Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012662.1 Kokia drynarioides strain JFW-HI SEQ_127673, 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: 335207
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 22 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:4628 original size:12 final size:14
Alignment explanation
Indices: 4601--4632 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
4591 AAGGTAACAA
4601 GTAAAAGTGAAAAT
1 GTAAAAGTGAAAAT
4615 GTAAAAG-G-AAAT
1 GTAAAAGTGAAAAT
4627 GTAAAA
1 GTAAAA
4633 TCCATTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.56
13 1 0.06
14 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (14 bp):
GTAAAAGTGAAAAT
Found at i:36001 original size:291 final size:288
Alignment explanation
Indices: 35419--36001 Score: 898
Period size: 290 Copynumber: 2.0 Consensus size: 288
35409 CTTCCTTCTC
* *
35419 TAATGGTGTATTCAGTTTTTTAAGAGATAAGGAAGAAGATGATATCTTTTTTTCTTACCTTTTGA
1 TAATGGTGTATTCAGTTTTTGAAGAGATAAGGAAGAAGATGATATCTTTTTTTCTTACCCTTTGA
** *
35484 TTTACTTATCATTCATTTTTTAATTACAAAGTTAACCTTTCATAATCATTAAATTTACACAAAAA
66 TTTACTTATCATTCATTACTTAATTACAAAGTTAACCTTTAATAATCATTAAATTTACACAAAAA
*
35549 CCTACTTATGGATATCCACTAGCTTTGGTTTTAGTAATATTACCATCCAAATCCATTAATATTCA
131 CCTACTCATGGATATCCACTAGCTTTGGTTTTAGTAATATTACCATCCAAATCCATTAATATTCA
* *
35614 TTTACACATCCATTTTCTCCTTTAACTAATAAAAATCAACCTTTCACCTCTTTCATTTTAGTTCT
196 TTCACACATCCATTTTCTCCTTTAACTAATAAAAATCAACCTTTCACCTCTTTCATTTTAGTGCT
*
35679 TGTTACCTTATTAACTATTTAAACATTA
261 TGTTACCTAATTAACTATTTAAACATTA
* * * *
35707 TAATGGTGTATTCAGTTTTTGAAGAGCTGAGGAAGGAGATGATATTTTTTTTCTTTCTTACCCTT
1 TAATGGTGTATTCAGTTTTTGAAGAGATAAGGAAGAAGATGATA--TCTTTT-TTTCTTACCCTT
* * * **
35772 TGTTTTACTTATCATTCATTACTTAATTACAAAGTTAACCTTTAATAATTATTAAA-TTATAGTA
63 TGATTTACTTATCATTCATTACTTAATTACAAAGTTAACCTTTAATAATCATTAAATTTACACAA
* *
35836 AAACCTACTCATGGATATCCACTAGCTTTGTTTTTGGTAATATTACCATCCAAATCCATTAATAT
128 AAACCTACTCATGGATATCCACTAGCTTTGGTTTTAGTAATATTACCATCCAAATCCATTAATAT
*
35901 TCATTCACACATCCATTTTCTCCTTTAACTAATAGAAATCAACCTTTGCACCTCTTTCATTTTAG
193 TCATTCACACATCCATTTTCTCCTTTAACTAATAAAAATCAACCTTT-CACCTCTTTCATTTTAG
* * **
35966 TGGTTTTTACCTAATTAACTATTTAAATGTTA
257 TGCTTGTTACCTAATTAACTATTTAAACATTA
35998 TAAT
1 TAAT
36002 TTCTCAAAGA
Statistics
Matches: 266, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
288 40 0.15
290 117 0.44
291 109 0.41
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (288 bp):
TAATGGTGTATTCAGTTTTTGAAGAGATAAGGAAGAAGATGATATCTTTTTTTCTTACCCTTTGA
TTTACTTATCATTCATTACTTAATTACAAAGTTAACCTTTAATAATCATTAAATTTACACAAAAA
CCTACTCATGGATATCCACTAGCTTTGGTTTTAGTAATATTACCATCCAAATCCATTAATATTCA
TTCACACATCCATTTTCTCCTTTAACTAATAAAAATCAACCTTTCACCTCTTTCATTTTAGTGCT
TGTTACCTAATTAACTATTTAAACATTA
Found at i:40492 original size:4 final size:4
Alignment explanation
Indices: 40483--40723 Score: 151
Period size: 4 Copynumber: 58.2 Consensus size: 4
40473 AGCTGGATGA
* * * * *
40483 ATTT ATTT ATAT ATTT ATATAA ATAT ATTT ATTT AGTT ATTT ATTTT GTTT
1 ATTT ATTT ATTT ATTT AT-T-T ATTT ATTT ATTT ATTT ATTT A-TTT ATTT
* * * * * * * *
40534 AATT AGTT AATT ATTT GTAT ATTT GTTT ATTT ATTT AGTT AATT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * * *
40582 ATTT AGTT AGTT ATTT AGTT ATTT ATTT ATTT ATTTT AATTA ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT -ATTT ATTT ATTT
* * * * *
40632 A-TT ATTTT GTTT ATTTT ATTT ATTA AGTT ATTT ATTT ACTT ATTT ACTT
1 ATTT A-TTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * ** *
40681 ATTT ATGT ATTT ACTTT GTAAA ATTT ATTT AGTT ATTT ATTT A
1 ATTT ATTT ATTT A-TTT AT-TT ATTT ATTT ATTT ATTT ATTT A
40724 CTTAGTTAAA
Statistics
Matches: 178, Mismatches: 49, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
3 3 0.02
4 153 0.86
5 19 0.11
6 3 0.02
ACGTcount: A:0.29, C:0.01, G:0.06, T:0.64
Consensus pattern (4 bp):
ATTT
Found at i:45428 original size:21 final size:21
Alignment explanation
Indices: 45390--45429 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45380 TTGAATTCTG
* *
45390 CTTACTTGTTTCGATAGAACT
1 CTTACATGTATCGATAGAACT
*
45411 CTTACATGTATCGGTAGAA
1 CTTACATGTATCGATAGAA
45430 GTACAGGGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
CTTACATGTATCGATAGAACT
Found at i:46884 original size:18 final size:17
Alignment explanation
Indices: 46861--46894 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
46851 TGTAATTTAA
*
46861 ATTAATTTTTAATTAAGC
1 ATTAATTATT-ATTAAGC
46879 ATTAATTATTATTAAG
1 ATTAATTATTATTAAG
46895 TTTATATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (17 bp):
ATTAATTATTATTAAGC
Found at i:47812 original size:20 final size:20
Alignment explanation
Indices: 47773--47834 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
47763 ATTAATTATT
*
47773 TATAAAATTTAA-TTAGAATA
1 TATAAAATATAATTTA-AATA
47793 TATAAAATATAATTTAAATA
1 TATAAAATATAATTTAAATA
*
47813 T-TTAAATATAATCATTAAATA
1 TATAAAATATAAT--TTAAATA
47834 T
1 T
47835 TTGTAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
19 10 0.27
20 16 0.43
21 11 0.30
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TATAAAATATAATTTAAATA
Found at i:47832 original size:21 final size:19
Alignment explanation
Indices: 47797--47836 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
47787 AGAATATATA
47797 AAATATAATTTAAATATTT
1 AAATATAATTTAAATATTT
47816 AAATATAATCATTAAATATTT
1 AAATATAAT--TTAAATATTT
47837 GTAATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
21 10 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATATAATTTAAATATTT
Found at i:50304 original size:20 final size:19
Alignment explanation
Indices: 50276--50333 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
50266 TACATGATTG
* *
50276 TTAACAATTATTTAAAATT
1 TTAAAAATTATTAAAAATT
* *
50295 TTATAAAATTAATAAAAATC
1 TTA-AAAATTATTAAAAATT
*
50315 TTAAAAAATATTAAAAATT
1 TTAAAAATTATTAAAAATT
50334 ACTAGAAATG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAAATTATTAAAAATT
Found at i:50693 original size:19 final size:19
Alignment explanation
Indices: 50658--50694 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50648 ATATGAATAT
* *
50658 TAATTTTTTTAGTTTTTAG
1 TAATTTTTTAAGATTTTAG
50677 TAATTTTTTAAGATTTTA
1 TAATTTTTTAAGATTTTA
50695 TATTTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
TAATTTTTTAAGATTTTAG
Found at i:50882 original size:58 final size:58
Alignment explanation
Indices: 50784--50895 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
50774 ATCTTGACAT
* * * **
50784 TTTTTTTTAATTTGGTACTTAAATTTTTTAAGGTTTAATTTGGTACCTGAACTTAACA
1 TTTTTTTAAAGTTGGTACTTAAACTTTTTAAGGTCCAATTTGGTACCTGAACTTAACA
* **
50842 TTTTTTTAAAGTTGGTACTTAAACTTTTT-GGGATCCAATTTGGTATTTGAACTT
1 TTTTTTTAAAGTTGGTACTTAAACTTTTTAAGG-TCCAATTTGGTACCTGAACTT
50896 GACTTATTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 2 0.04
58 43 0.96
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (58 bp):
TTTTTTTAAAGTTGGTACTTAAACTTTTTAAGGTCCAATTTGGTACCTGAACTTAACA
Found at i:51104 original size:41 final size:41
Alignment explanation
Indices: 51058--51143 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
51048 TTTATAATAT
* * * *
51058 AAATTTAGATATCAAATTGAA-TATAAAAAAATTTAGATACC
1 AAATTTAAATACCAAATT-AAGTACAAAAAAATTTAGAAACC
*
51099 AAATTTAAATACCAAATTAAGTCCAAAAAAATTTAGAAACC
1 AAATTTAAATACCAAATTAAGTACAAAAAAATTTAGAAACC
51140 AAAT
1 AAAT
51144 GTTATATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.05
41 37 0.95
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.28
Consensus pattern (41 bp):
AAATTTAAATACCAAATTAAGTACAAAAAAATTTAGAAACC
Found at i:60705 original size:35 final size:35
Alignment explanation
Indices: 60666--60737 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
60656 TACTCAAGGA
60666 ATTGAAAGCTCCAAGCAAGTTTCAATCTAGGAAAG
1 ATTGAAAGCTCCAAGCAAGTTTCAATCTAGGAAAG
60701 ATTGAAAGCTCCAAGCAAGTTTCAATCTAGGAAAG
1 ATTGAAAGCTCCAAGCAAGTTTCAATCTAGGAAAG
60736 AT
1 AT
60738 AACCCTGGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (35 bp):
ATTGAAAGCTCCAAGCAAGTTTCAATCTAGGAAAG
Found at i:61765 original size:2 final size:2
Alignment explanation
Indices: 61758--61789 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
61748 GGTTGAAATA
61758 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
61790 CTTAATGAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:62378 original size:17 final size:17
Alignment explanation
Indices: 62339--62386 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
62329 AATACTTTGT
* *
62339 TTAATAATTCTTTTATC
1 TTAAAAATTTTTTTATC
*
62356 TT-AAAATTTTTTTTTC
1 TTAAAAATTTTTTTATC
*
62372 TTAAAAATATTTTTA
1 TTAAAAATTTTTTTA
62387 AGAAGTAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TTAAAAATTTTTTTATC
Found at i:62908 original size:32 final size:33
Alignment explanation
Indices: 62841--62912 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
62831 TAGAAAAACT
* * *
62841 AATATTTTTTGGTGTTTGGATGGATTTATATAA
1 AATATTTTCTGCTGTTTGGATAGATTTATATAA
*
62874 AATATTTTCTGCTGTTT-GATAGATTTCT-TGAA
1 AATATTTTCTGCTGTTTGGATAGATTTATAT-AA
62906 AATATTT
1 AATATTT
62913 CATAAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.03
32 18 0.53
33 15 0.44
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (33 bp):
AATATTTTCTGCTGTTTGGATAGATTTATATAA
Found at i:63322 original size:19 final size:19
Alignment explanation
Indices: 63298--63336 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63288 TATTATTAAT
