Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004048.1 Hibiscus syriacus cultivar Beakdansim tig00008843_pilon, whole genome shotgun sequence
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: 625444
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:355466 original size:29 final size:31
Alignment explanation
Indices: 355430--355502 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
355420 AACTTTAATG
*
355430 TACTAAAACG-A-TAAAAGTGATAGTTTAAA
1 TACTAAAACGTATTAAAAATGATAGTTTAAA
**
355459 TACTAAAACGTATTAAAAATGATAGTTTAGG
1 TACTAAAACGTATTAAAAATGATAGTTTAAA
355490 TACTAAACACGTA
1 TACTAAA-ACGTA
355503 ATTTATCCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.26
30 1 0.03
31 22 0.58
32 5 0.13
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (31 bp):
TACTAAAACGTATTAAAAATGATAGTTTAAA
Found at i:359219 original size:6 final size:6
Alignment explanation
Indices: 359208--359241 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
359198 GTTCAGTTGT
359208 CATCAC CATCAC CATCAC CATCAC CATCAC CATC
1 CATCAC CATCAC CATCAC CATCAC CATCAC CATC
359242 GTCATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (6 bp):
CATCAC
Found at i:359998 original size:2 final size:2
Alignment explanation
Indices: 359991--360017 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
359981 GATTAAAAAT
359991 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
360018 TTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:362493 original size:12 final size:12
Alignment explanation
Indices: 362468--362508 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
362458 TCCTCTCCCT
362468 CTCCTCCTTCTTC
1 CTCCTCC-TCTTC
362481 CTCCTCCTCTTC
1 CTCCTCCTCTTC
* *
362493 CTCCGCTTCTTC
1 CTCCTCCTCTTC
362505 CTCC
1 CTCC
362509 GCCTTGTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 19 0.73
13 7 0.27
ACGTcount: A:0.00, C:0.56, G:0.02, T:0.41
Consensus pattern (12 bp):
CTCCTCCTCTTC
Found at i:362508 original size:24 final size:22
Alignment explanation
Indices: 362444--362535 Score: 71
Period size: 24 Copynumber: 4.0 Consensus size: 22
362434 CACATCATTT
362444 TCTCCTTCTCTTCTTCCT-CTCCC
1 TCTCC-TC-CTTCTTCCTCCTCCC
362467 TCTCCTCCTTCTTCCTCCT-CC
1 TCTCCTCCTTCTTCCTCCTCCC
* *
362488 TCTTCCTCCGCTTCTTCCTCCGCCT
1 TC-TCCT-C-CTTCTTCCTCCTCCC
* *
362513 TGTCTCTCTCTTCTTCCTTCTCC
1 TCTC-CTC-CTTCTTCCTCCTCC
362536 ATGCCTTTAC
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
21 13 0.23
22 8 0.14
23 6 0.11
24 26 0.46
25 4 0.07
ACGTcount: A:0.00, C:0.51, G:0.03, T:0.46
Consensus pattern (22 bp):
TCTCCTCCTTCTTCCTCCTCCC
Found at i:362509 original size:12 final size:12
Alignment explanation
Indices: 362474--362510 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
362464 CCCTCTCCTC
*
362474 CTTCTTCCTCCT
1 CTTCTTCCTCCG
*
362486 CCTCTTCCTCCG
1 CTTCTTCCTCCG
362498 CTTCTTCCTCCG
1 CTTCTTCCTCCG
362510 C
1 C
362511 CTTGTCTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.54, G:0.05, T:0.41
Consensus pattern (12 bp):
CTTCTTCCTCCG
Found at i:364255 original size:15 final size:15
Alignment explanation
Indices: 364235--364263 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
364225 TGTCCGACCG
364235 AATCGAATTAATCAT
1 AATCGAATTAATCAT
364250 AATCGAATTAATCA
1 AATCGAATTAATCA
364264 AAAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.07, T:0.31
Consensus pattern (15 bp):
AATCGAATTAATCAT
Found at i:364708 original size:183 final size:184
Alignment explanation
Indices: 364389--364775 Score: 638
Period size: 183 Copynumber: 2.1 Consensus size: 184
364379 AATTCTAATT
* *
364389 TATATAA-AAATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
*
364453 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
* * * *
364518 GGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGAGCTT-AGCCCATATGTTA
131 AGATCTTAAATTATTAATTAGGTTTTAAATGATTTG-GCTTGAACCCATATGTTA
364572 TATATAATATATTTAATATTTTTTAATT-AAAAAACAGTTTATAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTATAATTAATTTAAATAATATATAA
*
364636 TTATAAAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
* *
364700 TAGATCTTAAATTATTAATTAGGTTTTAAATGATTTGGGTTGAACCCATGTGTTA
130 TAGATCTTAAATTATTAATTAGGTTTTAAATGATTTGGCTTGAACCCATATGTTA
364755 TATATAATATATTTAATATTT
1 TATATAATATATTTAATATTT
364776 AAAATTTAAT
Statistics
Matches: 191, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
182 3 0.02
183 121 0.63
184 67 0.35
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (184 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAAT
TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
AGATCTTAAATTATTAATTAGGTTTTAAATGATTTGGCTTGAACCCATATGTTA
Found at i:364800 original size:9 final size:9
Alignment explanation
Indices: 364781--364814 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
364771 TATTTAAAAT
364781 TTAATTTCGG
1 TTAA-TTCGG
364791 TTAATTCGG
1 TTAATTCGG
364800 TTAATTCGG
1 TTAATTCGG
364809 TTAATT
1 TTAATT
364815 AACCGAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.50
Consensus pattern (9 bp):
TTAATTCGG
Found at i:364903 original size:22 final size:21
Alignment explanation
Indices: 364873--364914 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
364863 TTAACCATTA
364873 ACCGACCGAACTAATTCGGTC
1 ACCGACCGAACTAATTCGGTC
*
364894 ACCGAACCGAATTAATTCGGT
1 ACCG-ACCGAACTAATTCGGT
364915 TCGGTCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (21 bp):
ACCGACCGAACTAATTCGGTC
Found at i:365482 original size:21 final size:21
Alignment explanation
Indices: 365456--365509 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
365446 GCGTTGCATT
*
365456 TCGCGTAGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
365477 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
365498 TCGCGTTGCGAT
1 TCGCGTTGCGAT
365510 TTTCCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:365566 original size:22 final size:22
Alignment explanation
Indices: 365541--365612 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
365531 TTCCAGTTCG
365541 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
365563 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
365582 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
365604 CGTTGCGAT
1 CGTTGCGAT
365613 TTTCTAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:365586 original size:19 final size:19
Alignment explanation
Indices: 365562--365630 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
365552 TCTACAGTTG
365562 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
* * **
365581 TCGTTGCGATAGTCTACAGTT
1 TCGTTGCGAT--TTTCCAAAT
*
365602 GTCGTTGCGATTTTCTAAAT
1 -TCGTTGCGATTTTCCAAAT
365622 TCGTTGCGA
1 TCGTTGCGA
365631 AAATCGCGCG
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 19 0.50
20 4 0.11
21 5 0.13
22 10 0.26
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:365596 original size:41 final size:41
Alignment explanation
Indices: 365521--365630 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
365511 TTCCATTTTG
*
365521 CGTTGCGATTTTCC-AGTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
365563 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
*
365604 CGTTGCGATTTTCTAAATTCGTTGCGA
1 CGTTGCGATTTTCCAAATTCGTTGCGA
365631 AAATCGCGCG
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
41 48 0.74
42 14 0.22
43 3 0.05
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:365618 original size:22 final size:20
Alignment explanation
Indices: 365501--365616 Score: 94
Period size: 20 Copynumber: 5.7 Consensus size: 20
365491 TTGAAAATCG
*
365501 CGTTGCGATTTTCCA-TTTT
1 CGTTGCGATTTTCCAGTTGT
365520 GCGTTGCGATTTTCCAGTTCG-
1 -CGTTGCGATTTTCCAGTT-GT
* *
365541 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGAT--TTTCCAGTTGT
**
365563 CGTTGCGATTTTCCAAAT-T
1 CGTTGCGATTTTCCAGTTGT
* *
365582 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGAT--TTTCCAGTTGT
365604 CGTTGCGATTTTC
1 CGTTGCGATTTTC
365617 TAAATTCGTT
Statistics
Matches: 75, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
19 10 0.13
20 31 0.41
21 8 0.11
22 26 0.35
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (20 bp):
CGTTGCGATTTTCCAGTTGT
Found at i:365754 original size:6 final size:6
Alignment explanation
Indices: 365743--365787 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
365733 AGACACCTAG
365743 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACC-C GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACC
365788 CGAGACGGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.31, C:0.51, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:366792 original size:38 final size:38
Alignment explanation
Indices: 366740--366848 Score: 110
Period size: 38 Copynumber: 2.9 Consensus size: 38
366730 GGTTTGTTCA
* * *
366740 ATTCGTTTATGTTCACGAATAAACTCGTTTGTCAAACC
1 ATTCATTTCTGTTCACGAATAAACTCGTTTATCAAACC
* * ** * *
366778 GTTCATTTCTGTTCACTAATAAGTTCGTTTATCGAACT
1 ATTCATTTCTGTTCACGAATAAACTCGTTTATCAAACC
* * *
366816 ATTCATTTCTGTTCATGAACAAACTCATTTATC
1 ATTCATTTCTGTTCACGAATAAACTCGTTTATC
366849 CCATTTTCAT
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (38 bp):
ATTCATTTCTGTTCACGAATAAACTCGTTTATCAAACC
Found at i:366873 original size:11 final size:12
Alignment explanation
Indices: 366852--366884 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
