCTAATCACAGTTGTAATAGCAATCAATAATCCTA
1 ACTAAAAAAGGACAATCCTAATCACAATCCTAACAGCAATCAATAATCCTA
1504887 ACTAAAAAAGGACAATCCTAATCACAATCCTAACA-CTAATCAATAA
1 ACTAAAAAAGGACAATCCTAATCACAATCCTAACAGC-AATCAATAA
1504933 AGATAAAGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.03
51 39 0.98
ACGTcount: A:0.48, C:0.23, G:0.07, T:0.22
Consensus pattern (51 bp):
ACTAAAAAAGGACAATCCTAATCACAATCCTAACAGCAATCAATAATCCTA
Found at i:1507694 original size:12 final size:11
Alignment explanation
Indices: 1507672--1507747 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1507662 AGAGAAAGAA
*
1507672 GAGAGAGGAGG
1 GAGATAGGAGG
1507683 GATGATAGGAGG
1 GA-GATAGGAGG
*
1507695 AGAGACAGGA--
1 -GAGATAGGAGG
*
1507705 GAGATAGTA--
1 GAGATAGGAGG
1507714 GAGATAGGAGG
1 GAGATAGGAGG
1507725 GATGATAGGAGG
1 GA-GATAGGAGG
*
1507737 AGAGACAGGAG
1 -GAGATAGGAG
1507748 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:1507704 original size:24 final size:24
Alignment explanation
Indices: 1507671--1507756 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1507661 AAGAGAAAGA
*
1507671 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
1507695 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
1507713 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
1507737 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
1507757 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:1507723 original size:42 final size:42
Alignment explanation
Indices: 1507662--1507780 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1507652 TAGCCCTCAA
* *
1507662 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
1507704 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
1507746 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
1507781 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:1510424 original size:13 final size:13
Alignment explanation
Indices: 1510406--1510437 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1510396 TTGCACTTCC
1510406 TGATTTTGCTAAA
1 TGATTTTGCTAAA
1510419 TGATTTTGCTAAA
1 TGATTTTGCTAAA
*
1510432 TCATTT
1 TGATTT
1510438 GAATTGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.50
Consensus pattern (13 bp):
TGATTTTGCTAAA
Found at i:1521385 original size:42 final size:42
Alignment explanation
Indices: 1521330--1521448 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
1521320 TTCTTCTCTC
* *
1521330 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
1521372 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
1521414 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1521449 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:1521389 original size:12 final size:11
Alignment explanation
Indices: 1521363--1521438 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
1521353 TCTATTATCT
*
1521363 CTCCTGTCTCTC
1 CTCCTATCTC-C
1521375 CTCCTATCATCC
1 CTCCTATC-TCC
1521387 CTCCTATCT--
1 CTCCTATCTCC
*
1521396 CTACTATCT--
1 CTCCTATCTCC
*
1521405 CTCCTGTCTCTC
1 CTCCTATCTC-C
1521417 CTCCTATCATCC
1 CTCCTATC-TCC
*
1521429 CTCCTCTCTC
1 CTCCTATCTC
1521439 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:1521390 original size:24 final size:24
Alignment explanation
Indices: 1521354--1521439 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1521344 CCTCCTCTCT
* *
1521354 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
1521378 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
1521399 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
1521420 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
1521440 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:1521414 original size:18 final size:18
Alignment explanation
Indices: 1521345--1521415 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
1521335 CCTGTCATCC
* *
1521345 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
1521363 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
1521385 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
1521405 CTCCTGTCTCT
1 CTCCTGTCTCT
1521416 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:1525183 original size:26 final size:26
Alignment explanation
Indices: 1525154--1525229 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
1525144 TTAATTAAGA
1525154 ATTAGGCGTGTTAGCACAATAAGTCC
1 ATTAGGCGTGTTAGCACAATAAGTCC
* *
1525180 ATTAGG-GT-TT---A-ATTAAG--A
1 ATTAGGCGTGTTAGCACAATAAGTCC
*
1525198 ATTAGGCTTGTTAGCACAATAAGTCC
1 ATTAGGCGTGTTAGCACAATAAGTCC
1525224 ATTAGG
1 ATTAGG
1525230 GTTAGTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 16
0.64 0.09 0.28
Matches are distributed among these distances:
18 6 0.16
19 1 0.03
20 7 0.19
21 1 0.03
23 1 0.03
24 7 0.19
25 2 0.05
26 12 0.32
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (26 bp):
ATTAGGCGTGTTAGCACAATAAGTCC
Found at i:1525190 original size:44 final size:44
Alignment explanation
Indices: 1525141--1525232 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
1525131 TTGTTATTTT
1525141 GGTTTAATTAAGAATTAGGCGTGTTAGCACAATAAGTCCATTAG
1 GGTTTAATTAAGAATTAGGCGTGTTAGCACAATAAGTCCATTAG
*
1525185 GGTTTAATTAAGAATTAGGCTTGTTAGCACAATAAGTCCATTAG
1 GGTTTAATTAAGAATTAGGCGTGTTAGCACAATAAGTCCATTAG
1525229 GGTT
1 GGTT
1525233 AGTTTTAATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (44 bp):
GGTTTAATTAAGAATTAGGCGTGTTAGCACAATAAGTCCATTAG
Found at i:1525801 original size:19 final size:20
Alignment explanation
Indices: 1525776--1525824 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 20
1525766 GTTTTTTTCA
1525776 AAAAAAAGAAGAAGAAA-AAT
1 AAAAAAA-AAGAAGAAAGAAT
1525796 AAAAAAAAAGAAGAAAGAAT
1 AAAAAAAAAGAAGAAAGAAT
1525816 ATAAAAAAA
1 A-AAAAAAA
1525825 TAGCATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.33
20 11 0.41
21 7 0.26
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (20 bp):
AAAAAAAAAGAAGAAAGAAT
Found at i:1525803 original size:22 final size:22
Alignment explanation
Indices: 1525775--1525824 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1525765 AGTTTTTTTC
1525775 AAAAAAAAGAAG-AAGAAAAATA
1 AAAAAAAAGAAGAAAG-AAAATA
*
1525797 AAAAAAAAGAAGAAAGAATATA
1 AAAAAAAAGAAGAAAGAAAATA
1525819 AAAAAA
1 AAAAAA
1525825 TAGCATTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (22 bp):
AAAAAAAAGAAGAAAGAAAATA
Found at i:1528083 original size:921 final size:920
Alignment explanation
Indices: 1526302--1528144 Score: 3348
Period size: 921 Copynumber: 2.0 Consensus size: 920
1526292 GAGTGAACAT
*
1526302 CTGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATGGATTTCTAACAATAAAC
1 CTGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATAGATTTCTAACAATAAAC
1526367 AGAATTATTAATGCAAGAACAAAAATTGAAAGAAGCAGAAAAAATAACAAAATGGAATAGATTAG
66 AGAATTATTAATGCAAGAACAAAAATTGAAAGAAGCAGAAAAAATAACAAAATGGAATAGATTAG
*
1526432 AGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCGCCACAAGAGTCT
131 AGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCACCACAAGAGTCT
*
1526497 TGGCCTCTTGATAAGATCCAGAAAAATTGGCACACTCAAGAACCTAAGAATCACACTCTCACACA
196 TGGCCTCATGATAAGATCCAGAAAAATTGGCACACTCAAGAACCTAAGAATCACACTCTCACACA
1526562 AAATGTGTTTAATCTACAAATATCAATGTCCGCCCCCTCCAAATCTATTTACAAGAGCTTATATA
261 AAATGTGTTT-ATCTACAAATATCAATGTCCGCCCCCTCCAAATCTATTTACAAGAGCTTATATA
1526627 TGCCCTCATAAGCCATAGTTAACACAAACCCTAAGGAGCTTTTATGCTAACAAGCCCAACTCTTA
325 TGCCCTCATAAGCCATAGTTAACACAAACCCTAAGGAGCTTTTATGCTAACAAGCCCAACTCTTA
* * *
1526692 GTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAGGCAAGTCACAACCAGTAGGCCC
390 CTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCC
1526757 TTTATTACAAAATAACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCCTCCAAATATATGCA
455 TTTATTACAAAATAACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCCTCCAAATATATGCA
1526822 ATTAACTAGCTTGGCCTCCTCTAACTCAAAATTGGGTCTACTTTCAAATAGGCCAGCAACCATCT
520 ATTAACTAGCTTGGCCTCCTCTAACTCAAAATTGGGTCTACTTTCAAATAGGCCAGCAACCATCT
* *
1526887 TCTCTAGGTCTTCCTTAGTCCTCTTTGCCTTTGCCCTCGTCATTGGTTCTTGAAACCCTTCCAAT
585 TCTCTAGGTCTTCCTTAGTCCTCTTTGCCTTTGCCCTCGTCATTGGTCCTTGAAACCCTTCCAAC
* *
1526952 GCCTTCAGGTCATTGTATTCAATGGACCTTCCTTGGTTTTTATCAACCCCTCCTTCTTCAAGAGA
650 ACCTTCAGGTCATTGTATTCAATGGACCTTCCTTGGTTTTCATCAACCCCTCCTTCTTCAAGAGA
1527017 ATTCGTCCTCGAATTTGGCTCTTCATCACCTACATCAAAGAGAGATAAATCAGATACATTAAAAG
715 ATTCGTCCTCGAATTTGGCTCTTCATCACCTACATCAAAGAGAGATAAATCAGATACATTAAAAG
*
1527082 TAGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCGATTCTCTCTAAC
780 TAGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCAATTCTCTCTAAC
1527147 ACTTGGAATGGTCCATCCCCTCTTGGTTGAAGCCTGGACTTCCTTTGCATTGGAAACCTTTCCTT
845 ACTTGGAATGGTCCATCCCCTCTTGGTTGAAGCCTGGACTTCCTTTGCATTGGAAACCTTTCCTT
1527212 GCGCATATGTA
910 GCGCATATGTA
1527223 CTGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATAGATTTCTAACAATAAAC
1 CTGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATAGATTTCTAACAATAAAC
* *
1527288 AGAATTATTGATGCAAGAACAGAAATTGAAAGAAGCAGAAAAAAATAACAAAATGGAATAGATTA
66 AGAATTATTAATGCAAGAACAAAAATTGAAAGAAGCAG-AAAAAATAACAAAATGGAATAGATTA
1527353 GAGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCACCACAAGAGTC
130 GAGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCACCACAAGAGTC
*
1527418 TTGGCCTCATGATAAGATCCAGAAAAATTGGCTCACTCAAGAACCTAAGAATCACACTCTCACAC
195 TTGGCCTCATGATAAGATCCAGAAAAATTGGCACACTCAAGAACCTAAGAATCACACTCTCACAC
* * * *
1527483 AAAATGTGTTT-TCTGCAAATATGAATGTCTGCCCCCTCCAAATCTGTTTACAAGAGCTTATATA