*
63298 ATATTTA-TAATTATAATAA
1 ATATTTACT-ATTAAAATAA
63317 ATATTTACTATTAAAATAA
1 ATATTTACTATTAAAATAA
63336 A
1 A
63337 ATTGAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTTACTATTAAAATAA
Found at i:71432 original size:15 final size:15
Alignment explanation
Indices: 71375--71433 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
71365 TTCAATTTTT
71375 TTTG-TTAATGTTCA
1 TTTGTTTAATGTTCA
* **
71389 TTTATTTAAAATT-A
1 TTTGTTTAATGTTCA
* *
71403 TATGTGTTCATGTTCA
1 TTTGT-TTAATGTTCA
71419 TTTGTTTAATGTTCA
1 TTTGTTTAATGTTCA
71434 CGAACATGCT
Statistics
Matches: 32, Mismatches: 10, Indels: 5
0.68 0.21 0.11
Matches are distributed among these distances:
14 7 0.22
15 20 0.62
16 5 0.16
ACGTcount: A:0.25, C:0.07, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTGTTTAATGTTCA
Found at i:71478 original size:23 final size:23
Alignment explanation
Indices: 71452--71521 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
71442 CTCATTTAAC
*
71452 TTAATCGAAGATGTTCACGGACA
1 TTAATCGAACATGTTCACGGACA
* * * *
71475 TTAAACGAATATGTTCATGAACA
1 TTAATCGAACATGTTCACGGACA
* *
71498 TATAATTGAACATGTTTACGGACA
1 T-TAATCGAACATGTTCACGGACA
71522 ATGTTAATGA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 20 0.56
24 16 0.44
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (23 bp):
TTAATCGAACATGTTCACGGACA
Found at i:73410 original size:19 final size:17
Alignment explanation
Indices: 73374--73425 Score: 86
Period size: 19 Copynumber: 2.9 Consensus size: 17
73364 AATTATTAAA
73374 TATGGATTAATTATTGT
1 TATGGATTAATTATTGT
73391 TATGGATTAATCTAATTGT
1 TATGGATTAAT-T-ATTGT
73410 TATGGATTAATTATTG
1 TATGGATTAATTATTG
73426 GTGAAGTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 15 0.45
18 2 0.06
19 16 0.48
ACGTcount: A:0.31, C:0.02, G:0.17, T:0.50
Consensus pattern (17 bp):
TATGGATTAATTATTGT
Found at i:73715 original size:29 final size:29
Alignment explanation
Indices: 73675--73741 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
73665 ATTGTTCATC
73675 AGAATA-TAAGATCTTTTGAACTATTCGA
1 AGAATAGTAAGATCTTTTGAACTATTCGA
* *
73703 AGAATAGTAAGATCTTTTGAACTCTTTGA
1 AGAATAGTAAGATCTTTTGAACTATTCGA
73732 AGAATAGTAA
1 AGAATAGTAA
73742 TTCTTGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.34
Consensus pattern (29 bp):
AGAATAGTAAGATCTTTTGAACTATTCGA
Found at i:76064 original size:3 final size:3
Alignment explanation
Indices: 76056--76090 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
76046 TTAAAACTAC
76056 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
76091 GTTGAAGTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:76203 original size:18 final size:17
Alignment explanation
Indices: 76135--76208 Score: 94
Period size: 17 Copynumber: 4.3 Consensus size: 17
76125 ACTCATTCTA
**
76135 AAATTTATTTTAAGGTT
1 AAATTTATTTTAAATTT
* *
76152 AAATTTATTTTGAATCT
1 AAATTTATTTTAAATTT
76169 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
*
76186 AAATTTGTTTTCAAATTT
1 AAATTTATTTT-AAATTT
76204 AAATT
1 AAATT
76209 AAAAATAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
17 38 0.78
18 11 0.22
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:76309 original size:20 final size:20
Alignment explanation
Indices: 76284--76332 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
76274 AGGCCTAAAC
76284 AATGTCCAATTACTAGTCCA
1 AATGTCCAATTACTAGTCCA
76304 AATGTCCAATTACTAGTCCA
1 AATGTCCAATTACTAGTCCA
76324 AATGTCCAA
1 AATGTCCAA
76333 ATACAAAAGC
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:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (20 bp):
AATGTCCAATTACTAGTCCA
Found at i:77478 original size:29 final size:29
Alignment explanation
Indices: 77403--77819 Score: 339
Period size: 30 Copynumber: 14.2 Consensus size: 29
77393 CGAAAATTAG
* * *
77403 ATTTTTACCC-CGAAATTCCAAAAATTTC
1 ATTTTTACCCTAGAACTTCCAAAAATTCC
* * *
77431 ATTTTCGA-CCTTGAAACTTTCAAAAATTCC
1 ATTTT-TACCCTAG-AACTTCCAAAAATTCC
* *
77461 ATTTTTACCCTAGAACTTCTAAAAATTCG
1 ATTTTTACCCTAGAACTTCCAAAAATTCC
* * *
77490 ATTTTCGACCC-CGAAACTTCCAAAAAATCC
1 ATTTT-TACCCTAG-AACTTCCAAAAATTCC
77520 A-TTTTACCCCTA-AACTTCCAAAAATTCC
1 ATTTTTA-CCCTAGAACTTCCAAAAATTCC
*
77548 ATTTTTACCCCTA-AACTTCCAAAAATTCA
1 ATTTTTA-CCCTAGAACTTCCAAAAATTCC
* * * * *
77577 ATTTTCAACCCCAAAACTTCCAAAAAATAC
1 ATTTT-TACCCTAGAACTTCCAAAAATTCC
*
77607 ATTTTTGACACC-ATAACTTCCAAAAATTCC
1 ATTTTT-AC-CCTAGAACTTCCAAAAATTCC
* **
77637 ATTTTTACCCTTGAACTTCTGAAAATTCC
1 ATTTTTACCCTAGAACTTCCAAAAATTCC
* *
77666 ATTTTTAACCTTGAAACTTCCAAAAATTCC
1 ATTTTTACCCTAG-AACTTCCAAAAATTCC
* *
77696 ATTTTTAACCCTAAAACTTCCAAAAAATCC
1 ATTTTT-ACCCTAGAACTTCCAAAAATTCC
* * *
77726 ATTTTTACCCTCGAACCTCCAAAATTTCC
1 ATTTTTACCCTAGAACTTCCAAAAATTCC
* * *
77755 ATTTTTAACCCCAAAACTTTCAAAAATTACC
1 ATTTTT-ACCCTAGAACTTCCAAAAATT-CC
* * *
77786 A-TTTTACCCTTGGA-TGTCCAAAAACTCC
1 ATTTTTACCCTAGAACT-TCCAAAAATTCC
77814 ATTTTT
1 ATTTTT
77820 GACCTCGAAA
Statistics
Matches: 313, Mismatches: 56, Indels: 39
0.77 0.14 0.10
Matches are distributed among these distances:
28 30 0.10
29 132 0.42
30 142 0.45
31 9 0.03
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
ATTTTTACCCTAGAACTTCCAAAAATTCC
Found at i:77494 original size:59 final size:59
Alignment explanation
Indices: 77403--77790 Score: 335
Period size: 59 Copynumber: 6.6 Consensus size: 59
77393 CGAAAATTAG
* * * *
77403 ATTTTTACCC-CGAAATTCCAAAAATTTCATTTTCGACCTTGAAACTTTCAAAAATTCC
1 ATTTTTACCCTAGAACTTCCAAAAATTCCATTTTCGACCTTGAAACTTCCAAAAATTCC
* * ** *
77461 ATTTTTACCCTAGAACTTCTAAAAATTCGATTTTCGACCCCGAAACTTCCAAAAAATCC
1 ATTTTTACCCTAGAACTTCCAAAAATTCCATTTTCGACCTTGAAACTTCCAAAAATTCC
* * *
77520 A-TTTTACCCCTA-AACTTCCAAAAATTCCATTTT-TACCCCT-AAACTTCCAAAAATTCA
1 ATTTTTA-CCCTAGAACTTCCAAAAATTCCATTTTCGA-CCTTGAAACTTCCAAAAATTCC
* * * * * * *
77577 ATTTTCAACCCCAAAACTTCCAAAAAATACATTTTTGACAC--CATAACTTCCAAAAATTCC
1 ATTTT-TACCCTAGAACTTCCAAAAATTCCATTTTCGAC-CTTGA-AACTTCCAAAAATTCC
* ** **
77637 ATTTTTACCCTTGAACTTCTGAAAATTCCATTTTTAACCTTGAAACTTCCAAAAATTCC
1 ATTTTTACCCTAGAACTTCCAAAAATTCCATTTTCGACCTTGAAACTTCCAAAAATTCC
* * * * * *
77696 ATTTTTAACCCTAAAACTTCCAAAAAATCCATTTT-TACCCTCG-AACCTCCAAAATTTCC
1 ATTTTT-ACCCTAGAACTTCCAAAAATTCCATTTTCGA-CCTTGAAACTTCCAAAAATTCC
* * *
77755 ATTTTTAACCCCAAAACTTTCAAAAATTACCATTTT
1 ATTTTT-ACCCTAGAACTTCCAAAAATT-CCATTTT
77791 ACCCTTGGAT
Statistics
Matches: 272, Mismatches: 43, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
57 17 0.06
58 45 0.17
59 153 0.56
60 57 0.21
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (59 bp):
ATTTTTACCCTAGAACTTCCAAAAATTCCATTTTCGACCTTGAAACTTCCAAAAATTCC
Found at i:77662 original size:89 final size:87
Alignment explanation
Indices: 77445--77794 Score: 389
Period size: 89 Copynumber: 4.0 Consensus size: 87
77435 TCGACCTTGA
* * * * *
77445 AACTTTCAAAAATTCCATTTTTACCCTAGAACTTCTAAAAATTCGATTTTCGACCCCGAAACTTC
1 AACTTCCAAAAATTCCATTTTTACCCTTGAACTTCTAAAAATTCCATTTTCAACCCCAAAACTTC
* *
77510 CAAAAAATCCA-TTTTACCCCT
66 CAAAAAATACATTTTTACCCAT
* * * *
77531 AAACTTCCAAAAATTCCATTTTTACCCCTAAACTTCCAAAAATTCAATTTTCAACCCCAAAACTT
1 -AACTTCCAAAAATTCCATTTTTACCCTTGAACTTCTAAAAATTCCATTTTCAACCCCAAAACTT
77596 CCAAAAAATACATTTTTGACACCAT
65 CCAAAAAATACATTTTT-AC-CCAT
* * ***
77621 AACTTCCAAAAATTCCATTTTTACCCTTGAACTTCTGAAAATTCCATTTTTAACCTTGAAACTTC
1 AACTTCCAAAAATTCCATTTTTACCCTTGAACTTCTAAAAATTCCATTTTCAACCCCAAAACTTC
* * *
77686 CAAAAATTCCATTTTTAACCCTAA
66 CAAAAAATACATTTTT-ACCC-AT
* * * * * * *
77710 AACTTCCAAAAAATCCATTTTTACCCTCGAACCTCCAAAATTTCCATTTTTAACCCCAAAACTTT
1 AACTTCCAAAAATTCCATTTTTACCCTTGAACTTCTAAAAATTCCATTTTCAACCCCAAAACTTC
*
77775 CAAAAATTACCA-TTTTACCC
66 CAAAAAATA-CATTTTTACCC
77795 TTGGATGTCC
Statistics
Matches: 224, Mismatches: 34, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
87 67 0.30
88 10 0.04
89 142 0.63
90 5 0.02
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.33
Consensus pattern (87 bp):
AACTTCCAAAAATTCCATTTTTACCCTTGAACTTCTAAAAATTCCATTTTCAACCCCAAAACTTC
CAAAAAATACATTTTTACCCAT
Found at i:77791 original size:59 final size:59
Alignment explanation
Indices: 77403--77882 Score: 330
Period size: 59 Copynumber: 8.2 Consensus size: 59
77393 CGAAAATTAG
* * * * * *
77403 ATTTTT-ACCCCGAAA-TTCCAAAAATTTCATTTTCGA-CCTTGAAACTTTCAAAAATTCC
1 ATTTTTAACCCCAAAACTTTCAAAAATTCCATTTT-TACCCTCG-AACTTCCAAAAATTCC
* * * * *
77461 ATTTTT-ACCCTAGAAC-TTCTAAAAATTCGATTTTCGACCC-CGAAACTTCCAAAAAATCC
1 ATTTTTAACCCCAAAACTTTC-AAAAATTCCATTTT-TACCCTCG-AACTTCCAAAAATTCC
* * * *
77520 A-TTTT-ACCCCTAAACTTCCAAAAATTCCATTTTTACCC-CTAAACTTCCAAAAATTCA
1 ATTTTTAACCCCAAAACTTTCAAAAATTCCATTTTTACCCTC-GAACTTCCAAAAATTCC
* * * *
77577 ATTTTCAACCCCAAAACTTCCAAAAAATACATTTTTGACACCAT--AACTTCCAAAAATTCC
1 ATTTTTAACCCCAAAACTTTCAAAAATTCCATTTTT-AC-CC-TCGAACTTCCAAAAATTCC
*** * * *
77637 ATTTTT-ACCCTTGAAC-TTCTGAAAATTCCATTTTTAACCTTGAAACTTCCAAAAATTCC
1 ATTTTTAACCCCAAAACTTTC-AAAAATTCCATTTTTACCCTCG-AACTTCCAAAAATTCC
* * * * *
77696 ATTTTTAACCCTAAAACTTCCAAAAAATCCATTTTTACCCTCGAACCTCCAAAATTTCC
1 ATTTTTAACCCCAAAACTTTCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCC
* * *
77755 ATTTTTAACCCCAAAACTTTCAAAAATTACCA-TTTTACCCTTGGA-TGTCCAAAAACTCC
1 ATTTTTAACCCCAAAACTTTCAAAAATT-CCATTTTTACCCTCGAACT-TCCAAAAATTCC
* * * * * * **
77814 ATTTTTGACCTCGAAACTCTCAAAATTATCC--TTTTACCCCCGAA-TGTTTAAAAATTCC
1 ATTTTTAACCCCAAAACTTTCAAAAAT-TCCATTTTTACCCTCGAACT-TCCAAAAATTCC
77872 ATTTTTAACCC