366842 ATTTATCCCA
366852 TTTTCATTTTTC
1 TTTTCATTTTTC
366864 TTTT-ATTTTTC
1 TTTTCATTTTTC
*
366875 TTTACATTTT
1 TTTTCATTTT
366885 AAATATTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCATTTTTC
Found at i:367393 original size:17 final size:17
Alignment explanation
Indices: 367371--367406 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
367361 CGGGTTTTTT
*
367371 TTATCGTTATTTTATTA
1 TTATCGTTATCTTATTA
367388 TTATCGTTATCTTATTA
1 TTATCGTTATCTTATTA
367405 TT
1 TT
367407 TTATTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.08, G:0.06, T:0.64
Consensus pattern (17 bp):
TTATCGTTATCTTATTA
Found at i:367421 original size:10 final size:11
Alignment explanation
Indices: 367377--367425 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
367367 TTTTTTATCG
367377 TTATTTTATTA
1 TTATTTTATTA
*
367388 TTATCGTTATCTTA
1 TTAT--TT-TATTA
367402 TTATTTTATTA
1 TTATTTTATTA
367413 TTA-TTTATTA
1 TTATTTTATTA
367423 TTA
1 TTA
367426 CATATTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 10 0.30
11 11 0.33
12 2 0.06
13 2 0.06
14 8 0.24
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:367431 original size:25 final size:24
Alignment explanation
Indices: 367378--367433 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 24
367368 TTTTTATCGT
* *
367378 TATTTTATTATTATCGTTATCTTAT
1 TATTTTATTATTATC-TTATATTAA
367403 TATTTTATTATTAT-TTATTATTACA
1 TATTTTATTATTATCTTA-TATTA-A
367428 TATTTT
1 TATTTT
367434 TTTTGCAGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 3 0.11
24 4 0.15
25 20 0.74
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (24 bp):
TATTTTATTATTATCTTATATTAA
Found at i:371323 original size:31 final size:32
Alignment explanation
Indices: 371287--371348 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
371277 ATTTTACATG
371287 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
371318 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
371349 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:371895 original size:210 final size:211
Alignment explanation
Indices: 371527--371911 Score: 472
Period size: 210 Copynumber: 1.8 Consensus size: 211
371517 ATGAGATTTT
* * *
371527 CTCGAAGATCGTGCATTATTCGAGACTGATATGATAATCCACTGATCTAAGGAGTAATCCAGCAG
1 CTCGAAGATCGTGCATCATTCAAGACTGAGATGATAATCCACTGATCTAAGGAGTAATCCAGCAG
* * * ** * * *
371592 TAGATTCTTATCCACAATTATTCCATCGTTAACCATCAGGGAGTGAAGCACAAACTTCAGCATAG
66 TAGAGTCTTATCCACAATCATTCCATCGCTAACCATCAAAGAGCGAAGCACAAACCTCAGCACAG
* * *
371657 CCGAGGTATTAACGGAGTTAGTTTACAGAGC-ATTGAGGGGCATCGGTTCCAAGTACAAAGATCC
131 CCGAGGCATTAACGGAGTCAGATTACAGAGCGATTGAGGGGCATCGGTTCCAAGTACAAAGATCC
371721 GAGACGAAGCAGTGAG
196 GAGACGAAGCAGTGAG
* * *
371737 CTCGAAGATCGTGCATCATTCAATACTGAGATGATGATCCACTGAT-TCAAGGAGTAATCTAGCA
1 CTCGAAGATCGTGCATCATTCAAGACTGAGATGATAATCCACTGATCT-AAGGAGTAATCCAGCA
* * * *** * **
371801 GTGGAGTCTTATCTACAATCATTTCATCGCTAGTTATCAAAGAGCGACA-CACCAACCTCATTAC
65 GTAGAGTCTTATCCACAATCATTCCATCGCTAACCATCAAAGAGCGA-AGCACAAACCTCAGCA-
*
371865 CA-CCGAGGCATTAACGGAGTCAGATTACAGAGCGCTTGAGGGGCATC
128 CAGCCGAGGCATTAACGGAGTCAGATTACAGAGCGATTGAGGGGCATC
371912 ATTATTGAGG
Statistics
Matches: 144, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
209 1 0.01
210 129 0.90
211 14 0.10
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (211 bp):
CTCGAAGATCGTGCATCATTCAAGACTGAGATGATAATCCACTGATCTAAGGAGTAATCCAGCAG
TAGAGTCTTATCCACAATCATTCCATCGCTAACCATCAAAGAGCGAAGCACAAACCTCAGCACAG
CCGAGGCATTAACGGAGTCAGATTACAGAGCGATTGAGGGGCATCGGTTCCAAGTACAAAGATCC
GAGACGAAGCAGTGAG
Found at i:373427 original size:12 final size:11
Alignment explanation
Indices: 373412--373481 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 11
373402 AAAATCAAAG
373412 AGAAAAGAGCAA
1 AGAAAA-AGCAA
373424 AG-AAAA--AA
1 AGAAAAAGCAA
* *
373432 ACAAAGAGCAA
1 AGAAAAAGCAA
*
373443 AGAGAAAATCAA
1 AGA-AAAAGCAA
*
373455 AGCAAAAATCAA
1 AG-AAAAAGCAA
373467 AGAAAAAGCAA
1 AGAAAAAGCAA
373478 AGAA
1 AGAA
373482 CAAAAAGAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
8 3 0.06
9 3 0.06
10 1 0.02
11 19 0.40
12 20 0.43
13 1 0.02
ACGTcount: A:0.70, C:0.10, G:0.17, T:0.03
Consensus pattern (11 bp):
AGAAAAAGCAA
Found at i:373436 original size:26 final size:27
Alignment explanation
Indices: 373394--373446 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
373384 CAATCAAAAA
373394 CAAAGAAAAAAATCAAAGAGAAAAGAG
1 CAAAGAAAAAAATCAAAGAGAAAAGAG
*
373421 CAAAGAAAAAAA-CAAAGAGCAAAGAG
1 CAAAGAAAAAAATCAAAGAGAAAAGAG
373447 AAAATCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.70, C:0.09, G:0.19, T:0.02
Consensus pattern (27 bp):
CAAAGAAAAAAATCAAAGAGAAAAGAG
Found at i:373439 original size:19 final size:19
Alignment explanation
Indices: 373415--373456 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
373405 ATCAAAGAGA
373415 AAAGAGCAAAGAAAAAAAC
1 AAAGAGCAAAGAAAAAAAC
* *
373434 AAAGAGCAAAGAGAAAATC
1 AAAGAGCAAAGAAAAAAAC
373453 AAAG
1 AAAG
373457 CAAAAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.69, C:0.10, G:0.19, T:0.02
Consensus pattern (19 bp):
AAAGAGCAAAGAAAAAAAC
Found at i:373472 original size:11 final size:11
Alignment explanation
Indices: 373440--373481 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
373430 AAACAAAGAG
373440 CAAAGAGAAAAT
1 CAAAGA-AAAAT
373452 CAAAGCAAAAAT
1 CAAAG-AAAAAT
*
373464 CAAAGAAAAAG
1 CAAAGAAAAAT
373475 CAAAGAA
1 CAAAGAA
373482 CAAAAAGAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 12 0.43
12 15 0.54
13 1 0.04
ACGTcount: A:0.69, C:0.12, G:0.14, T:0.05
Consensus pattern (11 bp):
CAAAGAAAAAT
Found at i:374673 original size:12 final size:12
Alignment explanation
Indices: 374656--374730 Score: 51
Period size: 12 Copynumber: 5.6 Consensus size: 12
374646 GATTGAGAAA
374656 CATACATCAACT
1 CATACATCAACT
*
374668 CATACATACATATAT
1 CATACAT-CA-A-CT
374683 ACATACATCAACT
1 -CATACATCAACT
*
374696 CATACATGCATATAT
1 CATACAT-CA-A-CT
*
374711 ACATACATCAACA
1 -CATACATCAACT
374724 CATACAT
1 CATACAT
374731 GCATGTTACA
Statistics
Matches: 50, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
12 21 0.42
13 5 0.10
14 4 0.08
15 6 0.12
16 14 0.28
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (12 bp):
CATACATCAACT
Found at i:374674 original size:16 final size:16
Alignment explanation
Indices: 374655--374730 Score: 78
Period size: 16 Copynumber: 5.2 Consensus size: 16
374645 AGATTGAGAA
374655 ACATACATCAACTCAT
1 ACATACATCAACTCAT
374671 ACATACAT--A-T-AT
1 ACATACATCAACTCAT
374683 ACATACATCAACTCAT
1 ACATACATCAACTCAT
*
374699 ACATGCAT--A-T-AT
1 ACATACATCAACTCAT
*
374711 ACATACATCAACACAT
1 ACATACATCAACTCAT
374727 ACAT
1 ACAT
374731 GCATGTTACA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
12 19 0.39
13 2 0.04
14 4 0.08
15 1 0.02
16 23 0.47
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.26
Consensus pattern (16 bp):
ACATACATCAACTCAT
Found at i:374731 original size:28 final size:28
Alignment explanation
Indices: 374655--374734 Score: 142
Period size: 28 Copynumber: 2.9 Consensus size: 28
374645 AGATTGAGAA
*
374655 ACATACATCAACTCATACATACATATAT
1 ACATACATCAACTCATACATGCATATAT
374683 ACATACATCAACTCATACATGCATATAT
1 ACATACATCAACTCATACATGCATATAT
*
374711 ACATACATCAACACATACATGCAT
1 ACATACATCAACTCATACATGCAT
374735 GTTACATGAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (28 bp):
ACATACATCAACTCATACATGCATATAT
Found at i:375141 original size:36 final size:35
Alignment explanation
Indices: 375086--375223 Score: 161
Period size: 36 Copynumber: 3.9 Consensus size: 35
375076 TTTTGAGAAT
375086 TTTAAAACAAATTTTTGTCTCGCTTGAGACAATTTC
1 TTTAAAACAAA-TTTTGTCTCGCTTGAGACAATTTC
* *
375122 TTTCAAAGCAAATTTTGTCTCGCTTGAGACAGCTTTC
1 TTT-AAAACAAATTTTGTCTCGCTTGAGACA-ATTTC
* * * *
375159 -TAAAAACAAATTTTGTCTCGTTTAAGACAAATTC
1 TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
* *
375193 TCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 T-TTAAAACAAATTTTGTCTCGCTTGAGACA
375224 TTTTTCCTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
34 3 0.04
35 24 0.28
36 47 0.55
37 11 0.13
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (35 bp):
TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
Found at i:375175 original size:71 final size:72
Alignment explanation
Indices: 375089--375223 Score: 193
Period size: 71 Copynumber: 1.9 Consensus size: 72
375079 TGAGAATTTT
* * * * *
375089 AAAACAAATTTTTGTCTCGCTTGAGACAATTTCT-TTCAAAGCAAATTTTGTCTCGCTTGAGACA
1 AAAACAAATTTTTGTCTCGCTTAAGACAAATTCTCTT-AAAACAAACTTCGTCTCGCTTGAGACA
375153 GCTTTCTA
65 GCTTTCTA
*
375161 AAAACAAA-TTTTGTCTCGTTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 AAAACAAATTTTTGTCTCGCTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACA
375224 TTTTTCCTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
71 46 0.82
72 10 0.18
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (72 bp):
AAAACAAATTTTTGTCTCGCTTAAGACAAATTCTCTTAAAACAAACTTCGTCTCGCTTGAGACAG
CTTTCTA
Found at i:375315 original size:105 final size:103
Alignment explanation
Indices: 375190--375435 Score: 293
Period size: 105 Copynumber: 2.4 Consensus size: 103
375180 TTAAGACAAA
* * * *
375190 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTG
1 TTCTTTTAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTG
* *
375255 ATTCAC-TTAAAACAAAATTAATCTCACCTT-AGATTGTTGT