260 AAAATGTGTTTATCTACAAATATCAATGTCCGCCCCCTCCAAATCTATTTACAAGAGCTTATATA
* *
1527547 TGCCCTCATAAGCCATAGTTAACACAAACCCTAAGGGGCTTATTATGCTAACAAGCTCAACTCTT
325 TGCCCTCATAAGCCATAGTTAACACAAACCCTAAGGAGCTT-TTATGCTAACAAGCCCAACTCTT
1527612 ACTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCC
389 ACTTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCC
* *
1527677 CTTTATTACAAAATAACCCAAGTCCTAATTGAATCCATTGGAGCCCATATCTTCCAAATATATGC
454 CTTTATTACAAAATAACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCCTCCAAATATATGC
* * * *
1527742 AATTAACTAGCTTGGGCTCTTCTAACTCCAGATTGGGTCTACTTTCAAATAGGCCAGCAACCATC
519 AATTAACTAGCTTGGCCTCCTCTAACTCAAAATTGGGTCTACTTTCAAATAGGCCAGCAACCATC
* *
1527807 TTCTCTAGGTCTTCCTTTA-TCCTCTTTGCCTTTGCCCTCGTTATTGGTCCTTGAAATCCTTCCA
584 TTCTCTAGGTCTTCC-TTAGTCCTCTTTGCCTTTGCCCTCGTCATTGGTCCTTGAAACCCTTCCA
* *
1527871 ACACCTTCAGGTCTTTGTCTTCAATGGACCTTCCTTGGTTTTCATCAACCCCTCCTTCTTCAAGA
648 ACACCTTCAGGTCATTGTATTCAATGGACCTTCCTTGGTTTTCATCAACCCCTCCTTCTTCAAGA
*
1527936 GAATTCGTCCTCGAATTTGGCTCTTCATCGCCTACATCAAAGAGAGATAAATCAGATACATTAAA
713 GAATTCGTCCTCGAATTTGGCTCTTCATCACCTACATCAAAGAGAGATAAATCAGATACATTAAA
1528001 AGTAGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCAATTCTCTCTA
778 AGTAGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCAATTCTCTCTA
*
1528066 ACACTTGGAATGGTCCATCCCCTCTTGGTTGAAGCTTGGACTTCCTTTGCATTGGAAACCTTTCC
843 ACACTTGGAATGGTCCATCCCCTCTTGGTTGAAGCCTGGACTTCCTTTGCATTGGAAACCTTTCC
1528131 TTGCGCATATGTA
908 TTGCGCATATGTA
1528144 C
1 C
1528145 CCAAACCCAA
Statistics
Matches: 887, Mismatches: 32, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
920 89 0.10
921 631 0.71
922 167 0.19
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (920 bp):
CTGATGACAACCATGAACCAAGGTTGCCTAAATAATGATCTTGAGATAGATTTCTAACAATAAAC
AGAATTATTAATGCAAGAACAAAAATTGAAAGAAGCAGAAAAAATAACAAAATGGAATAGATTAG
AGATGAAGGATGGCGCCACAATCACAAGATTGATAAGCCAAAAGGAATGATCACCACAAGAGTCT
TGGCCTCATGATAAGATCCAGAAAAATTGGCACACTCAAGAACCTAAGAATCACACTCTCACACA
AAATGTGTTTATCTACAAATATCAATGTCCGCCCCCTCCAAATCTATTTACAAGAGCTTATATAT
GCCCTCATAAGCCATAGTTAACACAAACCCTAAGGAGCTTTTATGCTAACAAGCCCAACTCTTAC
TTAAACCCAAATAACAAGTTTTTATGCTAAATAAAGCCCAAAGCAAGTCACAACCAGCAGGCCCT
TTATTACAAAATAACCCAAGTCCTAATTCAATCCATTGGAGCCCATATCCTCCAAATATATGCAA
TTAACTAGCTTGGCCTCCTCTAACTCAAAATTGGGTCTACTTTCAAATAGGCCAGCAACCATCTT
CTCTAGGTCTTCCTTAGTCCTCTTTGCCTTTGCCCTCGTCATTGGTCCTTGAAACCCTTCCAACA
CCTTCAGGTCATTGTATTCAATGGACCTTCCTTGGTTTTCATCAACCCCTCCTTCTTCAAGAGAA
TTCGTCCTCGAATTTGGCTCTTCATCACCTACATCAAAGAGAGATAAATCAGATACATTAAAAGT
AGCACTAACACCATACTCACCTGGTAAGTCCACTTTGTATGCATTATCCCCAATTCTCTCTAACA
CTTGGAATGGTCCATCCCCTCTTGGTTGAAGCCTGGACTTCCTTTGCATTGGAAACCTTTCCTTG
CGCATATGTA
Found at i:1532216 original size:15 final size:15
Alignment explanation
Indices: 1532198--1532251 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
1532188 CTTCTTCTCT
*
1532198 CCTCCTCCTGTCATC
1 CCTCCTCCTATCATC
*
1532213 CCTCCTCTCTCTATTATC
1 CCT-C-CTC-CTATCATC
*
1532231 TCTCCTCCTATCATC
1 CCTCCTCCTATCATC
1532246 CCTCCT
1 CCTCCT
1532252 ATCTCTACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 15 0.48
16 4 0.13
17 4 0.13
18 8 0.26
ACGTcount: A:0.09, C:0.50, G:0.02, T:0.39
Consensus pattern (15 bp):
CCTCCTCCTATCATC
Found at i:1532235 original size:18 final size:18
Alignment explanation
Indices: 1532214--1532275 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
1532204 CCTGTCATCC
1532214 CTCCTCTCTCTATTATCT
1 CTCCTCTCTCTATTATCT
* *
1532232 CT-C-CTC-CTATCATCC
1 CTCCTCTCTCTATTATCT
* *
1532247 CTCCTATCTCTACTATCT
1 CTCCTCTCTCTATTATCT
*
1532265 CTCCTGTCTCT
1 CTCCTCTCTCT
1532276 CCTCCTATCA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
15 9 0.26
16 4 0.12
17 3 0.09
18 18 0.53
ACGTcount: A:0.11, C:0.44, G:0.02, T:0.44
Consensus pattern (18 bp):
CTCCTCTCTCTATTATCT
Found at i:1532245 original size:33 final size:33
Alignment explanation
Indices: 1532199--1532269 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1532189 TTCTTCTCTC
* * *
1532199 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCT
1532232 CTCCTCCTATCATCCCTCCTATCTCTACTATCT
1 CTCCTCCTATCATCCCTCCTATCTCTACTATCT
1532265 CTCCT
1 CTCCT
1532270 GTCTCTCCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.46, G:0.01, T:0.41
Consensus pattern (33 bp):
CTCCTCCTATCATCCCTCCTATCTCTACTATCT
Found at i:1532249 original size:12 final size:11
Alignment explanation
Indices: 1532227--1532298 Score: 53
Period size: 12 Copynumber: 6.5 Consensus size: 11
1532217 CTCTCTCTAT
1532227 TATCTCTCCTCC
1 TATCTC-CCTCC
1532239 TATCATCCCTCC
1 TATC-TCCCTCC
*
1532251 TATCT--CTAC
1 TATCTCCCTCC
1532260 TATCT--CTCC
1 TATCTCCCTCC
*
1532269 TGTCTCTCCTCC
1 TATCTC-CCTCC
1532281 TATCATCCCTCC
1 TATC-TCCCTCC
*
1532293 TCTCTC
1 TATCTC
1532299 TTCTTTCTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
9 15 0.30
11 3 0.06
12 28 0.56
13 4 0.08
ACGTcount: A:0.11, C:0.47, G:0.01, T:0.40
Consensus pattern (11 bp):
TATCTCCCTCC
Found at i:1532275 original size:42 final size:42
Alignment explanation
Indices: 1532229--1532308 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
1532219 CTCTCTATTA
1532229 TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTG
1 TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTG
* * *
1532271 TCTCTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCT
1532309 TTGAGGGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.09, C:0.46, G:0.01, T:0.44
Consensus pattern (42 bp):
TCTCTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTG
Found at i:1536426 original size:24 final size:24
Alignment explanation
Indices: 1536394--1536473 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 24
1536384 AAGAAGAAAG
1536394 AGGAGAGATGATAGGAGGAGAGAC
1 AGGAGAGATGATAGGAGGAGAGAC
* *
1536418 A-G-GAGA-GAT---AGTAGAGAT
1 AGGAGAGATGATAGGAGGAGAGAC
*
1536436 AGGAGGGATGATAGGAGGAGAGAC
1 AGGAGAGATGATAGGAGGAGAGAC
*
1536460 AGGAGAGATAATAG
1 AGGAGAGATGATAG
1536474 AGAGAGGAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
18 8 0.19
19 1 0.02
20 3 0.07
21 6 0.14
22 4 0.09
23 1 0.02
24 20 0.47
ACGTcount: A:0.42, C:0.03, G:0.44, T:0.11
Consensus pattern (24 bp):
AGGAGAGATGATAGGAGGAGAGAC
Found at i:1536440 original size:42 final size:42
Alignment explanation
Indices: 1536392--1536497 Score: 167
Period size: 42 Copynumber: 2.5 Consensus size: 42
1536382 GAAAGAAGAA
* *
1536392 AGAGGAGAGATGATAGGAGGAGAGACAGGAGAGATAGTAGAG
1 AGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAGAG
*
1536434 ATAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAGAG
1 AGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAGAG
* *
1536476 AGAGGAGGGATGACAAGAGGAG
1 AGAGGAGGGATGATAGGAGGAG
1536498 GAGAGAAGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.42, C:0.03, G:0.45, T:0.09
Consensus pattern (42 bp):
AGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAATAGAG
Found at i:1536481 original size:18 final size:19
Alignment explanation
Indices: 1536454--1536503 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
1536444 TGATAGGAGG
*
1536454 AGAGACAGGAGAGAT-A-A
1 AGAGAGAGGAGAGATGACA
*
1536471 TAGAGAGAGGAGGGATGACA
1 -AGAGAGAGGAGAGATGACA
1536491 AGAG-GAGGAGAGA
1 AGAGAGAGGAGAGA
1536504 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 21 0.78
19 5 0.19
20 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.44, T:0.06
Consensus pattern (19 bp):
AGAGAGAGGAGAGATGACA
Found at i:1547161 original size:1 final size:1
Alignment explanation
Indices: 1547155--1547261 Score: 88
Period size: 1 Copynumber: 107.0 Consensus size: 1
1547145 GGTGGGGTGT
* * * * * * * **
1547155 GGGGGGGTGGGGTGGTGGGGGGGGGGGGGGGGGTGGGGGGTGGTGGGGTGGGGGGGGGGGGGGTT
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
* * ***
1547220 GGGTGGGGGGGGGGGTGGGGGGGGGGTTTGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1547262 TGTTGTGGGG
Statistics
Matches: 84, Mismatches: 22, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.00, C:0.00, G:0.87, T:0.13
Consensus pattern (1 bp):
G
Found at i:1547164 original size:15 final size:14
Alignment explanation
Indices: 1547144--1547263 Score: 108
Period size: 13 Copynumber: 8.7 Consensus size: 14
1547134 ATAGGAGGTT
1547144 GGGTGGGGTGTGGGG
1 GGGTGGGGTG-GGGG
*
1547159 GGGTGGGGTGGTGG
1 GGGTGGGGTGGGGG
1547173 GGG-GGGG-GGGGG
1 GGGTGGGGTGGGGG
1547185 GGGTGGGG-GGTGGTG
1 GGGTGGGGTGG-GG-G
*
1547200 GGGTGGGGGGGGGGG
1 GGGT-GGGGTGGGGG
*
1547215 GGGTTGGGT-GGGG
1 GGGTGGGGTGGGGG
1547228 GGG-GGGGTGGGGG
1 GGGTGGGGTGGGGG
**
1547241 GGG-GGTTTGGGGG
1 GGGTGGGGTGGGGG
*
1547254 GGGGGGGGTG
1 GGGTGGGGTG
1547264 TTGTGGGGAT
Statistics
Matches: 89, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
12 11 0.12
13 35 0.39
14 15 0.17
15 20 0.22
16 6 0.07
17 2 0.02
ACGTcount: A:0.00, C:0.00, G:0.85, T:0.15
Consensus pattern (14 bp):
GGGTGGGGTGGGGG
Found at i:1547183 original size:25 final size:25
Alignment explanation
Indices: 1547155--1547261 Score: 121
Period size: 26 Copynumber: 4.2 Consensus size: 25
1547145 GGTGGGGTGT
1547155 GGGGGGGTGGGGTGGTGGGGGGGGGG
1 GGGGGGGTGGGGTGGT-GGGGGGGGG
1547181 GGGGGGGTGGGG-GGTGGTGGGGTGGG
1 GGGGGGGTGGGGTGGTGG-GGGG-GGG
1547207 GGGGGGG-GGGGTTGGGTGGGGGGGGG
1 GGGGGGGTGGGG-T-GGTGGGGGGGGG
* *
1547233 GGTGGGGGGGGGGT-TTGGGGGGGGG
1 GG-GGGGGTGGGGTGGTGGGGGGGGG
1547258 GGGG
1 GGGG
1547262 TGTTGTGGGG
Statistics
Matches: 73, Mismatches: 1, Indels: 16