1 ATTTTTAACCC
77883 TAAATTTTCC
Statistics
Matches: 340, Mismatches: 62, Indels: 40
0.77 0.14 0.09
Matches are distributed among these distances:
56 1 0.00
57 22 0.06
58 74 0.22
59 185 0.54
60 54 0.16
61 4 0.01
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (59 bp):
ATTTTTAACCCCAAAACTTTCAAAAATTCCATTTTTACCCTCGAACTTCCAAAAATTCC
Found at i:77838 original size:89 final size:90
Alignment explanation
Indices: 77403--77911 Score: 387
Period size: 89 Copynumber: 5.8 Consensus size: 90
77393 CGAAAATTAG
* * * ** *
77403 ATTTTT-ACCCCGAAA-TTCCAAAAATTTCATTTTCGA-CCTTGAAACTTTCAAAAATTCCATTT
1 ATTTTTAACCCCAAAACTTCCAAAAAATCCATTTTTAACCCTT-AAACTTCCAAAAATTCCATTT
* * *
77465 TTACCCTAG-AACT-TCTAAAAATTCG
65 TTACCCTCGAAACTCTC-AAAATTTCC
** * *
77490 ATTTTCGACCCCGAAACTTCCAAAAAATCCA-TTTT-ACCCCTAAACTTCCAAAAATTCCATTTT
1 ATTTTTAACCCCAAAACTTCCAAAAAATCCATTTTTAACCCTTAAACTTCCAAAAATTCCATTTT
* * *
77553 TACCC-CTAAACT-TCCAAAAATTCA
66 TACCCTCGAAACTCT-CAAAATTTCC
* * * *
77577 ATTTTCAACCCCAAAACTTCCAAAAAATACATTTTTGACACCAT-AACTTCCAAAAATTCCATTT
1 ATTTTTAACCCCAAAACTTCCAAAAAATCCATTTTTAAC-CCTTAAACTTCCAAAAATTCCATTT
* *
77641 TTACCCTTG-AACTTCTGAAAA-TTCC
65 TTACCCTCGAAAC-TCTCAAAATTTCC
*** * * *
77666 ATTTTTAACCTTGAAACTTCCAAAAATTCCATTTTTAACCCTAAAACTTCCAAAAAATCCATTTT
1 ATTTTTAACCCCAAAACTTCCAAAAAATCCATTTTTAACCCTTAAACTTCCAAAAATTCCATTTT
*
77731 TACCCTCGAACCTC-CAAAATTTCC
66 TACCCTCGAAACTCTCAAAATTTCC
* * ** *
77755 ATTTTTAACCCCAAAACTTTCAAAAATTACCA-TTTT-ACCCTTGGA-TGTCCAAAAACTCCATT
1 ATTTTTAACCCCAAAACTTCCAAAAAAT-CCATTTTTAACCCTTAAACT-TCCAAAAATTCCATT
77817 TTTGA-CCTCGAAACTCTCAAAATTATCC
64 TTT-ACCCTCGAAACTCTCAAAATT-TCC
* * ** * * * *
77845 --TTTTACCCCCGAATGTT-TAAAAATTCCATTTTTAACCC-TAAATTTTCCCAAAATTACCA-T
1 ATTTTTAACCCCAAAACTTCCAAAAAATCCATTTTTAACCCTTAAA-CTTCCAAAAATT-CCATT
77905 TTTACCC
64 TTTACCC
77912 CTAAAAATCC
Statistics
Matches: 349, Mismatches: 48, Indels: 49
0.78 0.11 0.11
Matches are distributed among these distances:
86 3 0.01
87 88 0.25
88 90 0.26
89 151 0.43
90 16 0.05
91 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (90 bp):
ATTTTTAACCCCAAAACTTCCAAAAAATCCATTTTTAACCCTTAAACTTCCAAAAATTCCATTTT
TACCCTCGAAACTCTCAAAATTTCC
Found at i:77867 original size:58 final size:59
Alignment explanation
Indices: 77684--77912 Score: 189
Period size: 59 Copynumber: 3.9 Consensus size: 59
77674 CCTTGAAACT
* * * * **
77684 TCCAAAAATTCCATTTTTAACCCTAAAACT-TCCAAAAAAT-CCATTTTTACCCTCGAACC
1 TCCAAAAACTCCATTTTTAACCCCAAAACTCT-CAAAAATTACCA-TTTTACCCCCGAATG
** * ** *
77743 TCCAAAATTTCCATTTTTAACCCCAAAACTTTCAAAAATTACCATTTTACCCTTGGATG
1 TCCAAAAACTCCATTTTTAACCCCAAAACTCTCAAAAATTACCATTTTACCCCCGAATG
* * *
77802 TCCAAAAACTCCATTTTTGACCTCGAAACTCTC-AAAATTATCC-TTTTACCCCCGAATG
1 TCCAAAAACTCCATTTTTAACCCCAAAACTCTCAAAAATTA-CCATTTTACCCCCGAATG
** * * * * *
77860 TTTAAAAATTCCATTTTTAA-CCCTAAATTTTCCCAAAATTACCATTTTACCCC
1 TCCAAAAACTCCATTTTTAACCCCAAAACTCT-CAAAAATTACCATTTTACCCC
77913 TAAAAATCCA
Statistics
Matches: 140, Mismatches: 24, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
57 7 0.05
58 38 0.27
59 91 0.65
60 4 0.03
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (59 bp):
TCCAAAAACTCCATTTTTAACCCCAAAACTCTCAAAAATTACCATTTTACCCCCGAATG
Found at i:90389 original size:206 final size:206
Alignment explanation
Indices: 90019--90394 Score: 547
Period size: 206 Copynumber: 1.8 Consensus size: 206
90009 AATCTTCGAG
* * * *
90019 CTTCCTAATGAGATACTGAGAAACAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT
1 CTTCCTAATGAGATACTAAGAAACAGGGCGAAGCAATAAAATGATTAGCTTCCTGATGAGATACG
* * * * *
90084 GAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGAGGATTAAAACAAGCGATGTGG
66 GAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGAGGATCAAAACAAGCGATGCGG
* *
90149 TCACCTTTCCGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCAATATGAACAAATCT
131 TCACCTTTCCGATGAAATACTAAGAAGAAGACCAAATCAAACCCACGCTCAATATGAACAAATCT
90214 TCGAACCCCAA
196 TCGAACCCCAA
* ** *
90225 CTTCCTGATGAGATACTAAGAAGTAGGGCGAAGCAATAAAATGATTAGCTTCTTGATGAGATACG
1 CTTCCTAATGAGATACTAAGAAACAGGGCGAAGCAATAAAATGATTAGCTTCCTGATGAGATACG
* * * *
90290 GAGAAGTGAATCAAATCCGTCTTCTTGATGAAACACAGAGAAGTGGATCAAGACAAGCGATGCGG
66 GAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGAGGATCAAAACAAGCGATGCGG
* *
90355 TCATC-TTCCTGATGAAATACTAAGAAGTAGACCAAATCAA
131 TCACCTTTCC-GATGAAATACTAAGAAGAAGACCAAATCAA
90395 CGACACCAAA
Statistics
Matches: 148, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
205 4 0.03
206 144 0.97
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.22
Consensus pattern (206 bp):
CTTCCTAATGAGATACTAAGAAACAGGGCGAAGCAATAAAATGATTAGCTTCCTGATGAGATACG
GAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGAGGATCAAAACAAGCGATGCGG
TCACCTTTCCGATGAAATACTAAGAAGAAGACCAAATCAAACCCACGCTCAATATGAACAAATCT
TCGAACCCCAA
Found at i:90754 original size:6 final size:6
Alignment explanation
Indices: 90716--90807 Score: 66
Period size: 6 Copynumber: 15.8 Consensus size: 6
90706 TATTTTAAGG
* * * * **
90716 TTAAAT TT-ATT TTGAAT ATAAAT TT-ATT TTAAAT TTAAAT TT-GTT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * *
90761 TTAAAAT TTAAAT TT-AAT ATAAAT TTAGAT TTATAT TTAAAT TTAAA
1 TT-AAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
90808 ACTTATTATA
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
5 15 0.23
6 47 0.72
7 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:90769 original size:18 final size:17
Alignment explanation
Indices: 90701--90807 Score: 124
Period size: 17 Copynumber: 6.2 Consensus size: 17
90691 ACTCATTCTA
**
90701 AAATTTATTTTAAGGTT
1 AAATTTATTTTAAATTT
* *
90718 AAATTTATTTTGAATAT
1 AAATTTATTTTAAATTT
90735 AAATTTATTTTAAATTT
1 AAATTTATTTTAAATTT
*
90752 AAATTTGTTTTAAAATTT
1 AAATTTATTTT-AAATTT
* *
90770 AAATTTAATATAAATTT
1 AAATTTATTTTAAATTT
*
90787 AGATTTATATTTAAATTT
1 AAATTTAT-TTTAAATTT
90805 AAA
1 AAA
90808 ACTTATTATA
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
17 50 0.68
18 24 0.32
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
AAATTTATTTTAAATTT
Found at i:90783 original size:29 final size:29
Alignment explanation
Indices: 90734--90806 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
90724 ATTTTGAATA
* * *
90734 TAAATTT-ATTTTAAATTTAAATTT-GTTT
1 TAAATTTAAATTT-AATATAAATTTAGATT
90762 TAAAATTTAAATTTAATATAAATTTAGATT
1 T-AAATTTAAATTTAATATAAATTTAGATT
*
90792 TATATTTAAATTTAA
1 TAAATTTAAATTTAA
90807 AACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 1 0.03
29 29 0.76
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (29 bp):
TAAATTTAAATTTAATATAAATTTAGATT
Found at i:90784 original size:35 final size:34
Alignment explanation
Indices: 90716--90807 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 34
90706 TATTTTAAGG
* * * *
90716 TTAAATTTATTTTGAATATAAATTTATTTTAAAT
1 TTAAATTTATTTTAAATTTAAATTTAATATAAAT
*
90750 TTAAATTTGTTTTAAAATTTAAATTTAATATAAAT
1 TTAAATTTATTTT-AAATTTAAATTTAATATAAAT
*
90785 TTAGATTTATATTTAAATTTAAA
1 TTAAATTTAT-TTTAAATTTAAA
90808 ACTTATTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
34 12 0.24
35 34 0.69
36 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (34 bp):
TTAAATTTATTTTAAATTTAAATTTAATATAAAT
Found at i:92606 original size:29 final size:29
Alignment explanation
Indices: 92573--92884 Score: 259
Period size: 29 Copynumber: 10.5 Consensus size: 29
92563 CTAAACTATT
*
92573 CAAAAATTACATTTTTACCCCAAAACTTC
1 CAAAAATTCCATTTTTACCCCAAAACTTC
* * **
92602 CAAAAATTCCATTTTCGATCCTTAAACTTC
1 CAAAAATTCCATTTT-TACCCCAAAACTTC
* **
92632 CAAAAGTTCCATTTTTACCCCCGAACTTC
1 CAAAAATTCCATTTTTACCCCAAAACTTC
* **
92661 TAAAAATTCCATTTTTACCCCCGAACTTC
1 CAAAAATTCCATTTTTACCCCAAAACTTC
*
92690 CAAAAATTCCATTTTTGACCCCAAAATTTC
1 CAAAAATTCCATTTTT-ACCCCAAAACTTC
* * * *
92720 AAAAAAATCCATTTTCAACCCCCAAAACTAC
1 CAAAAATTCCATTTT-TA-CCCCAAAACTTC
** * *
92751 CAAAAATTTAATTTTTACCGTC-GAACTTC
1 CAAAAATTCCATTTTTACC-CCAAAACTTC
* *
92780 CCAAAATTCCATTTTTGACCCCAAAGCTTC
1 CAAAAATTCCATTTTT-ACCCCAAAACTTC
* * * * *
92810 TAAAAATTCTAATTTTACCCTC-GAACCTC
1 CAAAAATTCCATTTTTACCC-CAAAACTTC
* * *
92839 CAAAATTTCCATTTTTAACCCCGAAACTTT
1 CAAAAATTCCATTTTT-ACCCCAAAACTTC
92869 CAAAAATTACCATTTT
1 CAAAAATT-CCATTTT
92885 CCCCTGAATG
Statistics
Matches: 221, Mismatches: 51, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
29 107 0.48
30 86 0.39
31 28 0.13
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.33
Consensus pattern (29 bp):
CAAAAATTCCATTTTTACCCCAAAACTTC
Found at i:92659 original size:59 final size:59
Alignment explanation
Indices: 92573--92884 Score: 277
Period size: 59 Copynumber: 5.3 Consensus size: 59
92563 CTAAACTATT
* ** * **
92573 CAAAAATTACATTTTTACCCCAAAACTTCCAAAAATTCCATTTTCGATCCTTAAACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTCGACCCCCAAACTTC
* * * *
92632 CAAAAGTTCCATTTTTACCCCCGAACTTCTAAAAATTCCATTTT-TACCCCCGAACTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTCGACCCCCAAACTTC
** * * * * *
92690 CAAAAATTCCATTTTTGACCCCAAAATTTCAAAAAAATCCATTTTCAACCCCCAAAACTAC
1 CAAAAATTCCATTTTT-ACCCCCGAACTTCCAAAAATTCCATTTTCGACCCCC-AAACTTC
** ** * *
92751 CAAAAATTTAATTTTTACCGTCGAACTTCCCAAAATTCCATTTTTGA-CCCCAAAGCTTC
1 CAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTCGACCCCCAAA-CTTC
* * * * * * ** * *
92810 TAAAAATTCTAATTTTACCCTCGAACCTCCAAAATTTCCATTTTTAACCCCGAAACTTT
1 CAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTCGACCCCCAAACTTC
92869 CAAAAATTACCATTTT