66 ATTCACACT-AAACAAAATTAATCTCA-CTTGAGATCG-T-T
* *
375295 TTCTTTTAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTG
1 TTCTTTTAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTG
* * *
375360 TTTCACACTAAACAAAGTTGATCTCACTTGAGATCGTT
66 ATTCACACTAAACAAAATTAATCTCACTTGAGATCGTT
** *
375398 TTC-TCAAAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 TTCTTTTAAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
375436 TCTAAAAACA
Statistics
Matches: 123, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
102 27 0.22
103 7 0.06
104 4 0.03
105 84 0.68
106 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (103 bp):
TTCTTTTAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTG
ATTCACACTAAACAAAATTAATCTCACTTGAGATCGTT
Found at i:375426 original size:36 final size:36
Alignment explanation
Indices: 375381--375500 Score: 122
Period size: 36 Copynumber: 3.4 Consensus size: 36
375371 ACAAAGTTGA
**
375381 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
*
375417 TCTCGCTTGAGACAATTTCTCTAAAAACAAACTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
375453 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
375487 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
375501 TCATTTTCTC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 41 0.58
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:375793 original size:29 final size:26
Alignment explanation
Indices: 375759--375826 Score: 93
Period size: 25 Copynumber: 2.5 Consensus size: 26
375749 CTCTTGAGAT
375759 AAATCTTTGAGTCTGTTCCTTTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTG---AA
*
375788 AAATCTTTGAGT-TGTTTCTTTTGAA
1 AAATCTTTGAGTCTGTTCCTTTTGAA
375813 AAATCTTTGAGTCT
1 AAATCTTTGAGTCT
375827 ATTTATTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 14 0.38
26 1 0.03
28 10 0.27
29 12 0.32
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (26 bp):
AAATCTTTGAGTCTGTTCCTTTTGAA
Found at i:375820 original size:25 final size:26
Alignment explanation
Indices: 375745--375839 Score: 102
Period size: 28 Copynumber: 3.5 Consensus size: 26
375735 TCTGGAGACA
*
375745 GTTTCTCTTGAGATAAATCTTTGAGTCT
1 GTTTCTTTTGA-A-AAATCTTTGAGTCT
*
375773 GTTCCTTTTGAATAAAAATCTTTGAGT-T
1 GTTTCTTTTG---AAAAATCTTTGAGTCT
375801 GTTTCTTTTGAAAAATCTTTGAGTCT
1 GTTTCTTTTGAAAAATCTTTGAGTCT
* *
375827 ATTTATTTTGAAA
1 GTTTCTTTTGAAA
375840 CAAAGTTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
25 14 0.24
26 12 0.21
28 18 0.31
29 12 0.21
30 1 0.02
31 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (26 bp):
GTTTCTTTTGAAAAATCTTTGAGTCT
Found at i:375956 original size:27 final size:27
Alignment explanation
Indices: 375926--375977 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
375916 ATTTTGTGAA
375926 AAAAAATCTTTGAGATTGTTTCTTTTC
1 AAAAAATCTTTGAGATTGTTTCTTTTC
*
375953 AAAAAATCTTTGAGTTTGTTTCTTT
1 AAAAAATCTTTGAGATTGTTTCTTT
375978 GGAAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (27 bp):
AAAAAATCTTTGAGATTGTTTCTTTTC
Found at i:376020 original size:37 final size:37
Alignment explanation
Indices: 375970--376097 Score: 126
Period size: 37 Copynumber: 3.6 Consensus size: 37
375960 CTTTGAGTTT
375970 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
* * * * *
376007 GTTTCTTTTGAAACAAAA------ATCT-TTGAGTTT
1 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
376037 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
* * *
376074 ATTTCTTTTGAAAAAAAATCTTTG
1 GTTTCTTTGGAAACAAAAT-TTTG
376098 AATCTGTTTC
Statistics
Matches: 70, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
30 22 0.31
31 3 0.04
36 3 0.04
37 38 0.54
38 4 0.06
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (37 bp):
GTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA
Found at i:376029 original size:67 final size:66
Alignment explanation
Indices: 375953--376150 Score: 276
Period size: 67 Copynumber: 3.0 Consensus size: 66
375943 GTTTCTTTTC
375953 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGA
1 AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGA
376018 A
66 A
*
376019 ACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTG
1 A-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTG
376084 AA
65 AA
* * * * * * *
376086 AAAAAATCTTTGAATCTGTTTCTCTT--AAA-ATGAATTTTGTATCTCTTGAGACAGTCTCTTTT
1 AAAAAATCTTTGAGTTTGTTTCT-TTGGAAACA-AAATTTTGTCTCTCTTAAGATAGTTTCTTTT
376148 GAA
64 GAA
376151 GTAAATCCTT
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
64 1 0.01
65 31 0.26
66 21 0.17
67 67 0.56
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (66 bp):
AAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAGTTTCTTTTGA
A
Found at i:376433 original size:63 final size:62
Alignment explanation
Indices: 376331--376454 Score: 160
Period size: 63 Copynumber: 2.0 Consensus size: 62
376321 GATGTAATCC
*
376331 ATCTTTGAGTCTCTTTCTTTGGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAA
1 ATCTTTGAGTCTCTTTCTTTGGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTTGAAAAA
* * * * **
376394 ATCTTTGAGTTTGTTTCCTTT-GAAATAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTCTTT-CTTTGGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
376455 TACCCACATT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
62 19 0.36
63 30 0.57
64 4 0.08
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (62 bp):
ATCTTTGAGTCTCTTTCTTTGGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAA
Found at i:376634 original size:15 final size:15
Alignment explanation
Indices: 376611--376669 Score: 100
Period size: 15 Copynumber: 3.9 Consensus size: 15
376601 TTTTGAGTCG
*
376611 TTTCACTTGAAACAT
1 TTTCTCTTGAAACAT
376626 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
376641 TTTCTCTTGAAACAT
1 TTTCTCTTGAAACAT
*
376656 TTTCTCTTAAAACA
1 TTTCTCTTGAAACA
376670 AGATCATCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.05, T:0.44
Consensus pattern (15 bp):
TTTCTCTTGAAACAT
Found at i:377076 original size:28 final size:28
Alignment explanation
Indices: 377005--377086 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
376995 TAAAAATATC
* * *
377005 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
377033 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
377061 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
377087 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:377250 original size:46 final size:45
Alignment explanation
Indices: 377122--377467 Score: 144
Period size: 43 Copynumber: 8.1 Consensus size: 45
377112 TCCTCATTAT
* *
377122 GTAGGAACCGTGTCATC-CC-CAGA---CCAGATCTCTTCATCAC
1 GTAGGAACCGTGTCATCACCTTAGATGGCCAGAACTCTTCATCAC
* * * ** * *
377162 GTATGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCCTCATCAC
1 GTAGGAACCGTGTCATCACCTTAGATGGCCAGAAC-TCTTCATCAC
*
377205 GTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCAC
1 GTAGGAACCGTGTCATCACC-TTAGATGGCCAGAACTCTTCATCAC
* * * * *
377251 GTATGAGCCGTGTCATTC-CC-CAGA---CCAGATCTCTTCATCAT
1 GTAGGAACCGTGTCA-TCACCTTAGATGGCCAGAACTCTTCATCAC
* * * ** * * * * *
377292 GTAGGAGCTGTGTCA--ACCGTAGATAACCAG-CCGTCCTCGTTAT
1 GTAGGAACCGTGTCATCACCTTAGATGGCCAGAAC-TCTTCATCAC
*
377335 GTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCTTCATCAC
1 GTAGGAACCGTGTCATCACCTT-AGATGGCC-AGAACTCTTCATCAC
* * * * ** *
377382 GTATGAGCAGTGTCAAC-CCTT-GA---CCAGATTTCCTCATCAC
1 GTAGGAACCGTGTCATCACCTTAGATGGCCAGAACTCTTCATCAC
* * * *
377422 GTAGGAACCATGTCA-C-CCTTAGACGACCCGAACTCTTCATCAC
1 GTAGGAACCGTGTCATCACCTTAGATGGCCAGAACTCTTCATCAC
377465 GTA
1 GTA
377468 TGAGCAGTAT
Statistics
Matches: 227, Mismatches: 53, Indels: 49
0.69 0.16 0.15
Matches are distributed among these distances:
39 9 0.04
40 44 0.19
41 30 0.13
42 2 0.01
43 64 0.28
44 5 0.02
45 7 0.03
46 42 0.19
47 23 0.10
48 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (45 bp):
GTAGGAACCGTGTCATCACCTTAGATGGCCAGAACTCTTCATCAC
Found at i:377261 original size:89 final size:83
Alignment explanation
Indices: 377105--377265 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 83
377095 CTAAAGATGG
* * *
377105 CCAGCCGTCCTCATTATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGC
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAGC
377170 CGTGTCAACCATAGATAA
66 CGTGTCAACCATAGATAA
* *
377188 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGAACTCTTCATCACGT
377253 ATGAGCCGTGTCA
60 ATGAGCCGTGTCA
377266 TTCCCCAGAC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 31 0.46
84 2 0.03
86 3 0.04
89 31 0.46
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (83 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTATGAGC
CGTGTCAACCATAGATAA
Found at i:377339 original size:130 final size:130
Alignment explanation
Indices: 377129--377436 Score: 456
Period size: 130 Copynumber: 2.4 Consensus size: 130
377119 TATGTAGGAA
*
377129 CCGTGTCATCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAACCAGCC
1 CCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCC
*
377194 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTCATCACGTATGAG
66 GTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCTTCATCACGTATGAG
* * *
377258 CCGTGTCATTCCCCAGACCAGATCTCTTCATCATGTAGGAGCTGTGTCAACCGTAGATAACCAGC
1 CCGTGTCA-TCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGC
* * *
