Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009064.1 Hibiscus syriacus cultivar Beakdansim tig00112487_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: 748991
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 4
Found at i:14579 original size:20 final size:20
Alignment explanation
Indices: 14554--14602 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
14544 TACTCAGGGT
14554 AGTATCAATACCACAAGGCC
1 AGTATCAATACCACAAGGCC
14574 AGTATCAATACCACAAGGCC
1 AGTATCAATACCACAAGGCC
14594 AGTATCAAT
1 AGTATCAAT
14603 GTTATCAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.18
Consensus pattern (20 bp):
AGTATCAATACCACAAGGCC
Found at i:21400 original size:2 final size:2
Alignment explanation
Indices: 21393--21462 Score: 86
Period size: 2 Copynumber: 35.0 Consensus size: 2
21383 CCTAAACTTA
21393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * *
21435 GT CT AT GT AT AT AT GT CT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21463 GTCTATGTAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21463 original size:14 final size:14
Alignment explanation
Indices: 21400--21474 Score: 96
Period size: 14 Copynumber: 5.4 Consensus size: 14
21390 TTAATATATA
* * *
21400 TATATATATATATA
1 TATATATGTCTATG
* * *
21414 TATATATATATATA
1 TATATATGTCTATG
21428 TATATATGTCTATG
1 TATATATGTCTATG
21442 TATATATGTCTATG
1 TATATATGTCTATG
21456 TATATATGTCTATG
1 TATATATGTCTATG
21470 TATAT
1 TATAT
21475 GTATATGTGT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 58 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (14 bp):
TATATATGTCTATG
Found at i:21469 original size:6 final size:6
Alignment explanation
Indices: 21394--21482 Score: 61
Period size: 6 Copynumber: 14.2 Consensus size: 6
21384 CTAAACTTAA
* * * * * * *
21394 TATATA TATATA TATATA TATATA TATATA TATATA TATATG TCTATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
* *
21442 TATATATG TCTATG TATATATG TCTATG TATATG TATATG T
1 --TATATG TATATG --TATATG TATATG TATATG TATATG T
21483 GTGTCAACTT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
6 62 0.86
8 10 0.14
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (6 bp):
TATATG
Found at i:23237 original size:19 final size:19
Alignment explanation
Indices: 23213--23251 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
23203 ATACAACAAA
23213 AGAACCTACTATTTAAATC
1 AGAACCTACTATTTAAATC
23232 AGAACCTACTATTTAAATC
1 AGAACCTACTATTTAAATC
23251 A
1 A
23252 ATTATGATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.31
Consensus pattern (19 bp):
AGAACCTACTATTTAAATC
Found at i:30651 original size:23 final size:23
Alignment explanation
Indices: 30577--30686 Score: 98
Period size: 23 Copynumber: 4.8 Consensus size: 23
30567 AGAAATTGCA
*
30577 CCGAAGTG-CCACATAGAAATGTC
1 CCGAAG-GACCACGTAGAAATGTC
** * * * *
30600 CTAAAAGACCACATAGTATTGTC
1 CCGAAGGACCACGTAGAAATGTC
*
30623 CTGAAGGACCGA-GTAGAAATGTC
1 CCGAAGGACC-ACGTAGAAATGTC
* *
30646 CCGAAGGACCACGTAGAATTATC
1 CCGAAGGACCACGTAGAAATGTC
30669 CCGAAGGACCACGTAGAA
1 CCGAAGGACCACGTAGAA
30687 CCCTCGACTC
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
22 2 0.03
23 68 0.96
24 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAAATGTC
Found at i:30657 original size:46 final size:46
Alignment explanation
Indices: 30577--30686 Score: 116
Period size: 46 Copynumber: 2.4 Consensus size: 46
30567 AGAAATTGCA
* * * *
30577 CCGAAGTG-CCACATAGAAATGTCCTAAAAGACCACATAGTATTGTC
1 CCGAAG-GACCACGTAGAAATGTCCCAAAAGACCACATAGAATTATC
* * * *
30623 CTGAAGGACCGA-GTAGAAATGTCCCGAAGGACCACGTAGAATTATC
1 CCGAAGGACC-ACGTAGAAATGTCCCAAAAGACCACATAGAATTATC
30669 CCGAAGGACCACGTAGAA
1 CCGAAGGACCACGTAGAA
30687 CCCTCGACTC
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
45 2 0.04
46 49 0.94
47 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (46 bp):
CCGAAGGACCACGTAGAAATGTCCCAAAAGACCACATAGAATTATC
Found at i:30808 original size:15 final size:15
Alignment explanation
Indices: 30790--30828 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
30780 TATATATTTA
30790 TTCACATAGACCATT
1 TTCACATAGACCATT
30805 TTCACATAGACCATT
1 TTCACATAGACCATT
30820 TTCACATAG
1 TTCACATAG
30829 CTTGTGTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (15 bp):
TTCACATAGACCATT
Found at i:33052 original size:19 final size:20
Alignment explanation
Indices: 33016--33053 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33006 TTTCCTTTAG
33016 GGGGGAATAGATACCCCCCA
1 GGGGGAATAGATACCCCCCA
*
33036 GGGGGAATCGATACCCCC
1 GGGGGAATAGATACCCCC
33054 TGGACATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.32, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGGAATAGATACCCCCCA
Found at i:33745 original size:40 final size:40
Alignment explanation
Indices: 33690--33771 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
33680 ATTTTGCCCT
33690 TTAATTGCTTGACTTCGTGAGCCAATATTTGAACAGGTTC
1 TTAATTGCTTGACTTCGTGAGCCAATATTTGAACAGGTTC
33730 TTAATTGCTTGACTTCGTGAGCCAATATTTGAACAGGTTC
1 TTAATTGCTTGACTTCGTGAGCCAATATTTGAACAGGTTC
33770 TT
1 TT
33772 CCTCATAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (40 bp):
TTAATTGCTTGACTTCGTGAGCCAATATTTGAACAGGTTC
Found at i:42613 original size:39 final size:38
Alignment explanation
Indices: 42556--42771 Score: 171
Period size: 39 Copynumber: 5.3 Consensus size: 38
42546 ATTCCCAAAA
* *
42556 AAAATAAAGCCAATGATTTATTTCCTTTTACAAAACATG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAACA-G
* **
42595 AAAACAAATCCAACGATTTATTTCCTTTTGTAAAACAG
1 AAAATAAATCCAACGATTTATTTCCTTTTACAAAACAG
* *
42633 AAAAATAAATTCAATGATTTATTTCCTTTTACAAAACAGG
1 -AAAATAAATCCAACGATTTATTTCCTTTTACAAAACA-G
* *
42673 AAAATAAATCAAACGATTGTTTCGATTTATTTCCTTTTACAAAATAGG
1 AAAATAAATC---C-A-----ACGATTTATTTCCTTTTACAAAACA-G
* * * *
42721 AAACTAAATCTAACAATTTATTTCCTTTTTACAAAATAAG
1 AAAATAAATCCAACGATTTATTTCC-TTTTACAAAA-CAG
*
42761 GAAATAAATCC
1 AAAATAAATCC
42772 TTTTACAAAC
Statistics
Matches: 142, Mismatches: 22, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
38 1 0.01
39 84 0.59
40 20 0.14
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
48 33 0.23
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (38 bp):
AAAATAAATCCAACGATTTATTTCCTTTTACAAAACAG
Found at i:42808 original size:65 final size:64
Alignment explanation
Indices: 42704--42835 Score: 192
Period size: 65 Copynumber: 2.0 Consensus size: 64
42694 TCGATTTATT
* *
42704 TCCTTTTACAAAATAGGAAACTAAATCTAACAATTTATTTCCTTTTTACAAAATAAGGAAATAAA
1 TCCTTTTACAAAACAGGAAACTAAATCTAACAATTTATTTCCTTTTT-CAAAATAAGAAAATAAA
* * * **
42769 TCCTTTTACAAACCAGGAAACTAAATTTTATGATTTATTTCCTTTTTCAAAATAAGAAAATAAA
1 TCCTTTTACAAAACAGGAAACTAAATCTAACAATTTATTTCCTTTTTCAAAATAAGAAAATAAA
42833 TCC
1 TCC
42836 AATAGTTTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
64 19 0.32
65 41 0.68
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (64 bp):
TCCTTTTACAAAACAGGAAACTAAATCTAACAATTTATTTCCTTTTTCAAAATAAGAAAATAAA
Found at i:42918 original size:97 final size:97
Alignment explanation
Indices: 42801--43027 Score: 287
Period size: 97 Copynumber: 2.3 Consensus size: 97
42791 AAATTTTATG
* * * *
42801 ATTTATTTCCTTTTTCAAAATAAGAAAATAAATCCAATA-G-TTTATTTCCTTTTACATATTAGA
1 ATTTATTTTCTTTTTCAAAATAGGAAAATAAAT--AATACGATTTATTTCCTTTTACAGATCAGA
* * * *
42864 ATCATACAAGATTCTTAGGAAAATAAATTTACCA
64 ATCATACAAGATTCTCAGGAAAACAAATTCAACA
*
42898 ATTTATTTTCTTTTTCAAAATAGGAAAATAAATTATACGATTTATTTCCTTTTACAGATCAGAAT
1 ATTTATTTTCTTTTTCAAAATAGGAAAATAAATAATACGATTTATTTCCTTTTACAGATCAGAAT
** * *
42963 CATGTAAGATTCTCATGAAAACATATTCAACA
66 CATACAAGATTCTCAGGAAAACAAATTCAACA
* *
42995 ATTTATTTTCATTTACAAAATAGGAAAATAAAT
1 ATTTATTTTCTTTTTCAAAATAGGAAAATAAAT
43028 TTAACAACAT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 3 0.03
96 1 0.01
97 109 0.96
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (97 bp):
ATTTATTTTCTTTTTCAAAATAGGAAAATAAATAATACGATTTATTTCCTTTTACAGATCAGAAT
CATACAAGATTCTCAGGAAAACAAATTCAACA
Found at i:43041 original size:97 final size:96
Alignment explanation
Indices: 42843--43101 Score: 272
Period size: 97 Copynumber: 2.7 Consensus size: 96
42833 TCCAATAGTT
* * * * * *
42843 TATTTCCTTTTACATATTAGAATCATACAAGATTCTTAGGAAAATAAATTTACCAATTTATTTTC
1 TATTTCCTTTTACAAATCAGAATCAT-TAAGATTCTTAAGAAAATAAATTCAACAATTTATTTTC
* * * **
42908 TTTTTCAAAATAGGAAAATAAATTATACGATT
65 ATTTACAAAATAGGAAAATAAATTATACAACA
* * * * *
42940 TATTTCCTTTTACAGATCAGAATCATGTAAGATTCTCATGAAAACATATTCAACAATTTATTTTC
1 TATTTCCTTTTACAAATCAGAATCAT-TAAGATTCTTAAGAAAATAAATTCAACAATTTATTTTC
43005 ATTTACAAAATAGGAAAATAAATT-TAACAACA
65 ATTTACAAAATAGGAAAATAAATTAT-ACAACA
* * *
43037 TATTT--TTCTTACAAAGCTAGAATCATTAAAGATTCTTAAGGAAATAAATTCAACAATCTATTT
1 TATTTCCTT-TTACAAATC-AGAATCATT-AAGATTCTTAAGAAAATAAATTCAACAATTTATTT
43100 TC
63 TC
43102 CTTACGAAGT
Statistics
Matches: 135, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
95 2 0.01
96 9 0.07
97 124 0.92
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.38
Consensus pattern (96 bp):
TATTTCCTTTTACAAATCAGAATCATTAAGATTCTTAAGAAAATAAATTCAACAATTTATTTTCA
TTTACAAAATAGGAAAATAAATTATACAACA
Found at i:43092 original size:58 final size:59
Alignment explanation
Indices: 43020--43176 Score: 241
Period size: 58 Copynumber: 2.7 Consensus size: 59
43010 CAAAATAGGA
* *
43020 AAATAAATTTAACAA-CATATTTTTCTTACAAAGCTAGAATCATTAAAGATTCTTAAGG
1 AAATAAATTCAACAATCATATTTTTCTTACAAAGTTAGAATCATTAAAGATTCTTAAGG
* * *
43078 AAATAAATTCAACAATC-TATTTTCCTTACGAAGTTAGAATCATTTAAGATTCTTAAGG
1 AAATAAATTCAACAATCATATTTTTCTTACAAAGTTAGAATCATTAAAGATTCTTAAGG
43136 AAATAAATTCAACAATCA-ATTTTTCTTA-AAAGTTAGAATCA
1 AAATAAATTCAACAATCATATTTTTCTTACAAAGTTAGAATCA
43177 ACGCAAAATT
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
57 12 0.13
58 77 0.86
59 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (59 bp):
AAATAAATTCAACAATCATATTTTTCTTACAAAGTTAGAATCATTAAAGATTCTTAAGG
Found at i:43416 original size:44 final size:45
Alignment explanation
Indices: 43325--43442 Score: 141
Period size: 44 Copynumber: 2.6 Consensus size: 45
43315 GAATTAATCC
* *
43325 TTTAATTTTAC-CAACCCAATAATCAAAATGAACTAATTCTTTGAT
1 TTTAATTTT-CGCAACCCAATAATCAAAAGGAACTAATCCTTTGAT
* *
43370 TTTAATTTTCGCAATCCAATAATC-GAAGGAACTAATCCTTTGAT
1 TTTAATTTTCGCAACCCAATAATCAAAAGGAACTAATCCTTTGAT
* * * *
43414 TTTACTTTTGGCAACACAATAGTCAAAAG
1 TTTAATTTTCGCAACCCAATAATCAAAAG
43443 CCTTGGATTA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
44 37 0.61
45 24 0.39
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (45 bp):
TTTAATTTTCGCAACCCAATAATCAAAAGGAACTAATCCTTTGAT
Found at i:49390 original size:54 final size:54
Alignment explanation
Indices: 49326--49917 Score: 848
Period size: 54 Copynumber: 10.9 Consensus size: 54
49316 GCCAATATGG
* * *
49326 TTGTTCATCAACATAAT-ATGAATTCCATGGATTGCACACTTAGCGCCTATACGA
1 TTGTTCATCAACAT-ATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGA
* * *
49380 TTTTTCATCAACATATGATGAATTTCGTGGGTTGCACACTTAATGCCTATAC-A
1 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGA
* * *
49433 GTTGTTCATCAACATATGATGATTTTCATGGGTTGCACACTTAGTGCCTATACGA
1 -TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGA
** * *
49488 TTGTTCATCAACATATGATGAATTGTGTGGGTTACACACTTAGTGCCTATACTGG
1 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATAC-GA
* ** * *
49543 TTGTTCATCAATATATGATGAATTTTGTGGGTTTCACACTTAGTGCCTATACGG
1 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGA
* *
49597 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGGCTATACGG
1 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGA
* * *
49651 TTTTTCATCAACATATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACAA
1 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGA
*
49705 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACAA
1 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGA
* *
49759 TTGTTCAACAACATATGATGAATTCTGTGGGTTGCACACTTAGTGCCTATACGGA
1 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATAC-GA
* * *
49814 -TGTTCATCAACATATGATGAATTCCATGGGTTGCATACTTAGTGCCTATACGG
1 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGA
* *
49867 TTGTTCATCAACATATGATGAATTACGTGGGTTGCACACTTAGTACCTATA
1 TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATA
49918 GTACACATAG
Statistics
Matches: 489, Mismatches: 43, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.01
54 433 0.89
55 52 0.11
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (54 bp):
TTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACTTAGTGCCTATACGA
Found at i:55515 original size:54 final size:54
Alignment explanation
Indices: 55456--55844 Score: 625
Period size: 54 Copynumber: 7.2 Consensus size: 54
55446 TTCACACATA
*
55456 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTTCGTGGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
**
55510 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTATGTGGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
* * * * *
55564 TAATGCCTAAACGGTTTTTCATCAATATATGATGAATTTCGTGGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
***
55618 TAGTATATATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
* * *
55672 TAGTGCCTATACGGATGTTCAACAACATATGATGAATTACGTGGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
* * *