1 CAAAAATT-CCATTTT
92885 CCCCTGAATG
Statistics
Matches: 201, Mismatches: 46, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
58 27 0.13
59 117 0.58
60 38 0.19
61 19 0.09
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.33
Consensus pattern (59 bp):
CAAAAATTCCATTTTTACCCCCGAACTTCCAAAAATTCCATTTTCGACCCCCAAACTTC
Found at i:92924 original size:58 final size:56
Alignment explanation
Indices: 92846--93005 Score: 167
Period size: 58 Copynumber: 2.8 Consensus size: 56
92836 CTCCAAAATT
* *
92846 TCCATTTTTAACCCCGAAACTTTCAAAAATTACCATTTTCCCCTGAATGTCAAAAAAC
1 TCCATTTTCAA-CCCAAAACTTTC-AAAATTACCATTTTCCCCTGAATGTCAAAAAAC
* * * * *
92904 TCCATTTTCAACATCAAAACTCTCAAAATTACCCTTTTACCCCTGAATGTCTAAAAAT
1 TCCATTTTCAAC-CCAAAACTTTCAAAATTACCATTTT-CCCCTGAATGTCAAAAAAC
* * * *
92962 TCCATTTTTAACCCTAAATTTTCCCAAAATTACCATTTTACCCT
1 TCCATTTTCAACCCAAAACTTT--CAAAATTACCATTTTCCCCT
93006 CGAAAATCCA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
57 20 0.24
58 50 0.60
59 14 0.17
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (56 bp):
TCCATTTTCAACCCAAAACTTTCAAAATTACCATTTTCCCCTGAATGTCAAAAAAC
Found at i:92970 original size:29 final size:28
Alignment explanation
Indices: 92938--93034 Score: 58
Period size: 29 Copynumber: 3.4 Consensus size: 28
92928 AAAATTACCC
*
92938 TTTTACCCCTGAATGTCTAAAAATTCCAT
1 TTTTACCCCTGAAT-TCCAAAAATTCCAT
* * *
92967 TTTTAACCCTAAATTTTCCCAAAATTACCA-
1 TTTTACCCCTGAA--TTCCAAAAATT-CCAT
*
92997 TTTTA-CCCTCGAAAATCC-AAAATTACCA-
1 TTTTACCCCT-G-AATTCCAAAAATT-CCAT
93025 TTTTACCCCT
1 TTTTACCCCT
93035 AGGTATCCAT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
28 15 0.27
29 22 0.39
30 13 0.23
31 6 0.11
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (28 bp):
TTTTACCCCTGAATTCCAAAAATTCCAT
Found at i:94478 original size:167 final size:157
Alignment explanation
Indices: 94166--94488 Score: 502
Period size: 167 Copynumber: 2.0 Consensus size: 157
94156 TAGTTGATGC
*
94166 GTTGAAGCTTTAATCATTGTAGCTTCCTTAGAGTCTCTTTGTTCTTCCACATTTATTTTCATGTG
1 GTTGAAGCTTTAATCATTGTAGCTTCCTTAGAGTCTCATTGTTCTTCCACATTTATTTTCATGTG
*
94231 TCAAGGTTTTGAAGATTGTAAGTGTTTTTTGGTGATTGATTGTTTTCTTTTCTATTATATTATTT
66 TCAAGGTTTTGAAGAATGTAAGTGTTTTTTGGTGATTGATTGTTTTCTTTTCTATTATATTATTT
94296 AGTTGATGTTCTAATAGGTTGGTATGT
131 AGTTGATGTTCTAATAGGTTGGTATGT
* *
94323 GTTGAAGCTTTAATCATTGTAGCTTCCTTAGAGTCTCAATTGTTCTTCCACATTTGTTTTCGTGT
1 GTTGAAGCTTTAATCATTGTAGCTTCCTTAGAGTCTC-ATTGTTCTTCCACATTTATTTTCATGT
*
94388 GTCAAGGTTTTGAAGAATGTAAGTGTTTTCTTTTGGGTTTGGTGATTGATTGTTTTCTTTTGTAT
65 GTCAAGGTTTTGAAGAATGTAAGTG------TTT---TTTGGTGATTGATTGTTTTCTTTTCTAT
*
94453 TATATTATTTGGTTGATGTTCTAATAGGTTGGTATG
121 TATATTATTTAGTTGATGTTCTAATAGGTTGGTATG
94489 GGAATTGAGA
Statistics
Matches: 150, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
157 37 0.25
158 48 0.32
164 3 0.02
167 62 0.41
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.50
Consensus pattern (157 bp):
GTTGAAGCTTTAATCATTGTAGCTTCCTTAGAGTCTCATTGTTCTTCCACATTTATTTTCATGTG
TCAAGGTTTTGAAGAATGTAAGTGTTTTTTGGTGATTGATTGTTTTCTTTTCTATTATATTATTT
AGTTGATGTTCTAATAGGTTGGTATGT
Found at i:95839 original size:18 final size:16
Alignment explanation
Indices: 95813--95855 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
95803 AGGTATACTA
*
95813 ATATTTATACATACATAC
1 ATATATATACAT--ATAC
95831 ATATATATACATATAC
1 ATATATATACATATAC
*
95847 GTATATATA
1 ATATATATA
95856 TAGTTTCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 12 0.52
18 11 0.48
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.40
Consensus pattern (16 bp):
ATATATATACATATAC
Found at i:96679 original size:30 final size:30
Alignment explanation
Indices: 96640--96756 Score: 157
Period size: 30 Copynumber: 3.9 Consensus size: 30
96630 TTCGAACCCA
* *
96640 AACTGTCCAAAAATT-ATGTTTTGACCCTCG
1 AACTTTCCAAAAATTCAT-ATTTGACCCTCG
96670 AACTTTCCAAAAATTCATATTTGACGCCT-G
1 AACTTTCCAAAAATTCATATTTGAC-CCTCG
96700 AACTTTCCAAAAATTCATATTTGACCCTCG
1 AACTTTCCAAAAATTCATATTTGACCCTCG
* * *
96730 AACTTTCCAAAATTTTATTTTTGACCC
1 AACTTTCCAAAAATTCATATTTGACCC
96757 CGTTTTCCTT
Statistics
Matches: 79, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
29 3 0.04
30 71 0.90
31 5 0.06
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.36
Consensus pattern (30 bp):
AACTTTCCAAAAATTCATATTTGACCCTCG
Found at i:100838 original size:27 final size:27
Alignment explanation
Indices: 100808--100859 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
100798 AACAAATTCG
100808 TTTATACTCAAGCTACACAATCGATCA
1 TTTATACTCAAGCTACACAATCGATCA
100835 TTTATACTCAAGCTACACAATCGAT
1 TTTATACTCAAGCTACACAATCGAT
100860 TCTTTAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTATACTCAAGCTACACAATCGATCA
Found at i:100865 original size:27 final size:28
Alignment explanation
Indices: 100803--100865 Score: 103
Period size: 27 Copynumber: 2.3 Consensus size: 28
100793 CAACAAACAA
*
100803 ATTCGTTTATACTCAAGCTACACAATCG
1 ATTCATTTATACTCAAGCTACACAATCG
100831 A-TCATTTATACTCAAGCTACACAATCG
1 ATTCATTTATACTCAAGCTACACAATCG
100858 ATTC-TTTA
1 ATTCATTTA
100866 AAACATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 30 0.91
28 3 0.09
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (28 bp):
ATTCATTTATACTCAAGCTACACAATCG
Found at i:101409 original size:11 final size:11
Alignment explanation
Indices: 101395--101431 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
101385 AAAAAGAGGT
101395 AAAAAAAAAGA
1 AAAAAAAAAGA
*
101406 AAAAAGAAAGA
1 AAAAAAAAAGA
101417 AAAAGAAAAAGA
1 AAAA-AAAAAGA
101429 AAA
1 AAA
101432 GGGTCGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:101421 original size:6 final size:6
Alignment explanation
Indices: 101395--101431 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
101385 AAAAAGAGGT
*
101395 AAAA-A AAAAGA AAAA-A GAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
101432 GGGTCGAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 8 0.29
6 20 0.71
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:101432 original size:17 final size:16
Alignment explanation
Indices: 101395--101431 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
101385 AAAAAGAGGT
101395 AAAAAAAAAGAAAAAAG
1 AAAAAAAAAG-AAAAAG
*
101412 AAAGAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
101428 AAAA
1 AAAA
101432 GGGTCGAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:102423 original size:22 final size:20
Alignment explanation
Indices: 102398--102458 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 20
102388 AGAGAGAAAA
*
102398 GAAAAGAAATGAAATGAAAAGG
1 GAAAAGAAAAGAAA--AAAAGG
102420 GAAAAGAAAAAGAAAAAAAGG
1 GAAAAG-AAAAGAAAAAAAGG
102441 GAAGAAGAAAAAGAAAAA
1 GAA-AAG-AAAAGAAAAA
102459 GAAGAGGTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 9 0.25
22 20 0.56
23 7 0.19
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (20 bp):
GAAAAGAAAAGAAAAAAAGG
Found at i:102440 original size:21 final size:22
Alignment explanation
Indices: 102414--102458 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
102404 AAATGAAATG
102414 AAAAGGGAA-AAGAAAAAGAAA
1 AAAAGGGAAGAAGAAAAAGAAA
102435 AAAAGGGAAGAAGAAAAAGAAA
1 AAAAGGGAAGAAGAAAAAGAAA
102457 AA
1 AA
102459 GAAGAGGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (22 bp):
AAAAGGGAAGAAGAAAAAGAAA
Found at i:103474 original size:98 final size:97
Alignment explanation
Indices: 103342--103589 Score: 266
Period size: 98 Copynumber: 2.5 Consensus size: 97
103332 TACCATAGGA
* * * * ** *
103342 ATGTGAAGGAAGAGATTAAAGCTACACTGGTGAATCTTATACCTTAGTGATG-TGATAGGAAAGG
1 ATGTGAAGGAA-AGATTGAAGCCACAATGGTGAATCTTATACCCTAAAGATGAAGA-AGGAAAGG
* * * *
103406 TTGAAG-CAGCAACGACAAACGTTATACCTTAGTG
64 TGGAAGCCA-CAACGACAAACCTTATACCCTAGAG
* *
103440 ATGTGAACGGAAAGATTGAAGCCACAATGATGAATCTTATACCCTAAAGATGAAGAGGGAAAGGT
1 ATGTGAA-GGAAAGATTGAAGCCACAATGGTGAATCTTATACCCTAAAGATGAAGAAGGAAAGGT
*
103505 GGAAGCCACAACGGCAAACCTTATACCCTAGAG
65 GGAAGCCACAACGACAAACCTTATACCCTAGAG
* * * * *
103538 ATGTGAAGGGAAAGATTGAAACCGCAAAGGTGAATCTTATGCCCTGAAGATG
1 ATGTGAA-GGAAAGATTGAAGCCACAATGGTGAATCTTATACCCTAAAGATG
103590 TAGAGAAGCA
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
98 118 0.94
99 8 0.06
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (97 bp):
ATGTGAAGGAAAGATTGAAGCCACAATGGTGAATCTTATACCCTAAAGATGAAGAAGGAAAGGTG
GAAGCCACAACGACAAACCTTATACCCTAGAG
Found at i:103480 original size:49 final size:48
Alignment explanation
Indices: 103301--103590 Score: 178
Period size: 49 Copynumber: 5.9 Consensus size: 48
103291 ATACGAGGTG
* * * *
103301 GGAAAGATAGAAGCCGCAAC-AGTGAATCTTGTACCATAG-GAATGTGAA
1 GGAAAGATTGAAGCCACAACGA-TGAATCTTATACCCTAGAG-ATGTGAA
* * * * *
103349 GGAAGAGATTAAAGCTAC-ACTGGTGAATCTTATACCTTAGTGATGTGATA
1 GGAA-AGATTGAAGCCACAAC-GATGAATCTTATACCCTAGAGATGTGA-A
* * * * *
103399 GGAAAGGTTGAAG-CAGCAACGA-CAAACGTTATACCTTAGTGATGTGAA
1 GGAAAGATTGAAGCCA-CAACGATGAATC-TTATACCCTAGAGATGTGAA
* * * *
103447 CGGAAAGATTGAAGCCACAATGATGAATCTTATACCCTAAAGATGAAGAG
1 -GGAAAGATTGAAGCCACAACGATGAATCTTATACCCTAGAGATG-TGAA
* * *** *
103497 GGAAAGGTGGAAGCCACAACGGCAAACCTTATACCCTAGAGATGTGAA
1 GGAAAGATTGAAGCCACAACGATGAATCTTATACCCTAGAGATGTGAA
* * * * *
103545 GGGAAAGATTGAAACCGCAAAGGTGAATCTTATGCCCT-GAAGATGT
1 -GGAAAGATTGAAGCCACAACGATGAATCTTATACCCTAG-AGATGT
103591 AGAGAAGCAT
Statistics
Matches: 187, Mismatches: 41, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
48 14 0.07