377323 CGTCCTCGTTATGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCTTCATCACGTATGA
65 CGTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCTTCATCACGTATGA
377388 G
130 G
* * ** * * * *
377389 CAGTGTCAACCCTTGACCAGATTTCCTCATCACGTAGGAACCATGTCA
1 CCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCA
377437 CCCTTAGACG
Statistics
Matches: 159, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
129 8 0.05
130 122 0.77
131 29 0.18
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (130 bp):
CCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCC
GTCCTCATCACGTAGGAACCGTGTTATCACCTTAAGATGGCCAAGAACTCTTCATCACGTATGAG
Found at i:377649 original size:3 final size:3
Alignment explanation
Indices: 377638--377707 Score: 83
Period size: 3 Copynumber: 24.0 Consensus size: 3
377628 TTTTTTATCG
** *
377638 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
377684 TTA TT- TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA
377708 CATATTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
2 5 0.09
3 49 0.86
4 3 0.05
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:377685 original size:38 final size:38
Alignment explanation
Indices: 377632--377707 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
377622 CGGGGTTTTT
*
377632 TTATCGTTATTTTATTATTATTATTATTA-TTATTATTA
1 TTATCGTTATCTTATTATT-TTATTATTATTTATTATTA
377670 TTATCGTTATCTTATTATTTTATTATTATTTATTATTA
1 TTATCGTTATCTTATTATTTTATTATTATTTATTATTA
377708 CATATTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 9 0.25
38 27 0.75
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.66
Consensus pattern (38 bp):
TTATCGTTATCTTATTATTTTATTATTATTTATTATTA
Found at i:384761 original size:18 final size:19
Alignment explanation
Indices: 384726--384762 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
384716 CACGGAATGT
384726 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
384746 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
384763 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:385981 original size:13 final size:13
Alignment explanation
Indices: 385963--385989 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
385953 TTTAGATATC
385963 AAGATTTCTAGAA
1 AAGATTTCTAGAA
385976 AAGATTTCTAGAA
1 AAGATTTCTAGAA
385989 A
1 A
385990 TGTCTTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (13 bp):
AAGATTTCTAGAA
Found at i:386330 original size:18 final size:17
Alignment explanation
Indices: 386309--386365 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
386299 ATATTTAAAT
386309 TAATTTAAATAAAATTAA
1 TAATTTAAATAAAA-TAA
* * *
386327 TAATTTTATTAAAAATAT
1 TAATTTAAAT-AAAATAA
386345 TAGATTTATAATAAAATAA
1 TA-ATTTA-AATAAAATAA
386364 TA
1 TA
386366 GAAAGTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 12 0.40
19 16 0.53
20 2 0.07
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATTTAAATAAAATAA
Found at i:387022 original size:32 final size:32
Alignment explanation
Indices: 386986--387048 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
386976 CGAAATCTAA
*
386986 CAGATATGGTATTAACCCGA-CTCAAAAATCAG
1 CAGATATAGTATTAACCCGATC-CAAAAATCAG
* *
387018 CAGATCTAGTATTGACCCGATCCAAAAATCA
1 CAGATATAGTATTAACCCGATCCAAAAATCA
387049 ACCAATCCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.22
Consensus pattern (32 bp):
CAGATATAGTATTAACCCGATCCAAAAATCAG
Found at i:388711 original size:17 final size:17
Alignment explanation
Indices: 388677--388730 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
388667 ACAGGACAAA
* *
388677 TTTATTATTTTAGAGAG
1 TTTATTAATTTAAAGAG
**
388694 TTTATTAATTTATCGAG
1 TTTATTAATTTAAAGAG
388711 --TATTAATTTAAAGAG
1 TTTATTAATTTAAAGAG
388726 TTTAT
1 TTTAT
388731 ACTGTAGACT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.43
17 17 0.57
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTATTAATTTAAAGAG
Found at i:402396 original size:2 final size:2
Alignment explanation
Indices: 402389--402426 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
402379 ATAATTTTTC
402389 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
402427 GATACAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:403713 original size:16 final size:15
Alignment explanation
Indices: 403679--403709 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
403669 TATATAAAAA
403679 TAATTTATCTAATTT
1 TAATTTATCTAATTT
*
403694 TAATTTATTTAATTT
1 TAATTTATCTAATTT
403709 T
1 T
403710 TAATATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATTTATCTAATTT
Found at i:404129 original size:3 final size:3
Alignment explanation
Indices: 404123--404214 Score: 139
Period size: 3 Copynumber: 30.7 Consensus size: 3
404113 TTTTTATCCA
* ** *
404123 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
404171 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
404215 ATTTATATTA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:405837 original size:17 final size:18
Alignment explanation
Indices: 405812--405864 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
405802 GGATATTTTT
405812 AAATAAATATAATTTTGA
1 AAATAAATATAATTTTGA
* *
405830 AAAT-AATAGAATTAT-A
1 AAATAAATATAATTTTGA
* *
405846 AATTAAATATATTTTTGA
1 AAATAAATATAATTTTGA
405864 A
1 A
405865 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAAATATAATTTTGA
Found at i:406335 original size:16 final size:16
Alignment explanation
Indices: 406314--406372 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
406304 TTTCTTTTAA
406314 ATTTTTAT-TACTTATT
1 ATTTTTATATA-TTATT
406330 ATTTTTATATATTATT
1 ATTTTTATATATTATT
*
406346 ATTTTT-TATTTTATTT
1 ATTTTTATATATTA-TT
406362 ATTTATTATAT
1 ATTT-TTATAT
406373 TCAAGAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
15 6 0.16
16 25 0.66
17 4 0.11
18 3 0.08
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTATATATTATT
Found at i:406367 original size:23 final size:24
Alignment explanation
Indices: 406308--406370 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
406298 AATTCTTTTC
* * *
406308 TTTTAAATTTTTATTACTTATTAT
1 TTTTATATATTTATTATTTATTAT
*
406332 TTTTATATA-TTATTATTTTTTA-
1 TTTTATATATTTATTATTTATTAT
*
406354 TTTTATTTATTTATTAT
1 TTTTATATATTTATTAT
406371 ATTCAAGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
22 8 0.24
23 18 0.55
24 7 0.21
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTATATATTTATTATTTATTAT
Found at i:406373 original size:13 final size:13
Alignment explanation
Indices: 406325--406373 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
406315 TTTTTATTAC
*
406325 TTATTATTTTTAT
1 TTATTATATTTAT
*
406338 ATATTATTATTT-T
1 TTATTA-TATTTAT
*
406351 TTATTTTATTTAT
1 TTATTATATTTAT
406364 TTATTATATT
1 TTATTATATT
406374 CAAGAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 5 0.17
13 20 0.69
14 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTATATTTAT
Found at i:407983 original size:14 final size:14
Alignment explanation
Indices: 407964--408016 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
407954 TTTTAAATAA
*
407964 TTTACATTTACATT
1 TTTACATTTGCATT
*
407978 TTTACATTTGCATA
1 TTTACATTTGCATT
407992 TTTACATTTGGCATT
1 TTTACATTT-GCATT
*
408007 TTTGCATTTG
1 TTTACATTTG
408017 TATTGCACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.23, C:0.13, G:0.09, T:0.55
Consensus pattern (14 bp):
TTTACATTTGCATT
Found at i:413668 original size:83 final size:82
Alignment explanation
Indices: 413517--413787 Score: 479
Period size: 83 Copynumber: 3.3 Consensus size: 82
413507 AAACATTAAC
* * *
413517 TGGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTAGTTTGGC
1 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCT-GGTTGGC
413582 AGAACCAATCATTGAATT
65 AGAACCAATCATTGAATT
413600 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGG-C
413665 AGAACCAATCATTGAATT
65 AGAACCAATCATTGAATT
413683 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGC
1 TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGC
413748 AGAACCAATCATTGAATT
65 AGAACCAATCATTGAATT
*
413766 TGGAAGATGAATTTGCTCATAG
1 TGGAAGATGAATTTGCTAATAG
413788 TAGAAATAAG
Statistics
Matches: 182, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
82 5 0.03
83 173 0.95
84 4 0.02
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (82 bp):
TGGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGCA
GAACCAATCATTGAATT
Found at i:414946 original size:74 final size:74
Alignment explanation
Indices: 414794--414955 Score: 202
Period size: 74 Copynumber: 2.2 Consensus size: 74
414784 AAGCAAATAT
* * *
414794 TGGGGCATGCTGAAAACCCTTTTCAAACAGAATCAGAAATGTTGAAATATTCTGAATATTTATCA
1 TGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACATTTATCA
414859 GCAAAATGC
66 GCAAAATGC
* * ** *
414868 TGGGGCATGCTGAAAACCCATTTCAATCAGAATCAGAACTGTTGATGCATTTTGAACACTTGTAT
1 TGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACA-TT-TAT
* *
414933 TAGC-CAATG-
64 CAGCAAAATGC
414942 TGGGGCATGCTGAA
1 TGGGGCATGCTGAA
414956 GGCCTATATC
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
74 64 0.84
75 6 0.08
76 6 0.08
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (74 bp):
TGGGGCATGCTGAAAACCCATTTCAAACAGAATCAGAAATGTTGAAACATTCTGAACATTTATCA
GCAAAATGC
Found at i:415893 original size:50 final size:50
Alignment explanation
Indices: 415818--415969 Score: 236
Period size: 50 Copynumber: 3.0 Consensus size: 50
415808 AATGATTGAA