55726 TAGTGCCTATACGGATGTTCATCAACATATGACGAATTCCATGGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
55780 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
1 TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
55834 TAGTGCCTATA
1 TAGTGCCTATA
55845 GTACACATAG
Statistics
Matches: 306, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 306 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (54 bp):
TAGTGCCTATACGGTTGTTCATCAACATATGATGAATTCCGTGGGTTGCACACT
Found at i:55738 original size:26 final size:26
Alignment explanation
Indices: 55657--55738 Score: 62
Period size: 26 Copynumber: 3.1 Consensus size: 26
55647 TGATGAATTC
55657 CGTGGGTTGCACACTTAGTGCCTATA
1 CGTGGGTTGCACACTTAGTGCCTATA
* * **
55683 CG-GATGTT-CAACAACATATGATGAAT-TA
1 CGTG-GGTTGC-AC-ACTTA-G-TGCCTATA
55711 CGTGGGTTGCACACTTAGTGCCTATA
1 CGTGGGTTGCACACTTAGTGCCTATA
55737 CG
1 CG
55739 GATGTTCATC
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
25 5 0.12
26 12 0.30
27 8 0.20
28 10 0.25
29 5 0.12
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (26 bp):
CGTGGGTTGCACACTTAGTGCCTATA
Found at i:56314 original size:18 final size:19
Alignment explanation
Indices: 56288--56336 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
56278 CTTTTCTTCT
* *
56288 AGTACCGATACTCA-CATC
1 AGTATCGATACTAATCATC
56306 AGTATCGATACTAATTGCATC
1 AGTATCGATACTAA-T-CATC
56327 AGTATCGATA
1 AGTATCGATA
56337 TTGTTCATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 12 0.46
21 14 0.54
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (19 bp):
AGTATCGATACTAATCATC
Found at i:58513 original size:24 final size:24
Alignment explanation
Indices: 58486--58536 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
58476 AAATAAAATT
*
58486 AATCACAAACATTCATTCAAATAC
1 AATCACAAACACTCATTCAAATAC
58510 AATCACAAACACTCATTCAAATAC
1 AATCACAAACACTCATTCAAATAC
58534 AAT
1 AAT
58537 AAGAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (24 bp):
AATCACAAACACTCATTCAAATAC
Found at i:58549 original size:24 final size:24
Alignment explanation
Indices: 58490--58554 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
58480 AAAATTAATC
*
58490 ACAAACATTCATTCAAATACAATC
1 ACAAACATTCATTCAAATACAATA
*
58514 ACAAACACTCATTCAAATACAATA
1 ACAAACATTCATTCAAATACAATA
*
58538 AGAAA-ATTTCA-TCAAAT
1 ACAAACA-TTCATTCAAAT
58555 TATTACTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 7 0.19
24 29 0.81
ACGTcount: A:0.52, C:0.22, G:0.02, T:0.25
Consensus pattern (24 bp):
ACAAACATTCATTCAAATACAATA
Found at i:64558 original size:4 final size:4
Alignment explanation
Indices: 64551--64589 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
64541 TTTGTTAAAT
64551 TTTA TTTA TTTA TTTA TTTA TTTA TAATTA TTT- TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA T--TTA TTTA TTTA TT
64590 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.09
4 25 0.78
6 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:64582 original size:22 final size:22
Alignment explanation
Indices: 64556--64598 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
64546 TAAATTTTAT
*
64556 TTATTTATTTATT-TATTTATAA
1 TTATTT-TTTATTATATATATAA
64578 TTATTTTTTATTATATATATA
1 TTATTTTTTATTATATATATA
64599 TACATTACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTATTTTTTATTATATATATAA
Found at i:64630 original size:2 final size:2
Alignment explanation
Indices: 64623--64753 Score: 101
Period size: 2 Copynumber: 66.5 Consensus size: 2
64613 TTAATTTTAT
* *
64623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA AA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
64664 TCA T- TGG TA T- TA T- TA TA CA TG TA TA TT TA TA TT TCC TA TT
1 T-A TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
* *
64704 TT TC T- 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
64745 TA TA TA TA T
1 TA TA TA TA T
64754 TTACTTTGGA
Statistics
Matches: 106, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
1 5 0.05
2 97 0.92
3 4 0.04
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65049 original size:17 final size:15
Alignment explanation
Indices: 65027--65061 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
65017 ATGTGTTCTA
65027 TTTATTTTTATATTTAC
1 TTTATTTTT-TA-TTAC
65044 TTTATTTTTTATTAC
1 TTTATTTTTTATTAC
65059 TTT
1 TTT
65062 CCTTATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 2 0.11
17 9 0.50
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTTTTATTAC
Found at i:65102 original size:23 final size:22
Alignment explanation
Indices: 65045--65102 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
65035 TATATTTACT
65045 TTATTTTTTATTACTTTCCTTA
1 TTATTTTTTATTACTTTCCTTA
* *
65067 TT-TCATTTGTATTACTTTCTTTA
1 TTAT--TTTTTATTACTTTCCTTA
65090 TTATTTATTTATT
1 TTATTT-TTTATT
65103 TCATCTCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
21 1 0.03
22 4 0.14
23 23 0.79
24 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (22 bp):
TTATTTTTTATTACTTTCCTTA
Found at i:75539 original size:7 final size:7
Alignment explanation
Indices: 75528--75567 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
75518 TTAAAAAACG
75528 AAAAAGA
1 AAAAAGA
75535 GAAAAAGA
1 -AAAAAGA
75543 AAAAAGA
1 AAAAAGA
75550 ACAAAAGA
1 A-AAAAGA
75558 AAAAAGA
1 AAAAAGA
75565 AAA
1 AAA
75568 GAAAATAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 17 0.55
8 14 0.45
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:75546 original size:15 final size:15
Alignment explanation
Indices: 75528--75565 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
75518 TTAAAAAACG
75528 AAAAAGAGA-AAAAGA
1 AAAAAGA-ACAAAAGA
75543 AAAAAGAACAAAAGA
1 AAAAAGAACAAAAGA
75558 AAAAAGAA
1 AAAAAGAA
75566 AAGAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 1 0.05
15 21 0.95
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAGAACAAAAGA
Found at i:76693 original size:106 final size:104
Alignment explanation
Indices: 76495--77356 Score: 849
Period size: 106 Copynumber: 8.5 Consensus size: 104
76485 GCGAAAGGGC
* * * *
76495 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAGCACAAGTT
1 TTCCCAATTTC-CAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTT
76560 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
65 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
* * * * *
76600 CTTCTCAATCTCACAGCCAATTTCAACTTCACAACGAAGGACATTGGACTCCAGACAACGCAAGT
1 -TTCCCAATTTC-CAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
*
76665 TCAACTTCACGACGGAGGGACCGCTGGTTGTCAAC--A-AA
64 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
* ** * *
76703 ----CAATTT-C--TCAATTTCAACTTCACAGTGAAGGATATTAGACTCAAGACAGCACAAGTTC
1 TTCCCAATTTCCAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTC
* * *
76761 AACTTCATGATGAAGGGACCGCTGGTTGTCAATAAACAA
66 AACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
* * * *
76800 TTTCCCGATTTCCGAGCCGATTTCAACTTCACAACGAAGGACATTGGACTCCAA-ACAACGCAAG
1 -TTCCCAATTTCC-AGCCAATTTCAACTTCACAACGAAGGATATTGGACT-CAAGACAACACAAG
76864 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AA-AA
63 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
* * *
76904 -----AATTT-C--CCAATTTCAACTTCGCAACGAAGGATATTGGACTCAAGATAGCACAAGTTC
1 TTCCCAATTTCCAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTC
* * *
76961 AACTTCACGATGAAGGGACCGCTGGTTGTCAATAAATAA
66 AACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
* ** * *
77000 TTTCCCGATTTGAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAACT
1 -TTCCCAATTT-CCAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGT
* *
77065 TCAACTTCACGACGAAGGGACCGCTGGCTGTC-A-ATA-AA
64 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
* * * * *
77103 ----CAATTT-C--TCAATTTCAATTTCACAGCGAAGAATATTGGACTCAAGACAGCACAAGCTT
1 TTCCCAATTTCCAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAG-TT
* * *** *
77161 -AACTTCAC-AGCGAAGGGGCGGCTAACTGTCAACAAACGAC
65 CAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAAC-AA
* * *
77201 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGTATATTGGACTCCAGACAACACAAGTT
1 TTCCCAATTTC-CAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTT
* *
77266 CAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA
65 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
* * *
77306 TTTTCC-AGTTCCAGAACCAATTTCAACTTCACAGTCG-AGGATATTGGACTC
1 -TTCCCAATTTCCAG--CCAATTTCAACTTCACA-ACGAAGGATATTGGACTC
77357 GAAAAAATAC
Statistics
Matches: 624, Mismatches: 86, Indels: 92
0.78 0.11 0.11
Matches are distributed among these distances:
93 4 0.01
94 209 0.33
95 5 0.01
96 6 0.01
97 3 0.00
98 15 0.02
102 15 0.02
103 5 0.01
104 7 0.01
105 10 0.02
106 339 0.54
107 6 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (104 bp):
TTCCCAATTTCCAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGTTC
AACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
Found at i:76860 original size:200 final size:200
Alignment explanation
Indices: 76511--77308 Score: 1168
Period size: 200 Copynumber: 4.0 Consensus size: 200
76501 ATTTCAGAGC
*
76511 CAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAAG
* * *
76576 GGACCGCTGGTTGTCAACAAACAACTTCTCAATCTCACAGCCAATTTCAACTTCACAACGAAGGA
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
* *
76641 CATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGGAGGGACCGCTGGTTGTCAACAAACAA
131 CATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
76706 TTTCT
196 TTTCT
* * * *
76711 CAATTTCAACTTCACAGTGAAGGATATTAGACTCAAGACAGCACAAGTTCAACTTCATGATGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAAG
* * * * *
76776 GGACCGCTGGTTGTCAATAAACAATTTCCCGATTTCCGAGCCGATTTCAACTTCACAACGAAGGA
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
* * *
76841 CATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAAAA
131 CATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
*
76906 TTTCC
196 TTTCT
* * * *
76911 CAATTTCAACTTCGCAACGAAGGATATTGGACTCAAGATAGCACAAGTTCAACTTCACGATGAAG
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAAG
* * * * *
76976 GGACCGCTGGTTGTCAATAAATAATTTCCCGATTTGAGAGCCAATTTCAACTTCACAACGAAGGA
66 GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
* * * *
77041 TATTGGACTCCAGACAACACAACTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAATAAACAA
131 CATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
77106 TTTCT
196 TTTCT
* *
77111 CAATTTCAATTTCACAGCGAAGAATATTGGACTCAAGACAGCACAAGCTT-AACTTCAC-AGCGA
1 CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAG-TTCAACTTCACGA-CGA
* * *** *
77174 AGGGGCGGCTAACTGTCAACAAACGACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
64 AGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
* * * *
77239 TATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAAC
129 GACATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC
77304 AATTT
194 AATTT
77309 TCCAGTTCCA
Statistics
Matches: 538, Mismatches: 58, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
199 1 0.00
200 535 0.99
201 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (200 bp):
CAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGTTCAACTTCACGACGAAG
GGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGA
CATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA
TTTCT
Found at i:77070 original size:306 final size:300
Alignment explanation
Indices: 76495--77308 Score: 815
Period size: 306 Copynumber: 2.7 Consensus size: 300
76485 GCGAAAGGGC
* * *
76495 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAGCACAAGTT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGACATTGGACTCAAGACAACACAAGTT
76560 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATCTCACAGCCAATTTCA
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAA-----CAATCTCACA-CCAATTTCA
* * *
76625 ACTTCACAACGAAGGACATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGGAGGGACCGCT
125 ACTTCACAACGAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCT
** *
76690 GGTTGTCAACAAACAATTTCTCAATTTCAACTTCACAGTGAAGGATATTAGACTCAAGACAGCAC
190 GGTTGTCAACAAACAATTTCTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACAC
* * * *
76755 AAGTTCAACTTCATGATGAAGGGACCGCTGGTTGTCAATAAACAAT
255 AACTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAATAAACAAT
* * * * *
76801 TTCCCGATTTCCGAGCCGATTTCAACTTCACAACGAAGGACATTGGACTCCAA-ACAACGCAAGT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGACATTGGACT-CAAGACAACACAAGT
*
76865 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AA-AA-AAT-T-TC-CCAATTTCAACTTC
65 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACAATCTCACACCAATTTCAACTTC
* * * * *
76924 GCAACGAAGGATATTGGACTCAAGATAGCACAAGTTCAACTTCACGATGAAGGGACCGCTGGTTG
130 ACAACGAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * * *
76989 TCAATAAATAATTTCCCGATTTGAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
195 TCAACAAACAATTT--C----T------CAATTTCAACTTCACAACGAAGGATATTAGACTCAAG
77054 ACAACACAACTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAATAAACAAT
248 ACAACACAACTTCAACTTCACGACGAAGGGACCGCTGGCTGTCAATAAACAAT
* * * * * *
77107 TT--C----T------CAATTTCAATTTCACAGCGAAGAATATTGGACTCAAGACAGCACAAGCT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGACATTGGACTCAAGACAACACAAG-T
* * *** * * *