49 158 0.84
50 15 0.08
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.21
Consensus pattern (48 bp):
GGAAAGATTGAAGCCACAACGATGAATCTTATACCCTAGAGATGTGAA
Found at i:103965 original size:45 final size:45
Alignment explanation
Indices: 103867--104500 Score: 632
Period size: 45 Copynumber: 14.2 Consensus size: 45
103857 CCGACCATTA
* * * *
103867 GGCAGATTGAAACCATCATCCAATATTTTA-CCCTAGTCAAGAAG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGG
* * * *
103911 GGCATATTGAAGTCATCTTCCAATCTTTTACCCCTAATCTAGAGG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGG
* * * *
103956 GGCAGATTGAAG-C-T-GTCTAATCTTTTACCCCTAGTCAAGAGA
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGG
* * * * * *
103998 GACAGATTGAAGTCA-CTGTCCAATCTTTTACCCCTCATCCAGATG
1 GGCAGATTGAAGCCATC-ATCCAATCTTTTACCCCTAATCAAGAGG
* * *
104043 GACA-AGTTGAAGCAAT--TCCGATCTTTTACCCCTAATCAAGAAGG
1 GGCAGA-TTGAAGCCATCATCCAATCTTTTACCCCTAATCAAG-AGG
*
104087 GGCAGATTGAAGCC-T--TCCAATCTTTTACCCCTAGTCACA-AGG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCA-AGAGG
* * * * * * *
104129 GGCTGACTGAAGCCATCTTTCCAAACTTTTACCCTTAGTTAAGAGG
1 GGCAGATTGAAGCCATC-ATCCAATCTTTTACCCCTAATCAAGAGG
** * * *
104175 GGCAGATTGAAGTTA-CTGTCTAATCTTTTACCCCTAATCTAGAGG
1 GGCAGATTGAAGCCATC-ATCCAATCTTTTACCCCTAATCAAGAGG
* * *
104220 GGCAGATTGAAGCCATCATCTAATCTTTTACCCCTAATCCAGAGA
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGG
* * * *
104265 GGCAGATTAAAACCATCATCTAATCTTTTACCCCTAATCCAA-AAG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAAT-CAAGAGG
* * * *
104310 GGAAGATTGAAGCCATCATCCAATCTTTTACCCTTAATCCAGAAG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGG
* * *
104355 GGCAGATTAAAGCCATAATCCAATCTTTTACCCCTAATCCAGAGG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGG
*
104400 GACAGATTGAAGCCATCATCCAATCTTTTACCCCTAA-CAAGAGG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGG
* *
104444 GGCAGATTGAAGCAATCATCCAATCTTTTACCCCTCAGTCAAGAGG
1 GGCAGATTGAAGCCATCATCCAATCTTTTACCCCT-AATCAAGAGG
104490 GGCAGATTGAA
1 GGCAGATTGAA
104501 ACTATTATCT
Statistics
Matches: 495, Mismatches: 75, Indels: 38
0.81 0.12 0.06
Matches are distributed among these distances:
42 49 0.10
43 45 0.09
44 81 0.16
45 266 0.54
46 54 0.11
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (45 bp):
GGCAGATTGAAGCCATCATCCAATCTTTTACCCCTAATCAAGAGG
Found at i:104646 original size:48 final size:48
Alignment explanation
Indices: 104575--104666 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 48
104565 TTTAAAGCCC
* * * *
104575 CATCTTCTTTATGAGATACAGAGAAGTGGATCAAAATGATGAAGCAGT
1 CATCTTCTTGACGAGATACAGAGAAGTGGACCAAAATAATGAAGCAGT
*
104623 CATCTTCTTGACGAGATACAGAGAAGTGTACCAAAATAATGAAG
1 CATCTTCTTGACGAGATACAGAGAAGTGGACCAAAATAATGAAG
104667 TGAAACTCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (48 bp):
CATCTTCTTGACGAGATACAGAGAAGTGGACCAAAATAATGAAGCAGT
Found at i:104750 original size:124 final size:124
Alignment explanation
Indices: 104523--104781 Score: 383
Period size: 124 Copynumber: 2.1 Consensus size: 124
104513 CTCAAGTTGT
* * * * * *
104523 AGTGGATCAAAACAATGAAGTGGAACTCAACGTGAGTGAAACTTTAAAGCCCCATCTTCTTTATG
1 AGTGGACCAAAACAATGAAGTGAAACTCAACGTGAGTGAAACTTCAAACCCCCATCTTCCTGATG
* * * *
104588 AGATACAGAGAAGTGGATCAAAATGATGAAGCAGTCATCTTCTTGACGAGATACAGAGA
66 AGATACAGAGAAGTGGATCAAAATAATAAAACAGTCATCTTCCTGACGAGATACAGAGA
* * *
104647 AGTGTACCAAAATAATGAAGTGAAACTCAATGTGAGTGAAACTTCAAACCCCCATCTTCCTGATG
1 AGTGGACCAAAACAATGAAGTGAAACTCAACGTGAGTGAAACTTCAAACCCCCATCTTCCTGATG
* *
104712 AGATACAGAGAAGTGGATCAAAATAATAAAACGGTCATCTTCCTGATGAGATACAGAGA
66 AGATACAGAGAAGTGGATCAAAATAATAAAACAGTCATCTTCCTGACGAGATACAGAGA
104771 AGTGGACCAAA
1 AGTGGACCAAA
104782 CCCACCTTTC
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
124 119 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (124 bp):
AGTGGACCAAAACAATGAAGTGAAACTCAACGTGAGTGAAACTTCAAACCCCCATCTTCCTGATG
AGATACAGAGAAGTGGATCAAAATAATAAAACAGTCATCTTCCTGACGAGATACAGAGA
Found at i:104849 original size:85 final size:85
Alignment explanation
Indices: 104697--104920 Score: 304
Period size: 85 Copynumber: 2.6 Consensus size: 85
104687 ACTTCAAACC
* * *
104697 CCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAAATAATAAAACGGTCATCTTCCTGATGAG
1 CCCACCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCGGTCATCTTCCTGATGAG
*
104762 ATACAGAGAAGTGGACCAAA
66 ATACAAAGAAGTGGACCAAA
* * * * *
104782 CCCACCTTTCTGATGAGATATAGAGAAATGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAG
1 CCCACCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCGGTCATCTTCCTGATGAG
*
104847 ATATAAAGAAGTGGACCAAA
66 ATACAAAGAAGTGGACCAAA
* * * * * *
104867 TCCACCTTCCTGATAAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATC
1 CCCACCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCGGTCATC
104921 CTTTTAGTCT
Statistics
Matches: 119, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 119 1.00
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (85 bp):
CCCACCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAATAAAGCGGTCATCTTCCTGATGAG
ATACAAAGAAGTGGACCAAA
Found at i:111160 original size:30 final size:30
Alignment explanation
Indices: 111103--111265 Score: 151
Period size: 30 Copynumber: 5.5 Consensus size: 30
111093 TTATTTTTTT
* **
111103 AAAATTGCATTTTGACCACGAAAACTTTTCC
1 AAAATTACATTTTGACC-CTTAAACTTTTCC
*
111134 AAAATTATATTTTGACCCTTAAACTTTTCC
1 AAAATTACATTTTGACCCTTAAACTTTTCC
111164 AAAATTACATTTTGACCCTTAAACTTCTT--
1 AAAATTACATTTTGACCCTTAAACTT-TTCC
* * *
111193 AAAA-CACATTTTAACCC-CAAAC-TTTCAC
1 AAAATTACATTTTGACCCTTAAACTTTTC-C
* * *
111221 AAAATCACATTTTAACCCCTAAAC--TTCC
1 AAAATTACATTTTGACCCTTAAACTTTTCC
111249 TAAAATTACATTTTGAC
1 -AAAATTACATTTTGAC
111266 AGCAAATTCT
Statistics
Matches: 114, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.02
26 1 0.01
27 4 0.04
28 16 0.14
29 34 0.30
30 40 0.35
31 17 0.15
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCTTAAACTTTTCC
Found at i:111231 original size:57 final size:58
Alignment explanation
Indices: 111154--111262 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 58
111144 TTTGACCCTT
* * * *
111154 AAACTTTTCCAAAATTACATTTTGACCCTTAAACTTCTTAAAA-CACATTTTAACCCC
1 AAACTTTTCCAAAATCACATTTTAACCCCTAAACTTCCTAAAATCACATTTTAACCCC
*
111211 AAAC-TTTCACAAAATCACATTTTAACCCCTAAACTTCCTAAAATTACATTTT
1 AAACTTTTC-CAAAATCACATTTTAACCCCTAAACTTCCTAAAATCACATTTT
111263 GACAGCAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 4 0.09
57 34 0.76
58 7 0.16
ACGTcount: A:0.39, C:0.26, G:0.01, T:0.35
Consensus pattern (58 bp):
AAACTTTTCCAAAATCACATTTTAACCCCTAAACTTCCTAAAATCACATTTTAACCCC
Found at i:111233 original size:29 final size:27
Alignment explanation
Indices: 111160--111262 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 27
111150 CCTTAAACTT
* * *
111160 TTCCAAAATTACATTTTGACCCTTAAAC
1 TTCCAAAATCACATTTTAACCC-CAAAC
*
111188 TTCTTAAAA-CACATTTTAACCCCAAAC
1 TTC-CAAAATCACATTTTAACCCCAAAC
111215 TTTCACAAAATCACATTTTAACCCCTAAAC
1 -TTC-CAAAATCACATTTTAACCCC-AAAC
*
111245 TTCCTAAAATTACATTTT
1 TTCC-AAAATCACATTTT
111263 GACAGCAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 4 0.06
28 22 0.35
29 33 0.52
30 4 0.06
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.35
Consensus pattern (27 bp):
TTCCAAAATCACATTTTAACCCCAAAC
Found at i:113994 original size:21 final size:20
Alignment explanation
Indices: 113962--114000 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
113952 GACATTATGA
*
113962 AGTAAGACTTTGAGAAGAAG
1 AGTAAGAATTTGAGAAGAAG
*
113982 AGTACAGAATTTGGGAAGA
1 AGTA-AGAATTTGAGAAGA
114001 GAATAGAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.05, G:0.31, T:0.21
Consensus pattern (20 bp):
AGTAAGAATTTGAGAAGAAG
Found at i:114589 original size:49 final size:49
Alignment explanation
Indices: 114517--114614 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
114507 TAGACACAAA
114517 TGAGTGGCACTTTCGATAGGCTCAGAGACAGGTTGAAGATAGAGACTAT
1 TGAGTGGCACTTTCGATAGGCTCAGAGACAGGTTGAAGATAGAGACTAT
114566 TGAGTGGCACTTTCGATAGGCTCAGAGACAGGTTGAAGATAGAGACTAT
1 TGAGTGGCACTTTCGATAGGCTCAGAGACAGGTTGAAGATAGAGACTAT
114615 GTAATGGGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (49 bp):
TGAGTGGCACTTTCGATAGGCTCAGAGACAGGTTGAAGATAGAGACTAT
Found at i:115735 original size:15 final size:14
Alignment explanation
Indices: 115715--115772 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 14
115705 ATATGTTATC
115715 AAAAAAGAGGTAAAA
1 AAAAAAGAGG-AAAA
115730 AAAAAAGAGG-AAA
1 AAAAAAGAGGAAAA
*
115743 AAGAAAGA--AAGAA
1 AAAAAAGAGGAA-AA
*
115756 AAAAAAGAAGAAAA
1 AAAAAAGAGGAAAA
115770 AAA
1 AAA
115773 GGAAAAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 1 0.03
13 19 0.51
14 5 0.14
15 12 0.32
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (14 bp):
AAAAAAGAGGAAAA
Found at i:115743 original size:9 final size:9
Alignment explanation
Indices: 115731--115785 Score: 53
Period size: 8 Copynumber: 6.4 Consensus size: 9
115721 GAGGTAAAAA
*
115731 AAAAAGAGG
1 AAAAAGAAG
115740 AAAAAGAA-
1 AAAAAGAAG
* *
115748 AGAAAGAAA
1 AAAAAGAAG
115757 AAAAAGAAG
1 AAAAAGAAG
115766 AAAAA-AAG
1 AAAAAGAAG
*
115774 GAAAA-AAG
1 AAAAAGAAG
115782 AAAA
1 AAAA
115786 GGGTCGAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.51
9 19 0.49
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:115743 original size:12 final size:12
Alignment explanation