0.81 0.01 0.18
Matches are distributed among these distances:
24 4 0.05
25 23 0.32
26 27 0.37
27 10 0.14
28 9 0.12
ACGTcount: A:0.00, C:0.00, G:0.87, T:0.13
Consensus pattern (25 bp):
GGGGGGGTGGGGTGGTGGGGGGGGG
Found at i:1547194 original size:28 final size:27
Alignment explanation
Indices: 1547155--1547261 Score: 125
Period size: 25 Copynumber: 4.1 Consensus size: 27
1547145 GGTGGGGTGT
1547155 GGGGGGGT-GGGGTGGTGGGGGGGGGG
1 GGGGGGGTGGGGGTGGTGGGGGGGGGG
*
1547181 GGGGGGGTGGGGGGTGGTGGGGTGGGGG
1 GGGGGGGT-GGGGGTGGTGGGGGGGGGG
**
1547209 GGGGGGG-GGTTG-GGTGGGGGGGGGG
1 GGGGGGGTGGGGGTGGTGGGGGGGGGG
* *
1547234 GTGGGGG-GGGGGT-TTGGGGGGGGGG
1 GGGGGGGTGGGGGTGGTGGGGGGGGGG
1547259 GGG
1 GGG
1547262 TGTTGTGGGG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
25 34 0.49
26 11 0.16
28 24 0.35
ACGTcount: A:0.00, C:0.00, G:0.87, T:0.13
Consensus pattern (27 bp):
GGGGGGGTGGGGGTGGTGGGGGGGGGG
Found at i:1547218 original size:51 final size:51
Alignment explanation
Indices: 1547145--1547261 Score: 154
Period size: 50 Copynumber: 2.3 Consensus size: 51
1547135 TAGGAGGTTG
*
1547145 GGTGGGGTGTGGGGGGGTGGGGTGG-TGGG-GGGGGGGGGGG-GGGTGGGGGGT
1 GGTGGGGTG-GGGGGGG-GGGG-GGTTGGGTGGGGGGGGGGGTGGGGGGGGGGT
1547196 GGTGGGGTGGGGGGGGGGGGGGTTGGGTGGGGGGGGGGGTGGGGGGGGGGT
1 GGTGGGGTGGGGGGGGGGGGGGTTGGGTGGGGGGGGGGGTGGGGGGGGGGT
*
1547247 -TTGGGG-GGGGGGGGG
1 GGTGGGGTGGGGGGGGG
1547262 TGTTGTGGGG
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
48 2 0.03
49 17 0.28
50 23 0.38
51 19 0.31
ACGTcount: A:0.00, C:0.00, G:0.85, T:0.15
Consensus pattern (51 bp):
GGTGGGGTGGGGGGGGGGGGGGTTGGGTGGGGGGGGGGGTGGGGGGGGGGT
Found at i:1547271 original size:16 final size:16
Alignment explanation
Indices: 1547148--1547271 Score: 107
Period size: 15 Copynumber: 7.8 Consensus size: 16
1547138 GAGGTTGGGT
*
1547148 GGGGT-GTGGGGGGGT
1 GGGGTGGTGGGGGGGG
1547163 GGGGTGGTGGGGGGGG
1 GGGGTGGTGGGGGGGG
1547179 GGGG-GG-GGGTGGGGG
1 GGGGTGGTGGG-GGGGG
*
1547194 GTGGTGGGGTGGGGGGGG
1 G-GG-GTGGTGGGGGGGG
1547212 GGGG-GGTTGGGTGGGGG
1 GGGGTGG-TGGG-GGGGG
1547229 GGGG-GGTGGGGGGGG
1 GGGGTGGTGGGGGGGG
**
1547244 GGTTTGG-GGGGGGGG
1 GGGGTGGTGGGGGGGG
*
1547259 GGGTGTTGTGGGG
1 GGG-GTGGTGGGG
1547272 ATGATCGGCG
Statistics
Matches: 92, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
14 3 0.03
15 32 0.35
16 28 0.30
17 18 0.20
18 8 0.09
19 3 0.03
ACGTcount: A:0.00, C:0.00, G:0.84, T:0.16
Consensus pattern (16 bp):
GGGGTGGTGGGGGGGG
Found at i:1547271 original size:29 final size:29
Alignment explanation
Indices: 1547155--1547261 Score: 125
Period size: 28 Copynumber: 3.8 Consensus size: 29
1547145 GGTGGGGTGT
*
1547155 GGGGGGGTGGGGTGGTGGGGGGGGG-GGGG
1 GGGGGGGTTGGGTGG-GGGGGGGGGTGGGG
* *
1547184 GGGGTGGG--GGGTGGTGGGGTGGG-GGGG
1 GGGG-GGGTTGGGTGGGGGGGGGGGTGGGG
1547211 GGGGGGGTTGGGTGGGGGGGGGGGTGGGG
1 GGGGGGGTTGGGTGGGGGGGGGGGTGGGG
*
1547240 GGGGGGTTTGGG-GGGGGGGGGG
1 GGGGGGGTTGGGTGGGGGGGGGG
1547262 TGTTGTGGGG
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
26 3 0.04
27 15 0.22
28 29 0.42
29 19 0.28
30 3 0.04
ACGTcount: A:0.00, C:0.00, G:0.87, T:0.13
Consensus pattern (29 bp):
GGGGGGGTTGGGTGGGGGGGGGGGTGGGG
Found at i:1643800 original size:159 final size:159
Alignment explanation
Indices: 1643504--1644508 Score: 661
Period size: 158 Copynumber: 6.3 Consensus size: 159
1643494 TAGGTGTAGG
* ** * * * * *
1643504 AAAAGCTTTTCATACCAAACCAAAGCATCAATATCATGTATCCCAAGGAGGAAAACATGTTTTTG
1 AAAAGCTTTTCTTATGAAACCAAAGCATCAATATCGTGTATCCCAATGAGGAGAACATCTTTTTA
* * ** * * *
1643569 TTACCTAATCATGAGAACAAT--A-GAGATTATTGGGAGAATCTATGTTTATATCATTTGAGGAA
66 TTGCCCAATCAT-A-AA-AATAGAGGAGATTATTATGAGAATCCATGTTTATCTCATTTGAGGGA
** * * *
1643631 CAAACTTTGATTTTAAAGAAAATAATGGAAAC
128 TGAACTTTAATTCTAAAGAAAATAATGGGAAC
*
1643663 AAAAGCTTTTCTTATGAAACCAAAGCATCAATATCATGTATCCCAATGAGGAGAACATCTTTTTA
1 AAAAGCTTTTCTTATGAAACCAAAGCATCAATATCGTGTATCCCAATGAGGAGAACATCTTTTTA
* * * * *
1643728 TTGCCCAAACACAAAAATAGAGGATATTATTATGAGAATCCATGTTTCTCTCATTTGGGGGATGA
66 TTGCCCAATCATAAAAATAGAGGAGATTATTATGAGAATCCATGTTTATCTCATTTGAGGGATGA
* *
1643793 A-TATTGATTCT-AAGAAAAATAAT-GGAAG
131 ACT-TTAATTCTAAAG-AAAATAATGGGAAC
* * * *
1643821 AAAACCTTTTCTTACT-AAACTAAAGCATCAAAATCGTGTATCTCAAAT-AGGAGAACATGC-TT
1 AAAAGCTTTTCTTA-TGAAACCAAAGCATCAATATCGTGTATC-CCAATGAGGAGAACAT-CTTT
* * * * *
1643883 TTATTGCCTAATCATGAAAATAGTA-GAGATTATTACGGGAATCCATGTTTATCTCATTTAAGGG
63 TTATTGCCCAATCATAAAAATAG-AGGAGATTATTATGAGAATCCATGTTTATCTCATTTGAGGG
* * * *
1643947 ATAAACTTTAATT-TTAAGAAAACTAATGAGAAG
127 ATGAACTTTAATTCTAAAGAAAA-TAATGGGAAC
* ** * * * *
1643980 AAAAGCTTTTTTTGGGAAACCAAAGCATCAATCTCGTGTGTCCCAGTAAGGAG-A-ATCTGTTTT
1 AAAAGCTTTTCTTATGAAACCAAAGCATCAATATCGTGTATCCCAATGAGGAGAACATCT-TTTT
*** * * * * ** * *
1644043 AGTTGCTTGATTATAAAACA-A-AGGAGATTACTATGACAATCAATGTTTGCCTCAATTAAGGGA
65 A-TTGCCCAATCATAAAA-ATAGAGGAGATTATTATGAGAATCCATGTTTATCTCATTTGAGGGA
* * * *
1644106 CGAACTTTGATTCTAATGAAAATAATGGGAAG
128 TGAACTTTAATTCTAAAGAAAATAATGGGAAC
* * * * * * ** *
1644138 AAAAACTCTACTTATGAAACCAAATG-ATCAATATCGTGCATCTCAATAAGGAGAATGTGTTTTT
1 AAAAGCTTTTCTTATGAAACCAAA-GCATCAATATCGTGTATCCCAATGAGGAGAACATCTTTTT
* * * * * * * **
1644202 GTTGCCCAATCATGAAAACA-ATGCAGATTATTATGAGAATCCATGCTTGTCTTATAAGAGGGAT
65 ATTGCCCAATCATAAAAATAGA-GGAGATTATTATGAGAATCCATGTTTATCTCATTTGAGGGAT
* *
1644266 GTA-TTTCAATTCTAAGGAAAACT-ATGGGAAC
129 GAACTTT-AATTCTAAAGAAAA-TAATGGGAAC
* * * ** ** * *
1644297 -AAAGCTTTTTTTATGAAACCAAAGCACCAATATTGTGTATCTTAATGAAAAAAAAAAGTCTTTT
1 AAAAGCTTTTCTTATGAAACCAAAGCATCAATATCGTGTATCCCAATG-AGGAGAACA-TCTTTT
* * * * * * * * *
1644361 TCTTGCCCAATGATGAAAACAAAAGAGATTATTACGAGAATCCA--TTTGTCTCATTTGGGGGAT
64 TATTGCCCAATCATAAAAATAGAGGAGATTATTATGAGAATCCATGTTTATCTCATTTGAGGGAT
* * *
1644424 GAACTTTAATTTTAAAGGAAATAGTGGGAAC
129 GAACTTTAATTCTAAAGAAAATAATGGGAAC
** * * * * * * *
1644455 -AAAGCTTTTCTTACAAAATCAAAACATCATTGTCATGTATCCCAACGAAGAGAA
1 AAAAGCTTTTCTTATGAAACCAAAGCATCAATATCGTGTATCCCAATGAGGAGAA
1644509 TGTGTTTTTA
Statistics
Matches: 662, Mismatches: 150, Indels: 70
0.75 0.17 0.08
Matches are distributed among these distances:
156 4 0.01
157 18 0.03
158 344 0.52
159 249 0.38
160 46 0.07
161 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (159 bp):
AAAAGCTTTTCTTATGAAACCAAAGCATCAATATCGTGTATCCCAATGAGGAGAACATCTTTTTA
TTGCCCAATCATAAAAATAGAGGAGATTATTATGAGAATCCATGTTTATCTCATTTGAGGGATGA
ACTTTAATTCTAAAGAAAATAATGGGAAC
Found at i:1643887 original size:158 final size:158
Alignment explanation
Indices: 1643503--1644010 Score: 461
Period size: 159 Copynumber: 3.2 Consensus size: 158
1643493 GTAGGTGTAG
* ** * * * * *
1643503 GAAAAGCTTTTCATACCAAACCAAAGCATCAATATCATGTATCCCAAGGAGGAAAACATGTTTTT
1 GAAAAGCTTTTCTTATGAAACCAAAGCATCAAAATCATGTATCCAAATGAGGAGAACATCTTTTT
* * * * ** * * * ** * * * * *
1643568 GTTACCTAATCATGAGAACAATAGAGATTATTGGGAGAATCTATGTTTATATCATTTGAGGAACA
66 ATTGCCCAAACACAAAAATAGTAGAGATTATTACGAGAATCCATGTTTATCTCATTTAAGGGATA
* *
1643633 AACTTTGATTTTAA-AGAAAATAATGGAAA
131 AACTTTAATTCTAAGA-AAAATAATGG-AA
* * *
1643662 CAAAAGCTTTTCTTATGAAACCAAAGCATCAATATCATGTATCCCAATGAGGAGAACATCTTTTT
1 GAAAAGCTTTTCTTATGAAACCAAAGCATCAAAATCATGTATCCAAATGAGGAGAACATCTTTTT
* * * **
1643727 ATTGCCCAAACACAAAAATAG-AGGATATTATTATGAGAATCCATGTTTCTCTCATTTGGGGGAT
66 ATTGCCCAAACACAAAAATAGTA-GAGATTATTACGAGAATCCATGTTTATCTCATTTAAGGGAT
* *
1643791 GAA-TATTGATTCTAAGAAAAATAATGGAA
130 AAACT-TTAATTCTAAGAAAAATAATGGAA
* * *
1643820 GAAAACCTTTTCTTACT-AAACTAAAGCATCAAAATCGTGTATCTCAAAT-AGGAGAACATGC-T
1 GAAAAGCTTTTCTTA-TGAAACCAAAGCATCAAAATCATGTATC-CAAATGAGGAGAACAT-CTT
* * ** *
1643882 TTTATTGCCTAATCATGAAAATAGTAGAGATTATTACGGGAATCCATGTTTATCTCATTTAAGGG
63 TTTATTGCCCAAACACAAAAATAGTAGAGATTATTACGAGAATCCATGTTTATCTCATTTAAGGG
* *
1643947 ATAAACTTTAATTTTAAGAAAACTAATGAGAA
128 ATAAACTTTAATTCTAAGAAAAATAATG-GAA
* **
1643979 GAAAAGCTTTTTTTGGGAAACCAAAGCATCAA
1 GAAAAGCTTTTCTTATGAAACCAAAGCATCAA
1644011 TCTCGTGTGT
Statistics
Matches: 287, Mismatches: 52, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
158 126 0.44
159 160 0.56
160 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (158 bp):
GAAAAGCTTTTCTTATGAAACCAAAGCATCAAAATCATGTATCCAAATGAGGAGAACATCTTTTT
ATTGCCCAAACACAAAAATAGTAGAGATTATTACGAGAATCCATGTTTATCTCATTTAAGGGATA
AACTTTAATTCTAAGAAAAATAATGGAA
Found at i:1644139 original size:317 final size:317
Alignment explanation
Indices: 1643503--1644246 Score: 769
Period size: 317 Copynumber: 2.3 Consensus size: 317
1643493 GTAGGTGTAG
* * * * * ** *
1643503 GAAAAGCTTTTCATACCAAACCAAAGCATCAATATCATGTATCCCAAGGAGGAAAACATGTTTTT
1 GAAAAACTTTTCTTACTAAACCAAAGCATCAATATCGTGTATCTCAAATAGGAGAACATGTTTTT
* * * * *
1643568 GTTACCTAATCATGAGAACAATAGAGATTATT-GGGAGAATCTATGTTTATATCATTTGAGGAAC
66 GTTGCCTAATCATGAAAACAATAGAGATTATTACGG-GAATCCATGTTTATATCATTTAAGGAAC
* *
1643632 AAACTTTGATTTTAAAGAAAATAATGGAAACAAAAGCTTTTCTTATGAAACCAAAGCATCAATAT
130 AAACTTTAATTTTAAAGAAAATAATGGAAACAAAAGCTTTTCTTAGGAAACCAAAGCATCAATAT
* * *
1643697 CATGTATCCCAATGAGGAGAACATCTTTTTATTGCCCAAACACAAAAATAGAGGATATTATTATG
195 CATGTATCCCAATAAGGAGAACATCTTTTTATTGCCCAAACACAAAAATAGAGGAGATTACTATG
* * * ** *
1643762 AGAATCCATGTTTCTCTCATTTGGGGGATGAATATTGATTCTAAGAAAAATAATGGAA
260 ACAATCAATGTTTCTCTCAATTAAGGGACGAATATTGATTCTAAGAAAAATAATGGAA
* * * *
1643820 GAAAACCTTTTCTTACTAAACTAAAGCATCAAAATCGTGTATCTCAAATAGGAGAACATGCTTTT
1 GAAAAACTTTTCTTACTAAACCAAAGCATCAATATCGTGTATCTCAAATAGGAGAACATGTTTTT
* * * * * *