77160 T-AACTTCAC-AGCGAAGGGGCGGCTAACTGTCAACAAACGACTTCCCAATTTCAGAGCCAATTT
65 TCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAAC-A----ACAATCTCACA-CCAATTT
* * * * *
77223 CAACTTCACAACGAAGTATATTGGACTCCAGACAACACAAGTTCAACTTCACAACGAAGGGACGG
123 CAACTTCACAACGAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCG
77288 CTGGTTGTCAACAAACAATTT
188 CTGGTTGTCAACAAACAATTT
77309 TCCAGTTCCA
Statistics
Matches: 427, Mismatches: 53, Indels: 56
0.80 0.10 0.10
Matches are distributed among these distances:
293 4 0.01
294 145 0.34
295 4 0.01
296 2 0.00
297 2 0.00
298 3 0.01
300 2 0.00
302 3 0.01
303 1 0.00
304 3 0.01
305 2 0.00
306 253 0.59
307 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (300 bp):
TTCCCAATTTCAGAGCCAATTTCAACTTCACAACAAAGGACATTGGACTCAAGACAACACAAGTT
CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACAATCTCACACCAATTTCAACTTCA
CAACGAAGGACATTGGACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
CAACAAACAATTTCTCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGACAACACAACTTC
AACTTCACGACGAAGGGACCGCTGGCTGTCAATAAACAAT
Found at i:79550 original size:23 final size:23
Alignment explanation
Indices: 79492--79550 Score: 57
Period size: 26 Copynumber: 2.4 Consensus size: 23
79482 TTATATTTAC
* *
79492 TTTATTTTTTATTTCTTTTCTTA
1 TTTATTTATTATTTCTTTTATTA
79515 TTTCATTTGTATTACTTTC-TTTATTA
1 TTT-A-TT-TATTA-TTTCTTTTATTA
79541 TTTATTTATT
1 TTTATTTATT
79551 TCATCTCTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
23 7 0.23
24 3 0.10
25 3 0.10
26 13 0.43
27 4 0.13
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTATTTATTATTTCTTTTATTA
Found at i:81980 original size:2 final size:2
Alignment explanation
Indices: 81973--82007 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
81963 ATTAAATAAT
81973 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
82008 TATTTAATTC
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:82175 original size:2 final size:2
Alignment explanation
Indices: 82168--82204 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
82158 TTTTATGTTT
82168 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
82205 TATTTTTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:82437 original size:15 final size:15
Alignment explanation
Indices: 82417--82452 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
82407 CCCGCCCCAT
*
82417 CCGCCCTACATCCGC
1 CCGCCCCACATCCGC
82432 CCGCCCCACATCCGC
1 CCGCCCCACATCCGC
82447 CCGCCC
1 CCGCCC
82453 AGTTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.67, G:0.14, T:0.08
Consensus pattern (15 bp):
CCGCCCCACATCCGC
Found at i:82982 original size:16 final size:15
Alignment explanation
Indices: 82958--82993 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
82948 ATTATATAAA
*
82958 ATATAATGAATTATTT
1 ATATTATGAATTA-TT
82974 ATATTATGAATTATT
1 ATATTATGAATTATT
82989 ATATT
1 ATATT
82994 TTTTATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
ATATTATGAATTATT
Found at i:83144 original size:15 final size:15
Alignment explanation
Indices: 83124--83176 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
83114 AACCGGGTAT
*
83124 CGGGTACCCGATTAG
1 CGGGTACCCGATTAC
* **
83139 CGGGTATCCGCAAAATC
1 CGGGTACCCG-ATTA-C
83156 CGGGTACCCGATTAC
1 CGGGTACCCGATTAC
83171 CGGGTA
1 CGGGTA
83177 TCCGTAACAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 16 0.55
16 4 0.14
17 9 0.31
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.19
Consensus pattern (15 bp):
CGGGTACCCGATTAC
Found at i:83165 original size:32 final size:32
Alignment explanation
Indices: 83124--83192 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
83114 AACCGGGTAT
*
83124 CGGGTACCCGATTAGCGGGTATCCGCAAAATC
1 CGGGTACCCGATTACCGGGTATCCGCAAAATC
* *
83156 CGGGTACCCGATTACCGGGTATCCGTAACATC
1 CGGGTACCCGATTACCGGGTATCCGCAAAATC
83188 CGGGT
1 CGGGT
83193 CGGGACACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.20
Consensus pattern (32 bp):
CGGGTACCCGATTACCGGGTATCCGCAAAATC
Found at i:90931 original size:18 final size:18
Alignment explanation
Indices: 90910--90972 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 18
90900 TATTTTAATT
*
90910 AATGAACCAGCTTTATTA
1 AATGAACTAGCTTTATTA
90928 AATGAAACTAGC-TTACTTA
1 AATG-AACTAGCTTTA-TTA
*
90947 AATGAAGTAGCTTT-TTA
1 AATGAACTAGCTTTATTA
90964 AATGAACTA
1 AATGAACTA
90973 TATGTATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 11 0.28
18 13 0.33
19 15 0.38
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (18 bp):
AATGAACTAGCTTTATTA
Found at i:90947 original size:19 final size:18
Alignment explanation
Indices: 90925--90969 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
90915 ACCAGCTTTA
90925 TTAAATGAAACTAGCTTAC
1 TTAAATGAAACTAGCTT-C
* *
90944 TTAAATG-AAGTAGCTTT
1 TTAAATGAAACTAGCTTC
90961 TTAAATGAA
1 TTAAATGAA
90970 CTATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 7 0.30
18 9 0.39
19 7 0.30
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (18 bp):
TTAAATGAAACTAGCTTC
Found at i:93806 original size:3 final size:3
Alignment explanation
Indices: 93798--93893 Score: 149
Period size: 3 Copynumber: 32.0 Consensus size: 3
93788 ATTTATTTAT
*
93798 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
93846 TTA TTA TTA TAA TTA TTA TAA TTA TTA -TA TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
93891 TTA
1 TTA
93894 AAAAAATATT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
2 2 0.02
3 80 0.94
4 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:96129 original size:26 final size:27
Alignment explanation
Indices: 96077--96134 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
96067 TAATTCTTTC
*
96077 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATAC-TATTA
* *
96105 TTTTCATAATATTTATATGTA-TATTA
1 TTTTCAAAATATTTATATATACTATTA
96131 TTTT
1 TTTT
96135 ATTAATGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATACTATTA
Found at i:107238 original size:16 final size:17
Alignment explanation
Indices: 107217--107264 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
107207 TATTTTCTTT
*
107217 AAATTCAATTTATTTG-
1 AAATTCAATTTATTCGA
*
107233 AGATTCAATATT-TTCGA
1 AAATTCAAT-TTATTCGA
107250 AAATTCAATTTATTC
1 AAATTCAATTTATTC
107265 TTTTATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (17 bp):
AAATTCAATTTATTCGA
Found at i:107759 original size:115 final size:114
Alignment explanation
Indices: 107557--107895 Score: 565
Period size: 115 Copynumber: 3.0 Consensus size: 114
107547 TACCACATTA
*
107557 TCATAGTAAAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
107622 TTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATTTGC
66 TTTGGTATGAA-CCCAAAAACCAATCATTGGATTTGAAAGATGAATTTGC
107672 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
107737 TTTGGTATGAACCCTAAAAACCAATCATTGGATTTGAAAGATGAATTTGC
66 TTTGGTATGAACCC-AAAAACCAATCATTGGATTTGAAAGATGAATTTGC
*
107787 TCATAGTAGAAATAA-AGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 TCATAGTAGAAATAAGA-AGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * * *
107851 GTTCGGTAGGAA-CCACAGAACCAATCATTAGAATTGAAAGATGAA
65 GTTTGGTATGAACCCA-AAAACCAATCATTGGATTTGAAAGATGAA
107896 CTGCATGATC
Statistics
Matches: 214, Mismatches: 7, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
113 1 0.00
114 32 0.15
115 181 0.85
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (114 bp):
TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTTGGTATGAACCCAAAAACCAATCATTGGATTTGAAAGATGAATTTGC
Found at i:108852 original size:113 final size:113
Alignment explanation
Indices: 108582--109467 Score: 1300
Period size: 113 Copynumber: 8.0 Consensus size: 113
108572 GCAAAGATTA
* ** * * *
108582 AAATCCATCATTCAATGGATCAACATTTCCAGTTCGAGTTCATAATAAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
108647 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-C--TT-TTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * *
108691 AAATTCATCACTCGGTGAATCAACATTTCCAGTTCGAG------ATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
108750 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
108798 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
108863 AAGGAATAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
108911 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
108976 AAGGAAGAACAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
109024 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
109089 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
109137 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
109202 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * * * **
109250 AAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATGATGAGAAGAACTCGTCAT-TT
1 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATC-TGAA
* * *
109314 GAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
65 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
* * * * **** *
109362 AAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCAT-T--TG
1 AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* **
109424 AA-GAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
109468 CATAATTTTA
Statistics
Matches: 724, Mismatches: 42, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
103 58 0.08
104 1 0.00
106 2 0.00
107 35 0.05
109 75 0.10
110 1 0.00
112 91 0.13
113 460 0.64
114 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
AAATTCATCATTTGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
Found at i:109604 original size:124 final size:124
Alignment explanation
Indices: 109387--109679 Score: 375
Period size: 124 Copynumber: 2.4 Consensus size: 124
109377 TGGATCAGCT
*
109387 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATTTG---AAG-AAGAAGAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGA
* * * * * * * * *
109448 AGAGCTTGTTCAACCTTTTGCATAATTTTATCACAGAAGGAGATATATTAGCATCAACC
66 AGAGCTTATTCAACCTTTTGAATAACTCTATCACAAAAGGAAATAGATCAACATCAACC
*
109507 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGA
* * *
109572 AGAGCTTATTCAACCTTTTGAATGACTCTATCACAAAAGGAAATAGGTCAACATCATCC
66 AGAGCTTATTCAACCTTTTGAATAACTCTATCACAAAAGGAAATAGATCAACATCAACC
*
109631 ---CCAGCGGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAGAAGAA
1 TTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAA-AAAGA-AAGAA
109680 TTTATTCAAC
Statistics
Matches: 151, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
120 36 0.24
121 4 0.03
122 31 0.21
123 8 0.05
124 72 0.48
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (124 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCACAATGAGA
AGAGCTTATTCAACCTTTTGAATAACTCTATCACAAAAGGAAATAGATCAACATCAACC
Found at i:109844 original size:3 final size:3
Alignment explanation
Indices: 109836--109910 Score: 107
Period size: 3 Copynumber: 25.0 Consensus size: 3
109826 ATTTATTTAT
* * *
109836 TTA TTA TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
109884 TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
109911 AAAAAATATT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
2 2 0.03
3 59 0.92
4 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:110410 original size:16 final size:16
Alignment explanation
Indices: 110373--110411 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
110363 TGAGCAACCA
110373 ACAGCAAACCCAAAGC
1 ACAGCAAACCCAAAGC
*
110389 AGAGCAAACCCACAA-C
1 ACAGCAAACCCA-AAGC
110405 ACAGCAA
1 ACAGCAA
110412 CCAAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.51, C:0.36, G:0.13, T:0.00
Consensus pattern (16 bp):
ACAGCAAACCCAAAGC
Found at i:113873 original size:635 final size:635
Alignment explanation
Indices: 112659--113934 Score: 2347
Period size: 635 Copynumber: 2.0 Consensus size: 635
112649 TCATGGTGGG
*
112659 GTTCGAAATAAACAAGCACAAAACAAGTTTCATTCGTTCCTTACAACCCAATAATAAAATATGAA
1 GTTCGAAATAAACAAGCACAAAACAAGTTTCATTCGTTCCTTACAACCCAATAACAAAATATGAA
* *
112724 AGCAAAGAACTAAGAGGAGGAGAGAAAGCCTTCGACGTGCACTGCCCAATGCTTTCCGGCCACCA
66 AGCAAAAAACTAAGAGGAGGAGAGAAAGCCTTCGACGTGCACTGCCCAATGCTTCCCGGCCACCA
*
112789 AGCACTGCTCCTAGAGAACTGGCTCCTCTCGGATGCTCAGGATGCTACTCCCTCAGGCTTGTCAA
131 AGCACTGCTCCTAGAGAACTGGCTCCTCTCGGATGCTCAGGATGCCACTCCCTCAGGCTTGTCAA
* *
112854 GGAGAAATGCCTCGGCAAGTAGGATTGTCGGAGAAAGATGACACATTCTCTCTCTAACTTTTTAA
196 GGAGAAATGCCTCGGCAAGTAGGATTGACGGAGAAAGATGACACATTCTCTCTATAACTTTTTAA
*
112919 GCTCAAATCTGCATGGAACCAAAGTCCTCTTCATTGTGGCTTCATCCTCTATTTATAGGGGAAAA
261 GCTCAAATCTACATGGAACCAAAGTCCTCTTCATTGTGGCTTCATCCTCTATTTATAGGGGAAAA
* *
112984 TTAACCCTAGGACTTGGTGTTGAAATTCCTAGGAAACCCTAAACCATGCTTAAATCACATGGGTA
326 TTAACCCTAGGACTTGGTGTTGAAATTCCTAGGAAACCCCAAACCATACTTAAATCACATGGGTA
* *
113049 TCGGGCAGAGCATAGTAGTGATCCAGTCTGGGTTACCGACTGAGTACCCAGCATAATCCCGCTGC
391 TCGGGCAGAGCATAGTAGTGATCCAGTCTGGGTTACCGACTGAGTACCCAGCATAATCCCACTAC
*
113114 AGACGCCTAAGGACAGACAGGATCTGCAGAGTAGGCTGCATGGTCAGCAGGATCGGTTGTAGCAG
456 AGACGCCTAAGGACAGACAGGATCTGCAGAGTAGGCTGCATGGTCAGCAGGATCGGCTGTAGCAG
*
113179 TGCCCACCCCTCCAGGCGGATCTTCGAGGCAGATTTATCGGGCAGAGCTCTCGGAAAGTCGGAGA
521 TGCCCACCCCTCCAGGCGGATCTTCGAGGCAGATTTATCGGGCAGAGCTCTCAGAAAGTCGGAGA
113244 TAGTTGGATTCAAAATATCTTCTCACACTTTAAGCGCTATCAAAATGCTA
586 TAGTTGGATTCAAAATATCTTCTCACACTTTAAGCGCTATCAAAATGCTA
*