415818 ACATCTGAGCAGAATACACAGAAAAGGATGAATGTGTTGTCAAATGTTTT
1 ACATCTGAGCAGAATACACAGAAAAGGATGAATGTGTTGTCAAATGTTTT
415868 ACATCTGAGCAGAATACACAGAAAAGGATGAATGTGTTGTCAAATGTTTT
1 ACATCTGAGCAGAATACACAGAAAAGGATGAATGTGTTGTCAAATGTTTT
* * * *
415918 ACATCTGAGTAGAA-ACCACATG-AGATGATGCATGTGTTGTCAAATGTTTT
1 ACATCTGAGCAGAATA-CACA-GAAAAGGATGAATGTGTTGTCAAATGTTTT
415968 AC
1 AC
415970 GAACCAGTTA
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
49 1 0.01
50 94 0.98
51 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (50 bp):
ACATCTGAGCAGAATACACAGAAAAGGATGAATGTGTTGTCAAATGTTTT
Found at i:416367 original size:22 final size:22
Alignment explanation
Indices: 416338--416392 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
416328 ATCTACACTC
**
416338 TTCAAAGATGGTAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
*
416360 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
416382 TTCAAAGATGA
1 TTCAAAGATGA
416393 AAACTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:416990 original size:113 final size:113
Alignment explanation
Indices: 416795--418239 Score: 1969
Period size: 113 Copynumber: 12.8 Consensus size: 113
416785 CAAAGATTCA
* * *
416795 AATCCATCATTTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATCTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
416860 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
* *
416908 AATCCATCATCTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATCTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* *
416973 AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
*
417021 AATCCATCAT-TCGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 AATCCATCATCT-GATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * **
417085 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
* * * * * * * ** * *
417134 AATTCACCACCCGGTGGATCAGCAATGCCAGTTAGAGTTCATAATGAGAAGAACTCATTTGAA-A
1 AATCCATCATCTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
417198 GAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC-CTG
66 -AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC-G
*
417247 AATCCATCA-CTTGATGGATTAGC-TTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AATCCATCATC-TGATGGATCAGCATTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
*
417310 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAC-CTG
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC-G
* * *
417360 AATTCATCAAT-TGATGGATCAGCCTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 AATCCATC-ATCTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
417424 -AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
*
417472 AATCCATCAT-TCGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 AATCCATCATCT-GATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
417536 -AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAATCTTTTGCTCG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
* * * *
417584 AATTCATCA-CTTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 AATCCATCATC-TGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
417648 -AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
* * * * *
417696 AATTCATCA-CTTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATC-TGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
417760 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
*
417809 AATCCATCAT-TCGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG
1 AATCCATCATCT-GATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * *
417873 -AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTAC-CTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC-G
* * * *
417921 AATCCATCATTTGGTGAATCATC-TTTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AATCCATCATCTGATGGATCAGCATTT-CCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAA
*
417984 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
* * * *
418034 AATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATCTGATGGATCAGCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
*
418098 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTG
65 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
* * * *
418147 AATTCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATCTGATGGATCAGCATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
418211 AAGGAAG-AGAAAGTTCATAATGAGAAGAA
65 AAGGAAGAAG-AAGTTCATAATGAGAAGAA
418240 CTCATCAAGA
Statistics
Matches: 1214, Mismatches: 93, Indels: 50
0.89 0.07 0.04
Matches are distributed among these distances:
111 8 0.01
112 408 0.34
113 791 0.65
114 7 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (113 bp):
AATCCATCATCTGATGGATCAGCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG
Found at i:418498 original size:3 final size:3
Alignment explanation
Indices: 418492--418580 Score: 142
Period size: 3 Copynumber: 29.7 Consensus size: 3
418482 TTTTTATCCA
** *
418492 TAT TAT TAT TAT TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
418540 CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
418581 ATTTATATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:420201 original size:17 final size:18
Alignment explanation
Indices: 420176--420228 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
420166 GGATATTTTT
420176 AAATAAATATAATTTTGA
1 AAATAAATATAATTTTGA
* *
420194 AAAT-AATAGAATTAT-A
1 AAATAAATATAATTTTGA
* *
420210 AATTAAATATATTTTTGA
1 AAATAAATATAATTTTGA
420228 A
1 A
420229 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAAATATAATTTTGA
Found at i:423087 original size:41 final size:41
Alignment explanation
Indices: 422966--423087 Score: 99
Period size: 40 Copynumber: 3.0 Consensus size: 41
422956 ATGAATTTGG
* * * *
422966 GGATGAAATT-GAATGATCTAAAAGTTTAAGGACCAATTT-A
1 GGATGAAATTAAAAT-ATTTAAAAGTTTAAAGACTAATTTAA
* * * ** *
423006 GAATGAAATTCAAAATATTCAAAA--TTAGATCCATATTTTAA
1 GGATGAAATT-AAAATATTTAAAAGTTTAAAGAC-TAATTTAA
423047 GGATGAAATTAAAATATTTAAAAGTTTAAAGACTAATTTAA
1 GGATGAAATTAAAATATTTAAAAGTTTAAAGACTAATTTAA
423088 AATGAGAGTC
Statistics
Matches: 60, Mismatches: 16, Indels: 11
0.69 0.18 0.13
Matches are distributed among these distances:
39 4 0.07
40 25 0.42
41 23 0.38
42 8 0.13
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.33
Consensus pattern (41 bp):
GGATGAAATTAAAATATTTAAAAGTTTAAAGACTAATTTAA
Found at i:423532 original size:3 final size:3
Alignment explanation
Indices: 423519--423562 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
423509 TGAGAGAGAG
* *
423519 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA CAGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA A
423563 TCTGTTCAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:427781 original size:7 final size:7
Alignment explanation
Indices: 427769--427816 Score: 96
Period size: 7 Copynumber: 6.9 Consensus size: 7
427759 TTATCCACCA
427769 ATCAACT
1 ATCAACT
427776 ATCAACT
1 ATCAACT
427783 ATCAACT
1 ATCAACT
427790 ATCAACT
1 ATCAACT
427797 ATCAACT
1 ATCAACT
427804 ATCAACT
1 ATCAACT
427811 ATCAAC
1 ATCAAC
427817 GCCTGCTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (7 bp):
ATCAACT
Found at i:427869 original size:2 final size:2
Alignment explanation
Indices: 427864--427894 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
427854 TCTCTTTCTC
427864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
427895 AAAGCTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:430361 original size:23 final size:23
Alignment explanation
Indices: 430333--430380 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
430323 ATCAAGTACA
* *
430333 ATAATATATTAGGTAGCGTTTAT
1 ATAATATAATAGGTAACGTTTAT
430356 ATAATATAATAGGTAACGTTTAT
1 ATAATATAATAGGTAACGTTTAT
430379 AT
1 AT
430381 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.42
Consensus pattern (23 bp):
ATAATATAATAGGTAACGTTTAT
Found at i:431512 original size:112 final size:113
Alignment explanation
Indices: 431143--431607 Score: 711
Period size: 113 Copynumber: 4.1 Consensus size: 113
431133 GATACTTATA
* * * * * *
431143 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTTTTATTT-TGAGACCGG
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTAT-AGACCGA
*
431207 TTTTGTCATTTTTTTTACATGTTATATTGTTATGGATCGATATATTTTT
65 TTTTGTCATTTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
* * * *
431256 ATAAAGTATCGATACTTTCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAGATCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* * *
431321 TTTGTCATTTTTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
* *
431369 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTTTCATTTATACACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* * *
431434 TTTGTCA-TTTTTTTACCTGTTATATTGTCATAGATCAATATATTTTT
66 TTTGTCATTTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
* *
431481 ATAAAGTATCGATACTTTCAATATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
431546 TTTGTCA-TTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
431593 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
431608 AAACCGACAA
Statistics
Matches: 323, Mismatches: 28, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
112 155 0.48
113 167 0.52
114 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (113 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