1643885 ATTGCCTAATCATGAAAATAGTAGAGATTATTACGGGAATCCATGTTTATCTCATTTAAGGGATA
66 GTTGCCTAATCATGAAAACAATAGAGATTATTACGGGAATCCATGTTTATATCATTTAAGGAACA
* * * *
1643950 AACTTTAATTTT-AAGAAAACTAAT-GAGAAGAAAAGCTTTTTTTGGGAAACCAAAGCATCAATC
131 AACTTTAATTTTAAAGAAAA-TAATGGA-AACAAAAGCTTTTCTTAGGAAACCAAAGCATCAATA
* * * *** ** *
1644013 TCGTGTGTCCCAGTAAGGAG-A-ATCTGTTTTAGTTGCTTGATTATAAAACA-A-AGGAGATTAC
194 TCATGTATCCCAATAAGGAGAACATCT-TTTTA-TTGCCCAAACACAAAA-ATAGAGGAGATTAC
1644074 TATGACAATCAATGTTTGC-CTCAATTAAGGGACGAACT-TTGATTCTAATG-AAAATAATGGGA
256 TATGACAATCAATGTTT-CTCTCAATTAAGGGACGAA-TATTGATTCTAA-GAAAAATAAT-GGA
1644136 A
317 A
* * * **
1644137 GAAAAACTCTACTTA-TGAAACCAAATG-ATCAATATCGTGCATCTC-AATAAGGAGAATGTGTT
1 GAAAAACTTTTCTTACT-AAACCAAA-GCATCAATATCGTGTATCTCAAAT-AGGAGAACATGTT
* * *
1644199 TTTGTTGCCCAATCATGAAAACAAT-GCAGATTATTATGAGAATCCATG
63 TTTGTTGCCTAATCATGAAAACAATAG-AGATTATTACGGGAATCCATG
1644247 CTTGTCTTAT
Statistics
Matches: 352, Mismatches: 61, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
315 4 0.01
316 74 0.21
317 270 0.77
318 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (317 bp):
GAAAAACTTTTCTTACTAAACCAAAGCATCAATATCGTGTATCTCAAATAGGAGAACATGTTTTT
GTTGCCTAATCATGAAAACAATAGAGATTATTACGGGAATCCATGTTTATATCATTTAAGGAACA
AACTTTAATTTTAAAGAAAATAATGGAAACAAAAGCTTTTCTTAGGAAACCAAAGCATCAATATC
ATGTATCCCAATAAGGAGAACATCTTTTTATTGCCCAAACACAAAAATAGAGGAGATTACTATGA
CAATCAATGTTTCTCTCAATTAAGGGACGAATATTGATTCTAAGAAAAATAATGGAA
Found at i:1651569 original size:158 final size:157
Alignment explanation
Indices: 1651266--1651942 Score: 639
Period size: 158 Copynumber: 4.3 Consensus size: 157
1651256 GTTCTCATCA
* * ** ** * *
1651266 GAAAATGATGGTAAGAAATGCTTTTCTTGGGAAACCAAAGCATCAATATCACATATCCCAAGGAG
1 GAAAATGATGGAAAGAAAAGCTTTTCTTATGAAACCAAAGCATCAATATCATGTATCCTAA-TAG
* * ** * *
1651331 GAGAA-TGTGCATTGGC-TGCCCAGTCACAAAAAGAATGAAGATTATTATGACAATCCATATTTG
65 AAGAACT-TG-TTTTTCTTGCCCAGTCAC-AAAAGAATGGAGATTATTATGACAATCCATGTTTG
* **
1651394 TCTTAAATGAGGGATGAACTTTAATTCTAAG
127 TCTCATTTGAGGGATGAACTTTAATTCTAAG
** * * * ** * *
1651425 GAATGTTATGAAAAGAAAAGCTCTTCTTATGAAACCAAAGCATCAATATTGTGCATCCTGATCAG
1 GAAAATGATGGAAAGAAAAGCTTTTCTTATGAAACCAAAGCATCAATATCATGTATCCTAAT-AG
*
1651490 AAGAACTTGTTTTTCTTGCCCAGTCACAAAAGAATGGAGATTATTATGACAATCCTTGTTTGTCT
65 AAGAACTTGTTTTTCTTGCCCAGTCACAAAAGAATGGAGATTATTATGACAATCCATGTTTGTCT
* *
1651555 CATTTGAGGGATGAACTTTGATTCTAGG
130 CATTTGAGGGATGAACTTTAATTCTAAG
* * * *
1651583 GAAAATAATGGGAAGAAAAGCTTTTCTAATGAAACCAAAGCATCAATATCATGTATCCCAAT-GA
1 GAAAATGATGGAAAGAAAAGCTTTTCTTATGAAACCAAAGCATCAATATCATGTATCCTAATAGA
* * * * * *
1651647 ATGGAACTTGCTTTTTTTTG-TCTGATCACAAAACAATAGAGATTATTATGAGAATCCATGTTTG
66 A--GAACTTG-TTTTTCTTGCCCAG-TCACAAAAGAATGGAGATTATTATGACAATCCATGTTTG
* * *
1651711 TCTCATTTGAAGGATGAACTTTGATTCAAAG
127 TCTCATTTGAGGGATGAACTTTAATTCTAAG
* * * *
1651742 GAAAATGATGGAAAGAGATA-TTTTTCTTGTGAAACCAAACCATCAATATCATGTATCCTAATGA
1 GAAAATGATGGAAAGA-AAAGCTTTTCTTATGAAACCAAAGCATCAATATCATGTATCCTAAT-A
* ** * * * ** * *
1651806 GGAA-AACATGTTTTGGTTGCCTAATCACAAAAAAATGGATTTTAGTATGAGAATCCATGTTTGT
64 -GAAGAACTTGTTTTTCTTGCCCAGTCACAAAAGAATGGAGATTATTATGACAATCCATGTTTGT
* * *
1651870 CTCATTTAAGAGATGAACTTTAATTTTAAG
128 CTCATTTGAGGGATGAACTTTAATTCTAAG
* * *
1651900 AAAAATGATGGGAAGAAAGGCTTTTCTTATGAAACC-AAGCATC
1 GAAAATGATGGAAAGAAAAGCTTTTCTTATGAAACCAAAGCATC
1651943 TGTAAGTAAA
Statistics
Matches: 421, Mismatches: 84, Indels: 28
0.79 0.16 0.05
Matches are distributed among these distances:
156 3 0.01
157 7 0.02
158 214 0.51
159 191 0.45
160 3 0.01
162 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (157 bp):
GAAAATGATGGAAAGAAAAGCTTTTCTTATGAAACCAAAGCATCAATATCATGTATCCTAATAGA
AGAACTTGTTTTTCTTGCCCAGTCACAAAAGAATGGAGATTATTATGACAATCCATGTTTGTCTC
ATTTGAGGGATGAACTTTAATTCTAAG
Found at i:1651869 original size:317 final size:316
Alignment explanation
Indices: 1651369--1651942 Score: 729
Period size: 317 Copynumber: 1.8 Consensus size: 316
1651359 AAAAGAATGA
* * * ** *
1651369 AGATTATTATGACAATCCATATTTGTCTTAAATGAGGGATGAACTTTAATTCTAAGGAATGTTAT
1 AGATTATTATGACAATCCATATTTGTCTCAAATGAAGGATGAACTTTAATTCAAAGGAAAATGAT
* ** * *
1651434 GAAAAGAAAAGCTCTTCTTATGAAACCAAAGCATCAATATTGTGCATCCTGATCAGAAGAACTTG
66 GAAAAGAAAAGCTCTTCTTATGAAACCAAACCATCAATATCATGCATCCTAATCAGAAGAACATG
* * * * * * *
1651499 TTTTTCTTGCCCAGTCACAAAAGAATGGAGATTATTATGACAATCCTTGTTTGTCTCATTTGAGG
131 TTTTGCTTGCCCAATCACAAAAAAATGGAGATTAGTATGACAATCCATGTTTGTCTCATTTAAGA
* * *
1651564 GATGAACTTTGATTCTAGGGAAAATAATGGGAAGAAAAGCTTTTCTAATGAAACCAAAGCATCAA
196 GATGAACTTTAATTCTAAGAAAAATAATGGGAAGAAAAGCTTTTCTAATGAAACC-AAGCATCAA
1651629 TATCATGTATCCCAATGAATGGAACTTGCTTTTTTTTGTCTGATCACAAAACAATAG
260 TATCATGTATCCCAATGAATGGAACTTGCTTTTTTTTGTCTGATCACAAAACAATAG
* * ** *
1651686 AGATTATTATGAGAATCCATGTTTGTCTCATTTGAAGGATGAACTTTGATTCAAAGGAAAATGAT
1 AGATTATTATGACAATCCATATTTGTCTCAAATGAAGGATGAACTTTAATTCAAAGGAAAATGAT
* * * * * * *
1651751 GGAAAGAGATA-TTTTTCTTGTGAAACCAAACCATCAATATCATGTATCCTAATGAGGAA-AACA
66 GAAAAGA-AAAGCTCTTCTTATGAAACCAAACCATCAATATCATGCATCCTAATCA-GAAGAACA
* * ** *
1651814 TGTTTTGGTTGCCTAATCACAAAAAAATGGATTTTAGTATGAGAATCCATGTTTGTCTCATTTAA
129 TGTTTTGCTTGCCCAATCACAAAAAAATGGAGATTAGTATGACAATCCATGTTTGTCTCATTTAA
* * * *
1651879 GAGATGAACTTTAATTTTAAGAAAAATGATGGGAAGAAAGGCTTTTCTTATGAAACCAAGCATC
194 GAGATGAACTTTAATTCTAAGAAAAATAATGGGAAGAAAAGCTTTTCTAATGAAACCAAGCATC
1651943 TGTAAGTAAA
Statistics
Matches: 213, Mismatches: 42, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
316 7 0.03
317 201 0.94
318 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (316 bp):
AGATTATTATGACAATCCATATTTGTCTCAAATGAAGGATGAACTTTAATTCAAAGGAAAATGAT
GAAAAGAAAAGCTCTTCTTATGAAACCAAACCATCAATATCATGCATCCTAATCAGAAGAACATG
TTTTGCTTGCCCAATCACAAAAAAATGGAGATTAGTATGACAATCCATGTTTGTCTCATTTAAGA
GATGAACTTTAATTCTAAGAAAAATAATGGGAAGAAAAGCTTTTCTAATGAAACCAAGCATCAAT
ATCATGTATCCCAATGAATGGAACTTGCTTTTTTTTGTCTGATCACAAAACAATAG
Found at i:1652614 original size:23 final size:24
Alignment explanation
Indices: 1652588--1652650 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
1652578 CTAGTAATTA
*
1652588 TAAAAAAATAAAATTAACC-ATAG
1 TAAAAAAATAAAATTAACCAAAAG
* * * *
1652611 TAAAATAATCAATTTAACCAAAAT
1 TAAAAAAATAAAATTAACCAAAAG
1652635 TAAAATAAATAAAATT
1 TAAAA-AAATAAAATT
1652651 CATTATTCCT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 16 0.53
24 7 0.23
25 7 0.23
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (24 bp):
TAAAAAAATAAAATTAACCAAAAG
Found at i:1660747 original size:38 final size:38
Alignment explanation
Indices: 1660672--1660747 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
1660662 AGATTGTTAG
*
1660672 GGAAAGGGTGTGTTCAACCAAAGGCCCTTTACTGAGAT
1 GGAAAGGGTGTGTTCAACCAAAGGCCCTTTACCGAGAT
* *
1660710 GGAAAGGGTGTGTTCAGCCAAAGGCCCTTTGCCGAGAT
1 GGAAAGGGTGTGTTCAACCAAAGGCCCTTTACCGAGAT
1660748 CAAGACAAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (38 bp):
GGAAAGGGTGTGTTCAACCAAAGGCCCTTTACCGAGAT
Found at i:1671770 original size:9 final size:9
Alignment explanation
Indices: 1671758--1671818 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
1671748 CTCTCTCTAT
1671758 TATCTCTCC
1 TATCTCTCC
1671767 TATCTCTCC
1 TATCTCTCC
* *
1671776 T-CCTAT-C
1 TATCTCTCC
*
1671783 -ATCCCTCC
1 TATCTCTCC
*
1671791 TATCTCTAC
1 TATCTCTCC
1671800 TATCTCTCC
1 TATCTCTCC
*
1671809 TGTCTCTCC
1 TATCTCTCC
1671818 T
1 T
1671819 CCTATCATCC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
7 3 0.08
8 4 0.10
9 33 0.82
ACGTcount: A:0.11, C:0.44, G:0.02, T:0.43
Consensus pattern (9 bp):
TATCTCTCC
Found at i:1671778 original size:12 final size:12
Alignment explanation
Indices: 1671763--1671797 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
1671753 TCTATTATCT
1671763 CTCCTATCTCTC
1 CTCCTATCTCTC
1671775 CTCCTATCATC-C
1 CTCCTATC-TCTC
1671787 CTCCTATCTCT
1 CTCCTATCTCT
1671798 ACTATCTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.10
12 17 0.81
13 2 0.10
ACGTcount: A:0.11, C:0.49, G:0.00, T:0.40
Consensus pattern (12 bp):
CTCCTATCTCTC
Found at i:1671785 original size:42 final size:42
Alignment explanation
Indices: 1671730--1671848 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
1671720 TTCTTCTCTC
* *
1671730 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTATCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
* *
1671772 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
* *
1671814 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
1671849 TTGAGGGCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.09, C:0.46, G:0.02, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTATCT
Found at i:1671790 original size:24 final size:24
Alignment explanation
Indices: 1671754--1671839 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
1671744 CCTCCTCTCT
* *
1671754 CTATTATCTCTCCTATCTCTCCTC
1 CTATCATCCCTCCTATCTCTCCTC
*
1671778 CTATCATCCCTCCTA--TCT-CTA
1 CTATCATCCCTCCTATCTCTCCTC
*
1671799 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTATCTCTCCTC
*
1671820 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTATCTCT
1671840 TCTTTCTCTT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
18 5 0.10
20 4 0.08
21 14 0.28
22 4 0.08
24 23 0.46
ACGTcount: A:0.12, C:0.45, G:0.01, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTATCTCTCCTC
Found at i:1675088 original size:28 final size:29
Alignment explanation