113294 GTTCGAAATAAACAAGCACAAAGCAAGTTTCATTCGTTCCTTACAACCCAATAACAAAATATGAA
1 GTTCGAAATAAACAAGCACAAAACAAGTTTCATTCGTTCCTTACAACCCAATAACAAAATATGAA
113359 AGCAAAAAACTAAGAGGAGGAGAGAAAGCCTTCGACGTGCACTGCCCAATGCTTCCCGGCCACCA
66 AGCAAAAAACTAAGAGGAGGAGAGAAAGCCTTCGACGTGCACTGCCCAATGCTTCCCGGCCACCA
113424 AGCACTGCTCCTAGAGAACTGGCTCCTCTCGGATGCTCAGGATGCCACTCCCTCAGGCTTGTCAA
131 AGCACTGCTCCTAGAGAACTGGCTCCTCTCGGATGCTCAGGATGCCACTCCCTCAGGCTTGTCAA
113489 GGAGAAATGCCTCGGCAAGTAGGATTGACGGAGAAAGATGACACATTCTCTCTATAACTTTTTAA
196 GGAGAAATGCCTCGGCAAGTAGGATTGACGGAGAAAGATGACACATTCTCTCTATAACTTTTTAA
*
113554 GCTCAAATCTACGTGGAACCAAAGTCCTCTTCATTGTGGCTTCATCCTCTATTTATAGGGGAAAA
261 GCTCAAATCTACATGGAACCAAAGTCCTCTTCATTGTGGCTTCATCCTCTATTTATAGGGGAAAA
113619 TTAACCCTAGGACTTGGTGTTGAAATTCCTAGGAAACCCCAAACCATACTTAAATCACATGGGTA
326 TTAACCCTAGGACTTGGTGTTGAAATTCCTAGGAAACCCCAAACCATACTTAAATCACATGGGTA
* * *
113684 TCGGGTAGAGCATAGTAGTGATCCAGTCTGGGTTACCGACTGAGTACCCGGCATAATCCTACTAC
391 TCGGGCAGAGCATAGTAGTGATCCAGTCTGGGTTACCGACTGAGTACCCAGCATAATCCCACTAC
113749 AGACGCCTAAGGACAGACAGGATCTGCAGAGTAGGCTGCATGGTCAGCAGGATCGGCTGTAGCAG
456 AGACGCCTAAGGACAGACAGGATCTGCAGAGTAGGCTGCATGGTCAGCAGGATCGGCTGTAGCAG
*
113814 TGCCCACCCCTCCAGGCGGATCTTCGAGGCAGATTTCTCGGGCAGAGCTCTCAGAAAGTCGGAGA
521 TGCCCACCCCTCCAGGCGGATCTTCGAGGCAGATTTATCGGGCAGAGCTCTCAGAAAGTCGGAGA
* * *
113879 TAGTTGGCTTCAAAATATCTTCTCGCACTTTAAGCGCTATCGAAATGCTA
586 TAGTTGGATTCAAAATATCTTCTCACACTTTAAGCGCTATCAAAATGCTA
113929 G-TCGAA
1 GTTCGAA
113935 CTTGGCAATT
Statistics
Matches: 619, Mismatches: 22, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
634 5 0.01
635 614 0.99
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (635 bp):
GTTCGAAATAAACAAGCACAAAACAAGTTTCATTCGTTCCTTACAACCCAATAACAAAATATGAA
AGCAAAAAACTAAGAGGAGGAGAGAAAGCCTTCGACGTGCACTGCCCAATGCTTCCCGGCCACCA
AGCACTGCTCCTAGAGAACTGGCTCCTCTCGGATGCTCAGGATGCCACTCCCTCAGGCTTGTCAA
GGAGAAATGCCTCGGCAAGTAGGATTGACGGAGAAAGATGACACATTCTCTCTATAACTTTTTAA
GCTCAAATCTACATGGAACCAAAGTCCTCTTCATTGTGGCTTCATCCTCTATTTATAGGGGAAAA
TTAACCCTAGGACTTGGTGTTGAAATTCCTAGGAAACCCCAAACCATACTTAAATCACATGGGTA
TCGGGCAGAGCATAGTAGTGATCCAGTCTGGGTTACCGACTGAGTACCCAGCATAATCCCACTAC
AGACGCCTAAGGACAGACAGGATCTGCAGAGTAGGCTGCATGGTCAGCAGGATCGGCTGTAGCAG
TGCCCACCCCTCCAGGCGGATCTTCGAGGCAGATTTATCGGGCAGAGCTCTCAGAAAGTCGGAGA
TAGTTGGATTCAAAATATCTTCTCACACTTTAAGCGCTATCAAAATGCTA
Found at i:114712 original size:11 final size:12
Alignment explanation
Indices: 114696--114723 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
114686 CACAACTTTA
114696 TTTTTTTCATTT
1 TTTTTTTCATTT
114708 TTTTTTTCATTT
1 TTTTTTTCATTT
114720 TTTT
1 TTTT
114724 AGTGGGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTTTTCATTT
Found at i:122300 original size:66 final size:66
Alignment explanation
Indices: 122163--122314 Score: 218
Period size: 67 Copynumber: 2.3 Consensus size: 66
122153 GCAATTGAGA
* *
122163 AACTTAAGGGGG-GAAGTGGGTGCAAAAATAGATGGAGTGGTGAAAGAAGTTGTGGAATTGAGGG
1 AACTTAAGGGGGTG-A-TGGGTGAAAAAATAGATGGAGTGGTGAAAGAAGTTGTGAAATTGAGGG
122227 GTG
64 GTG
* * *
122230 AACTTAAGGGGGTGATGGGTGGAAAAAATTGATGGAGTGGTGAAGGAAGTTGTGAAATTTAGGGG
1 AACTTAAGGGGGTGATGGGT-GAAAAAATAGATGGAGTGGTGAAAGAAGTTGTGAAATTGAGGGG
122295 -G
65 TG
122296 AACTTAAGGGGGTGATGGG
1 AACTTAAGGGGGTGATGGG
122315 AGTGATTGAT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
66 25 0.32
67 52 0.67
68 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.43, T:0.22
Consensus pattern (66 bp):
AACTTAAGGGGGTGATGGGTGAAAAAATAGATGGAGTGGTGAAAGAAGTTGTGAAATTGAGGGGT
G
Found at i:124134 original size:27 final size:27
Alignment explanation
Indices: 124098--124160 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
124088 ATATATGGAG
*
124098 ATCGTTGTCTGCATTATTCCAAATGTC
1 ATCGTTGTCTACATTATTCCAAATGTC
* *
124125 GTCGTTGTCTATATTATTCCAAATGTC
1 ATCGTTGTCTACATTATTCCAAATGTC
124152 ATCGTTGTC
1 ATCGTTGTC
124161 ATAAGACGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.43
Consensus pattern (27 bp):
ATCGTTGTCTACATTATTCCAAATGTC
Found at i:130220 original size:20 final size:21
Alignment explanation
Indices: 130195--130247 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
130185 TCGACAGGGG
* *
130195 GTATCGATACCCTT-ATAGGC
1 GTATCGATACCATTCAAAGGC
*
130215 GTATCGATACACATTCAAAGGG
1 GTATCGATAC-CATTCAAAGGC
130237 GTATCGATACC
1 GTATCGATACC
130248 TAGCAAGGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.36
21 4 0.14
22 14 0.50
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (21 bp):
GTATCGATACCATTCAAAGGC
Found at i:136734 original size:199 final size:199
Alignment explanation
Indices: 136021--137070 Score: 1593
Period size: 200 Copynumber: 5.3 Consensus size: 199
136011 TGTTTTCAAC
*
136021 ACATAAAGTATCGATACTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGAG
1 ACATAAAGTATCAATACTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGAG
* * * *
136086 ATGCATGCATAAAGTATCGATACATGTATGAGAAGTATCGATCTTTAAAACATCAGAACCTATAA
66 ATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCGATAA
*
136151 TTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATATCGGTTTAATGAGAGAATA-
131 TTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAG
136215 -TAA
196 GTAA
* * * * *
136218 ACATAAAGTATCAATACTTTTTTAAATAGTATCGATATTTTTTGTCTAGTATAAATCCCAGATGA
1 ACATAAAGTATCAATAC-TTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGA
* * * *
136283 GATGCATGCACAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCGAAATCGATA
65 GATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCGATA
* ** *
136348 ATTATAAAGTAATAGATAAATTTACAATACAACCGGTAAAAATATATCGGTTTAATGAGAGAATA
130 ATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATA
136413 GGTAA
195 GGTAA
* *
136418 ACATAAAGTATCAATATTTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCTCAAACGA
1 ACATAAAGTATCAATA-CTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGA
* * * *
136483 GATGCACGCATAAAGTATCGATACGTGTATGAGAAGTATCGATCCATAAAACATCAAAATCTATA
65 GATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCGATA
* *
136548 ATTATAAAGTAATAGGTAAATTTAAAATGTAACCGATAAAAATATACCGGTTTAATGAGAGAATA
130 ATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATA
**
136613 AATAA
195 GGTAA
*** *
136618 ACATAAAGTATTGGTACTTTTTAATTAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGAG
1 ACATAAAGTATCAATACTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGAG
* * *
136683 ATGCACGCATAAAGTATCGATACATGTATGAGAAATATCAATCCTTAAAACATCGAAACCGATAA
66 ATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCGATAA
* * *
136748 TTATAAAGTAATAGGTAAATTTACAATGTAACCGATAAAAATATACTGGTTTAATGAGAAAATAG
131 TTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAG
136813 GTAA
196 GTAA
* * * *
136817 ACATAAAGTATCGATATTTTTTATAAATAATATCGATA-TTTTTTTCCAGTATGAATCCCAAACG
1 ACATAAAGTATCAATA-CTTTT-TAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACG
* *
136881 AGATGCACGCATAAAGTATCGATATATGTATGAGAAGTATCGATCCTTAAAACATCAAAGCCGAT
64 AGATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCGAT
* *
136946 AATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACTGATTTAATGAGAGAAT
129 AATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAAT
*
137011 ATGTAA
194 AGGTAA
* *
137017 ACATAAAGTATCAATACTTTTTAAATAGTATCGATGCTTTTTTTCCAGTATGAA
1 ACATAAAGTATCAATACTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAA
137071 AACACGTATA
Statistics
Matches: 773, Mismatches: 73, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
197 16 0.02
198 176 0.23
199 203 0.26
200 365 0.47
201 13 0.02
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (199 bp):
ACATAAAGTATCAATACTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGAG
ATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCGATAA
TTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATAG
GTAA
Found at i:136836 original size:399 final size:398
Alignment explanation
Indices: 136021--137070 Score: 1658
Period size: 399 Copynumber: 2.6 Consensus size: 398
136011 TGTTTTCAAC
*
136021 ACATAAAGTATCGATA-CTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGA
1 ACATAAAGTATCGATATTTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGA
* * *
136085 GATGCATGCATAAAGTATCGATACATGTATGAGAAGTATCGATCTTTAAAACATCAGAACCTATA
66 GATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCTATA
*
136150 ATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATATCGGTTTAATGAGAGAAT-
131 ATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATA
* * * *
136214 ATAAACATAAAGTATCAATACTTTTTTAAATAGTATCGATATTTTTTGTCTAGTATAAATCCCAG
196 ATAAACATAAAGTATCAATAC-TTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAA
* * * * *
136279 ATGAGATGCATGCACAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCGAAATC
260 ACGAGATGCACGCACAAAGTATCGATACATGTATGAGAAATATCAATCCTTAAAACATCGAAACC
* *
136344 GATAATTATAAAGTAATAGATAAATTTACAATACAACCGGTAAAAATATATCGGTTTAATGAGAG
325 GATAATTATAAAGTAATAGATAAATTTACAATACAACCGATAAAAATATATCGGTTTAATGAGAA
136409 AATAGGTAA
390 AATAGGTAA
* *
136418 ACATAAAGTATCAATATTTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCTCAAACGA
1 ACATAAAGTATCGATATTTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGA
* * *
136483 GATGCACGCATAAAGTATCGATACGTGTATGAGAAGTATCGATCCATAAAACATCAAAATCTATA
66 GATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCTATA
* *
136548 ATTATAAAGTAATAGGTAAATTTAAAATGTAACCGATAAAAATATACCGGTTTAATGAGAGAATA
131 ATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAAT-
*** *
136613 AATAAACATAAAGTATTGGTACTTTTTAATTAGTATCGATACTTTTTGTCCAGTATGAATCCCAA
195 AATAAACATAAAGTATCAATACTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAA
*
136678 ACGAGATGCACGCATAAAGTATCGATACATGTATGAGAAATATCAATCCTTAAAACATCGAAACC
260 ACGAGATGCACGCACAAAGTATCGATACATGTATGAGAAATATCAATCCTTAAAACATCGAAACC
* **
136743 GATAATTATAAAGTAATAGGTAAATTTACAATGTAACCGATAAAAATATA-CTGGTTTAATGAGA
325 GATAATTATAAAGTAATAGATAAATTTACAATACAACCGATAAAAATATATC-GGTTTAATGAGA
136807 AAATAGGTAA
389 AAATAGGTAA
* *
136817 ACATAAAGTATCGATATTTTTTATAAATAATATCGATA-TTTTTTTCCAGTATGAATCCCAAACG
1 ACATAAAGTATCGATATTTTTT-TAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACG
* * *
136881 AGATGCACGCATAAAGTATCGATATATGTATGAGAAGTATCGATCCTTAAAACATCAAAGCCGAT
65 AGATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCTAT
* *
136946 AATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACTGATTTAATGAGAGAAT
130 AATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAAT
* * *
137011 ATGTAAACATAAAGTATCAATACTTTTTAAATAGTATCGATGCTTTTTTTCCAGTATGAA
195 A-ATAAACATAAAGTATCAATACTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAA
137071 AACACGTATA
Statistics
Matches: 595, Mismatches: 52, Indels: 10
0.91 0.08 0.02
Matches are distributed among these distances:
397 15 0.03
398 168 0.28
399 380 0.64
400 32 0.05
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (398 bp):
ACATAAAGTATCGATATTTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAACGA
GATGCACGCATAAAGTATCGATACATGTATGAGAAGTATCGATCCTTAAAACATCAAAACCTATA
ATTATAAAGTAATAGGTAAATTTACAATGTAACCGGTAAAAATATACCGGTTTAATGAGAGAATA
ATAAACATAAAGTATCAATACTTTTTAAATAGTATCGATACTTTTTGTCCAGTATGAATCCCAAA
CGAGATGCACGCACAAAGTATCGATACATGTATGAGAAATATCAATCCTTAAAACATCGAAACCG
ATAATTATAAAGTAATAGATAAATTTACAATACAACCGATAAAAATATATCGGTTTAATGAGAAA
ATAGGTAA
Found at i:139916 original size:24 final size:23
Alignment explanation
Indices: 139884--139946 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
139874 TTTCATGTTC
* *
139884 ATTTCAATTTTAATTGGAGTTTCA
1 ATTTAAATTTAAATT-GAGTTTCA
*
139908 ATTTAAATTTCAAATTGAGTTTGA
1 ATTTAAATTT-AAATTGAGTTTCA
139932 ATTTAAATTTAAATT
1 ATTTAAATTTAAATT
139947 TTGGTTCCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.14
24 26 0.74
25 4 0.11
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (23 bp):
ATTTAAATTTAAATTGAGTTTCA
Found at i:139918 original size:30 final size:30
Alignment explanation
Indices: 139884--139947 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
139874 TTTCATGTTC
* * * *
139884 ATTTCAATTTTAATTGGAGTTTCAATTTAA
1 ATTTCAAATTGAATTGGAATTTAAATTTAA
* *
139914 ATTTCAAATTGAGTTTGAATTTAAATTTAA
1 ATTTCAAATTGAATTGGAATTTAAATTTAA
139944 ATTT
1 ATTT
139948 TGGTTCCACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (30 bp):
ATTTCAAATTGAATTGGAATTTAAATTTAA
Found at i:144538 original size:2 final size:2
Alignment explanation
Indices: 144533--144578 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
144523 TGCACACAAA
144533 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
144575 AT AT
1 AT AT
144579 TCCATACTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:144830 original size:2 final size:2
Alignment explanation
Indices: 144823--144880 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
144813 AAATGTATCG
* *
144823 AC AC AC AC AC AC AC AC -C AC TC AC AC AC AC AT AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
144864 AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC A
144881 TATATATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.48, C:0.48, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:145433 original size:225 final size:224
Alignment explanation
Indices: 145043--145529 Score: 651
Period size: 225 Copynumber: 2.2 Consensus size: 224
145033 ACAACTACTT