Indices: 115728--115786 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
115718 AAAGAGGTAA
*
115728 AAAAAAAAGAGG
1 AAAAAAAAGAAG
115740 AAAAAGAAAGAAAG
1 AAAAA-AAAG-AAG
115754 AAAAAAAAGAAG
1 AAAAAAAAGAAG
*
115766 AAAAAAAGGAA-
1 AAAAAAAAGAAG
115777 AAAAGAAAAG
1 AAAA-AAAAG
115787 GGTCGAGATG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
11 4 0.10
12 22 0.54
13 8 0.20
14 7 0.17
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:115743 original size:24 final size:23
Alignment explanation
Indices: 115716--115786 Score: 70
Period size: 26 Copynumber: 2.9 Consensus size: 23
115706 TATGTTATCA
*
115716 AAAAAGAGGTAAAAAAAAAAGAGG
1 AAAAAGAGG-AAAAAAAAAAGAAG
*
115740 AAAAAGAAAGAAAGAAAAAAAAGAAG
1 AAAAAG--AGGAA-AAAAAAAAGAAG
*
115766 AAAAAAAGGAAAAAAGAAAAG
1 AAAAAGAGGAAAAAA-AAAAG
115787 GGTCGAGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
23 4 0.10
24 15 0.38
25 2 0.05
26 18 0.46
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.01
Consensus pattern (23 bp):
AAAAAGAGGAAAAAAAAAAGAAG
Found at i:115757 original size:26 final size:24
Alignment explanation
Indices: 115726--115786 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 24
115716 AAAAAGAGGT
*
115726 AAAAAAAAAAGAGGAAAAAGAAAGA
1 AAAAAAAAAAGAAGAAAAA-AAAGA
*
115751 AAGAAAAAAAAGAAGAAAAAAAGGA
1 AA-AAAAAAAAGAAGAAAAAAAAGA
*
115776 AAAAAGAAAAG
1 AAAAAAAAAAG
115787 GGTCGAGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.25
25 8 0.25
26 16 0.50
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAGAAGAAAAAAAAGA
Found at i:115771 original size:28 final size:28
Alignment explanation
Indices: 115726--115785 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
115716 AAAAAGAGGT
*
115726 AAAAAAAAAAGAGGAAAAA-GAAAGAAAG
1 AAAAAAAAAAGAGAAAAAAGGAAA-AAAG
115754 AAAAAAAAGAAGA-AAAAAAGGAAAAAAG
1 AAAAAAAA-AAGAGAAAAAAGGAAAAAAG
115782 AAAA
1 AAAA
115786 GGGTCGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (28 bp):
AAAAAAAAAAGAGAAAAAAGGAAAAAAG
Found at i:115787 original size:13 final size:12
Alignment explanation
Indices: 115715--115787 Score: 58
Period size: 13 Copynumber: 5.8 Consensus size: 12
115705 ATATGTTATC
*
115715 AAAAAAGAGGTAA
1 AAAAAAAAGG-AA
*
115728 AAAAAAAAGAGGA
1 AAAAAAAAG-GAA
*
115741 AAAAGAAA-GAA
1 AAAAAAAAGGAA
*
115752 AGAAAAAAAAGAA
1 A-AAAAAAAGGAA
*
115765 GAAAAAAAGGAA
1 AAAAAAAAGGAA
115777 AAAAGAAAAGG
1 AAAA-AAAAGG
115788 GTCGAGATGA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
11 3 0.06
12 19 0.40
13 25 0.52
14 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.22, T:0.01
Consensus pattern (12 bp):
AAAAAAAAGGAA
Found at i:118403 original size:23 final size:23
Alignment explanation
Indices: 118339--118403 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
118329 CGGATAAATG
*
118339 GAGAGTAC-CAAAATACTAAACA
1 GAGAGTACACAAAGTACTAAACA
* * * * *
118361 GAGAGCATAGACAGTGCTAAACA
1 GAGAGTACACAAAGTACTAAACA
118384 GAGAGTACACAAAGTACTAA
1 GAGAGTACACAAAGTACTAA
118404 GCACACAAAA
Statistics
Matches: 31, Mismatches: 11, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
22 6 0.19
23 25 0.81
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (23 bp):
GAGAGTACACAAAGTACTAAACA
Found at i:118440 original size:23 final size:23
Alignment explanation
Indices: 118403--118545 Score: 121
Period size: 23 Copynumber: 6.1 Consensus size: 23
118393 CAAAGTACTA
* *
118403 AGCACACAAAATGCTAATCAGAG
1 AGCACACACAGTGCTAATCAGAG
* * *
118426 AGCACCCGA-AGTGCTAATAACGGAA
1 AGCACAC-ACAGTGCTAAT--CAGAG
* * *
118451 AGCACA-AGACGTGCTAAACGGAG
1 AGCACACACA-GTGCTAATCAGAG
*
118474 AGCACACACAGTGCTAAAT-AGAT
1 AGCACACACAGTGCT-AATCAGAG
118497 AGCACACACAGTGCTAATCAGAG
1 AGCACACACAGTGCTAATCAGAG
* *
118520 AGCACACATAGTGCTAATCGGAG
1 AGCACACACAGTGCTAATCAGAG
118543 AGC
1 AGC
118546 GTGCTAGTGT
Statistics
Matches: 98, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
22 3 0.03
23 74 0.76
24 6 0.06
25 15 0.15
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.13
Consensus pattern (23 bp):
AGCACACACAGTGCTAATCAGAG
Found at i:118521 original size:46 final size:47
Alignment explanation
Indices: 118402--118536 Score: 134
Period size: 46 Copynumber: 2.9 Consensus size: 47
118392 ACAAAGTACT
* *
118402 AAGCACACAAAATGCTAATCAGAGAGCACCCGAAGTGCT-AATAACGGA
1 AAGCACACAAAGTGCTAATCAGAGAGCACAC-AAGTGCTAAATAAC-GA
* * *
118450 AAGCACA-AGACGTGCTAAACGGAGAGCACACACAGTGCTAAAT-A-GA
1 AAGCACACA-AAGTGCTAATCAGAGAGCACACA-AGTGCTAAATAACGA
* *
118496 TAGCACACACAGTGCTAATCAGAGAGCACACATAGTGCTAA
1 AAGCACACAAAGTGCTAATCAGAGAGCACACA-AGTGCTAA
118537 TCGGAGAGCG
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
46 35 0.49
47 3 0.04
48 31 0.43
49 3 0.04
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.13
Consensus pattern (47 bp):
AAGCACACAAAGTGCTAATCAGAGAGCACACAAGTGCTAAATAACGA
Found at i:119819 original size:30 final size:30
Alignment explanation
Indices: 119785--119863 Score: 140
Period size: 30 Copynumber: 2.6 Consensus size: 30
119775 TATTTTCTAT
119785 AAAATTACATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCTAAACTTTTCC
*
119815 AAAATTACATTTTGACCCTTAAACTTTTCC
1 AAAATTACATTTTGACCCCTAAACTTTTCC
*
119845 AAAATTACATTTTAACCCC
1 AAAATTACATTTTGACCCC
119864 AAATTCTCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCTAAACTTTTCC
Found at i:121498 original size:29 final size:29
Alignment explanation
Indices: 121419--121531 Score: 147
Period size: 30 Copynumber: 3.9 Consensus size: 29
121409 CCGTTAACAA
* *
121419 GACACCCATCACATTTTCAAGTGGTTCTAA
1 GACACCC-CCACATTTTCAAGTGGTTCTAG
* *
121449 GACACCTCCCATATTTTCAAGTGGTTCGAG
1 GACACC-CCCACATTTTCAAGTGGTTCTAG
121479 GACACCCCCACATTTTCAAGTGGTTCTAG
1 GACACCCCCACATTTTCAAGTGGTTCTAG
* *
121508 GAC-CCCTCACATTTCCAAGTGGTT
1 GACACCCCCACATTTTCAAGTGGTT
121532 GTCTTGTCTC
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
28 19 0.26
29 24 0.32
30 30 0.41
31 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (29 bp):
GACACCCCCACATTTTCAAGTGGTTCTAG
Found at i:123167 original size:20 final size:20
Alignment explanation
Indices: 123142--123181 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
123132 TGATGCATGA
123142 GCATATTACAAGGACAAAAG
1 GCATATTACAAGGACAAAAG
*
123162 GCATATTATAAGGACAAAAG
1 GCATATTACAAGGACAAAAG
123182 CTATAGTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.17
Consensus pattern (20 bp):
GCATATTACAAGGACAAAAG
Found at i:129218 original size:22 final size:22
Alignment explanation
Indices: 129184--129239 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
129174 TGTGAGTATT
129184 AAAGAAGAAGAGAAAAG-AGAA
1 AAAGAAGAAGAGAAAAGAAGAA
*
129205 AAAGAAGGAAGAGAAGAGAAGAAA
1 AAAGAA-GAAGAGAAAAGAAG-AA
*
129229 AAAGAAAAAGA
1 AAAGAAGAAGA
129240 AGAAGTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.20
22 10 0.33
23 6 0.20
24 8 0.27
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (22 bp):
AAAGAAGAAGAGAAAAGAAGAA
Found at i:136816 original size:34 final size:34
Alignment explanation
Indices: 136752--136816 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
136742 ACTAATTATT
*
136752 TTATATTATTTATTTTTAATATAAATATTCTCTC
1 TTATATTATTTATTTTGAATATAAATATTCTCTC
136786 TTATAATTATTT-TTTTGAATTATAAA-ATTCT
1 TTAT-ATTATTTATTTTGAA-TATAAATATTCT
136817 AATAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (34 bp):
TTATATTATTTATTTTGAATATAAATATTCTCTC
Found at i:137581 original size:2 final size:2
Alignment explanation
Indices: 137574--137604 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
137564 ATAAAAACTT
*
137574 GA GA GA GA GA GC GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
137605 GAGTTCATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:141279 original size:14 final size:16
Alignment explanation
Indices: 141257--141288 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
141247 ATATTTAAAA
141257 TTTAGTTTTTAT-ATT
1 TTTAGTTTTTATGATT
141272 TTTA-TTTTTATGATT
1 TTTAGTTTTTATGATT
141287 TT
1 TT
141289 AGTCTCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (16 bp):
TTTAGTTTTTATGATT
Found at i:145425 original size:62 final size:62
Alignment explanation
Indices: 145328--145452 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
145318 GTGTCCCGAT
145328 TGTGGAAAAACAAAAATTACGGATTTGCCCTTGAAGTTCACTTTAACTACAATTTCGTCTAA
1 TGTGGAAAAACAAAAATTACGGATTTGCCCTTGAAGTTCACTTTAACTACAATTTCGTCTAA
145390 TGTGGAAAAACAAAAATTACGGATTTGCCCTTGAAGTTCACTTTAACTACAATTTCGTCTAA
1 TGTGGAAAAACAAAAATTACGGATTTGCCCTTGAAGTTCACTTTAACTACAATTTCGTCTAA
145452 T
1 T
145453 AAGTTCGTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (62 bp):
TGTGGAAAAACAAAAATTACGGATTTGCCCTTGAAGTTCACTTTAACTACAATTTCGTCTAA
Found at i:146840 original size:21 final size:21
Alignment explanation
Indices: 146809--146860 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
146799 GGAGTTTTTA
*
146809 GTATTGGTAGAAG-CATTACAT
1 GTATCGGTAGAAGTCA-TACAT
* *
146830 GTTTCGGTAGAAGTCATACTT
1 GTATCGGTAGAAGTCATACAT
146851 GTATCGGTAG
1 GTATCGGTAG
146861 TATTGCCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAGTCATACAT
Found at i:148506 original size:2 final size:2
Alignment explanation
Indices: 148499--148532 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
148489 GATGTAGGAA
148499 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
148533 CTCATACAGG
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:151320 original size:195 final size:193
Alignment explanation