Indices: 1675040--1675121 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
1675030 ATTGAAAAAT
* *
1675040 AAGAAAGATC-AAGGAAGTGAAATCAA-C
1 AAGAAATATCAAAGGAAATGAAATCAAGC
* *
1675067 AAGAAATATGAATGGAAATGAAAT-AAGC
1 AAGAAATATCAAAGGAAATGAAATCAAGC
* *
1675095 AAGAAATTTCAAAGGAAAAGAAATCAA
1 AAGAAATATCAAAGGAAATGAAATCAA
1675122 TAAAGAAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 10 0.23
28 32 0.73
29 2 0.05
ACGTcount: A:0.59, C:0.07, G:0.20, T:0.15
Consensus pattern (29 bp):
AAGAAATATCAAAGGAAATGAAATCAAGC
Found at i:1681374 original size:16 final size:16
Alignment explanation
Indices: 1681355--1681385 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1681345 AATAGCCTTC
1681355 ATGTATCGATACATTG
1 ATGTATCGATACATTG
1681371 ATGTATCGATACATT
1 ATGTATCGATACATT
1681386 TGGTCTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (16 bp):
ATGTATCGATACATTG
Found at i:1695121 original size:12 final size:12
Alignment explanation
Indices: 1695100--1695129 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1695090 TTAATCCCTA
*
1695100 ATAGACCAACAT
1 ATAGAGCAACAT
1695112 ATAGAGCAACAT
1 ATAGAGCAACAT
1695124 ATAGAG
1 ATAGAG
1695130 GAGACAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.17, T:0.17
Consensus pattern (12 bp):
ATAGAGCAACAT
Found at i:1697384 original size:103 final size:103
Alignment explanation
Indices: 1697256--1697452 Score: 295
Period size: 103 Copynumber: 1.9 Consensus size: 103
1697246 CCTTGGAAGA
* *
1697256 TGGGATTGGAGTATCGCCATGGATAACAAATAATTTTGACAAAAGAAGAGTTCAAATCTTGATAA
1 TGGGATTGGAGTATCCCCATGGATAACAAATAATTTTGACAAAAGAAGAGTTCAAATCTAGATAA
* * *
1697321 ATTTGGAAGAATGGGGTTGGAGTATCCCCTCGAAAAGT
66 ATTTGGAAGAACGGGGTTAGACTATCCCCTCGAAAAGT
* * * *
1697359 TGGGGTTGGAGTATCCCCATGGATAATAAATAATTTTGACAAAGGAGGAGTTCAAATCTAGATAA
1 TGGGATTGGAGTATCCCCATGGATAACAAATAATTTTGACAAAAGAAGAGTTCAAATCTAGATAA
* *
1697424 ATTTTGAAGAGCGGGGTTAGACTATCCCC
66 ATTTGGAAGAACGGGGTTAGACTATCCCC
1697453 GTGAATAACA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 83 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (103 bp):
TGGGATTGGAGTATCCCCATGGATAACAAATAATTTTGACAAAAGAAGAGTTCAAATCTAGATAA
ATTTGGAAGAACGGGGTTAGACTATCCCCTCGAAAAGT
Found at i:1697526 original size:76 final size:76
Alignment explanation
Indices: 1697362--1697528 Score: 244
Period size: 76 Copynumber: 2.2 Consensus size: 76
1697352 GAAAAGTTGG
* * *
1697362 GGTTGGAGTATCCCCATGGATAATAAATAATTTTGACAAAGGAGGAGTTCAAATCTAGATAAATT
1 GGTTGGAGTATCCCCATGAATAACAAATAATTTTGACAAAGAAGGAGTTCAAATCTAGATAAATT
**
1697427 TTGAAGAGCGG
66 TTGAAGAGCAA
* * * *
1697438 GGTTAGACTATCCCCGTGAATAACAAATAATTTTGACAAAGAAGGAGTTCAAATTTAGATAAATT
1 GGTTGGAGTATCCCCATGAATAACAAATAATTTTGACAAAGAAGGAGTTCAAATCTAGATAAATT
*
1697503 TTGGAGAGCAA
66 TTGAAGAGCAA
1697514 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1697529 TCAAAAGGTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
76 79 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (76 bp):
GGTTGGAGTATCCCCATGAATAACAAATAATTTTGACAAAGAAGGAGTTCAAATCTAGATAAATT
TTGAAGAGCAA
Found at i:1700677 original size:31 final size:31
Alignment explanation
Indices: 1700642--1700913 Score: 129
Period size: 37 Copynumber: 8.2 Consensus size: 31
1700632 GCTCATGCAA
*
1700642 ACTTTGAAAGGGTTGCCACCAACTCATGTGG
1 ACTTTGAAAGGGTTGCCACCAACTCGTGTGG
* * *
1700673 ACTTTCAAAAAGGTGGCCACCAACTCGTGTGG
1 ACTTT-GAAAGGGTTGCCACCAACTCGTGTGG
* * * * *
1700705 ACTTTGAAAAGGATGCCATCAATTCATGTGG
1 ACTTTGAAAGGGTTGCCACCAACTCGTGTGG
* * *
1700736 GCTTTTGAAAAGGCTTGGTTGCCACCAACTTGTATGG
1 AC-TTTG-AAA-G---GGTTGCCACCAACTCGTGTGG
* * *
1700773 ACTTTGAAAAGGTTTGTGCCACCGACTTGTGTGG
1 ACTTTG-AAAGG-GT-TGCCACCAACTCGTGTGG
* *
1700807 ACTTTGAAAAAAGTTTGGTTGCCACCAACTTGTGTAG
1 ACTTTG---AAAG---GGTTGCCACCAACTCGTGTGG
*
1700844 ACTTTGGAAAAGGTTTGGTTGCCACCAACT--TATGG
1 ACTTT-G-AAA-G---GGTTGCCACCAACTCGTGTGG
* * *
1700879 ACTTTGAAAAGGATGCCACTAACT--TGTGG
1 ACTTTGAAAGGGTTGCCACCAACTCGTGTGG
1700908 ACTTTG
1 ACTTTG
1700914 GAAAAGCTTT
Statistics
Matches: 194, Mismatches: 31, Indels: 34
0.75 0.12 0.13
Matches are distributed among these distances:
29 22 0.11
31 26 0.13
32 32 0.16
33 7 0.04
34 23 0.12
35 9 0.05
36 17 0.09
37 55 0.28
38 2 0.01
39 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (31 bp):
ACTTTGAAAGGGTTGCCACCAACTCGTGTGG
Found at i:1700697 original size:32 final size:31
Alignment explanation
Indices: 1700655--1700740 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 31
1700645 TTGAAAGGGT
1700655 TGCCACCAACTCATGTGGACTTTCAAAAAGG-
1 TGCCACCAACTCATGTGGACTTT-AAAAAGGA
* *
1700686 TGGCCACCAACTCGTGTGGACTTTGAAAAGGA
1 T-GCCACCAACTCATGTGGACTTTAAAAAGGA
* * *
1700718 TGCCATCAATTCATGTGGGCTTT
1 TGCCACCAACTCATGTGGACTTT
1700741 TGAAAAGGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
31 25 0.53
32 22 0.47
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (31 bp):
TGCCACCAACTCATGTGGACTTTAAAAAGGA
Found at i:1700722 original size:63 final size:66
Alignment explanation
Indices: 1700642--1700856 Score: 166
Period size: 71 Copynumber: 3.2 Consensus size: 66
1700632 GCTCATGCAA
* * *
1700642 ACTTTGAAAGGGTTGCCACCAACTCATGTGGACTTTCAAAAAGG-T-G-GCCACCAACTCGTGTG
1 ACTTTGAAAAGGATGCCACCAACTCATGTGGACTTTCAAAAAGGCTGGTGCCACCAACTCGTATG
1700704 G
66 G
* * * ** *
1700705 ACTTTGAAAAGGATGCCATCAATTCATGTGGGCTTTTGAAAAGGCTTGGTTGCCACCAACTTGTA
1 ACTTTGAAAAGGATGCCACCAACTCATGTGGACTTTCAAAAAGGC-TGG-TGCCACCAACTCGTA
1700770 TGG
64 TGG
* * ** * ** *
1700773 ACTTTGAAAAGGTTTGTGCCACCGACTTGTGTGGACTTTGAAAAAAGTTTGGTTGCCACCAACTT
1 ACTTTGAAAAGG---ATGCCACCAACTCATGTGGACTTT-CAAAAAGGCTGG-TGCCACCAACTC
* *
1700838 GTGTAG
61 GTATGG
1700844 ACTTTGGAAAAGG
1 ACTTT-GAAAAGG
1700857 TTTGGTTGCC
Statistics
Matches: 120, Mismatches: 22, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
63 37 0.31
65 1 0.01
66 1 0.01
68 27 0.22
71 42 0.35
72 12 0.10
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (66 bp):
ACTTTGAAAAGGATGCCACCAACTCATGTGGACTTTCAAAAAGGCTGGTGCCACCAACTCGTATG
G
Found at i:1700747 original size:32 final size:31
Alignment explanation
Indices: 1700644--1700748 Score: 113
Period size: 32 Copynumber: 3.3 Consensus size: 31
1700634 TCATGCAAAC
*
1700644 TTTGAAAGGGTTGCCACCAACTCATGTGGACT
1 TTTGAAAAGG-TGCCACCAACTCATGTGGACT
** *
1700676 TTCAAAAAGGTGGCCACCAACTCGTGTGGAC-
1 TTTGAAAAGGT-GCCACCAACTCATGTGGACT
* * *
1700707 TTTGAAAAGGATGCCATCAATTCATGTGGGCT
1 TTTGAAAAGG-TGCCACCAACTCATGTGGACT
1700739 TTTGAAAAGG
1 TTTGAAAAGG
1700749 CTTGGTTGCC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
31 24 0.40
32 36 0.60
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
TTTGAAAAGGTGCCACCAACTCATGTGGACT
Found at i:1700833 original size:71 final size:72
Alignment explanation
Indices: 1700750--1700948 Score: 213
Period size: 64 Copynumber: 2.9 Consensus size: 72
1700740 TTGAAAAGGC
* * *
1700750 TTGGTTGCCACCAACTTGTATGGACTTT-GAAAAGGTTT-G-TGCCACCGACTTGTGTGGACTTT
1 TTGGTTGCCACCAACTTGTATAGACTTTGGAAAAGGTTTGGTTGCCACCAAC-T-TATGGACTTT
1700812 GAAAAAAGT
64 GAAAAAAGT
*
1700821 TTGGTTGCCACCAACTTGTGTAGACTTTGGAAAAGGTTTGGTTGCCACCAACTTATGGACTTTG-
1 TTGGTTGCCACCAACTTGTATAGACTTTGGAAAAGGTTTGGTTGCCACCAACTTATGGACTTTGA
1700885 -AAAA--
66 AAAAAGT
* * * * * *
1700889 --GGATGCCACTAACTTG--TGGACTTTGGAAAAGCTTTGGTTGCCACCGACTTGTGGACTTTG
1 TTGGTTGCCACCAACTTGTATAGACTTTGGAAAAGGTTTGGTTGCCACCAACTTATGGACTTTG
1700949 TAAATGATGC
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
64 40 0.35
66 14 0.12
70 4 0.03
71 26 0.23
72 20 0.17
73 2 0.02
74 9 0.08
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (72 bp):
TTGGTTGCCACCAACTTGTATAGACTTTGGAAAAGGTTTGGTTGCCACCAACTTATGGACTTTGA
AAAAAGT
Found at i:1700839 original size:37 final size:37
Alignment explanation
Indices: 1700739--1700948 Score: 200
Period size: 37 Copynumber: 6.1 Consensus size: 37
1700729 CATGTGGGCT
*
1700739 TTTG-AAAAGGCTTGGTTGCCACCAACTTGTATGGAC
1 TTTGAAAAAGGTTTGGTTGCCACCAACTTGTATGGAC
* *
1700775 TTTG-AAAAGGTTT-G-TGCCACCGACTTGTGTGGAC
1 TTTGAAAAAGGTTTGGTTGCCACCAACTTGTATGGAC
* * *
1700809 TTTGAAAAAAGTTTGGTTGCCACCAACTTGTGTAGAC
1 TTTGAAAAAGGTTTGGTTGCCACCAACTTGTATGGAC
*
1700846 TTTGGAAAAGGTTTGGTTGCCACCAAC-T-TATGGAC
1 TTTGAAAAAGGTTTGGTTGCCACCAACTTGTATGGAC
* *
1700881 TTTG-AAAA-----GGATGCCACTAACTTG--TGGAC
1 TTTGAAAAAGGTTTGGTTGCCACCAACTTGTATGGAC
* * *
1700910 TTTGGAAAAGCTTTGGTTGCCACCGACTTG--TGGAC
1 TTTGAAAAAGGTTTGGTTGCCACCAACTTGTATGGAC
1700945 TTTG
1 TTTG
1700949 TAAATGATGC
Statistics
Matches: 148, Mismatches: 15, Indels: 23
0.80 0.08 0.12
Matches are distributed among these distances:
29 20 0.14
30 5 0.03
34 26 0.18
35 40 0.27
36 14 0.09
37 43 0.29
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (37 bp):
TTTGAAAAAGGTTTGGTTGCCACCAACTTGTATGGAC
Found at i:1700929 original size:64 final size:65
Alignment explanation
Indices: 1700826--1700962 Score: 204
Period size: 64 Copynumber: 2.1 Consensus size: 65
1700816 AAAGTTTGGT
* *
1700826 TGCCACCAACTTGTGTAGACTTTGGAAAAGGTTTGGTTGCCACCAACTTATGGACTTTGAAAAGG
1 TGCCACTAACTTGTG-AGACTTTGGAAAAGCTTTGGTTGCCACCAACTTATGGACTTTGAAAAGG
1700891 A
65 A
* * * *
1700892 TGCCACTAACTTGTG-GACTTTGGAAAAGCTTTGGTTGCCACCGACTTGTGGACTTTGTAAATGA
1 TGCCACTAACTTGTGAGACTTTGGAAAAGCTTTGGTTGCCACCAACTTATGGACTTTGAAAAGGA
1700956 TGCCACT
1 TGCCACT
1700963 GAGTCATGGA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 51 0.78
66 14 0.22
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (65 bp):