* * *
145043 GTTATGTTATCATC-GTATTTCTAAACCTCCATCAGCTTAAATTTTGTTAACATTTAGGCGTTAC
1 GTTATGTTATCGTCAG-ATTTCTAAACCTCCATCAGCTTAAACTTTGGTAACATTTAGGCGTTAC
* * *
145107 CTAATATGTTGATCATACTGATAACAAATTAAGTAATTAACCTATTTTGTTATCATCGGATTTAA
65 CTAATATGTTGATAATACTAATAACAAATTAAATAATTAACCTATTTTGTTATCATCGGATTTAA
* * * * *
145172 AGGCCCCATCAGCTTTAATAATGTGATACCTATTACGTTACATAAG-TTCTACCTAATATGTTAT
130 AAGCCCCATCAGCTTTAAAAAGGCGATACCTATTACGTTACATAAGCGT-TACCTAATATGTTAT
*
145236 TATGCTTAATAATGTTTAC-AATAATTAACTG
194 TATGCTTAATAATGTTT-CTAATAATTAACCG
** * *
145267 GTTATGTTATCGTCAGATTTCTAAGGCTCTATCAGCTTAAACTTTGGTGACATTTTAGGCGTTAC
1 GTTATGTTATCGTCAGATTTCTAAACCTCCATCAGCTTAAACTTTGGTAACA-TTTAGGCGTTAC
* *
145332 CTAATATGTTGATAATACTAATAACAAATTAAATAATTAACTTATTTTGTTATCGTCGGATTTAC
65 CTAATATGTTGATAATACTAATAACAAATTAAATAATTAACCTATTTTGTTATCATCGGATTTA-
* * *
145397 AAAGCCCCATCAGC-TTAAAAAGGCGCTATCTATTACGTTATATAAGCGTTACCTAATATGTTAT
129 AAAGCCCCATCAGCTTTAAAAAGGCGATACCTATTACGTTACATAAGCGTTACCTAATATGTTAT
* *
145461 TATGCTTGATAATGTTTCTAGTAATTAACCG
194 TATGCTTAATAATGTTTCTAATAATTAACCG
* * *
145492 ATTATGTTATCGTCAGATTTCCAAAGCC-CCGTCAGCTT
1 GTTATGTTATCGTCAGATTTCTAAA-CCTCCATCAGCTT
145530 TAAAAATGAG
Statistics
Matches: 228, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
224 44 0.19
225 169 0.74
226 15 0.07
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (224 bp):
GTTATGTTATCGTCAGATTTCTAAACCTCCATCAGCTTAAACTTTGGTAACATTTAGGCGTTACC
TAATATGTTGATAATACTAATAACAAATTAAATAATTAACCTATTTTGTTATCATCGGATTTAAA
AGCCCCATCAGCTTTAAAAAGGCGATACCTATTACGTTACATAAGCGTTACCTAATATGTTATTA
TGCTTAATAATGTTTCTAATAATTAACCG
Found at i:145579 original size:118 final size:117
Alignment explanation
Indices: 145365--145623 Score: 374
Period size: 118 Copynumber: 2.2 Consensus size: 117
145355 ACAAATTAAA
** * * * *
145365 TAATTAACTTATTTTGTTATCGTCGGATTTACAAAGCCCCATCAGCTTAAAAAGGCGCTATCTAT
1 TAATTAACCGATTATGTTATCGTCAGATTTACAAAGCCCCATCAGCTTAAAAAGGAGCTACCTAT
* *
145430 TACGTTATATAAGCGTTACCTAATATGTTATTATGCTTGATAATGTTTCTAG
66 TACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAG
* * *
145482 TAATTAACCGATTATGTTATCGTCAGATTTCCAAAGCCCCGTCAGCTTTAAAAATGAGCTACCTA
1 TAATTAACCGATTATGTTATCGTCAGATTTACAAAGCCCCATCAGC-TTAAAAAGGAGCTACCTA
* *
145547 TTACGTTATATAATCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCCAG
65 TTACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAG
* *
145600 TAATTAATCGGTTATGTTATCGTC
1 TAATTAACCGATTATGTTATCGTC
145624 TATATTTTTT
Statistics
Matches: 126, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
117 40 0.32
118 86 0.68
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (117 bp):
TAATTAACCGATTATGTTATCGTCAGATTTACAAAGCCCCATCAGCTTAAAAAGGAGCTACCTAT
TACGTTATATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAG
Found at i:146159 original size:22 final size:22
Alignment explanation
Indices: 146132--146178 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
146122 AATGTGTGTG
*
146132 TATATACATACATACATATATA
1 TATATACATACATACATATACA
*
146154 TATATATATACATACATATACA
1 TATATACATACATACATATACA
146176 TAT
1 TAT
146179 GTATGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (22 bp):
TATATACATACATACATATACA
Found at i:146166 original size:26 final size:26
Alignment explanation
Indices: 146130--146227 Score: 106
Period size: 26 Copynumber: 3.7 Consensus size: 26
146120 GTAATGTGTG
*
146130 TGTATATACATACATACATATATATA
1 TGTATATACATACATACATATATGTA
* * *
146156 TATATATACATACATATACATATGTA
1 TGTATATACATACATACATATATGTA
* * * *
146182 TGTATATATATATATATATGTATGTA
1 TGTATATACATACATACATATATGTA
*
146208 TGTATATACACACATTACAT
1 TGTATATACATACA-TACAT
146228 CCACATCATT
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 54 0.93
27 4 0.07
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (26 bp):
TGTATATACATACATACATATATGTA
Found at i:146194 original size:22 final size:22
Alignment explanation
Indices: 146169--146215 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
146159 ATATACATAC
146169 ATATACATATGTATGTATATAT
1 ATATACATATGTATGTATATAT
* *
146191 ATATATATATGTATGTATGTAT
1 ATATACATATGTATGTATATAT
146213 ATA
1 ATA
146216 CACACATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (22 bp):
ATATACATATGTATGTATATAT
Found at i:146286 original size:4 final size:4
Alignment explanation
Indices: 146277--146457 Score: 200
Period size: 4 Copynumber: 45.2 Consensus size: 4
146267 TATCATTATC
* * *
146277 TATA TATA TATA TATA TGTA TATA TATA TATG TATG TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * * * * *
146325 TGTA TGTA TATA TACA TTTA TGTA TGTA TATA TATA TATA TATG TATG
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
146373 TATA TATA CATA TATA TATA TATA CATA TATA TATA TACA TACA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * *
146421 TATA TATA TGTA TATA TGTA TATA TGTA TATA TATA T
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA T
146458 TATGTTTTAG
Statistics
Matches: 152, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 152 1.00
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (4 bp):
TATA
Found at i:146300 original size:14 final size:14
Alignment explanation
Indices: 146281--146462 Score: 160
Period size: 14 Copynumber: 13.1 Consensus size: 14
146271 ATTATCTATA
146281 TATATATATATATG
1 TATATATATATATG
146295 TATATATATATATG
1 TATATATATATATG
*
146309 TATGTATATATA--
1 TATATATATATATG
* *
146321 TATATGTATGTA--
1 TATATATATATATG
* *
146333 TATATACATTTATG
1 TATATATATATATG
*
146347 TATGTATATATA--
1 TATATATATATATG
*
146359 TATATATATGTATG
1 TATATATATATATG
*
146373 TATATATACATATATA
1 TATATAT--ATATATG
* *
146389 TATATATACATATA
1 TATATATATATATG
* **
146403 TATATATACATACA
1 TATATATATATATG
146417 TATATATATATATG
1 TATATATATATATG
146431 TATATATGTATATATG
1 TATATA--TATATATG
146447 TATATATATATTATG
1 TATATATATA-TATG
146462 T
1 T
146463 TTTAGTACCT
Statistics
Matches: 140, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
12 28 0.20
14 81 0.58
15 5 0.04
16 26 0.19
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (14 bp):
TATATATATATATG
Found at i:146300 original size:18 final size:18
Alignment explanation
Indices: 146277--146455 Score: 209
Period size: 18 Copynumber: 9.9 Consensus size: 18
146267 TATCATTATC
146277 TATATATATATATATATG
1 TATATATATATATATATG
*
146295 TATATATATATATGTATG
1 TATATATATATATATATG
*
146313 TATATATATATATGTATG
1 TATATATATATATATATG
* *
146331 TATATATACATTTATGTATG
1 TATATAT--ATATATATATG
146351 TATATATATATATATATG
1 TATATATATATATATATG
* *
146369 TATGTATATATACATA--
1 TATATATATATATATATG
* *
146385 TATATATATATACATATA
1 TATATATATATATATATG
* * *
146403 TATATATACATACATATA
1 TATATATATATATATATG
*
146421 TATATATATGTATATATG
1 TATATATATATATATATG
*
146439 TATATATGTATATATAT
1 TATATATATATATATAT
146456 ATTATGTTTT
Statistics
Matches: 143, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
16 15 0.10
18 111 0.78
20 17 0.12
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (18 bp):
TATATATATATATATATG
Found at i:154496 original size:39 final size:37
Alignment explanation
Indices: 154336--154785 Score: 555
Period size: 37 Copynumber: 11.9 Consensus size: 37
154326 ATATATATAG
*
154336 ATATAGTATATAGATTTTT-AAAA-ATTTTGAAAACATAT
1 ATATAATATATAG-TTTTTGAAAACATTTT-AAAA-ATAT
* * *
154374 ATATAATATATAGTTTTTAAAAAACGTTTCAAAAACATAT
1 ATATAATATATAGTTTTT-GAAAACATTT-TAAAA-ATAT
* *
154414 ATATAATATATAGTTTTT-AAAAAATTTTGAAAATAT
1 ATATAATATATAGTTTTTGAAAACATTTTAAAAATAT
*
154450 ATATAATAAATAGTTTTTGAAAACATTTTAAAAACATAT
1 ATATAATATATAGTTTTTGAAAACATTTT-AAAA-ATAT
* *
154489 ATATAATATATAGTTTTTGAAAATATTTTGAAAATAT
1 ATATAATATATAGTTTTTGAAAACATTTTAAAAATAT
* ** * *
154526 ATATAACATATAGTTTTTGAAAATGTTTTGAATATAT
1 ATATAATATATAGTTTTTGAAAACATTTTAAAAATAT
*
154563 ATATAATATATAGTTTTTGAAAACATTTTAAATATAT
1 ATATAATATATAGTTTTTGAAAACATTTTAAAAATAT
** *
154600 ATATAATATATAGTTTTTGAAAATGTTTTGAAAATAT
1 ATATAATATATAGTTTTTGAAAACATTTTAAAAATAT
154637 ATATAATATATAGTTTTTGAAAACATTTTAAAAATATAT
1 ATATAATATATAGTTTTTGAAAACATTTT-AAAA-ATAT
* *
154676 ATATAATATATAGATTTTGAAAATATTTTGAAAAAATAT
1 ATATAATATATAGTTTTTGAAAACATTTT--AAAAATAT
*
154715 ATATAATATATAGTTTTTGAAAACATTTTGAAAATAT
1 ATATAATATATAGTTTTTGAAAACATTTTAAAAATAT
* * *
154752 ATATAATATATAATTTTTGAAAATATTTTTAAAA
1 ATATAATATATAGTTTTTGAAAACATTTTAAAAA
154786 CATTTTCATG
Statistics
Matches: 367, Mismatches: 35, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
36 21 0.06
37 186 0.51
38 28 0.08
39 97 0.26
40 35 0.10
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (37 bp):
ATATAATATATAGTTTTTGAAAACATTTTAAAAATAT
Found at i:154775 original size:76 final size:77
Alignment explanation
Indices: 154336--154785 Score: 602
Period size: 76 Copynumber: 5.9 Consensus size: 77
154326 ATATATATAG
* * *
154336 ATATAGTATATAGATTTTT-AAAA-ATTTTGAAAACATATATATAATATATAGTTTTT-AAAAAA
1 ATATAATATATAG-TTTTTGAAAACATTTTG-AAATATATATATAATATATAGTTTTTGAAAATA
* *
154398 CGTTTCAAAAACATAT
64 -TTTTGAAAAA-ATAT
* * *
154414 ATATAATATATAGTTTTT-AAAAAATTTTGAAA-ATATATATAATAAATAGTTTTTGAAAACATT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAATATATATATAATATATAGTTTTTGAAAATATT
154477 TT-AAAAACATAT
66 TTGAAAAA-ATAT
* * *
154489 ATATAATATATAGTTTTTGAAAATATTTTGAAA-ATATATATAACATATAGTTTTTGAAAATGTT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAATATATATATAATATATAGTTTTTGAAAATATT
*
154553 TTG--AATATAT
66 TTGAAAAAATAT
*
154563 ATATAATATATAGTTTTTGAAAACATTTT-AAATATATATATAATATATAGTTTTTGAAAATGTT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAATATATATATAATATATAGTTTTTGAAAATATT
154627 TTG--AAAATAT
66 TTGAAAAAATAT
* *
154637 ATATAATATATAGTTTTTGAAAACATTTTAAAAATATATATATAATATATAGATTTTGAAAATAT
1 ATATAATATATAGTTTTTGAAAACATTTT-GAAATATATATATAATATATAGTTTTTGAAAATAT
154702 TTTGAAAAAATAT
65 TTTGAAAAAATAT
*
154715 ATATAATATATAGTTTTTGAAAACATTTTGAAA-ATATATATAATATATAATTTTTGAAAATATT
1 ATATAATATATAGTTTTTGAAAACATTTTGAAATATATATATAATATATAGTTTTTGAAAATATT
*
154779 TTTAAAA
66 TTGAAAA
154786 CATTTTCATG
Statistics
Matches: 344, Mismatches: 19, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
73 3 0.01
74 100 0.29
75 30 0.09
76 137 0.40
77 20 0.06
78 54 0.16
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (77 bp):
ATATAATATATAGTTTTTGAAAACATTTTGAAATATATATATAATATATAGTTTTTGAAAATATT
TTGAAAAAATAT
Found at i:156338 original size:11 final size:10
Alignment explanation
Indices: 156310--156337 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
156300 TTCAATATTT
156310 CATTTTTTAA
1 CATTTTTTAA
156320 CATTTTTTAA
1 CATTTTTTAA
156330 CATTTTTT
1 CATTTTTT
156338 TGCCCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (10 bp):
CATTTTTTAA
Found at i:161007 original size:13 final size:13
Alignment explanation
Indices: 160985--161017 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
160975 AATTTTAAGA
*
160985 TTTTATAAATCAT
1 TTTTAGAAATCAT
160998 TTTTAGAAATCAT
1 TTTTAGAAATCAT
161011 TTTTAGA
1 TTTTAGA
161018 GTATATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (13 bp):
TTTTAGAAATCAT
Found at i:161306 original size:64 final size:64
Alignment explanation
Indices: 161231--161384 Score: 177
Period size: 65 Copynumber: 2.4 Consensus size: 64
161221 ACACCCTATT
* * ** *
161231 TCGAATGCATTTTGTGTATCGATG-TATAGCCATGCATCGATGCACTCTTGAAT-TTATTGAAAC
1 TCGAATGCATTTTGTGTACCGATGACATA-CCATAAATCGATGCACTCATGAATCTT-TTGAAAC
161294 A
64 A
**
161295 TCGAATGCATTTTGTGTACCGATGCACATACCATAAATCGATGCACTCATGGCTCTTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATG-ACATACCATAAATCGATGCACTCATGAATCTTTTGAAACA
* * *
161360 TCGAATGTAATTAGTGTACCGATGA
1 TCGAATGCATTTTGTGTACCGATGA
161385 ACCCCTAGTG
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
64 24 0.31
65 48 0.62
66 5 0.06
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACCGATGACATACCATAAATCGATGCACTCATGAATCTTTTGAAACA
Found at i:164129 original size:34 final size:35
Alignment explanation
Indices: 164070--164137 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
164060 TCTTATTTCA
*
164070 TTTCTTTTGAATTCAATTTTCTTTCATTTAGTACT
1 TTTCTTTTGAATTCAATTTTCTTTCATTCAGTACT
*
164105 TTTCTTTTGAATT-AATTTTTTTTCATTCAGTAC
1 TTTCTTTTGAATTCAATTTTCTTTCATTCAGTAC
164138 CTTATTTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (35 bp):
TTTCTTTTGAATTCAATTTTCTTTCATTCAGTACT
Found at i:167694 original size:43 final size:44
Alignment explanation
Indices: 167640--167726 Score: 151
Period size: 43 Copynumber: 2.0 Consensus size: 44
167630 AAAAATATTT
167640 CGCTTAGGGTGAAAACCCGAA-AGAGCACCCTAAGTT-AAAAAAA
1 CGCTTAGGGTGAAAACCCGAATAG-GCACCCTAAGTTGAAAAAAA
167683 CGCTTAGGGTGAAAACCCGAATAGGCACCCTAAGTTGAAAAAAA
1 CGCTTAGGGTGAAAACCCGAATAGGCACCCTAAGTTGAAAAAAA
167727 AGATGTGGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
43 33 0.79
44 9 0.21
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.15
Consensus pattern (44 bp):
CGCTTAGGGTGAAAACCCGAATAGGCACCCTAAGTTGAAAAAAA
Found at i:168935 original size:18 final size:18
Alignment explanation
Indices: 168912--168968 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
168902 CGATTCAAAT
168912 CTTGAACTACGATTTCAA
1 CTTGAACTACGATTTCAA
168930 CTTGAACTACGATTTCAA
1 CTTGAACTACGATTTCAA
*
168948 CTTGAACTACAATTTCAA
1 CTTGAACTACGATTTCAA
168966 CTT
1 CTT