Indices: 150957--151328 Score: 489
Period size: 195 Copynumber: 1.9 Consensus size: 193
150947 AGAAAAGAAA
* * * *
150957 TATGGATCCTAAATGGATTAGAGACCCTACGATGGCTGAGATTTATGCATAAGTGCATATTCTCG
1 TATGGATCCTAAATGGATCACAGACCCTACGATGGCTGAGATCTATGCATAAGTGCATACTCTCG
* * * *
151022 ACAGTTCGTGTGAGCAGCATCATTAGGGAACAGTTATATGCACAGATACTGTATCAATGGCTAAG
66 ACAATTCGTGTGAGCAGCATCATTAGGGAACAGTTATATACACAGACACTGTACCAATGGCTAAG
* *
151087 GTACCGCATATGTTGTAAGTCCTCGACAGCTCGTGTGAGCAACATCGTGACTCGAGAAAGAGT
131 GTACCGCATACGTTGTAAGTCCTCAACAGCTCGTGTGAGCAACATCGTGACTCGAGAAAGAGT
* * * * *
151150 TATGGATCCTAAATGGATCACAGGCCCTACGATGGCTGGGA-CTATGC-TTATTGTATACTCTCG
1 TATGGATCCTAAATGGATCACAGACCCTACGATGGCTGAGATCTATGCATAAGTGCATACTCTCG
* * *
151213 ACAATTCGTGTGAGCAGCATCATTAGGGAACTGTTTATAGTACAGACAGGCACTGTACCGATGGC
66 ACAATTCGTGTGAGCAGCATCATTAGGGAACAG-TTATA-TAC--ACAGACACTGTACCAATGGC
* * *
151278 T-AGGATACCGCATACGTTGTGAGTCCTCAATAGCTCGTGTGAGCAGCATCG
127 TAAGG-TACCGCATACGTTGTAAGTCCTCAACAGCTCGTGTGAGCAACATCG
151329 AGTACTGGTA
Statistics
Matches: 153, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
191 43 0.28
192 10 0.07
193 39 0.25
194 3 0.02
195 58 0.38
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (193 bp):
TATGGATCCTAAATGGATCACAGACCCTACGATGGCTGAGATCTATGCATAAGTGCATACTCTCG
ACAATTCGTGTGAGCAGCATCATTAGGGAACAGTTATATACACAGACACTGTACCAATGGCTAAG
GTACCGCATACGTTGTAAGTCCTCAACAGCTCGTGTGAGCAACATCGTGACTCGAGAAAGAGT
Found at i:152110 original size:21 final size:21
Alignment explanation
Indices: 152081--152132 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
152071 GGAGTTTTTA
152081 GTATCGGTAGAAG-CATTACAT
1 GTATCGGTAGAAGTCA-TACAT
* *
152102 GTTTCGGTAGAAGTCATACTT
1 GTATCGGTAGAAGTCATACAT
152123 GTATCGGTAG
1 GTATCGGTAG
152133 TATTGCCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGTCATACAT
Found at i:155104 original size:16 final size:15
Alignment explanation
Indices: 155071--155105 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
155061 TTTGAAAACA
*
155071 TAAAAATAAAAAAGG
1 TAAAAATAAAAAAAG
155086 TAAAAATAAAATAAAG
1 TAAAAATAAAA-AAAG
155102 TAAA
1 TAAA
155106 TAAGAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (15 bp):
TAAAAATAAAAAAAG
Found at i:156012 original size:71 final size:71
Alignment explanation
Indices: 155882--156031 Score: 185
Period size: 71 Copynumber: 2.1 Consensus size: 71
155872 AGGTCTTGTG
* *** *
155882 TCGCGACATAGGCATCAGTCTCCATGTGAAGCGTCATCCTACAGGTGTTGTCGTGACATAACTCC
1 TCGCGACATAGGCATCAGTCTCCATATGAAGCGTCATCCTACAGGTCACGTCGTAACATAACTCC
155947 TGTGTA
66 TGTGTA
* * *
155953 TCGCGACATAGGCATCAGTCTCCATATGAAGCGTCATCTTATAGG-CACGATCGTAACATAGCTC
1 TCGCGACATAGGCATCAGTCTCCATATGAAGCGTCATCCTACAGGTCACG-TCGTAACATAACTC
* *
156017 TTGTGTG
65 CTGTGTA
*
156024 TCACGACA
1 TCGCGACA
156032 AAGAAGTCAG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
70 1 0.01
71 66 0.99
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (71 bp):
TCGCGACATAGGCATCAGTCTCCATATGAAGCGTCATCCTACAGGTCACGTCGTAACATAACTCC
TGTGTA
Found at i:158767 original size:24 final size:24
Alignment explanation
Indices: 158713--158767 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
158703 TAAAGAAATT
* * *
158713 ACAAATTTGATTACTCCTACTACT
1 ACAAGTTTGATTACTCCGACTACA
158737 ACAAGTTTGATTACTACCGA-TACA
1 ACAAGTTTGATTACT-CCGACTACA
*
158761 ACGAGTT
1 ACAAGTT
158768 CCAGAGAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (24 bp):
ACAAGTTTGATTACTCCGACTACA
Found at i:159674 original size:43 final size:43
Alignment explanation
Indices: 159441--159679 Score: 192
Period size: 43 Copynumber: 5.6 Consensus size: 43
159431 AGTCATAATT
* * * * ** * *
159441 TCTTTCATTTACAAATAATCTTATGCTCTAGCAGAGACATAAG
1 TCTTCCATTTATACATAATCTCATGCTCTTCCCGAGACATGAG
* * * ** * * *
159484 TCTTCCATTTATAAACAATCTTATGCTCTAACCGAGATATAAA
1 TCTTCCATTTATACATAATCTCATGCTCTTCCCGAGACATGAG
* * * * * *
159527 TCTTCCTTTTA-ATCATATTCTTATGCTCATCCTGAGACACGAG
1 TCTTCCATTTATA-CATAATCTCATGCTCTTCCCGAGACATGAG
* * ** * *
159570 TCTTTCATCTATACATAATCTCATGCTCTTCTAGAGTCACGAG
1 TCTTCCATTTATACATAATCTCATGCTCTTCCCGAGACATGAG
*
159613 TCTTCCATTTATACATAACCTCATGCTCTTCCCGAGACATGAG
1 TCTTCCATTTATACATAATCTCATGCTCTTCCCGAGACATGAG
*
159656 TCTTCCATTTATACATAACCTCAT
1 TCTTCCATTTATACATAATCTCAT
159680 TGTAATAGCC
Statistics
Matches: 159, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
42 1 0.01
43 157 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (43 bp):
TCTTCCATTTATACATAATCTCATGCTCTTCCCGAGACATGAG
Found at i:163679 original size:84 final size:84
Alignment explanation
Indices: 163538--163707 Score: 340
Period size: 84 Copynumber: 2.0 Consensus size: 84
163528 TGTTATGAAT
163538 GATTTGTGTTGATAAACTTATGTTTTGGTATGATTCTTTAGATTTTGCATACTTGTTTTGGTAGA
1 GATTTGTGTTGATAAACTTATGTTTTGGTATGATTCTTTAGATTTTGCATACTTGTTTTGGTAGA
163603 ACTCATGCATGTATCGGTA
66 ACTCATGCATGTATCGGTA
163622 GATTTGTGTTGATAAACTTATGTTTTGGTATGATTCTTTAGATTTTGCATACTTGTTTTGGTAGA
1 GATTTGTGTTGATAAACTTATGTTTTGGTATGATTCTTTAGATTTTGCATACTTGTTTTGGTAGA
163687 ACTCATGCATGTATCGGTA
66 ACTCATGCATGTATCGGTA
163706 GA
1 GA
163708 AGTACAAGGT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (84 bp):
GATTTGTGTTGATAAACTTATGTTTTGGTATGATTCTTTAGATTTTGCATACTTGTTTTGGTAGA
ACTCATGCATGTATCGGTA
Found at i:171074 original size:43 final size:43
Alignment explanation
Indices: 171011--171092 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
171001 GGGTGTTACA
* *
171011 CTCATGCTCTTCTCGAGACATGAGTCTTTCATTTATACATAAT
1 CTCATGCTCTTCCCGAGACATGAGTCTTCCATTTATACATAAT
*
171054 CTCATGCTCTTCCCGTGACATGAGTCTTCCATTTATACA
1 CTCATGCTCTTCCCGAGACATGAGTCTTCCATTTATACA
171093 CCAAGTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (43 bp):
CTCATGCTCTTCCCGAGACATGAGTCTTCCATTTATACATAAT
Found at i:175105 original size:15 final size:16
Alignment explanation
Indices: 175087--175116 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
175077 TGACATGAAA
175087 ATAAAT-AACAATAAT
1 ATAAATAAACAATAAT
175102 ATAAATAAACAATAA
1 ATAAATAAACAATAA
175117 AAATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAATAAACAATAAT
Found at i:175115 original size:13 final size:12
Alignment explanation
Indices: 175084--175132 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
175074 AAATGACATG
*
175084 AAAATAAATAACA
1 AAAATAAA-AATA
* *
175097 ATAATATAAATA
1 AAAATAAAAATA
175109 AACAATAAAAATA
1 AA-AATAAAAATA
175122 AAAATAAAAAT
1 AAAATAAAAAT
175133 TAAATGCTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 13 0.43
13 17 0.57
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:175136 original size:7 final size:6
Alignment explanation
Indices: 175084--175132 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
175074 AAATGACATG
* * *
175084 AAAATA AATAACA ATAATA TAAATA AACAATA AAAATA AAAATA AAAAT
1 AAAATA AA-AATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAAT
175133 TAAATGCTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 25 0.71
7 10 0.29
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:175136 original size:19 final size:19
Alignment explanation
Indices: 175084--175129 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
175074 AAATGACATG
* * *
175084 AAAATAAATAACAATAATA
1 AAAATAAACAATAAAAATA
*
175103 TAAATAAACAATAAAAATA
1 AAAATAAACAATAAAAATA
175122 AAAATAAA
1 AAAATAAA
175130 AATTAAATGC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATAAACAATAAAAATA
Found at i:175268 original size:100 final size:103
Alignment explanation
Indices: 175080--175274 Score: 227
Period size: 100 Copynumber: 1.9 Consensus size: 103
175070 AATAAAATGA
175080 CATGAAAATAAATAACAATAATATAAATAAACAATAAAAATAAAAATAAAAATTAAATGCTAAAA
1 CATGAAAATAAATAACAATAATATAAATAAAC-A-AAAAATAAAAAT-AAAATTAAATGCTAAAA
*
175145 TAAAGAAACAAATATAAACAATAAAAATAATTGAAATTAGG
63 TAAACAAACAAATATAAACAATAAAAATAATTGAAATTAGG
* ** * *
175186 CATGAAAATAAATGACGAATAA-ATAAATAAAC-AAAAAT-TCAAT-AAATTAAATGTTAGAATA
1 CATGAAAATAAATAAC-AATAATATAAATAAACAAAAAATAAAAATAAAATTAAATGCTAAAATA
** * * *
175247 AACAATTAAATATAGATAATAATAATAA
65 AACAAACAAATATAAACAATAAAAATAA
175275 AAAAGACGAA
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
100 38 0.49
102 3 0.04
103 6 0.08
106 25 0.32
107 5 0.06
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (103 bp):
CATGAAAATAAATAACAATAATATAAATAAACAAAAAATAAAAATAAAATTAAATGCTAAAATAA
ACAAACAAATATAAACAATAAAAATAATTGAAATTAGG
Found at i:176880 original size:49 final size:49
Alignment explanation
Indices: 176141--176894 Score: 367
Period size: 49 Copynumber: 15.4 Consensus size: 49
176131 CACCGTTACG
* * * *
176141 GCTTCAATCTATTCCCTCTTTGGTTTTAAGGTGTTAAGTCTGTCGTCT-C-
1 GCTTCAACCTA-TCCCTCTTTGATTTTAAGGTGTTAGGTCCGTCGT-TGCA
* * * * * * *
176190 GCCTTCAACCTATCCTTCTTTGGTTTTAAGGTGTAAGATTCATCGTTG-T
1 G-CTTCAACCTATCCCTCTTTGATTTTAAGGTGTTAGGTCCGTCGTTGCA
* * * * * ** **
176239 GACTTTAATCTTTCCCT-TTTCGGTTTTAGGGTGTTAGGTTCAATATTATG--
1 G-CTTCAACCTATCCCTCTTT-GATTTTAAGGTGTTAGG-TCCGTCGT-TGCA
* * * * *
176289 GCTTTAACCTATCCCT-TTTCGATTTTAAGGTGTTAGGTCCGCCATTACG
1 GCTTCAACCTATCCCTCTTT-GATTTTAAGGTGTTAGGTCCGTCGTTGCA
* * * * * *
176338 GCTTCAACCTATCCCTC-TTCAGTTTTAAGCTATAAGGTCCATTGTTGCA
1 GCTTCAACCTATCCCTCTTTGA-TTTTAAGGTGTTAGGTCCGTCGTTGCA
* * * * * * *
176387 GCTTCAACCTTTCCCTTTTTTATTTTAGGGTGTTAGATCC-ACTGTTGTA
1 GCTTCAACCTATCCCTCTTTGATTTTAAGGTGTTAGGTCCGTC-GTTGCA
* * * * *
176436 GCTTCAATCTATCCCTATTTGATTTTAAGGTCTTAGGTCTGTCGTTGGA
1 GCTTCAACCTATCCCTCTTTGATTTTAAGGTGTTAGGTCCGTCGTTGCA