TTTGTCATTTTTTTTACATGTTATATTGTTATGGATCAATATATTTTT
Found at i:431528 original size:225 final size:225
Alignment explanation
Indices: 431143--431607 Score: 745
Period size: 225 Copynumber: 2.1 Consensus size: 225
431133 GATACTTATA
* * * *
431143 ATAAAGTATCGACACTTTCAACATATCCGGTAGCTCTTTACCGGTTTTTTTATTTTGAGACCGGT
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTTTCATTTTGACACCGAT
* * *
431208 TTTGTCATTTTTTTTACATGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGATACTT
66 TTTGTCATTTTTTTTACATGTTATATTGTCATAGATCAATATATTTTTATAAAGTATCGATACTT
* * *
431273 TCAATATATCCGGTAGCGTTTTACCTGTTTTGTCATTTATAGATCGGTTTTGTCATTTTTTTTAC
131 TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCA-TTTTTTTAC
* *
431338 CTGTTATATTGTTATGGATCGATACATTTTT
195 ATGTTATATTGTTATGGATCAATACATTTTT
* *
431369 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTTTCATTTAT-ACACCGA
1 ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTTTCATTT-TGACACCGA
*
431433 TTTTGTCA-TTTTTTTACCTGTTATATTGTCATAGATCAATATATTTTTATAAAGTATCGATACT
65 TTTTGTCATTTTTTTTACATGTTATATTGTCATAGATCAATATATTTTTATAAAGTATCGATACT
*
431497 TTCAATATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTAC
130 TTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTAC
*
431562 ATGTTATATTGTTATGGATCAATATATTTTT
195 ATGTTATATTGTTATGGATCAATACATTTTT
431593 ATAAAGTATCGACAC
1 ATAAAGTATCGACAC
431608 AAACCGACAA
Statistics
Matches: 221, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
224 52 0.24
225 104 0.47
226 64 0.29
227 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (225 bp):
ATAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTTTCATTTTGACACCGAT
TTTGTCATTTTTTTTACATGTTATATTGTCATAGATCAATATATTTTTATAAAGTATCGATACTT
TCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACA
TGTTATATTGTTATGGATCAATACATTTTT
Found at i:438595 original size:60 final size:60
Alignment explanation
Indices: 438502--438676 Score: 350
Period size: 60 Copynumber: 2.9 Consensus size: 60
438492 TAAACCGAGC
438502 AAGAATGTGTACGCTGTTCATAGGAGGAAATCGAAGTTGGCGAAGCAGGAGCTGCTTTAG
1 AAGAATGTGTACGCTGTTCATAGGAGGAAATCGAAGTTGGCGAAGCAGGAGCTGCTTTAG
438562 AAGAATGTGTACGCTGTTCATAGGAGGAAATCGAAGTTGGCGAAGCAGGAGCTGCTTTAG
1 AAGAATGTGTACGCTGTTCATAGGAGGAAATCGAAGTTGGCGAAGCAGGAGCTGCTTTAG
438622 AAGAATGTGTACGCTGTTCATAGGAGGAAATCGAAGTTGGCGAAGCAGGAGCTGC
1 AAGAATGTGTACGCTGTTCATAGGAGGAAATCGAAGTTGGCGAAGCAGGAGCTGC
438677 CACCTTGGGG
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 115 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (60 bp):
AAGAATGTGTACGCTGTTCATAGGAGGAAATCGAAGTTGGCGAAGCAGGAGCTGCTTTAG
Found at i:439826 original size:72 final size:74
Alignment explanation
Indices: 439684--439831 Score: 264
Period size: 72 Copynumber: 2.0 Consensus size: 74
439674 GACACATGCG
*
439684 GAACCACCATTACTCATCGTAAATCACCCAACCCACCATAATTCAGTAGTTGAAAAGAAACGCAT
1 GAACCACCATTACTCATCGTAAATCACCCAA-CCACCATAATTCACTAGTTGAAAAGAAACGCAT
439749 GCATGGCACC
65 GCATGGCACC
439759 GAACCACCATTACTCATCGTAAATCACCCAA-C-CCATAATTCACTAGTTGAAAAGAAACGCATG
1 GAACCACCATTACTCATCGTAAATCACCCAACCACCATAATTCACTAGTTGAAAAGAAACGCATG
439822 CATGGCACC
66 CATGGCACC
439831 G
1 G
439832 TGGCCATCTT
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
72 40 0.56
73 1 0.01
75 31 0.43
ACGTcount: A:0.37, C:0.30, G:0.14, T:0.19
Consensus pattern (74 bp):
GAACCACCATTACTCATCGTAAATCACCCAACCACCATAATTCACTAGTTGAAAAGAAACGCATG
CATGGCACC
Found at i:441819 original size:21 final size:21
Alignment explanation
Indices: 441791--441844 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
441781 GATTTTGACC
*
441791 ATCGCATTGCGATTTTCGA-A
1 ATCGCATTGCGATTTTAGATA
441811 ATCCGCATTGCGATTTTAGATA
1 AT-CGCATTGCGATTTTAGATA
*
441833 ATCGCAATGCGA
1 ATCGCATTGCGA
441845 ATATGTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (21 bp):
ATCGCATTGCGATTTTAGATA
Found at i:441884 original size:20 final size:20
Alignment explanation
Indices: 441832--441884 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
441822 GATTTTAGAT
*
441832 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATATA
*
441852 AATCACAATGCGAATATATA
1 AATCGCAATGCGAATATATA
*
441872 AATCGCAACGCGA
1 AATCGCAATGCGA
441885 TAACAGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (20 bp):
AATCGCAATGCGAATATATA
Found at i:441919 original size:20 final size:20
Alignment explanation
Indices: 441894--441977 Score: 116
Period size: 20 Copynumber: 4.2 Consensus size: 20
441884 ATAACAGTTA
441894 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
441914 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
441934 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
*
441955 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
441975 ATC
1 ATC
441978 ACGTTGCGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.04
20 37 0.66
21 15 0.27
22 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:441939 original size:41 final size:41
Alignment explanation
Indices: 441873--441963 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
441863 GAATATATAA
441873 ATCGCAACGCGATAACAGTTAATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAACAGTTAATCGCAACGCGATTCTGACT
* *
441914 ATCGCAACGCGATAATACG-TGATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAACA-GTTAATCGCAACGCGATTCTGACT
441955 ATCGCAACG
1 ATCGCAACG
441964 AGATTCTGAC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 46 0.98
42 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATAACAGTTAATCGCAACGCGATTCTGACT
Found at i:441940 original size:21 final size:20
Alignment explanation
Indices: 441873--441947 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 20
441863 GAATATATAA
*
441873 ATCGCAACGCGATAACA-GTT
1 ATCGCAACGCGATAATACG-T
**
441893 AATCGCAACGCGATTCTGAC-T
1 -ATCGCAACGCGATAAT-ACGT
441914 ATCGCAACGCGATAATACGT
1 ATCGCAACGCGATAATACGT
441934 GATCGCAACGCGAT
1 -ATCGCAACGCGAT
441948 TCTGACTATC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 27 0.60
22 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGATAATACGT
Found at i:442009 original size:61 final size:61
Alignment explanation
Indices: 441894--442009 Score: 133
Period size: 61 Copynumber: 1.9 Consensus size: 61
441884 ATAACAGTTA
* * *** *
441894 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACGTGATCGCAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACTATCACAACGCGATAATACAAAATCGCAACACGATTCTGACT
*** * *
441955 ATCGCAACGAGATTCTGACTATCACGTTGCGATAATATAAAATCGCAATACGATT
1 ATCGCAACGAGATTCTGACTATCACAACGCGATAATACAAAATCGCAACACGATT
442010 TTCAAAGCGC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
61 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (61 bp):
ATCGCAACGAGATTCTGACTATCACAACGCGATAATACAAAATCGCAACACGATTCTGACT
Found at i:442174 original size:22 final size:22
Alignment explanation
Indices: 442142--442221 Score: 115
Period size: 22 Copynumber: 3.6 Consensus size: 22
442132 TCATTCTCTA
*
442142 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
** *
442164 CGATGAAATCCGTCCCCATTTC
1 CGGCGAAATCCGTCCCCATCTC
*
442186 CGGCGAAATCAGTCCCCATCTC
1 CGGCGAAATCCGTCCCCATCTC
442208 CGGCGAAATCCGTC
1 CGGCGAAATCCGTC
442222 TATCTCCATC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.20, C:0.41, G:0.19, T:0.20
Consensus pattern (22 bp):
CGGCGAAATCCGTCCCCATCTC
Found at i:442621 original size:20 final size:20
Alignment explanation
Indices: 442581--442648 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
442571 GCGATTATCT
442581 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAATTTCG
*
442600 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
* *
442620 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAGTCAATTTCG
*
442640 TGTTGCGAT
1 CGTTGCGAT
442649 TTTCATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 13 0.30
20 30 0.70
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:442654 original size:20 final size:20
Alignment explanation
Indices: 442616--442671 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
442606 GATAGTCAAA
* **
442616 TTCGCGTTGCGATAATCATT
1 TTCGTGTTGCGATTTTCATT
442636 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
442656 TTTGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
442672 AAGTTTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.14, G:0.21, T:0.52
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:444697 original size:20 final size:20
Alignment explanation
Indices: 444672--444718 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
444662 AGAAGAATAG
*
444672 TCGCAACACGAAAATGATTA
1 TCGCAACACGAAAATGACTA
* **
444692 TCGCAACGCGAATTTGACTA
1 TCGCAACACGAAAATGACTA
444712 TCGCAAC
1 TCGCAAC
444719 GGGATAATCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:444719 original size:20 final size:20
Alignment explanation
Indices: 444690--444773 Score: 63
Period size: 20 Copynumber: 4.5 Consensus size: 20
444680 CGAAAATGAT
444690 TATCGCAACGCGAATTTGAC
1 TATCGCAACGCGAATTTGAC
*
444710 TATCGCAACG-GGA--T-A-
1 TATCGCAACGCGAATTTGAC
* ***
444725 -ATCGCAATGCGAAAACGAC
1 TATCGCAACGCGAATTTGAC
* *
444744 TATCGCAAAGTGAATTTGAC
1 TATCGCAACGCGAATTTGAC
444764 TATCGCAACG
1 TATCGCAACG
444774 GGATAATCGC
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
14 8 0.17
15 2 0.04
16 1 0.02
17 1 0.02
18 1 0.02
19 2 0.04
20 33 0.69
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