TGCCACTAACTTGTGAGACTTTGGAAAAGCTTTGGTTGCCACCAACTTATGGACTTTGAAAAGGA
Found at i:1700960 original size:29 final size:29
Alignment explanation
Indices: 1700863--1700961 Score: 90
Period size: 29 Copynumber: 3.2 Consensus size: 29
1700853 AAGGTTTGGT
* *
1700863 TGCCACCAACTTATGGACTTTGAAAAGGA
1 TGCCACCAACTTGTGGACTTTGAAAATGA
* *
1700892 TGCCACTAACTTGTGGACTTTGGAAAAGCTTTGGT
1 TGCCACCAACTTGTGGACTTT-GAAAA----T-GA
* *
1700927 TGCCACCGACTTGTGGACTTTGTAAATGA
1 TGCCACCAACTTGTGGACTTTGAAAATGA
1700956 TGCCAC
1 TGCCAC
1700962 TGAGTCATGG
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
29 26 0.46
30 6 0.11
34 4 0.07
35 20 0.36
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (29 bp):
TGCCACCAACTTGTGGACTTTGAAAATGA
Found at i:1700972 original size:29 final size:29
Alignment explanation
Indices: 1700940--1701364 Score: 335
Period size: 29 Copynumber: 14.7 Consensus size: 29
1700930 CACCGACTTG
* *
1700940 TGGACTTTGTAAATGATGCCACTGAGTCA
1 TGGACTTTGAAAAGGATGCCACTGAGTCA
* * * ** * *
1700969 TGGATTTTGAGAAGGGGTGCCTTTAAGTTA
1 TGGACTTTGA-AAAGGATGCCACTGAGTCA
* *
1700999 TGGACTTTGAAAAGGATGCTACTGAGTCG
1 TGGACTTTGAAAAGGATGCCACTGAGTCA
* * * *
1701028 TGGACTTTGAGAAGGGGTGCCATTGAGTCG
1 TGGACTTTGA-AAAGGATGCCACTGAGTCA
* * **
1701058 TGGACTTT-AAAAAGAGTACCACTGAGTTG
1 TGGACTTTGAAAAGGA-TGCCACTGAGTCA
* *
1701087 TGGACATTGAAAAGGATGCCACTGAGTCT
1 TGGACTTTGAAAAGGATGCCACTGAGTCA
* **
1701116 TGGACTTTGAGAAAAGGGTGCCACTGAGTTG
1 TGGACTTT--GAAAAGGATGCCACTGAGTCA
*
1701147 TGGACTTTGAAAAGGATGTCACTGAGTCA
1 TGGACTTTGAAAAGGATGCCACTGAGTCA
* * * *
1701176 TGAACTTTGAGGAAGGGTGCCACTGAGTCG
1 TGGACTTTGA-AAAGGATGCCACTGAGTCA
*
1701206 T-GACTTT-AGAAAGGATGCCACTAAG---
1 TGGACTTTGA-AAAGGATGCCACTGAGTCA
* * *
1701231 TGGACTTTGAGAAGGGTGCCACTAAGTCA
1 TGGACTTTGAAAAGGATGCCACTGAGTCA
*
1701260 TGGACTTT-AAGAAGGGTGCCACTGAGT-A
1 TGGACTTTGAA-AAGGATGCCACTGAGTCA
* * *
1701288 TGGACTTTGAAAAGGATGCTATTGGGTCA
1 TGGACTTTGAAAAGGATGCCACTGAGTCA
* * * * *
1701317 TGGACTTTGAGAAGGGTACCACTAAGTCG
1 TGGACTTTGAAAAGGATGCCACTGAGTCA
*
1701346 TGGACTTTGAGAAGGATGC
1 TGGACTTTGAAAAGGATGC
1701365 TATTAGGGAT
Statistics
Matches: 313, Mismatches: 68, Indels: 30
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.00
26 20 0.06
27 1 0.00
28 40 0.13
29 159 0.51
30 66 0.21
31 26 0.08
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGACTTTGAAAAGGATGCCACTGAGTCA
Found at i:1701017 original size:59 final size:59
Alignment explanation
Indices: 1700875--1701364 Score: 374
Period size: 59 Copynumber: 8.3 Consensus size: 59
1700865 CCACCAACTT
* * * * * *
1700875 ATGGACTTTGAAAAGGATGCCACTAACTTGTGGACTTTG-GAAAAGCTTTGGTTGCCACCGACTT
1 ATGGACTTTGAAAAGGATGCCACTGAGTCGTGGACTTTGAG-AAAG----GG-TGCCACTGAGTC
* * * * * * ** * *
1700939 GTGGACTTTGTAAATGATGCCACTGAGTCATGGATTTTGAGAAGGGGTGCCTTTAAGTT
1 ATGGACTTTGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAAGGGTGCCACTGAGTC
* * *
1700998 ATGGACTTTGAAAAGGATGCTACTGAGTCGTGGACTTTGAGAAGGGGTGCCATTGAGTC
1 ATGGACTTTGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAAGGGTGCCACTGAGTC
* * * * * *
1701057 GTGGACTTT-AAAAAGAGTACCACTGAGTTGTGGACATTGA-AAAGGATGCCACTGAGTC
1 ATGGACTTTGAAAAGGA-TGCCACTGAGTCGTGGACTTTGAGAAAGGGTGCCACTGAGTC
* * * * *
1701115 TTGGACTTTGAGAAAAGGGTGCCACTGAGTTGTGGACTTTGA-AAAGGATGTCACTGAGTC
1 ATGGACTTT--GAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAAGGGTGCCACTGAGTC
* * * * *
1701175 ATGAACTTTGAGGAAGGGTGCCACTGAGTCGT-GACTTT-AGAAAGGATGCCACTAAG--
1 ATGGACTTTGA-AAAGGATGCCACTGAGTCGTGGACTTTGAGAAAGGGTGCCACTGAGTC
* * * * *
1701231 -TGGACTTTGAGAAGGGTGCCACTAAGTCATGGACTTTAAG-AAGGGTGCCACTGAGT-
1 ATGGACTTTGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAAGGGTGCCACTGAGTC
* * * * * *
1701287 ATGGACTTTGAAAAGGATGCTATTGGGTCATGGACTTTGAG-AAGGGTACCACTAAGTC
1 ATGGACTTTGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAAGGGTGCCACTGAGTC
* *
1701345 GTGGACTTTGAGAAGGATGC
1 ATGGACTTTGAAAAGGATGC
1701365 TATTAGGGAT
Statistics
Matches: 354, Mismatches: 60, Indels: 30
0.80 0.14 0.07
Matches are distributed among these distances:
54 18 0.05
55 28 0.08
56 2 0.01
57 48 0.14
58 69 0.19
59 102 0.29
60 47 0.13
61 5 0.01
64 34 0.10
65 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (59 bp):
ATGGACTTTGAAAAGGATGCCACTGAGTCGTGGACTTTGAGAAAGGGTGCCACTGAGTC
Found at i:1701171 original size:148 final size:145
Alignment explanation
Indices: 1700937--1701362 Score: 508
Period size: 148 Copynumber: 3.0 Consensus size: 145
1700927 TGCCACCGAC
* * * * ** *
1700937 TTGTGGACTTTGTAAATGATGCCACTGAGTCATGGATTTTGAG-AAGGGGTGCCTTTAAGTTATG
1 TTGTGGACTTTGAAAAGGATGCCACTGAGTCATGGACTTTGAGAAAAGGGTGCCACTGAGTTATG
* *
1701001 GACTTTGAAAAGGATGCTACTGAGTCGTGGACTTTGAGAAGGGGTGCCATTGAGTCGTGGACTTT
66 GACTTTGAAAAGGATGCTACTGAGTCATGGACTTTGAGAA-GGGTGCCACTGAGTCGTGGACTTT
1701066 AAAAA-GAGTACCACTGA
130 AAAAAGGA-TACCACT-A
* * *
1701083 GTTGTGGACATTGAAAAGGATGCCACTGAGTCTTGGACTTTGAGAAAAGGGTGCCACTGAGTTGT
1 -TTGTGGACTTTGAAAAGGATGCCACTGAGTCATGGACTTTGAGAAAAGGGTGCCACTGAGTTAT
*
1701148 GGACTTTGAAAAGGATG-TCACTGAGTCATGAACTTTGAGGAAGGGTGCCACTGAGTCGT-GACT
65 GGACTTTGAAAAGGATGCT-ACTGAGTCATGGACTTTGA-GAAGGGTGCCACTGAGTCGTGGACT
* *
1701211 TTAGAAAGGATGCCACTA
128 TTAAAAAGGATACCACTA
* * * * *
1701229 -AGTGGACTTTGAGAAGGGTGCCACTAAGTCATGGACTTT-A-AGAAGGGTGCCACTGAG-TATG
1 TTGTGGACTTTGAAAAGGATGCCACTGAGTCATGGACTTTGAGAAAAGGGTGCCACTGAGTTATG
* * * * *
1701290 GACTTTGAAAAGGATGCTATTGGGTCATGGACTTTGAGAAGGGTACCACTAAGTCGTGGACTTTG
66 GACTTTGAAAAGGATGCTACTGAGTCATGGACTTTGAGAAGGGTGCCACTGAGTCGTGGACTTTA
*
1701355 AGAAGGAT
131 AAAAGGAT
1701363 GCTATTAGGG
Statistics
Matches: 242, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
140 18 0.07
141 47 0.19
142 17 0.07
143 1 0.00
144 33 0.14
146 1 0.00
147 55 0.23
148 67 0.28
149 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (145 bp):
TTGTGGACTTTGAAAAGGATGCCACTGAGTCATGGACTTTGAGAAAAGGGTGCCACTGAGTTATG
GACTTTGAAAAGGATGCTACTGAGTCATGGACTTTGAGAAGGGTGCCACTGAGTCGTGGACTTTA
AAAAGGATACCACTA
Found at i:1704143 original size:24 final size:23
Alignment explanation
Indices: 1704110--1704201 Score: 79
Period size: 24 Copynumber: 4.2 Consensus size: 23
1704100 AAGAGAAAGA
*
1704110 AGAGAGAGGAGGGATGATAAGAGG
1 AGAGACAGGAGGGATGAT-AGAGG
*
1704134 AGAGACAGGA--GA-GAT--AGT
1 AGAGACAGGAGGGATGATAGAGG
*
1704152 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATA-GAGG
* *
1704176 AGAGACAGGAGAGATAATAGA-G
1 AGAGACAGGAGGGATGATAGAGG
1704198 AGAG
1 AGAG
1704202 GAGGGATGAC
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
18 11 0.20
20 2 0.04
21 6 0.11
22 7 0.13
23 2 0.04
24 27 0.49
ACGTcount: A:0.43, C:0.02, G:0.45, T:0.10
Consensus pattern (23 bp):
AGAGACAGGAGGGATGATAGAGG
Found at i:1704162 original size:42 final size:42
Alignment explanation
Indices: 1704101--1704210 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
1704091 TAGCCCTCAA
* *
1704101 AGAGAAAGAAGAGAGAGGAGGGATGATAAGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAAGAGGAGAGACAGG
* *
1704143 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAAGAGGAGAGACAGG
*
1704185 AGAGATAATAGAGAGAGGAGGGATGA
1 AGAGATAGTAGAGAGAGGAGGGATGA
1704211 CAGGGGGAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.45, C:0.02, G:0.45, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAAGAGGAGAGACAGG
Found at i:1709235 original size:13 final size:13
Alignment explanation
Indices: 1709217--1709241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1709207 ATATTGCATA
1709217 GTATCGATACATT
1 GTATCGATACATT
1709230 GTATCGATACAT
1 GTATCGATACAT
1709242 GACCATTGTA
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):
GTATCGATACATT
Found at i:1710451 original size:28 final size:27
Alignment explanation
Indices: 1710411--1710482 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 27
1710401 GGAATAAAGC
1710411 CGGGGTTGGAGTATCCCC-TCGAAATTAA
1 CGGGGTTGGAGTATCCCCAT-GAAA-TAA
1710439 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCC-ATGAAATAA
*
1710467 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1710483 TCGATTGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 36 0.88
29 4 0.10
30 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCATGAAATAA
Found at i:1712984 original size:13 final size:13
Alignment explanation
Indices: 1712966--1712991 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1712956 ACAAAGATCC
1712966 ATGTATCGATACA
1 ATGTATCGATACA
1712979 ATGTATCGATACA
1 ATGTATCGATACA
1712992 CAGAAAAATG
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:1712987 original size:33 final size:33
Alignment explanation
Indices: 1712945--1713011 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1712935 AAAATTTCCA
***
1712945 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1712978 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1713011 A
1 A
1713012 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1713955 original size:55 final size:54
Alignment explanation
Indices: 1713871--1714705 Score: 1030
Period size: 55 Copynumber: 14.9 Consensus size: 54
1713861 ATAAAGTGTA
* * * * *
1713871 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1713926 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
1713981 TCCTGCTCTTTGAGAACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
1714036 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