168969 CAAAACGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (18 bp):
CTTGAACTACGATTTCAA
Found at i:169337 original size:39 final size:38
Alignment explanation
Indices: 169294--169699 Score: 434
Period size: 37 Copynumber: 10.9 Consensus size: 38
169284 TATATATAAC
*
169294 ATATAGTATATAGTCTTTT-ATAAA-ATTTTGAAAACATAT
1 ATATAATATATAGT-TTTTGA-AAATATTTTGAAAA-ATAT
* * **
169333 ATATAATATATAGTTTTTTAAAAAACGTTCCGAAAACATAT
1 ATATAATATATAGTTTTTGAAAATA--TTTTGAAAA-ATAT
*
169374 ATATAATATATAGGTTTTGAAAATATTTTG-AAAATAT
1 ATATAATATATAGTTTTTGAAAATATTTTGAAAAATAT
* *
169411 ATATAACATATAGTTTTTGAAAATGTTTTG-AAAATAT
1 ATATAATATATAGTTTTTGAAAATATTTTGAAAAATAT
*
169448 ATATAATATATAGTTTTTTGAAAACATTTT-AAATATATAT
1 ATATAATATATAG-TTTTTGAAAATATTTTGAAA-A-ATAT
* *
169488 ATATAATATATAGTTTTTGGAAATGTTTTG-AAAATAT
1 ATATAATATATAGTTTTTGAAAATATTTTGAAAAATAT
* *
169525 ATATAATATATAGTTTTTGAAAACATTTTAAAAATATAT
1 ATATAATATATAGTTTTTGAAAATATTTTGAAAA-ATAT
169564 ATATAATATATAGTTTTTGAAAATATTTT-AAAAATAT
1 ATATAATATATAGTTTTTGAAAATATTTTGAAAAATAT
* *
169601 ATATAATATATAGATTTT-CAAA-A---T-----ATAT
1 ATATAATATATAGTTTTTGAAAATATTTTGAAAAATAT
*
169629 ATATAATATATAGTTTTTGAAAACATTTTG-AAAATAT
1 ATATAATATATAGTTTTTGAAAATATTTTGAAAAATAT
* *
169666 ATATAATATATAATTTTTGAAAATATTTTTAAAA
1 ATATAATATATAGTTTTTGAAAATATTTTGAAAA
169700 CATTTTCATG
Statistics
Matches: 317, Mismatches: 29, Indels: 43
0.81 0.07 0.11
Matches are distributed among these distances:
28 21 0.07
29 3 0.01
30 1 0.00
32 1 0.00
33 1 0.00
35 1 0.00
36 3 0.01
37 132 0.42
38 37 0.12
39 66 0.21
40 17 0.05
41 34 0.11
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (38 bp):
ATATAATATATAGTTTTTGAAAATATTTTGAAAAATAT
Found at i:169402 original size:11 final size:11
Alignment explanation
Indices: 169388--169447 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
169378 AATATATAGG
169388 TTTTGAAAATA
1 TTTTGAAAATA
169399 TTTTGAAAATA
1 TTTTGAAAATA
*
169410 TATAT-AACATATA
1 T-TTTGAA-A-ATA
*
169423 GTTTTTGAAAATG
1 --TTTTGAAAATA
169436 TTTTGAAAATA
1 TTTTGAAAATA
169447 T
1 T
169448 ATATAATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
11 25 0.64
12 3 0.08
13 5 0.13
14 3 0.08
15 3 0.08
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (11 bp):
TTTTGAAAATA
Found at i:169562 original size:65 final size:66
Alignment explanation
Indices: 169478--169699 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 66
169468 AAAACATTTT
* * * *
169478 AAATATATATATATAATATATAGTTTTTGGAAATGTTTTGAAAATATATATAATATATAGTTTTT
1 AAATAT-TTTATAAAATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTT
169543 GAA
65 G-A
* *
169546 AACATTTTAAAAATATATATATAATATATAGTTTTTGAAAATATTTTAAAAATATATATAATATA
1 AA-ATATT-----T-TATA-A-AATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATA
* *
169611 TAGATTTTCA
57 TAGTTTTTGA
* * * *
169621 AAATA-TATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAATTTTTG
1 AAATATTTTATAAAATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTTG
169685 A
66 A
169686 AAATATTTT-TAAAA
1 AAATATTTTATAAAA
169700 CATTTTCATG
Statistics
Matches: 126, Mismatches: 18, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
65 57 0.45
66 2 0.02
67 4 0.03
68 3 0.02
69 3 0.02
73 1 0.01
74 6 0.05
75 3 0.02
76 47 0.37
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (66 bp):
AAATATTTTATAAAATATATAGTTTTTGAAAATATTTTGAAAATATATATAATATATAGTTTTTG
A
Found at i:169628 original size:28 final size:26
Alignment explanation
Indices: 169588--169651 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 26
169578 TTTTGAAAAT
169588 ATTTTAAAAATATATATAATATATAG
1 ATTTTAAAAATATATATAATATATAG
169614 ATTTTCAAAATATATATATAATATATAG
1 ATTTT-AAAA-ATATATATAATATATAG
* *
169642 TTTTTGAAAA
1 ATTTTAAAAA
169652 CATTTTGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 6 0.18
27 7 0.21
28 21 0.62
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (26 bp):
ATTTTAAAAATATATATAATATATAG
Found at i:169727 original size:23 final size:23
Alignment explanation
Indices: 169701--169751 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
169691 TTTTTAAAAC
*
169701 ATTTTCATGTATTA-TATTTTATT
1 ATTTTC-TATATTATTATTTTATT
*
169724 ATTTACTATATTATTATTTTATT
1 ATTTTCTATATTATTATTTTATT
169747 ATTTT
1 ATTTT
169752 ATTTTGGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTTTCTATATTATTATTTTATT
Found at i:169745 original size:8 final size:8
Alignment explanation
Indices: 169715--169754 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
169705 TCATGTATTA
169715 TATTTTAT
1 TATTTTAT
*
169723 TA-TTTAC
1 TATTTTAT
*
169730 TATATTAT
1 TATTTTAT
169738 TATTTTAT
1 TATTTTAT
169746 TATTTTAT
1 TATTTTAT
169754 T
1 T
169755 TTGGTCCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (8 bp):
TATTTTAT
Found at i:171156 original size:2 final size:2
Alignment explanation
Indices: 171149--171182 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
171139 ATTTCTCGGC
171149 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
171183 TACTTTGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:172347 original size:20 final size:20
Alignment explanation
Indices: 172322--172359 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
172312 ACAACAACTA
172322 TTCGCAACGCGAATTTCGTT
1 TTCGCAACGCGAATTTCGTT
*
172342 TTCGCAACGCGATTTTCG
1 TTCGCAACGCGAATTTCG
172360 CAAATCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (20 bp):
TTCGCAACGCGAATTTCGTT
Found at i:177607 original size:22 final size:21
Alignment explanation
Indices: 177576--177616 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
177566 TACGATGTAA
177576 AATAAAATATTTACAACATAT
1 AATAAAATATTTACAACATAT
177597 AATAATAATATTTACAACAT
1 AATAA-AATATTTACAACAT
177617 GTACATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
AATAAAATATTTACAACATAT
Found at i:179579 original size:3 final size:3
Alignment explanation
Indices: 179557--179596 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
179547 TGCAAACATG
*
179557 TAA TAG TAA CTAA TTAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA -TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA
179597 TTATTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:179625 original size:14 final size:14
Alignment explanation
Indices: 179588--179626 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
179578 AATAATAATA
*
179588 ATAATAATATTATT
1 ATAATAATTTTATT
* *
179602 ATTATTATTTTATT
1 ATAATAATTTTATT
179616 ATAATAATTTT
1 ATAATAATTTT
179627 TAAATGCCTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATAATAATTTTATT
Found at i:179783 original size:18 final size:18
Alignment explanation
Indices: 179760--179807 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
179750 TTTTAATATT
179760 TAAAAATAATTTTAAAAA
1 TAAAAATAATTTTAAAAA
* *
179778 TAAAAATTAATTATAATAA
1 TAAAAA-TAATTTTAAAAA
*
179797 -AAAAATGATTT
1 TAAAAATAATTT
179808 CTTTCCCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
19 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAATAATTTTAAAAA
Found at i:179842 original size:22 final size:21
Alignment explanation
Indices: 179805--179864 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 21
179795 AAAAAAATGA
*
179805 TTTCT-TTCCCTCTCTTCCTC
1 TTTCTCTTCCCTTTCTTCCTC
179825 TTTCTCTTCGCCTTTCTTCCTC
1 TTTCTCTTC-CCTTTCTTCCTC
179847 TTTCTCTTCCCCTTTCTT
1 TTTCTCTT-CCCTTTCTT
179865 TCCCACTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 5 0.14
21 3 0.08
22 27 0.75
23 1 0.03
ACGTcount: A:0.00, C:0.42, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTCTCTTCCCTTTCTTCCTC
Found at i:179903 original size:12 final size:11
Alignment explanation
Indices: 179815--179903 Score: 60
Period size: 12 Copynumber: 7.9 Consensus size: 11
179805 TTTCTTTCCC
179815 TCTCTTCCTCTT
1 TCTCTTCC-CTT
179827 TCTCTTCGCC-T
1 TCTCTTC-CCTT
179838 T-TCTTCCTCTT
1 TCTCTTCC-CTT
179849 TCTCTTCCCCTT
1 TCTCTT-CCCTT
**
179861 TCT-TTCCCAC
1 TCTCTTCCCTT
*
179871 TCT-TTCCATT
1 TCTCTTCCCTT
*
179881 TCTCCTCCCCTT
1 TCT-CTTCCCTT
179893 TCTCTTTCCCT
1 TCTC-TTCCCT
179904 CTCTTCACCG
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
9 1 0.02
10 19 0.31
11 7 0.11
12 31 0.51
13 3 0.05
ACGTcount: A:0.02, C:0.45, G:0.01, T:0.52
Consensus pattern (11 bp):
TCTCTTCCCTT
Found at i:182847 original size:38 final size:38
Alignment explanation
Indices: 182791--182871 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
182781 GTGTGAGGCA
*
182791 GAGATTTGCACCTGCCAAGGGTGTGTGGTTGGCATTAG
1 GAGAATTGCACCTGCCAAGGGTGTGTGGTTGGCATTAG
182829 GAGAATTGCACCTGCCAAGGGTGTGTGGTTGGCATTAG
1 GAGAATTGCACCTGCCAAGGGTGTGTGGTTGGCATTAG
182867 GAGAA
1 GAGAA
182872 GAGGGAGTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (38 bp):
GAGAATTGCACCTGCCAAGGGTGTGTGGTTGGCATTAG
Found at i:188430 original size:13 final size:13
Alignment explanation
Indices: 188392--188432 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
188382 TAATATAAGA
188392 ATAATGTAAAAAA-
1 ATAAT-TAAAAAAT
188405 ATAA-TAAATAAAT
1 ATAATTAAA-AAAT
188418 ATAATTAAAAAAT
1 ATAATTAAAAAAT
188431 AT
1 AT
188433 CAAAAAGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 3 0.12
13 14 0.56
14 4 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (13 bp):
ATAATTAAAAAAT
Found at i:189315 original size:190 final size:190
Alignment explanation
Indices: 188973--189319 Score: 538
Period size: 190 Copynumber: 1.8 Consensus size: 190
188963 TTAAATATTC
188973 AAAAGATAAAACTCCTTTTACCATTCAAACTTAAATATATATTATTTTAATTTGAAATATGAAAA
1 AAAAGATAAAACTCCTTTTACCATTCAAACTTAAATATATATTATTTTAATTTGAAATATGAAAA
* * * * * *
189038 AATATATAATTATCTTTAATATTCAAAGTTAAAAAGGTTATAAATACCTTTTTAAGTTGATATTT
66 AATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATACATTTTTAAATTGATATTT
* *
189103 TCAAAGAGTAATTATCCTACTAATATTAAAATTAAATAATATATTTAATTTGTAATGGTA
131 TAAAAGAGTAATTAACCTACTAATATTAAAATTAAATAATATATTTAATTTGTAATGGTA
* *
189163 AAAAGAT-AAACTCCTTTTACTATTCAAACTTAAATTTATATTATTTTAATTTGAAATAT-ATAA
1 AAAAGATAAAACTCCTTTTACCATTCAAACTTAAATATATATTATTTTAATTTGAAATATGA-AA
*
189226 AAGTATATAATTATCTTTTAATATTCAAAATTAAAAAGATAACAAATACATTTTTAAATTGAT-T
65 AAATATATAATTATC-TTTAATATTCAAAATTAAAAAGATAACAAATACATTTTTAAATTGATAT
*
189290 TATTAAAAGATTAATTAACCTACTAATATT
129 T-TTAAAAGAGTAATTAACCTACTAATATT
189320 TTAAAAAATT
Statistics
Matches: 142, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
188 1 0.01
189 68 0.48
190 73 0.51
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (190 bp):
AAAAGATAAAACTCCTTTTACCATTCAAACTTAAATATATATTATTTTAATTTGAAATATGAAAA
AATATATAATTATCTTTAATATTCAAAATTAAAAAGATAACAAATACATTTTTAAATTGATATTT
TAAAAGAGTAATTAACCTACTAATATTAAAATTAAATAATATATTTAATTTGTAATGGTA
Found at i:190236 original size:21 final size:21
Alignment explanation
Indices: 190210--190263 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
190200 TCTTTGGGTG
*
190210 TTATATAAGCTTAAGTAAAGC
1 TTATATAAGCTTAAGGAAAGC
190231 TTATATAAGCTTAAGGAAAGC
1 TTATATAAGCTTAAGGAAAGC
190252 TTATATAAGCTT
1 TTATATAAGCTT
190264 TAAACATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (21 bp):
TTATATAAGCTTAAGGAAAGC
Found at i:191298 original size:15 final size:16
Alignment explanation
Indices: 191272--191304 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
191262 ATGAATATAA
191272 GAGATCATGTGAATAT
1 GAGATCATGTGAATAT
*
191288 GAGAT-ATGTGATTAT
1 GAGATCATGTGAATAT
191303 GA
1 GA
191305 ATGAAATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (16 bp):
GAGATCATGTGAATAT
Found at i:193025 original size:33 final size:33
Alignment explanation
Indices: 192985--193051 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
192975 ATATTATGAT
192985 ATCTTTTATTTTAGT-TCTTTACTTTATATTTTA
1 ATCTTTTATTTTAGTCT-TTTACTTTATATTTTA
193018 ATCTTTTATTTTAGTCTTTTACTTTATATTTTA
1 ATCTTTTATTTTAGTCTTTTACTTTATATTTTA
193051 A
1 A
193052 ATTTATGCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (33 bp):
ATCTTTTATTTTAGTCTTTTACTTTATATTTTA
Found at i:193095 original size:14 final size:13
Alignment explanation
Indices: 193068--193118 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
193058 GCCATTTACT
*
193068 TTTTATTTAGTTAA
1 TTTTA-TTATTTAA
193082 TTTTAGTTATTTAA
1 TTTTA-TTATTTAA
*
193096 TTTCATTACTTTAA
1 TTTTATTA-TTTAA
193110 TTTT-TTATT
1 TTTTATTATT
193119 ATTTTTACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 2 0.06
13 6 0.19
14 24 0.75
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (13 bp):
TTTTATTATTTAA
Found at i:193147 original size:22 final size:22
Alignment explanation
Indices: 193091--193147 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
193081 ATTTTAGTTA
* *
193091 TTTAATTTCATTACTTTAATTT
1 TTTAATATCTTTACTTTAATTT
* *
193113 TTTATTATTTTTACTTTATATTT
1 TTTAATATCTTTACTTTA-ATTT
193136 TTTAATA-CTTTA
1 TTTAATATCTTTA
193148 ATTTTAGTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTAATATCTTTACTTTAATTT
Found at i:193182 original size:22 final size:22
Alignment explanation
Indices: 193127--193182 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
193117 TTATTTTTAC
193127 TTTATATTTTTTAATACTTTAAT
1 TTTAT-TTTTTTAATACTTTAAT
* * *
193150 TTTAGTCTTTTAACTA-TTTCAT
1 TTTATTTTTTTAA-TACTTTAAT
193172 TTTATTTTTTT
1 TTTATTTTTTT
193183 GTTCATTTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTATTTTTTTAATACTTTAAT
Found at i:193215 original size:2 final size:2
Alignment explanation
Indices: 193208--193248 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
193198 GTCACATGAG
193208 TA TA TA 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 TA TA TA T
193249 GATAAGTAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:193485 original size:13 final size:13
Alignment explanation
Indices: 193467--193492 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
193457 TTTATCATAT
193467 TTTATTAATATTA
1 TTTATTAATATTA
193480 TTTATTAATATTA
1 TTTATTAATATTA
193493 AAGAAAGGGG
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:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTAATATTA
Found at i:196600 original size:33 final size:33
Alignment explanation
Indices: 196560--196626 Score: 118
Period size: 33 Copynumber: 2.0 Consensus size: 33
196550 ATATTATGAT
196560 ATCTTTTATTTTAGT-TCTTTACTTTATATTTTA
1 ATCTTTTATTTTAGTCT-TTTACTTTATATTTTA
196593 ATCTTTTATTTTAGTCTTTTACTTTATATTTTA
1 ATCTTTTATTTTAGTCTTTTACTTTATATTTTA
196626 A
1 A
196627 ATTTATGCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (33 bp):
ATCTTTTATTTTAGTCTTTTACTTTATATTTTA
Found at i:196666 original size:14 final size:13
Alignment explanation
Indices: 196643--196694 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
196633 GCCATTTACT
196643 TTTTATTTATTTAA
1 TTTTA-TTATTTAA
196657 TTTTAGTTATTTAA
1 TTTTA-TTATTTAA
*
196671 TTTCATTACTTTAA
1 TTTTATTA-TTTAA
*
196685 TTTTTTTATT
1 TTTTATTATT
196695 ATTTTTGCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
13 5 0.15
14 28 0.85
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTATTATTTAA
Found at i:196792 original size:2 final size:2
Alignment explanation
Indices: 196785--196809 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
196775 GTCACATGAG
196785 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 T
196810 GAAAGATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:197676 original size:20 final size:20
Alignment explanation
Indices: 197651--197691 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
197641 ATCTAAGACA
197651 GTAGGATAATAAAAGAAAAT
1 GTAGGATAATAAAAGAAAAT
* *
197671 GTAGGATAGTCAAAGAAAAT
1 GTAGGATAATAAAAGAAAAT
197691 G
1 G
197692 CAATCCATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.24, T:0.20
Consensus pattern (20 bp):
GTAGGATAATAAAAGAAAAT
Found at i:199680 original size:23 final size:24
Alignment explanation
Indices: 199654--199703 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
199644 TCCAGCAAAG
*
199654 AAATCAAAACACTC-GAAAGAAGA
1 AAATCAAAACACTCAAAAAGAAGA
***
199677 AAATTTCAACACTCAAAAAGAAGA
1 AAATCAAAACACTCAAAAAGAAGA
199701 AAA
1 AAA
199704 GAAAAAAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.62, C:0.16, G:0.10, T:0.12
Consensus pattern (24 bp):
AAATCAAAACACTCAAAAAGAAGA
Found at i:206214 original size:40 final size:40
Alignment explanation
Indices: 206162--206242 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
206152 CCTCATCAAC
206162 CCGTTACTACCTCTCAATAGTTTACATCGATTAAGGGCAA
1 CCGTTACTACCTCTCAATAGTTTACATCGATTAAGGGCAA
206202 CCGTTACTACCTCTCAATAGTTTACATCGATTAAGGGCAA
1 CCGTTACTACCTCTCAATAGTTTACATCGATTAAGGGCAA
206242 C
1 C
206243 GTTGACTCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (40 bp):
CCGTTACTACCTCTCAATAGTTTACATCGATTAAGGGCAA
Found at i:207952 original size:15 final size:15
Alignment explanation
Indices: 207932--207961 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
207922 ATCATTTTTA
207932 TTTAAAAATATTCAT
1 TTTAAAAATATTCAT
*
207947 TTTAAAATTATTCAT
1 TTTAAAAATATTCAT
207962 GTAAATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTAAAAATATTCAT
Found at i:210049 original size:22 final size:22
Alignment explanation
Indices: 210021--210647 Score: 749
Period size: 22 Copynumber: 28.5 Consensus size: 22
210011 ATTTTAAAAT
*
210021 TTTATTTCAAAATATGAATTGA
1 TTTATTTTAAAATATGAATTGA
*
210043 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAATTGA
210065 TTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATGAATTGA
**
210087 TTTATTTTAAAATATGGAA-AAA
1 TTTATTTTAAAATAT-GAATTGA
*
210109 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAATTGA
*
210131 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAATTGA
*
210153 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAATTGA
**
210175 TTTATTTTAAAATATAGAA-AAA
1 TTTATTTTAAAATAT-GAATTGA
*
210197 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAATTGA
*
210219 TTTATTTTAAAATATGGAAAT-A
1 TTTATTTTAAAATAT-GAATTGA
*
210241 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAATTGA
210263 TTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATGAATTGA
***
210285 TTTATTTTAAAATATGGAAAAAA
1 TTTATTTTAAAATAT-GAATTGA
*
210308 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAATTGA
*
210330 TTTATTTTAAAATATGTAA--AA
1 TTTATTTTAAAATATG-AATTGA
* *
210351 TTTTATTTTAAAATATGGATTAA
1 -TTTATTTTAAAATATGAATTGA
*
210374 TTTATTTTAAAATATGGAA--AA
1 TTTATTTTAAAATAT-GAATTGA
*
210395 TTTTATTTTAAAATATGGATTGA
1 -TTTATTTTAAAATATGAATTGA
**
210418 TTTATTTTAAAATATGGAA-AAA
1 TTTATTTTAAAATAT-GAATTGA
210440 TTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATGAATTGA
* *
210462 TTTATTTTAAAATATGGATAGA
1 TTTATTTTAAAATATGAATTGA
*
210484 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAATTGA
210506 TTTATTTTAAAATATGAATTGA
1 TTTATTTTAAAATATGAATTGA
*
210528 TTTATTTTAAAATATGGAA--AA
1 TTTATTTTAAAATAT-GAATTGA
** *
210549 AATATTTTAAAATATGGAA--AA
1 TTTATTTTAAAATAT-GAATTGA
* * *
210570 TTTATTTGAAATTATGGATTGA
1 TTTATTTTAAAATATGAATTGA
*
210592 TTTATTTTAAAATATGGATTGA
1 TTTATTTTAAAATATGAATTGA
210614 TTTATTTTAAAATAT-AGATTGA
1 TTTATTTTAAAATATGA-ATTGA
210636 TTTATTTTAAAA
1 TTTATTTTAAAA
210648 AAATTTATTA
Statistics
Matches: 531, Mismatches: 53, Indels: 42
0.85 0.08 0.07
Matches are distributed among these distances:
20 2 0.00
21 47 0.09
22 444 0.84
23 38 0.07
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
TTTATTTTAAAATATGAATTGA
Found at i:210099 original size:66 final size:67
Alignment explanation
Indices: 210021--210647 Score: 866
Period size: 66 Copynumber: 9.5 Consensus size: 67
210011 ATTTTAAAAT
* * *
210021 TTTATTTCAAAATAT-GAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAATT
1 TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
210085 GA
66 GA
*
210087 TTTATTTTAAAATATGGAA-AAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
1 TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
210151 GA
66 GA
* * ***
210153 TTTATTTTAAAATATGG-ATTGATTTATTTTAAAATATAGAAAAATTTATTTTAAAATATGGATT
1 TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
210217 GA
66 GA
* *
210219 TTTATTTTAAAATATGGAAAT-ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGAATT
1 TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
210283 GA
66 GA
** * *
210285 TTTATTTTAAAATATGGAAAAAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGTA-A
1 TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
*
210349 AA
66 GA
**
210351 TTTTATTTTAAAATATGG-ATTAATTTATTTTAAAATATGGA-AAATTTTATTTTAAAATATGGA
1 -TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGA-TTTATTTTAAAATATGGA
210414 TTGA
64 TTGA
* * *
210418 TTTATTTTAAAATATGGAA-AAATTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGATA
1 TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
210482 GA
66 GA
* * *
210484 TTTATTTTAAAATATGG-ATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAATATGGA-A
1 TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
*
210547 AA
66 GA
** * *
210549 AATATTTTAAAATATGGAA--AATTTATTTGAAATTATGGATTGATTTATTTTAAAATATGGATT
1 TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
210612 GA
66 GA
* *
210614 TTTATTTTAAAATATAG-ATTGATTTATTTTAAAA
1 TTTATTTTAAAATATGGAATTAATTTATTTTAAAA
210648 AAATTTATTA
Statistics
Matches: 498, Mismatches: 49, Indels: 28
0.87 0.09 0.05
Matches are distributed among these distances:
64 39 0.08
65 35 0.07
66 359 0.72
67 65 0.13
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (67 bp):
TTTATTTTAAAATATGGAATTAATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATT
GA
Found at i:210769 original size:16 final size:16
Alignment explanation
Indices: 210748--210790 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
210738 GTTTAAAAAA
210748 TCAGTTTATTTATATT
1 TCAGTTTATTTATATT
210764 TCAGTTTATTTATATT
1 TCAGTTTATTTATATT
210780 TCAGTTTATTT
1 TCAGTTTATTT
210791 TAGCAGTCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (16 bp):
TCAGTTTATTTATATT
Found at i:214886 original size:54 final size:54
Alignment explanation
Indices: 214819--215446 Score: 627
Period size: 54 Copynumber: 11.7 Consensus size: 54
214809 GCATTTTTTA
* *
214819 CGTA-TCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTAATGAACGAC
1 CGTATTCG-CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* ** *
214873 CGTATTAGCACTAAGTGTGCAACCCACATAATTCATAATAAGTTTATGAACAAC
1 CGTATTCGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* * * *
214927 CATA-TCGATACTAAGTGTGCAATCCACGGAATTCATAATAAGTTTATGAATGAC
1 CGTATTCG-CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* * * * *
214981 TGTA-TCGGCACCAAGTGTGCATCCCACGAAATTCATAATAAGTTTATGAACAAC
1 CGTATTC-GCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* ** *
215035 CGTA-TCGGCACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGAC
1 CGTATTC-GCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* * * *
215089 CATA-TCAACATTAAGTGT----CCCACGGAATTCATAATAAGTTTATGAACAAC
1 CGTATTC-GCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* ** * * *
215139 CGTATTGGCACTAAGTGTGCAATTCATGGAATTCATAATAAGTTTACGAACGAT
1 CGTATTCGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* * * * *
215193 CGTA-TCGACACTAATTGTGTAACCCACGAAATTCATAATAAGTTTATGAGCAAC
1 CGTATTCG-CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* * ** *
215247 TGTA-TCGACACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGAC
1 CGTATTCG-CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* ** *
215301 CGTA-TCGACACTAAGTGTGCAACTCACATAATTCTTAATAAGTTTATGAACGAC
1 CGTATTCG-CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
** *
215355 CGTA-TCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAATGAC
1 CGTATTC-GCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
* * *
215409 CGTA-TCAACACTAAGTGTGCAACCCATGGAATTTATAA
1 CGTATTC-GCACTAAGTGTGCAACCCACGGAATTCATAA
215447 ATGAGCGTAT
Statistics
Matches: 475, Mismatches: 89, Indels: 20
0.81 0.15 0.03
Matches are distributed among these distances:
50 39 0.08
51 1 0.00
53 4 0.01
54 427 0.90
55 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (54 bp):
CGTATTCGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGAC
Found at i:215014 original size:108 final size:108
Alignment explanation
Indices: 214819--215434 Score: 821
Period size: 108 Copynumber: 5.7 Consensus size: 108
214809 GCATTTTTTA
* * * * * *
214819 CGTATCGACACTAAGTGTGCAACCCATGGAATTCATAATAAGTTAATGAACGACCGTATTAGCAC
1 CGTATCGACACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGACCGTATCAACAC
214884 TAAGTGTGCAACCCAC-ATAATTCATAATAAGTTTATGAACAAC
66 TAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACAAC
* * ** * **
214927 CATATCGATACTAAGTGTGCAATCCACGGAATTCATAATAAGTTTATGAATGACTGTATCGGCAC
1 CGTATCGACACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGACCGTATCAACAC
* *
214992 CAAGTGTGCATCCCACGAAATTCATAATAAGTTTATGAACAAC
66 TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACAAC
* * *
215035 CGTATCGGCACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGACCATATCAACAT
1 CGTATCGACACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGACCGTATCAACAC
*
215100 TAAGTGT----CCCACGGAATTCATAATAAGTTTATGAACAAC
66 TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACAAC
* * * * * * * *
215139 CGTATTGGCACTAAGTGTGCAATTCATGGAATTCATAATAAGTTTACGAACGATCGTATCGACAC
1 CGTATCGACACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGACCGTATCAACAC
* * *
215204 TAATTGTGTAACCCACGAAATTCATAATAAGTTTATGAGCAAC
66 TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACAAC
* *
215247 TGTATCGACACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGACCGTATCGACAC
1 CGTATCGACACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGACCGTATCAACAC
* * *
215312 TAAGTGTGCAACTCAC-ATAATTCTTAATAAGTTTATGAACGAC
66 TAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACAAC
* * * *
215355 CGTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAATGACCGTATCAACAC
1 CGTATCGACACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGACCGTATCAACAC
215420 TAAGTGTGCAACCCA
66 TAAGTGTGCAACCCA
215435 TGGAATTTAT
Statistics
Matches: 446, Mismatches: 56, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
104 93 0.21
107 1 0.00
108 351 0.79
109 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (108 bp):
CGTATCGACACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATGACCGTATCAACAC
TAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACAAC
Found at i:215409 original size:320 final size:320
Alignment explanation
Indices: 214827--215426 Score: 918
Period size: 320 Copynumber: 1.9 Consensus size: 320
214817 TACGTATCGA
* *
214827 CACTAAGTGTGCAACCCATGGAATTCATAATAAGTTAATGAACGACCGTATTAGCACTAAGTGTG