TATCGCAACGCGAATTTGAC
Found at i:444738 original size:54 final size:54
Alignment explanation
Indices: 444680--444814 Score: 216
Period size: 54 Copynumber: 2.5 Consensus size: 54
444670 AGTCGCAACA
*
444680 CGAAAATGATTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATG
1 CGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATG
* * *
444734 CGAAAACGACTATCGCAAAGTGAATTTGACTATCGCAACGGGATAATCGCAATG
1 CGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATG
* *
444788 CAAAAATGACTATCGCAACGCAAATTT
1 CGAAAATGACTATCGCAACGCGAATTT
444815 AGTTTCGCGT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (54 bp):
CGAAAATGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATG
Found at i:444897 original size:20 final size:21
Alignment explanation
Indices: 444869--444912 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
444859 GCGATAATCA
*
444869 TTTTCGTGTTGCTATTTTAAG
1 TTTTCGTGTTGCGATTTTAAG
444890 TTTT-GTGTTGCGATTTTAAG
1 TTTTCGTGTTGCGATTTTAAG
444910 TTT
1 TTT
444913 CAGAAACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.14, C:0.07, G:0.20, T:0.59
Consensus pattern (21 bp):
TTTTCGTGTTGCGATTTTAAG
Found at i:446919 original size:36 final size:30
Alignment explanation
Indices: 446839--446904 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
446829 ATAAGAGTTG
446839 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
446869 ATTTGTTTAATTGATGTGTAAATAATTCTT
1 ATTTGTTTAATTGATGTGTAAATAATTCTT
446899 ATTTGT
1 ATTTGT
446905 GCTTGTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.55
Consensus pattern (30 bp):
ATTTGTTTAATTGATGTGTAAATAATTCTT
Found at i:447025 original size:20 final size:20
Alignment explanation
Indices: 447000--447237 Score: 172
Period size: 20 Copynumber: 12.8 Consensus size: 20
446990 GCGATTTTCT
*
447000 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
*
447020 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
447040 CGTTGCGATAGTC-ATTTCG
1 CGTTGCGATAGTCAAATTCG
* *
447059 CGTTGC-A-A-T--TA-TCT
1 CGTTGCGATAGTCAAATTCG
**
447073 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* **
447093 CGTTACGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
447113 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
447127 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
447147 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
* *
447167 CATTGCGAT--T---A-TCC
1 CGTTGCGATAGTCAAATTCG
* *
447181 CGTTGCGATATTCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
447201 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
447221 CGTTGCGATAGTCAAAT
1 CGTTGCGATAGTCAAAT
447238 GAATGTGTAA
Statistics
Matches: 173, Mismatches: 27, Indels: 36
0.73 0.11 0.15
Matches are distributed among these distances:
14 28 0.16
15 1 0.01
16 4 0.02
17 2 0.01
18 3 0.02
19 14 0.08
20 121 0.70
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:447026 original size:34 final size:34
Alignment explanation
Indices: 446966--447086 Score: 100
Period size: 34 Copynumber: 3.4 Consensus size: 34
446956 ATCATATTCG
* * *
446966 CGTTGCGATAGTCTAATACACTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATTCACGTTGCGATTTTCT
* *
447000 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCACGTTGCGAT--T----TTCT
* * * *
447040 CGTTGCGATAGTC-ATTTCGCGTTGCAATTATCT
1 CGTTGCGATAGTCAAATTCACGTTGCGATTTTCT
447073 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
447087 TTTTCGCGTT
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
33 15 0.21
34 25 0.36
36 1 0.01
37 1 0.01
39 12 0.17
40 16 0.23
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATTCACGTTGCGATTTTCT
Found at i:447102 original size:73 final size:74
Alignment explanation
Indices: 446956--447121 Score: 199
Period size: 73 Copynumber: 2.3 Consensus size: 74
446946 TTCATTCGGC
* * *
446956 ATCATATTCGCGTTGCGATAGTCTAATACACTTTGCGATTTTCTCGTTGCGATAGTCAAATTCCC
1 ATCATATTCGCGTTGCGATAGTCTAATACACGTTGCAATTATCTCGTTGCGATAGTCAAATTCCC
*
447021 GTTGCGATA
66 GTTACGATA
* * * * ** *
447030 ATCAAATTCGCGTTGCGATAGTC-ATTTCGCGTTGCAATTATCTCGTTGCGATAGTCATTTTCGC
1 ATCATATTCGCGTTGCGATAGTCTAATACACGTTGCAATTATCTCGTTGCGATAGTCAAATTCCC
447094 GTTACGATA
66 GTTACGATA
* * *
447103 GTCATTTTCGCATTGCGAT
1 ATCATATTCGCGTTGCGAT
447122 TATCCCGTTG
Statistics
Matches: 77, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
73 55 0.71
74 22 0.29
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (74 bp):
ATCATATTCGCGTTGCGATAGTCTAATACACGTTGCAATTATCTCGTTGCGATAGTCAAATTCCC
GTTACGATA
Found at i:447135 original size:54 final size:54
Alignment explanation
Indices: 447017--447229 Score: 320
Period size: 54 Copynumber: 4.0 Consensus size: 54
447007 ATAGTCAAAT
* * *
447017 TCCCGTTGCGATAATCAAATTCGCGTTGCGATAGTCA-TTTCGCGTTGCAATTA
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTA
* ** *
447070 TCTCGTTGCGATAGTCATTTTCGCGTTACGATAGTCATTTTCGCATTGCGATTA
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTA
447124 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTA
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTA
* * * *
447178 TCCCGTTGCGATATTCAAATTCACGTTGCGATAGTCATATTCGCGTTGCGAT
1 TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGAT
447230 AGTCAAATGA
Statistics
Matches: 144, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 32 0.22
54 112 0.78
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (54 bp):
TCCCGTTGCGATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCATTGCGATTA
Found at i:449445 original size:14 final size:15
Alignment explanation
Indices: 449426--449462 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
449416 TCCCGTGGTA
449426 TTTTCTTCGGGGA-C
1 TTTTCTTCGGGGATC
*
449440 TTTTCTTCGGGGATT
1 TTTTCTTCGGGGATC
449455 TTTTCTTC
1 TTTTCTTC
449463 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.05, C:0.19, G:0.22, T:0.54
Consensus pattern (15 bp):
TTTTCTTCGGGGATC
Found at i:449686 original size:24 final size:24
Alignment explanation
Indices: 449652--449705 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
449642 CTAAAACATC
449652 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
449676 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
449700 ATCAAA
1 ATCAAA
449706 TTTCGAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:450585 original size:21 final size:20
Alignment explanation
Indices: 450538--450673 Score: 132
Period size: 20 Copynumber: 6.7 Consensus size: 20
450528 CGTTAGTTAG
*
450538 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAT
*
450558 AATCGCGTTGCGATCACGT-TT
1 AATCGCGTTGCGAT-A-GTCAT
* *
450579 TATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAT
* *
450599 AATCTCGTTGCGATAGTCAA
1 AATCGCGTTGCGATAGTCAT
450619 AATCGCGTTGCGATCACGT-AT
1 AATCGCGTTGCGAT-A-GTCAT
* * *
450640 TATCGCGTTGCGATATTCAG
1 AATCGCGTTGCGATAGTCAT
*
450660 AATCACGTTGCGAT
1 AATCGCGTTGCGAT
450674 CAAGTGTTAT
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
19 3 0.03
20 59 0.62
21 29 0.31
22 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAT
Found at i:450601 original size:61 final size:61
Alignment explanation
Indices: 450526--450673 Score: 233
Period size: 61 Copynumber: 2.4 Consensus size: 61
450516 AATTCAGTGA
* * * * *
450526 TGCGTTAGTTAGAATCGCGTTGCGATAGTCAGAATCGCGTTGCGATCACGTTTTATCGCGT
1 TGCGATAGTCAGAATCACGTTGCGATAGTCAAAATCGCGTTGCGATCACGTATTATCGCGT
*
450587 TGCGATAGTCAGAATCTCGTTGCGATAGTCAAAATCGCGTTGCGATCACGTATTATCGCGT
1 TGCGATAGTCAGAATCACGTTGCGATAGTCAAAATCGCGTTGCGATCACGTATTATCGCGT
*
450648 TGCGATATTCAGAATCACGTTGCGAT
1 TGCGATAGTCAGAATCACGTTGCGAT
450674 CAAGTGTTAT
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 80 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (61 bp):
TGCGATAGTCAGAATCACGTTGCGATAGTCAAAATCGCGTTGCGATCACGTATTATCGCGT
Found at i:450691 original size:21 final size:21
Alignment explanation
Indices: 450620--450694 Score: 66
Period size: 21 Copynumber: 3.6 Consensus size: 21
450610 GATAGTCAAA
* *
450620 ATCGCGTTGCGATCACGTATT
1 ATCGCGTTGCGATCAAGTGTT
* *
450641 ATCGCGTTGCGAT--ATTCAG-A
1 ATCGCGTTGCGATCAAGT--GTT
*
450661 ATCACGTTGCGATCAAGTGTT
1 ATCGCGTTGCGATCAAGTGTT
450682 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
450695 TTACATATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 1 0.02
20 13 0.32
21 25 0.61
22 2 0.05
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (21 bp):
ATCGCGTTGCGATCAAGTGTT
Found at i:450714 original size:41 final size:41
Alignment explanation
Indices: 450604--450694 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
450594 GTCAGAATCT
* * *
450604 CGTTGCGATAGTCAAAATCGCGTTGCGATCACGTATTATCG
1 CGTTGCGATATTCAGAATCGCGTTGCGATCAAGTATTATCG
* *
450645 CGTTGCGATATTCAGAATCACGTTGCGATCAAGTGTTATCG
1 CGTTGCGATATTCAGAATCGCGTTGCGATCAAGTATTATCG
450686 CGTTGCGAT
1 CGTTGCGAT
450695 TTACATATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
CGTTGCGATATTCAGAATCGCGTTGCGATCAAGTATTATCG
Found at i:450813 original size:20 final size:19
Alignment explanation
Indices: 450789--450835 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
450779 TGGAAACTAA
*
450789 ATTGCGATAATGGAGATCGC
1 ATTGCGAT-ATAGAGATCGC
* *
450809 GTTGCGATTTAGAGATCGC
1 ATTGCGATATAGAGATCGC
450828 ATTGCGAT
1 ATTGCGAT
450836 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (19 bp):
ATTGCGATATAGAGATCGC