1714091 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1714146 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* * *
1714201 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTATGACA--TG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGC-TT-TGAAAGGTG
*
1714256 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1714311 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1714366 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
1714421 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
**
1714476 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGTAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
** * * *
1714537 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGGGTGGGCTTTAAGAGAAAAAGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* * ** * *
1714596 TCCCGCTCTTTGAGGATTGAAGGTACCACCAACTTGTGTGGGCTTTAAGAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
* ** *
1714655 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG
1714706 AAAAGGCGTC
Statistics
Matches: 709, Mismatches: 45, Indels: 53
0.88 0.06 0.07
Matches are distributed among these distances:
53 4 0.01
54 19 0.03
55 511 0.72
56 23 0.03
57 4 0.01
59 100 0.14
60 25 0.04
61 19 0.03
64 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:1714333 original size:27 final size:27
Alignment explanation
Indices: 1714303--1714388 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1714293 TGTGGGCTTT
1714303 GAAAGGTGTCCTGCTCTTTGAGGATTG
1 GAAAGGTGTCCTGCTCTTTGAGGATTG
* ** * * * *
1714330 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TG-AGGATTG
1714358 GAAAGGTGTCCTGCTCTTTGAGGATTG
1 GAAAGGTGTCCTGCTCTTTGAGGATTG
1714385 GAAA
1 GAAA
1714389 ATGCCACCAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGATTG
Found at i:1715710 original size:10 final size:9
Alignment explanation
Indices: 1715683--1715758 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
1715673 AAGTAGGTTT
1715683 TTTTCTTTTC
1 TTTT-TTTTC
*
1715693 TCTCTTTTTC
1 T-TTTTTTTC
* *
1715703 TTTGTTTTG
1 TTTTTTTTC
1715712 TTTTTTTGT-
1 TTTTTTT-TC
*
1715721 TTTTTTTCC
1 TTTTTTTTC
1715730 TTTTTTTTTC
1 -TTTTTTTTC
1715740 TTTTTTTTGCC
1 TTTTTTTT--C
1715751 TTTTTTTT
1 TTTTTTTT
1715759 TTGAAGAGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
9 26 0.49
10 16 0.30
11 11 0.21
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:1715734 original size:11 final size:11
Alignment explanation
Indices: 1715720--1715759 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
1715710 TGTTTTTTTG
1715720 TTTTTTTTCCT
1 TTTTTTTTCCT
1715731 TTTTTTTT-CT
1 TTTTTTTTCCT
*
1715741 TTTTTTTGCCT
1 TTTTTTTTCCT
1715752 TTTTTTTT
1 TTTTTTTT
1715760 TGAAGAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (11 bp):
TTTTTTTTCCT
Found at i:1715738 original size:21 final size:21
Alignment explanation
Indices: 1715712--1715761 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1715702 CTTTGTTTTG
*
1715712 TTTTTTTGTTTTTTTTCCTTT
1 TTTTTTTGTTTTTTTGCCTTT
1715733 TTTTTTCT-TTTTTTTGCCTTT
1 TTTTTT-TGTTTTTTTGCCTTT
1715754 TTTTTTTG
1 TTTTTTTG
1715762 AAGAGAAGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (21 bp):
TTTTTTTGTTTTTTTGCCTTT
Found at i:1724554 original size:28 final size:28
Alignment explanation
Indices: 1724522--1724593 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1724512 GGAATAAAGC
** *
1724522 CGGGGTTGGAGTATCCCCTCGGAATTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1724550 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1724578 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1724594 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1727095 original size:13 final size:13
Alignment explanation
Indices: 1727077--1727102 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1727067 ACAAAGATCC
1727077 ATGTATCGATACA
1 ATGTATCGATACA
1727090 ATGTATCGATACA
1 ATGTATCGATACA
1727103 CAGAAAAATG
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:1727098 original size:33 final size:33
Alignment explanation
Indices: 1727056--1727122 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1727046 AAAATTTCCA
***
1727056 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1727089 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1727122 A
1 A
1727123 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1727182 original size:13 final size:13
Alignment explanation
Indices: 1727164--1727188 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1727154 ACAATACTTA
1727164 TGTATCGATACAT
1 TGTATCGATACAT
1727177 TGTATCGATACA
1 TGTATCGATACA
1727189 AAACTTATGT
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:1727187 original size:32 final size:32
Alignment explanation
Indices: 1727145--1727207 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1727135 TAGCTAATTA
* *
1727145 TGTATTGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1727177 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1727208 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1727201 original size:19 final size:19
Alignment explanation
Indices: 1727142--1727209 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 19
1727132 CAGTAGCTAA
* *
1727142 TTATGTATTGATACAATAC
1 TTATGTATCGATACAAAAC
1727161 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
1727176 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
1727193 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1727210 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 1 0.02
19 27 0.64
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:1727584 original size:13 final size:13
Alignment explanation
Indices: 1727566--1727591 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1727556 ACATACAAGA
1727566 TGTATCGATACAT
1 TGTATCGATACAT
1727579 TGTATCGATACAT
1 TGTATCGATACAT
1727592 GACCAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1727607 original size:33 final size:32
Alignment explanation
Indices: 1727546--1727613 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
1727536 CCTTAACTGT
1727546 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
1727578 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1727611 TTG
1 TTG
1727614 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:1733486 original size:13 final size:13
Alignment explanation
Indices: 1733463--1733501 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1733453 ATAGCATTCT
*
1733463 CTGTATTGATACA
1 CTGTATCGATACA
*
1733476 TTGTATCGATACA
1 CTGTATCGATACA
1733489 CTGTATCGATACA
1 CTGTATCGATACA
1733502 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:1736016 original size:20 final size:20
Alignment explanation
Indices: 1735991--1736031 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1735981 AAAGGTCAAA
1735991 ACCTTCAAATGTATCGATAC
1 ACCTTCAAATGTATCGATAC
*
1736011 ACCTTCAGATGTATCGATAC
1 ACCTTCAAATGTATCGATAC
1736031 A
1 A
1736032 TAATGCACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.29
Consensus pattern (20 bp):
ACCTTCAAATGTATCGATAC
Found at i:1736059 original size:13 final size:13
Alignment explanation
Indices: 1736041--1736065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1736031 ATAATGCACA
1736041 GTATCGATACATT
1 GTATCGATACATT
1736054 GTATCGATACAT
1 GTATCGATACAT
1736066 GACCACTGTA
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):
GTATCGATACATT
Found at i:1736062 original size:33 final size:32
Alignment explanation
Indices: 1736020--1736082 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
1736010 CACCTTCAGA
*
1736020 TGTATCGATACATAATGCACAGTATCGATACAT
1 TGTATCGATACATAA-CCACAGTATCGATACAT
* *
1736053 TGTATCGATACATGACCACTGTATCGATAC
1 TGTATCGATACATAACCACAGTATCGATAC
1736083 TTGCAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (32 bp):
TGTATCGATACATAACCACAGTATCGATACAT
Found at i:1736195 original size:33 final size:32
Alignment explanation
Indices: 1736134--1736200 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1736124 CCTTAACTAT
1736134 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
*
1736166 TTGTATTGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1736199 TT
1 TT
1736201 CGCTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.41
33 16 0.50
34 3 0.09
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:1748400 original size:37 final size:37
Alignment explanation
Indices: 1748346--1748426 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
1748336 TGCAGGGTTA
* * * *
1748346 ACTTAGACTAGGTTGCCACCAGCTTTTGT-GAGCTTTG
1 ACTTAGACTAAGCTGCCACCAACTTGTGTGGA-CTTTG
1748383 ACTTAGACTAAGCTGCCACCAACTTGTGTGGACTTTG
1 ACTTAGACTAAGCTGCCACCAACTTGTGTGGACTTTG
1748420 ACTTAGA
1 ACTTAGA
1748427 TACCACTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 37 0.95
38 2 0.05
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (37 bp):
ACTTAGACTAAGCTGCCACCAACTTGTGTGGACTTTG
Found at i:1748795 original size:29 final size:29
Alignment explanation
Indices: 1748731--1748847 Score: 139
Period size: 29 Copynumber: 4.0 Consensus size: 29
1748721 CTTTAAAGAA
1748731 GTGCCACTAA-TTCATGGGCTTT-AAAAGG
1 GTGCCACTAACTT-ATGGGCTTTGAAAAGG
*
1748759 GTGTCACTAACTTATGGGCTTTGAAAAGG
1 GTGCCACTAACTTATGGGCTTTGAAAAGG
*
1748788 GTGCCACTAACTTGTGGGCTTTGAAAAGG
1 GTGCCACTAACTTATGGGCTTTGAAAAGG
* * * *
1748817 TTGCCACCAACTCGTGTGGACTTTGAAAAGG
1 GTGCCACTAACT--TATGGGCTTTGAAAAGG
1748848 TTTGGTTGCC
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