1 CACTAAGTGTGCAACCCATGGAATTCATAATAAGTTAACGAACGACCGTATGAGCACTAAGTGTG
* *
214892 CAACCCACATAATTCATAATAAGTTTATGAACAACCATATCGATACTAAGTGTGCAATCCACGGA
66 CAACCCACATAATTCATAATAAGTTTATGAACAACCATATCGACACTAAGTGTGCAATCCACAGA
* * *
214957 ATTCATAATAAGTTTATGAATGACTGTATCGGCACCAAGTGTGCATCCCACGAAATTCATAATAA
131 ATTCATAATAAGTTTATGAATGACCGTATCGACACCAAGTGTGCAACCCACGAAATTCATAATAA
* * *
215022 GTTTATGAACAACCGTATCGGCACTAAGTGTGCAATCCATAGAATTCATAATAAGTTTATGAATG
196 GTTTATGAACAACCGTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAATG
*
215087 ACCATATCAACATTAAGTGTCCCACGGAATTCATAATAAGTTTATGAACAACCGTATTGG
261 ACCATATCAACACTAAGTGTCCCACGGAATTCATAATAAGTTTATGAACAACCGTATTGG
** * * *
215147 CACTAAGTGTGCAATTCATGGAATTCATAATAAGTTTACGAACGATCGTATCGA-CACTAATTGT
1 CACTAAGTGTGCAACCCATGGAATTCATAATAAGTTAACGAACGACCGTAT-GAGCACTAAGTGT
* * ** *
215211 GTAACCCACGA-AATTCATAATAAGTTTATGAGCAACTGTATCGACACTAAGTGTGCAATCCATA
65 GCAACCCAC-ATAATTCATAATAAGTTTATGAACAACCATATCGACACTAAGTGTGCAATCCACA
* * *
215275 GAATTCATAATAAGTTTATGAATGACCGTATCGACACTAAGTGTGCAACTCAC-ATAATTCTTAA
129 GAATTCATAATAAGTTTATGAATGACCGTATCGACACCAAGTGTGCAACCCACGA-AATTCATAA
*
215339 TAAGTTTATGAACGACCGTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGA
193 TAAGTTTATGAACAACCGTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGA
*
215404 ATGACCGTATCAACACTAAGTGT
258 ATGACCATATCAACACTAAGTGT
215427 GCAACCCATG
Statistics
Matches: 251, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
319 1 0.00
320 248 0.99
321 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (320 bp):
CACTAAGTGTGCAACCCATGGAATTCATAATAAGTTAACGAACGACCGTATGAGCACTAAGTGTG
CAACCCACATAATTCATAATAAGTTTATGAACAACCATATCGACACTAAGTGTGCAATCCACAGA
ATTCATAATAAGTTTATGAATGACCGTATCGACACCAAGTGTGCAACCCACGAAATTCATAATAA
GTTTATGAACAACCGTATCGGCACTAAGTGTGCAACCCACAAAATTCATAATAAGTTTATGAATG
ACCATATCAACACTAAGTGTCCCACGGAATTCATAATAAGTTTATGAACAACCGTATTGG
Found at i:221945 original size:53 final size:53
Alignment explanation
Indices: 221722--222340 Score: 503
Period size: 53 Copynumber: 11.7 Consensus size: 53
221712 GCATTTTTTA
* * *
221722 CGTATTGACACTAAGTATGCAACCCACGGAATTCATAATAA--TTATG-ACTGAC
1 CGTATCGACACTAAGTGTGCAA-CCACAGAATTCATAATAAGTTTATGAAC-GAC
* **
221774 CGTATCGACAAT-A-TGTGCAACCCACAGAATT-ATAATAAGTTTATGAATAAC
1 CGTATCGACACTAAGTGTGCAA-CCACAGAATTCATAATAAGTTTATGAACGAC
* *
221825 CATAT-GGCACTAA--GTGCAATCCAC-GAAATTCATAATAAGTTTATGAACGAC
1 CGTATCGACACTAAGTGTGCAA-CCACAG-AATTCATAATAAGTTTATGAACGAC
*
221876 CGTATC-ACACTAAGTGTGC-ACCTA-AGGAATTCATAATAAGTTTATGAACAAC
1 CGTATCGACACTAAGTGTGCAACC-ACA-GAATTCATAATAAGTTTATGAACGAC
* * * *
221928 TGTATCGACACTAAGTGTGTAATCCACATAATTTATAATAAGTTTATG-ACGAC
1 CGTATCGACACTAAGTGTGCAA-CCACAGAATTCATAATAAGTTTATGAACGAC
* *
221981 CGTATCGACACTAATTGTGCAACC-CACGAAATTCATAATAAGTTT-TG-ACAAC
1 CGTATCGACACTAAGTGTGCAACCACA-G-AATTCATAATAAGTTTATGAACGAC
* * * *
222033 CGTATCGGCACTTAGTGTGCAATCCACAAAATTCATAATAAGTTTATG-ATGAC
1 CGTATCGACACTAAGTGTGCAA-CCACAGAATTCATAATAAGTTTATGAACGAC
* * * *
222086 CGTATC-AGCACTAAGTGTGCAACC-CAGGTAATTAATAATAAGATTATGAACAAT
1 CGTATCGA-CACTAAGTGTGCAACCACA-G-AATTCATAATAAGTTTATGAACGAC
* * *
222140 CGTATCGGCACTAAGTGTGCAATCCATAGAATTCATAA-AAGTTTGTGAACGAC
1 CGTATCGACACTAAGTGTGCAA-CCACAGAATTCATAATAAGTTTATGAACGAC
* * * *
222193 TGTATCCG-CACTAAGTGTGCAACCCACATAATTCATAATATGTTTATGAACGTC
1 CGTAT-CGACACTAAGTGTGCAA-CCACAGAATTCATAATAAGTTTATGAACGAC
* * * * * * *
222247 TGTATCGACACTTAGTGTGCAACCCACAAAATTTCAAAATGAGTATATGAATGAC
1 CGTATCGACACTAAGTGTGCAA-CCACAGAA-TTCATAATAAGTTTATGAACGAC
* * * *
222302 TGTAT-TAGCACTACGTGTGCATCTCACAGAACTT-ATAAT
1 CGTATCGA-CACTAAGTGTGCAAC-CACAGAA-TTCATAAT
222341 GATTTGAAAT
Statistics
Matches: 464, Mismatches: 69, Indels: 66
0.77 0.12 0.11
Matches are distributed among these distances:
49 8 0.02
50 34 0.07
51 47 0.10
52 87 0.19
53 142 0.31
54 98 0.21
55 47 0.10
56 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (53 bp):
CGTATCGACACTAAGTGTGCAACCACAGAATTCATAATAAGTTTATGAACGAC
Found at i:222198 original size:107 final size:107
Alignment explanation
Indices: 221730--222322 Score: 601
Period size: 107 Copynumber: 5.6 Consensus size: 107
221720 TACGTATTGA
* * ** *
221730 CACTAAGTATGCAACCCACGGAATTCATAATAA--TTATG-ACTGACCGTATC-G-AC-AATATG
1 CACTAAGTGTGCAATCCACAAAATTCATAATAAGTTTATGAAC-GACCGTATCAGCACTAA-GTG
* *
221789 TGCAACCCACAGAATT-ATAATAAGTTTATGAATAACCATAT-GG
64 TGCAACCCAC-GAATTCATAATAAGTTTATGAACAACCGTATCGG
*
221832 CACTAA--GTGCAATCCACGAAATTCATAATAAGTTTATGAACGACCGTATCA-CACTAAGTGTG
1 CACTAAGTGTGCAATCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAGCACTAAGTGTG
* * * *
221894 C-ACCTAAGGAATTCATAATAAGTTTATGAACAACTGTATCGA
66 CAACC-CACGAATTCATAATAAGTTTATGAACAACCGTATCGG
* * * *
221936 CACTAAGTGTGTAATCCACATAATTTATAATAAGTTTATG-ACGACCGTATC-GACACTAATTGT
1 CACTAAGTGTGCAATCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAG-CACTAAGTGT
221999 GCAACCCACGAAATTCATAATAAGTTT-TG-ACAACCGTATCGG
65 GCAACCCACG-AATTCATAATAAGTTTATGAACAACCGTATCGG
* *
222041 CACTTAGTGTGCAATCCACAAAATTCATAATAAGTTTATG-ATGACCGTATCAGCACTAAGTGTG
1 CACTAAGTGTGCAATCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAGCACTAAGTGTG
* * * *
222105 CAACCCAGGTAATTAATAATAAGATTATGAACAATCGTATCGG
66 CAACCCACG-AATTCATAATAAGTTTATGAACAACCGTATCGG
* * * * *
222148 CACTAAGTGTGCAATCCATAGAATTCATAA-AAGTTTGTGAACGACTGTATCCGCACTAAGTGTG
1 CACTAAGTGTGCAATCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAGCACTAAGTGTG
* * ** * *
222212 CAACCCACATAATTCATAATATGTTTATGAACGTCTGTATCGA
66 CAACCCAC-GAATTCATAATAAGTTTATGAACAACCGTATCGG
* * * * * * * * *
222255 CACTTAGTGTGCAACCCACAAAATTTCAAAATGAGTATATGAATGACTGTATTAGCACTACGTGT
1 CACTAAGTGTGCAATCCACAAAA-TTCATAATAAGTTTATGAACGACCGTATCAGCACTAAGTGT
222320 GCA
65 GCA
222323 TCTCACAGAA
Statistics
Matches: 410, Mismatches: 59, Indels: 37
0.81 0.12 0.07
Matches are distributed among these distances:
100 22 0.05
102 28 0.07
103 32 0.08
104 9 0.02
105 100 0.24
106 54 0.13
107 130 0.32
108 6 0.01
109 29 0.07
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (107 bp):
CACTAAGTGTGCAATCCACAAAATTCATAATAAGTTTATGAACGACCGTATCAGCACTAAGTGTG
CAACCCACGAATTCATAATAAGTTTATGAACAACCGTATCGG
Found at i:222228 original size:212 final size:214
Alignment explanation
Indices: 221723--222322 Score: 703
Period size: 212 Copynumber: 2.8 Consensus size: 214
221713 CATTTTTTAC
* * * * *
221723 GTATTGACACTAAGTATGCAACCCACGGAATTCATAATAA--TTATGACTGACCGTATCGACAAT
1 GTATCGACACTAAGTGTGCAATCCACAGAATTCATAATAAGTTTATGAC-GACCGTATCGACACT
* * *
221786 -A-TGTGCAACCCACAGAATT-ATAATAAGTTTATGAATAACCATAT-GGCAC-TA-AGTGCAAT
65 AAGTGTGCAACCCACA-AATTCATAATAAGTTTATGAACAACCGTATCGGCACTTAGTGTGCAAT
* * *
221845 CCACGAAATTCATAATAAGTTTATGAACGACCGTATCA-CACTAAGTGTGC-ACCTAAGGAATTC
129 CCACAAAATTCATAATAAGTTTATGAATGACCGTATCAGCACTAAGTGTGCAACCTAAGGAATTA
*
221908 ATAATAAGTTTATGAACAACT
194 ATAATAAGATTATGAACAACT
* * *
221929 GTATCGACACTAAGTGTGTAATCCACATAATTTATAATAAGTTTATGACGACCGTATCGACACTA
1 GTATCGACACTAAGTGTGCAATCCACAGAATTCATAATAAGTTTATGACGACCGTATCGACACTA
*
221994 ATTGTGCAACCCACGAAATTCATAATAAGTTT-TG-ACAACCGTATCGGCACTTAGTGTGCAATC
66 AGTGTGCAACCCAC-AAATTCATAATAAGTTTATGAACAACCGTATCGGCACTTAGTGTGCAATC
*
222057 CACAAAATTCATAATAAGTTTATG-ATGACCGTATCAGCACTAAGTGTGCAACC-CAGGTAATTA
130 CACAAAATTCATAATAAGTTTATGAATGACCGTATCAGCACTAAGTGTGCAACCTAAGG-AATTA
222120 ATAATAAGATTATGAACAA-T
194 ATAATAAGATTATGAACAACT
* * * *
222140 CGTATCGGCACTAAGTGTGCAATCCATAGAATTCATAA-AAGTTTGTGAACGACTGTATCCG-CA
1 -GTATCGACACTAAGTGTGCAATCCACAGAATTCATAATAAGTTTATG-ACGACCGTAT-CGACA
* ** * *
222203 CTAAGTGTGCAACCCACATAATTCATAATATGTTTATGAACGTCTGTATCGACACTTAGTGTGCA
63 CTAAGTGTGCAACCCACA-AATTCATAATAAGTTTATGAACAACCGTATCGGCACTTAGTGTGCA
* * * * * * *
222268 ACCCACAAAATTTCAAAATGAGTATATGAATGACTGTATTAGCACTACGTGTGCA
127 ATCCACAAAA-TTCATAATAAGTTTATGAATGACCGTATCAGCACTAAGTGTGCA
222323 TCTCACAGAA
Statistics
Matches: 338, Mismatches: 36, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
206 33 0.10
207 14 0.04
208 16 0.05
209 23 0.07
210 25 0.07
211 56 0.17
212 99 0.29
213 4 0.01
214 31 0.09
215 14 0.04
216 23 0.07
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (214 bp):
GTATCGACACTAAGTGTGCAATCCACAGAATTCATAATAAGTTTATGACGACCGTATCGACACTA
AGTGTGCAACCCACAAATTCATAATAAGTTTATGAACAACCGTATCGGCACTTAGTGTGCAATCC
ACAAAATTCATAATAAGTTTATGAATGACCGTATCAGCACTAAGTGTGCAACCTAAGGAATTAAT
AATAAGATTATGAACAACT
Found at i:225213 original size:17 final size:18
Alignment explanation
Indices: 225191--225231 Score: 75
Period size: 17 Copynumber: 2.3 Consensus size: 18
225181 CAAATGTTGC
225191 ATGTGAATAAAATT-TGT
1 ATGTGAATAAAATTATGT
225208 ATGTGAATAAAATTATGT
1 ATGTGAATAAAATTATGT
225226 ATGTGA
1 ATGTGA
225232 TGAGCAACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (18 bp):
ATGTGAATAAAATTATGT
Found at i:228621 original size:200 final size:200
Alignment explanation
Indices: 227992--229221 Score: 1448
Period size: 200 Copynumber: 6.1 Consensus size: 200
227982 ATCCAATTTT
* * * * * * * * * **
227992 GATACTTTTTATACAAGTATCGCTACTTTTATTCCAATGTACATCTGAAACAATTTGCACGCAAA
1 GATACTTTTTGTATATGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAACATGCACGCAAA
* * * * *
228057 AATGTATCGATACACATATAACAAGTATCAGTACTTCTATTTTCGAAACCTATTACTTTAAAGTT
66 AA-GTATCGATACACGTATAACAAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTA
* * * *
228122 ATAGGTAAATTTACAATGTTAAG-GGTAAAAGTCTACCAGTTTAATGATATTAGGCCTAAACATA
130 ATAGGTAAATTTACAATG-TAAGCGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATA
228186 AAGTATC
194 AAGTATC
* * * **
228193 GATACTCTTTGTATATGTATCGATACTTTTAGTCCAGTATGC-TATCAAACAACATGCA-TAAAA
1 GATACTTTTTGTATATGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAACATGCACGCAAA
* * * *
228256 AGAGTATCGATACATGTATAACAAGTATCAATACTTGTAACTTCGAAA-TTGATTACTTTAAAGT
66 A-AGTATCGATACACGTATAACAAGTATCAATACTTATAATTTCGAAACCT-ATTACTTTAAAGT
* * * * ** *
228320 AATAGGTAAATTTAAAATGTAACCGGTAAAAATATATCGACTTAATGATAATAGGCGTAAAAAAT
129 AATAGGTAAATTTACAATGTAAGCGGTAAAAATCTACCGGTTTAATGATAATAGGCGT-AAACAT
* *
228385 AAAGTTTT
193 AAAGTATC
* * * * * * *
228393 GATACTTTTTGTATATGTATCGATACTTTTGGTCCAATATACTTCTTAATCAATATGCATGCAGA
1 GATACTTTTTGTATATGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAACATGCACGCAAA
** *
228458 AAGTATCGATACACGTATAACAAGTATCAATACTTACCATTTCAAAACCTATTACTTTAAAGTAA
66 AAGTATCGATACACGTATAACAAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTAA
* *
228523 TAGGCAAATTTAGAATGTAAGCGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAA
131 TAGGTAAATTTACAATGTAAGCGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAA
228588 GTATC
196 GTATC
* * * *
228593 GATACTTTTTGTATAGGTATCGATACTTTTAGTGCAGTATGCTTCTCACACAACATGCACGCAAA
1 GATACTTTTTGTATATGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAACATGCACGCAAA
* ** *
228658 AAGTATCGATACATGTATAACAAGTATTGATTCTTATAACTTT-GAAA-CTAATTACTTTAAAGT
66 AAGTATCGATACACGTATAACAAGTATCAATACTTATAA-TTTCGAAACCT-ATTACTTTAAAGT
* * ** * * *
228721 AATAAGTAAATTTACAATGTAAGTGGTAAAAATCTAGTGGCTTAATGATAAAAGACGTAAACATA
129 AATAGGTAAATTTACAATGTAAGCGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATA
*
228786 AAGTTTC
194 AAGTATC
* * *
228793 TATACTTTTTGTATATGTATCGATACTTTTGGTCCAATATGCTTCTCAAACAACATGCACGCAGA
1 GATACTTTTTGTATATGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAACATGCACGCAAA
* * *
228858 AAGTATCGATACACATATAACAAGTATCGATACTTATAATTTTGAAACCTATTACTTTAAAGTAA
66 AAGTATCGATACACGTATAACAAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTAA
* * * * * *
228923 TAGGTAAATTCAAAATGTAAGAGGTAAAAATCTGCTGATTTAATGATAATAGGCGTAAACATAAA
131 TAGGTAAATTTACAATGTAAGCGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAA
* *
228988 GAACC
196 GTATC
* * * ** * *
228993 GATACTATGTGTATAGGTATATATACTTTTAGTCCAATATG-TTACTCAAACAACATGCACGTAG
1 GATACTTTTTGTATATGTATCGATACTTTTAGTCCAATATGCTT-CTCAAACAACATGCACGCAA
* * * ** * *
229057 AAAGTATCGATACATGTATCACAAGTTTCGTTACTTATAATTTTGAAACCGATTACTTTAAAGTA
65 AAAGTATCGATACACGTATAACAAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTA
*
229122 ATAGGTAAATTTACAATGTAAACGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAA
130 ATAGGTAAATTTACAATGTAAGCGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAA
* *
229187 AGTTTT
195 AGTATC
* *
229193 GATACTTCTTGTATAAGTATCGATACTTT
1 GATACTTTTTGTATATGTATCGATACTTT
229222 CGATCTAAAC
Statistics
Matches: 870, Mismatches: 147, Indels: 25
0.83 0.14 0.02
Matches are distributed among these distances:
198 4 0.00
199 106 0.12
200 602 0.69
201 154 0.18
202 4 0.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (200 bp):
GATACTTTTTGTATATGTATCGATACTTTTAGTCCAATATGCTTCTCAAACAACATGCACGCAAA
AAGTATCGATACACGTATAACAAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTAA
TAGGTAAATTTACAATGTAAGCGGTAAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAA
GTATC
Found at i:228632 original size:20 final size:20
Alignment explanation
Indices: 228587--228632 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
228577 GTAAACATAA
* *
228587 AGTATCGATACTTTTTGTAT
1 AGTATCGATACTTTTAGTAC
*
228607 AGGTATCGATACTTTTAGTGC
1 A-GTATCGATACTTTTAGTAC
228628 AGTAT
1 AGTAT
228633 GCTTCTCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (20 bp):
AGTATCGATACTTTTAGTAC
Done.