Found at i:450825 original size:19 final size:19
Alignment explanation
Indices: 450801--450837 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
450791 TGCGATAATG
*
450801 GAGATCGCGTTGCGATTTA
1 GAGATCGCATTGCGATTTA
450820 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
450838 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:452126 original size:104 final size:104
Alignment explanation
Indices: 451946--452178 Score: 421
Period size: 104 Copynumber: 2.2 Consensus size: 104
451936 AAAGTCGCCA
*
451946 GGAGGACTTGGCGACCTATGGAGGTTTCGACTAAAAGCCTAATTACCGATTTAGGTAATCACTGT
1 GGAGGACTTGGCGACCTATGGAGGTTTCGACTAAAAGCCTAATTACCGATGTAGGTAATCACTGT
452011 TACTTATGGGAAATCAAGGAAACCAATGCTTGAACGTTC
66 TACTTATGGGAAATCAAGGAAACCAATGCTTGAACGTTC
* **
452050 GGAGGTCTTGGCGACCTATGGAGGTTTCGACTAAAAGTTTAATTACCGATGTAGGTAATCACTGT
1 GGAGGACTTGGCGACCTATGGAGGTTTCGACTAAAAGCCTAATTACCGATGTAGGTAATCACTGT
*
452115 TACTTATGGGAAATCAAGGAAACCAATGCTTGAACGTTT
66 TACTTATGGGAAATCAAGGAAACCAATGCTTGAACGTTC
452154 GGAGGACTTGGCGACCTATGGAGGT
1 GGAGGACTTGGCGACCTATGGAGGT
452179 CACCCAGAGG
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 123 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (104 bp):
GGAGGACTTGGCGACCTATGGAGGTTTCGACTAAAAGCCTAATTACCGATGTAGGTAATCACTGT
TACTTATGGGAAATCAAGGAAACCAATGCTTGAACGTTC
Found at i:452399 original size:29 final size:29
Alignment explanation
Indices: 452349--452409 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
452339 TTTATCTTCT
* *
452349 TAAAATTATATAAGGTCTAATTAATCCTA
1 TAAAATTATATAAAGTCAAATTAATCCTA
* * * *
452378 TAAAATTTTATAAATTCAAATTTATCTTA
1 TAAAATTATATAAAGTCAAATTAATCCTA
452407 TAA
1 TAA
452410 TATAAAATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (29 bp):
TAAAATTATATAAAGTCAAATTAATCCTA
Found at i:452770 original size:74 final size:74
Alignment explanation
Indices: 452649--452796 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
452639 GTAAAGTTAC
452649 TTCATCAAAAGTTATTTGATAGTAACAATATTTTTTTTCTATTAAGGATCATCTTAATAGTTAAA
1 TTCATCAAAAGTTATTTGATAGTAACAATATTTTTTTTCTATTAAGGATCATCTTAATAGTTAAA
452714 GGGAGTATT
66 GGGAGTATT
452723 TTCATCAAAAGTTATTTGATAGTAACAATATTTTTTTTCTATTAAGGATCATCTTAATAGTTAAA
1 TTCATCAAAAGTTATTTGATAGTAACAATATTTTTTTTCTATTAAGGATCATCTTAATAGTTAAA
452788 GGGAGTATT
66 GGGAGTATT
452797 GTTAATTTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (74 bp):
TTCATCAAAAGTTATTTGATAGTAACAATATTTTTTTTCTATTAAGGATCATCTTAATAGTTAAA
GGGAGTATT
Found at i:455964 original size:15 final size:15
Alignment explanation
Indices: 455939--455971 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
455929 AGAATTATTC
455939 AAATAATTAAAAAATT
1 AAATAATT-AAAAATT
455955 AAAT-ATTAAAAATT
1 AAATAATTAAAAATT
455969 AAA
1 AAA
455972 AATAAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.59
15 3 0.18
16 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAATTAAAAATT
Found at i:456585 original size:23 final size:20
Alignment explanation
Indices: 456558--456616 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 20
456548 TTTAATTTTA
*
456558 TAATTTTTTAGTATTTATATAT
1 TAATTTTTTAGTATTT-GAT-T
456580 TCAATTTTTTAGTAATTTGATT
1 T-AATTTTTTAGT-ATTTGATT
456602 TAA-TTTTTAGTATTT
1 TAATTTTTTAGTATTT
456617 TTAATTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 4 0.12
20 8 0.24
21 2 0.06
22 3 0.09
23 13 0.38
24 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.63
Consensus pattern (20 bp):
TAATTTTTTAGTATTTGATT
Found at i:456623 original size:21 final size:21
Alignment explanation
Indices: 456562--456630 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
456552 ATTTTATAAT
* *
456562 TTTTTAGTATTTATATATTCAA
1 TTTTTAGTATTTTTA-ATTTAA
* *
456584 TTTTTTAGTA-ATTTGATTTAA
1 -TTTTTAGTATTTTTAATTTAA
456605 TTTTTAGTATTTTTAATTTTAA
1 TTTTTAGTATTTTTAA-TTTAA
456627 TTTT
1 TTTT
456631 CTAAATATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 9 0.24
21 9 0.24
22 11 0.29
23 9 0.24
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTTTAGTATTTTTAATTTAA
Found at i:460212 original size:30 final size:31
Alignment explanation
Indices: 460173--460232 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
460163 CTTATGTTAG
* *
460173 GGAACGAACTTGAATTTATAAAATTATAGGA
1 GGAACGAACTTAAACTTATAAAATTATAGGA
*
460204 GGAA-GAACTTAAACTTATAAAATTTTAGG
1 GGAACGAACTTAAACTTATAAAATTATAGG
460233 GGGCTAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (31 bp):
GGAACGAACTTAAACTTATAAAATTATAGGA
Found at i:460383 original size:11 final size:11
Alignment explanation
Indices: 460367--460393 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
460357 TCCTAATTTG
460367 TAACTATTTTA
1 TAACTATTTTA
460378 TAACTATTTTA
1 TAACTATTTTA
460389 TAACT
1 TAACT
460394 TTTAATACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (11 bp):
TAACTATTTTA
Found at i:461954 original size:30 final size:30
Alignment explanation
Indices: 461918--461987 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
461908 TGTATTTGGG
461918 GATTTGCATAATCAAATAAATTATGGATTA
1 GATTTGCATAATCAAATAAATTATGGATTA
461948 GATTTGCATAATCAAATAAATTATGGATTA
1 GATTTGCATAATCAAATAAATTATGGATTA
461978 GATTTGCATA
1 GATTTGCATA
461988 TTAAGTAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.37
Consensus pattern (30 bp):
GATTTGCATAATCAAATAAATTATGGATTA
Found at i:463028 original size:21 final size:21
Alignment explanation
Indices: 463004--463046 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
462994 AGTGGTAGTT
* *
463004 CACGGTGCTGACATGGCGGTC
1 CACGGTACTGACATGGCAGTC
*
463025 CACGGTACTGACGTGGCAGTC
1 CACGGTACTGACATGGCAGTC
463046 C
1 C
463047 GTCTGTCATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.30, G:0.35, T:0.19
Consensus pattern (21 bp):
CACGGTACTGACATGGCAGTC
Found at i:467982 original size:2 final size:2
Alignment explanation
Indices: 467975--468021 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
467965 TACGTGTATT
467975 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
468017 TA TA T
1 TA TA T
468022 TTGTACACGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:468580 original size:60 final size:60
Alignment explanation
Indices: 468460--468590 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 60
468450 GTCCATAAAT
* ** ** *
468460 TTTTAAACATTTTACGTTCATCCTCATATTATGAGTTTCATTCTAAATTTCCCCTCAAAC
1 TTTTGAACATTTTAAATTCATCCTCATATTATGACATTCATTCTAAATTTCCCCTAAAAC
*
468520 TTTTGAACATTTTAAATTCATCTTCA-ATTTATGACATTCATTCTAAATTAGT-CCC-AAAAC
1 TTTTGAACATTTTAAATTCATCCTCATA-TTATGACATTCATTCTAAATT--TCCCCTAAAAC
*
468580 TTTTGGACATT
1 TTTTGAACATT
468591 CCAATAACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
59 1 0.02
60 55 0.92
61 3 0.05
62 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.06, T:0.44
Consensus pattern (60 bp):
TTTTGAACATTTTAAATTCATCCTCATATTATGACATTCATTCTAAATTTCCCCTAAAAC
Found at i:471454 original size:18 final size:17
Alignment explanation
Indices: 471431--471470 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
471421 AGCCCCTAAA
471431 ATTTTAAAATTATTATAT
1 ATTTT-AAATTATTATAT
* *
471449 ATTTTAATTTTTTATAT
1 ATTTTAAATTATTATAT
471466 ATTTT
1 ATTTT
471471 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTAAATTATTATAT
Found at i:471529 original size:28 final size:28
Alignment explanation
Indices: 471498--471552 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
471488 TTGTCTCTCC
* * *
471498 AAAATTTTATAAACTTAAGTTCGTCCCT
1 AAAATTTTAGAAACTTAAATCCGTCCCT
*
471526 AAAATTTTAGAATCTTAAATCCGTCCC
1 AAAATTTTAGAAACTTAAATCCGTCCC
471553 ATCATGGTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.36
Consensus pattern (28 bp):
AAAATTTTAGAAACTTAAATCCGTCCCT
Found at i:482153 original size:2 final size:2
Alignment explanation
Indices: 482148--482201 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
482138 ATAACGTGTG
482148 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
482190 TA TA TA TA TA TA
1 TA TA TA TA TA TA
482202 ACAAAGAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:483211 original size:27 final size:27
Alignment explanation
Indices: 483159--483236 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 27
483149 TATATATATA
483159 TATATTAACTTA--AAAAATA-TTT-T
1 TATATTAACTTATTAAAAATATTTTAT
*
483182 TATATTAACTTATTAAACATATTTTA-
1 TATATTAACTTATTAAAAATATTTTAT
*
483208 T-TATTAAATTAAATTAAAAATATTTTAT
1 TATATTAACTT--ATTAAAAATATTTTAT
483236 T
1 T
483237 TTTATTTTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 12 0.27
25 14 0.31
26 4 0.09
27 14 0.31
28 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (27 bp):
TATATTAACTTATTAAAAATATTTTAT
Found at i:484371 original size:14 final size:14
Alignment explanation
Indices: 484349--484387 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
484339 GACCTCCTTG
484349 GATTAAATTATTAA
1 GATTAAATTATTAA
*
484363 GATTGAATTATTAA
1 GATTAAATTATTAA
484377 -ATTTAAATTAT
1 GA-TTAAATTAT
484388 AAAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (14 bp):
GATTAAATTATTAA
Found at i:484429 original size:14 final size:14
Alignment explanation
Indices: 484396--484423 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
484386 ATAAAATTTT
484396 TATAAAATTAAAGA
1 TATAAAATTAAAGA
484410 TATAAAATTAAAGA
1 TATAAAATTAAAGA
484424 ATTAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
TATAAAATTAAAGA
Done.