28 18 0.23
29 45 0.57
31 16 0.20
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (29 bp):
GTGCCACTAACTTATGGGCTTTGAAAAGG
Found at i:1748841 original size:31 final size:31
Alignment explanation
Indices: 1748777--1749113 Score: 198
Period size: 31 Copynumber: 10.5 Consensus size: 31
1748767 AACTTATGGG
* * *
1748777 CTTTGAAAAGGGTGCCACTAACT--TGTGGG
1 CTTTGAAAAGGTTGCCACCAACTCGTGTGGA
1748806 CTTTGAAAAGGTTGCCACCAACTCGTGTGGA
1 CTTTGAAAAGGTTGCCACCAACTCGTGTGGA
** **
1748837 CTTTGAAAAGGTTTGGTTGCCATTAACTTATGTGGA
1 CTTTGAAAA-----GGTTGCCACCAACTCGTGTGGA
** *
1748873 CTTTGAATGGGCTGCCACCAACTCGTGTGGA
1 CTTTGAAAAGGTTGCCACCAACTCGTGTGGA
** *
1748904 CTTTGAAAAGGTTTGGTTGCCACTGACTTGTGTGGA
1 CTTTGAAAA-----GGTTGCCACCAACTCGTGTGGA
** * * *
1748940 CTTTGAATGGGATACCACCAACTCGTGTGAA
1 CTTTGAAAAGGTTGCCACCAACTCGTGTGGA
* * *
1748971 CTTT-AACTATA-G-TGCCATCAAATCATGTGGA
1 CTTTGAA--A-AGGTTGCCACCAACTCGTGTGGA
* * *
1749002 CTCTGAAATGGTTGCTACCAACTCGTGTGGA
1 CTTTGAAAAGGTTGCCACCAACTCGTGTGGA
*** *
1749033 CTTTGACTGGGGTGCCACCAACTCGTGTGGA
1 CTTTGAAAAGGTTGCCACCAACTCGTGTGGA
* * *
1749064 CTTTGAAAAAGATTTTGCCACCAACTTGTATGGA
1 CTTTG-AAAAG--GTTGCCACCAACTCGTGTGGA
1749098 CTTTGGAAAAAGGTTG
1 CTTT-G-AAAAGGTTG
1749114 GTTACCAGTA
Statistics
Matches: 231, Mismatches: 55, Indels: 40
0.71 0.17 0.12
Matches are distributed among these distances:
29 21 0.09
30 4 0.02
31 120 0.52
32 5 0.02
33 3 0.01
34 21 0.09
35 7 0.03
36 50 0.22
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (31 bp):
CTTTGAAAAGGTTGCCACCAACTCGTGTGGA
Found at i:1748871 original size:36 final size:36
Alignment explanation
Indices: 1748789--1748946 Score: 151
Period size: 36 Copynumber: 4.7 Consensus size: 36
1748779 TTGAAAAGGG
1748789 TGCCACTAACTTGTG-GG-CTTTGAAAA-----GGT
1 TGCCACTAACTTGTGTGGACTTTGAAAAGGTTTGGT
* *
1748818 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGGT
1 TGCCACTAACTTGTGTGGACTTTGAAAAGGTTTGGT
* * * *
1748854 TGCCATTAACTTATGTGGACTTTG--AA---TGGGC
1 TGCCACTAACTTGTGTGGACTTTGAAAAGGTTTGGT
* *
1748885 TGCCACCAACTCGTGTGGACTTTGAAAAGGTTTGGT
1 TGCCACTAACTTGTGTGGACTTTGAAAAGGTTTGGT
*
1748921 TGCCACTGACTTGTGTGGACTTTGAA
1 TGCCACTAACTTGTGTGGACTTTGAA
1748947 TGGGATACCA
Statistics
Matches: 100, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
29 13 0.13
30 2 0.02
31 32 0.32
33 2 0.02
34 2 0.02
36 49 0.49
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (36 bp):
TGCCACTAACTTGTGTGGACTTTGAAAAGGTTTGGT
Found at i:1748895 original size:67 final size:67
Alignment explanation
Indices: 1748789--1748974 Score: 268
Period size: 67 Copynumber: 2.8 Consensus size: 67
1748779 TTGAAAAGGG
* ** *
1748789 TGCCACTAAC-T-TGTGGGCTTTGAAAAGGTTGCCACCAACTCGTGTGGACTTTGAAAAGGTTTG
1 TGCCACTAACTTATGTGGACTTTGAATGGGATGCCACCAACTCGTGTGGACTTTGAAAAGGTTTG
1748852 GT
66 GT
* *
1748854 TGCCATTAACTTATGTGGACTTTGAATGGGCTGCCACCAACTCGTGTGGACTTTGAAAAGGTTTG
1 TGCCACTAACTTATGTGGACTTTGAATGGGATGCCACCAACTCGTGTGGACTTTGAAAAGGTTTG
1748919 GT
66 GT
* * * *
1748921 TGCCACTGACTTGTGTGGACTTTGAATGGGATACCACCAACTCGTGTGAACTTT
1 TGCCACTAACTTATGTGGACTTTGAATGGGATGCCACCAACTCGTGTGGACTTT
1748975 AACTATAGTG
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
65 9 0.08
66 1 0.01
67 98 0.91
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (67 bp):
TGCCACTAACTTATGTGGACTTTGAATGGGATGCCACCAACTCGTGTGGACTTTGAAAAGGTTTG
GT
Found at i:1749135 original size:37 final size:34
Alignment explanation
Indices: 1749047--1749175 Score: 107
Period size: 37 Copynumber: 3.6 Consensus size: 34
1749037 GACTGGGGTG
* *
1749047 CCACCAACTCGTGTGGACTTTGAAAAAGATTTTG
1 CCACCAACTTGTGTGGACTTTGAAAAAGATTTTA
* *
1749081 CCACCAACTTGTATGGACTTTGGAAAAAGGTTGGTTA
1 CCACCAACTTGTGTGGACTTT-GAAAAAGATT--TTA
** * *
1749118 CCAGTAACTTGTGTGGACTTT-AAGAATGATTTGGTTG
1 CCACCAACTTGTGTGGACTTTGAA-AAAGA-TT--TTA
*
1749155 CCACCGACTTGTGTGGACTTT
1 CCACCAACTTGTGTGGACTTT
1749176 AATTCTAATT
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
34 19 0.25
35 11 0.14
36 3 0.04
37 44 0.57
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (34 bp):
CCACCAACTTGTGTGGACTTTGAAAAAGATTTTA
Found at i:1749611 original size:15 final size:16
Alignment explanation
Indices: 1749591--1749629 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1749581 GATAAAGATT
1749591 TTGACAAAAGTTTT-C
1 TTGACAAAAGTTTTAC
* *
1749606 TTGACACATGTTTTAC
1 TTGACAAAAGTTTTAC
1749622 TTGACAAA
1 TTGACAAA
1749630 GATTTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (16 bp):
TTGACAAAAGTTTTAC
Found at i:1759763 original size:52 final size:52
Alignment explanation
Indices: 1759639--1760114 Score: 308
Period size: 52 Copynumber: 9.2 Consensus size: 52
1759629 CTATGATACT
* * * * ** * *
1759639 GGTGTCAATGTGTTGATCCAAGGCCAACGACATTGGTTTTAAGGA-CACAAA
1 GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGATAAA
** * * * * *** *
1759690 GGCACCAATATGTTGATCCAAGGCTAGCGACATTGGACATAAAAATGACAAA
1 GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGATAAA
** * * * * ** *
1759742 GGTGCCAATGTTTTGATCCAAGGTCAGTGATATTGGACTTAAAGAT-AGTAAA
1 GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGA-TAAA
* * * * * * *
1759794 GGAGCCAATGTACTGATTCATGGCCAGCGACACTAGTTTTAGAAATGATAAT
1 GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGATAAA
* * * * * * *
1759846 GGAGCCAATGTACTGATTCATGGCCAGTGACACTAGTTTTAGAAATGATAAA
1 GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGATAAA
* * ** * * ** *
1759898 GGTGCCAATGTGTTGATCTAAGGCCATTGATATTGGACTTAAAGATGATAAA
1 GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGATAAA
* * * * *
1759950 GTTGCCAATGTGCTGATTCATGGCCAGCGACATTAGTTTTAGAAATGAAAAA
1 GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGATAAA
* * * * * * *
1760002 GGTGCCAATGTGTTGATCTAAGGCTAGTGACATTAGTGTTAAAGATGATAAG
1 GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGATAAA
* * * * * * *
1760054 GGTGCCAATGTGCTGATTCATGGCTAGCAACATTGGTTTTAAAGATGACAAA
1 GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGATAAA
1760106 GGTGCCAAT
1 GGTGCCAAT
1760115 TAGCTAATAC
Statistics
Matches: 332, Mismatches: 90, Indels: 5
0.78 0.21 0.01
Matches are distributed among these distances:
51 35 0.11
52 296 0.89
53 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (52 bp):
GGTGCCAATGTGCTGATCCAAGGCCAGCGACATTAGTTTTAAAAATGATAAA
Found at i:1759938 original size:156 final size:155
Alignment explanation
Indices: 1759731--1760137 Score: 451
Period size: 156 Copynumber: 2.6 Consensus size: 155
1759721 ATTGGACATA
* * *
1759731 AAAATGACAAAGGTGCCAATGTTTTGATCCAAGGTCAGTGATATTGGACTTAAAGAT-AGTAAAG
1 AAAATGATAAAGGTGCCAATGTGTTGATCCAAGGCCAGTGATATTGGACTTAAAGATGA-TAAAG
* *
1759795 GAGCCAATGTACTGATTCATGGCCAGCGACACTAGTTTTAGAAATGATAATGGAGCCAATGTACT
65 GAGCCAATGTACTGATTCATGGCCAGCGACACTAGTTTTAGAAATGAAAAAGGAGCCAATGTACT
* *
1759860 GAT-TCATGGCCAGTGACACTAGTTTT
130 GATCT-AAGGCCAGTGACACTAGTGTT
* *
1759886 AGAAATGATAAAGGTGCCAATGTGTTGATCTAAGGCCATTGATATTGGACTTAAAGATGATAAAG
1 A-AAATGATAAAGGTGCCAATGTGTTGATCCAAGGCCAGTGATATTGGACTTAAAGATGATAAAG
** * * * **
1759951 TTGCCAATGTGCTGATTCATGGCCAGCGACATTAGTTTTAGAAATGAAAAAGGTGCCAATGTGTT
65 GAGCCAATGTACTGATTCATGGCCAGCGACACTAGTTTTAGAAATGAAAAAGGAGCCAATGTACT
* *
1760016 GATCTAAGGCTAGTGACATTAGTGTT
130 GATCTAAGGCCAGTGACACTAGTGTT
* * * * * ** * ** *
1760042 AAAGATGATAAGGGTGCCAATGTGCTGATTCATGGCTAGCAACATTGGTTTTAAAGATGACAAAG
1 AAA-ATGATAAAGGTGCCAATGTGTTGATCCAAGGCCAGTGATATTGGACTTAAAGATGATAAAG
* * * *
1760107 GTGCCAAT-TAGCTAATACATGGCTAGCGACA
65 GAGCCAATGTA-CTGATTCATGGCCAGCGACA
1760138 TTGGGCTCAA
Statistics
Matches: 211, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
155 4 0.02
156 205 0.97
157 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (155 bp):
AAAATGATAAAGGTGCCAATGTGTTGATCCAAGGCCAGTGATATTGGACTTAAAGATGATAAAGG
AGCCAATGTACTGATTCATGGCCAGCGACACTAGTTTTAGAAATGAAAAAGGAGCCAATGTACTG
ATCTAAGGCCAGTGACACTAGTGTT
Found at i:1760128 original size:52 final size:52
Alignment explanation
Indices: 1759780--1760207 Score: 359
Period size: 52 Copynumber: 8.2 Consensus size: 52
1759770 GATATTGGAC
* * * *
1759780 TTAAAGAT-AGTAAAGGAGCCAATGTACTGATTCATGGCCAGCGACACTAGTT
1 TTAAAGATGA-TAAAGGTGCCAATGTGCTGATTCATGGCTAGCGACATTAGTT
* * * * * *
1759832 TTAGAA-ATGATAATGGAGCCAATGTACTGATTCATGGCCAGTGACACTAGTT
1 TTA-AAGATGATAAAGGTGCCAATGTGCTGATTCATGGCTAGCGACATTAGTT
* * * ** * * **
1759884 TTAGAA-ATGATAAAGGTGCCAATGTGTTGA-TCTAAGGCCATTGATATTGGAC
1 TTA-AAGATGATAAAGGTGCCAATGTGCTGATTC-ATGGCTAGCGACATTAGTT
* *
1759936 TTAAAGATGATAAAGTTGCCAATGTGCTGATTCATGGCCAGCGACATTAGTT
1 TTAAAGATGATAAAGGTGCCAATGTGCTGATTCATGGCTAGCGACATTAGTT
* * * * *
1759988 TTAGAA-ATGAAAAAGGTGCCAATGTGTTGA-TCTAAGGCTAGTGACATTAGTG
1 TTA-AAGATGATAAAGGTGCCAATGTGCTGATTC-ATGGCTAGCGACATTAGTT
* * *
1760040 TTAAAGATGATAAGGGTGCCAATGTGCTGATTCATGGCTAGCAACATTGGTT
1 TTAAAGATGATAAAGGTGCCAATGTGCTGATTCATGGCTAGCGACATTAGTT
* * * * **
1760092 TTAAAGATGACAAAGGTGCCAAT-TAGCTAATACATGGCTAGCGACATTGGGC
1 TTAAAGATGATAAAGGTGCCAATGT-GCTGATTCATGGCTAGCGACATTAGTT
* * * * * **
1760144 TCAAAGATGATAAGGGTGCCACTATGCTGATTCATGG-TAGTGACATTAGGC
1 TTAAAGATGATAAAGGTGCCAATGTGCTGATTCATGGCTAGCGACATTAGTT
1760195 TTAAAGATGATAA
1 TTAAAGATGATAA
1760208 GTTTTGACAA
Statistics
Matches: 312, Mismatches: 53, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
51 33 0.11
52 269 0.86
53 10 0.03
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (52 bp):
TTAAAGATGATAAAGGTGCCAATGTGCTGATTCATGGCTAGCGACATTAGTT
Done.