* * * * *
176485 -CTTCAACCTATCCCTATTCGATTTTAAGGTGTAAGATCCGTCGTTG-T
1 GCTTCAACCTATCCCTCTTTGATTTTAAGGTGTTAGGTCCGTCGTTGCA
* * * * ** *
176532 GACTTCAATCTTTCGCTCTTCGATTTTTTTGAGTGTTAGGT-CGTCATTGC-
1 G-CTTCAACCTATCCCTCTTTGA-TTTTAAG-GTGTTAGGTCCGTCGTTGCA
* ** * * ** **
176582 GATTTCAACCTATCCCTCTTCAATTTTAAGGTGTTAGATTCACCGTTGTG
1 G-CTTCAACCTATCCCTCTTTGATTTTAAGGTGTTAGGTCCGTCGTTGCA
* * * ** *
176632 GCTTTAATCTATCCCTCTTCGATTTTCGGGTGTTAGGTCCGTCGTTGTA
1 GCTTCAACCTATCCCTCTTTGATTTTAAGGTGTTAGGTCCGTCGTTGCA
* ** * * * *
176681 ACTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCAC--CGTTACG
1 GCTTCAACCTATCCCTCTTTGATTTTAAGGTGTTAGGTC-CGTCGTTGCA
* * * * * * *
176729 GCTTCAATCTTTCCCTCTTAGGTTTTAGGGTGTTAGGTCC-ACTGTTAC-
1 GCTTCAACCTATCCCTCTTTGATTTTAAGGTGTTAGGTCCGTC-GTTGCA
* ** * **
176777 GACTTCAACCTATCCCTCTTT-AGTTTTAAGGTGTAAGGTCTTTCATTGTG
1 G-CTTCAACCTATCCCTCTTTGA-TTTTAAGGTGTTAGGTCCGTCGTTGCA
* *
176827 GCTTCAACCTTTCCCTCTTTGGTTTT-AGGATGTTAGGTCCGTCGTTGCA
1 GCTTCAACCTATCCCTCTTTGATTTTAAGG-TGTTAGGTCCGTCGTTGCA
*
176876 GCTTCAACCTATCCTTCTT
1 GCTTCAACCTATCCCTCTT
176895 CAAACTCTAT
Statistics
Matches: 534, Mismatches: 142, Indels: 58
0.73 0.19 0.08
Matches are distributed among these distances:
47 2 0.00
48 95 0.18
49 376 0.70
50 52 0.10
51 9 0.02
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (49 bp):
GCTTCAACCTATCCCTCTTTGATTTTAAGGTGTTAGGTCCGTCGTTGCA
Found at i:176886 original size:98 final size:97
Alignment explanation
Indices: 176118--176894 Score: 527
Period size: 98 Copynumber: 7.9 Consensus size: 97
176108 TTTTTTTCAA
** * * *
176118 AAGGTGTAAGAT-TCACCGTTACGGCTTCAATCTATTCCCTCTTTGGTTTTAAGGTGTTAAGTCT
1 AAGGTGTAAGATCT-ACCGTTGTGGCTTCAATCT-TTCCCTCTTTGGTTTTAGGGTGTTAGGTCC
* *
176182 GTCGTCT-CGCCTTCAACCTATCCTTCTTTGGTTTT
64 GTCGT-TGCG-CTTCAACCTATCCCTCTTTAGTTTT
* * *
176217 AAGGTGTAAGAT-TCATCGTTGTGACTTTAATCTTTCCCT-TTTCGGTTTTAGGGTGTTAGGTTC
1 AAGGTGTAAGATCT-ACCGTTGTGGCTTCAATCTTTCCCTCTTT-GGTTTTAGGGTGTTAGG-TC
** ** * *
176280 AATATTATG-GCTTTAACCTATCCCT-TTTCGATTTT
63 CGTCGT-TGCGCTTCAACCTATCCCTCTTTAG-TTTT
* * ** * ** * * ** * * * * *
176315 AAGGTGTTAGGTCCGCCATTACGGCTTCAACCTATCCCTCTTCAGTTTTAAGCTATAAGGTCCAT
1 AAGGTGTAAGATCTACCGTTGTGGCTTCAATCTTTCCCTCTTTGGTTTTAGGGTGTTAGGTCCGT
* * *
176380 TGTTGCAGCTTCAACCTTTCCCTTTTTTA-TTTT
66 CGTTGC-GCTTCAACCTATCCC-TCTTTAGTTTT
* * * * * * * * * * *
176413 AGGGTGTTAGATCCACTGTTGTAGCTTCAATCTATCCCTATTTGATTTTAAGGTCTTAGGTCTGT
1 AAGGTGTAAGATCTACCGTTGTGGCTTCAATCTTTCCCTCTTTGGTTTTAGGGTGTTAGGTCCGT
* *
176478 CGTTG-GACTTCAACCTATCCCT-ATTCGATTTT
66 CGTTGCG-CTTCAACCTATCCCTCTTTAG-TTTT
*** * * * * * *
176510 AAGGTGTAAGATCCGTCGTTGTGACTTCAATCTTTCGCTCTTCGATTTTTTTGAGTGTTAGGT-C
1 AAGGTGTAAGATCTACCGTTGTGGCTTCAATCTTTCCCTCTTTG--GTTTTAGGGTGTTAGGTCC
* * * *
176574 GTCATTGCGATTTCAACCTATCCCTCTTCAATTTT
64 GTCGTTGCG-CTTCAACCTATCCCTCTTTAGTTTT
* * * * * *
176609 AAGGTGTTAGAT-TCACCGTTGTGGCTTTAATCTATCCCTCTTCGATTTTCGGGTGTTAGGTCCG
1 AAGGTGTAAGATCT-ACCGTTGTGGCTTCAATCTTTCCCTCTTTGGTTTTAGGGTGTTAGGTCCG
** * *
176673 TCGTTGTAACTTCAACCTATCCCTCTTCAATTTT
65 TCGTTG-CGCTTCAACCTATCCCTCTTTAGTTTT
** * *
176707 AAGGTGTAAGATC-ACCGTTACGGCTTCAATCTTTCCCTCTTAGGTTTTAGGGTGTTAGGTCC-A
1 AAGGTGTAAGATCTACCGTTGTGGCTTCAATCTTTCCCTCTTTGGTTTTAGGGTGTTAGGTCCGT
*
176770 CTGTTACGACTTCAACCTATCCCTCTTTAGTTTT
66 C-GTTGCG-CTTCAACCTATCCCTCTTTAGTTTT
* ** * * *
176804 AAGGTGTAAGGTCTTTCATTGTGGCTTCAACCTTTCCCTCTTTGGTTTTAGGATGTTAGGTCCGT
1 AAGGTGTAAGATCTACCGTTGTGGCTTCAATCTTTCCCTCTTTGGTTTTAGGGTGTTAGGTCCGT
*
176869 CGTTGCAGCTTCAACCTATCCTTCTT
66 CGTTGC-GCTTCAACCTATCCCTCTT
176895 CAAACTCTAT
Statistics
Matches: 527, Mismatches: 125, Indels: 53
0.75 0.18 0.08
Matches are distributed among these distances:
95 2 0.00
96 5 0.01
97 156 0.30
98 254 0.48
99 106 0.20
100 4 0.01
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.41
Consensus pattern (97 bp):
AAGGTGTAAGATCTACCGTTGTGGCTTCAATCTTTCCCTCTTTGGTTTTAGGGTGTTAGGTCCGT
CGTTGCGCTTCAACCTATCCCTCTTTAGTTTT
Found at i:177944 original size:19 final size:18
Alignment explanation
Indices: 177922--177987 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
177912 CGACCCCTTA
*
177922 TTTTTTGTTTTCTTCTATT
1 TTTTTTCTTTTCTTCT-TT
*
177941 TTTTTTCTTTTTTTCTTT
1 TTTTTTCTTTTCTTCTTT
* *
177959 TTCTCTCTTTTTCTT-TTT
1 TTTTTTC-TTTTCTTCTTT
177977 CTTTTTT-TTTT
1 -TTTTTTCTTTT
177988 TTGTTACTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
17 4 0.11
18 10 0.26
19 24 0.63
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTTCTTTTCTTCTTT
Found at i:177948 original size:14 final size:13
Alignment explanation
Indices: 177922--177989 Score: 73
Period size: 14 Copynumber: 4.8 Consensus size: 13
177912 CGACCCCTTA
*
177922 TTTTTTGTTTTCT
1 TTTTTTTTTTTCT
*
177935 TCTATTTTTTTTCT
1 T-TTTTTTTTTTCT
177949 TTTTTTCTTTTTCT
1 TTTTTT-TTTTTCT
177963 CTCTTTTTCTTTTTCT
1 -T-TTTTT-TTTTTCT
177979 TTTTTTTTTTT
1 TTTTTTTTTTT
177990 GTTACTAGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
13 10 0.21
14 23 0.48
15 2 0.04
16 13 0.27
ACGTcount: A:0.01, C:0.13, G:0.01, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTTTCT
Found at i:177953 original size:8 final size:8
Alignment explanation
Indices: 177940--177989 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
177930 TTTCTTCTAT
177940 TTTTTTTC
1 TTTTTTTC
177948 TTTTTTTC
1 TTTTTTTC
*
177956 TTTTTCTC
1 TTTTTTTC
*
177964 TCTTTTTC
1 TTTTTTTC
177972 --TTTTTC
1 TTTTTTTC
177978 TTTTTTT-
1 TTTTTTTC
177985 TTTTT
1 TTTTT
177990 GTTACTAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
6 6 0.16
7 5 0.14
8 26 0.70
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Found at i:177978 original size:30 final size:27
Alignment explanation
Indices: 177922--177989 Score: 91
Period size: 30 Copynumber: 2.4 Consensus size: 27
177912 CGACCCCTTA
*
177922 TTTTTTGTTTTCTTCTATTTTTTTTCT
1 TTTTTTTTTTTCTTCTATTTTTTTTCT
*
177949 TTTTTTCTTTTTCTCTCTTTTTCTTTTTCT
1 TTTTTT-TTTTTCT-TCTATTT-TTTTTCT
177979 TTTTTTTTTTT
1 TTTTTTTTTTT
177990 GTTACTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 6 0.17
28 6 0.17
29 11 0.31
30 13 0.36
ACGTcount: A:0.01, C:0.13, G:0.01, T:0.84
Consensus pattern (27 bp):
TTTTTTTTTTTCTTCTATTTTTTTTCT
Found at i:178088 original size:48 final size:48
Alignment explanation
Indices: 177994--178088 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 48
177984 TTTTTTGTTA
* * * **
177994 CTAGTTTGAGCTGCCCTTTCAAGTTTTCAACTCGAACTCTTTTTTTTG
1 CTAGTTTGAGCTACCCTTTCAAGTTTTCAACTCAAACCCTCCTTTTTG
* * *
178042 CTAGTTTGAGCTACCTTTTTAGGTTTTCAACTCAAACCCTCCTTTTT
1 CTAGTTTGAGCTACCCTTTCAAGTTTTCAACTCAAACCCTCCTTTTT
178089 TTAGGCGAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (48 bp):
CTAGTTTGAGCTACCCTTTCAAGTTTTCAACTCAAACCCTCCTTTTTG
Found at i:186004 original size:19 final size:19
Alignment explanation
Indices: 185980--186037 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
185970 TTAGGCATGA
185980 AAATAAATGACAAATAAAT
1 AAATAAATGACAAATAAAT
** * *
185999 AAATAAACAAAAAATCAAT
1 AAATAAATGACAAATAAAT
*
186018 AAATTAAATGTCAGAATAAA
1 AAA-TAAATGACA-AATAAA
186038 CAATTAAATA
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
19 18 0.64
20 5 0.18
21 5 0.18
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATAAATGACAAATAAAT
Found at i:186013 original size:15 final size:15
Alignment explanation
Indices: 185979--186020 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
185969 ATTAGGCATG
*
185979 AAAATAAAT-GACAA
1 AAAATAAATAAACAA
185993 ATAAATAAATAAACAA
1 A-AAATAAATAAACAA
*
186009 AAAATCAATAAA
1 AAAATAAATAAA
186021 TTAAATGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:188876 original size:71 final size:71
Alignment explanation
Indices: 188746--188893 Score: 199
Period size: 71 Copynumber: 2.1 Consensus size: 71
188736 CACTAGATCC
* * *
188746 TGTGTCGTGACATAGGCATCAGTCTCCATGCAAAGCGTCATCTTACAAGCACTATTGCGACATAG
1 TGTGTCATGACATAGGCATCAGTCTCCATGCAAAGCGTCATCCTACAAGCACTACTGCGACATAG
188811 C-TCTTG
66 CTTC-TG
** * ** *
188817 TGTGTCATGACATAGGCATCAGTCTCCATGTGAAGCGTCATCCTACAGGCGTTGCTGCGACATAG
1 TGTGTCATGACATAGGCATCAGTCTCCATGCAAAGCGTCATCCTACAAGCACTACTGCGACATAG
188882 CTTCTG
66 CTTCTG
188888 TGTGTC
1 TGTGTC
188894 GCTTCAAAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
71 65 0.97
72 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (71 bp):
TGTGTCATGACATAGGCATCAGTCTCCATGCAAAGCGTCATCCTACAAGCACTACTGCGACATAG
CTTCTG
Found at i:190095 original size:18 final size:18
Alignment explanation
Indices: 190066--190184 Score: 168
Period size: 18 Copynumber: 6.6 Consensus size: 18
190056 CTCTTGCGAT
**
190066 CCAGTAATGCTCTTACGAG
1 CCAGT-ATGCTCAAACGAG
190085 CCAGTATGCTCAAACGAG
1 CCAGTATGCTCAAACGAG
*
190103 CCAGTATGCTCTAACGAG
1 CCAGTATGCTCAAACGAG
*
190121 CCAGTATGCTCAAAAGAG
1 CCAGTATGCTCAAACGAG
190139 CC-GATATGCTCAAACGAG
1 CCAG-TATGCTCAAACGAG
*
190157 CCGGTATGCTCAAACGAG
1 CCAGTATGCTCAAACGAG
190175 CCAGTATGCT
1 CCAGTATGCT
190185 AATTATTTCG
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
17 1 0.01
18 84 0.92
19 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (18 bp):
CCAGTATGCTCAAACGAG
Found at i:196747 original size:25 final size:23
Alignment explanation
Indices: 196687--196756 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 23
196677 TACGCCAGGT
196687 AACATACGAAATATGCCACAAAG
1 AACATACGAAATATGCCACAAAG
*
196710 -AC-TATC-ATAATATGCCTCAAAAG
1 AACATA-CGA-AATATGCCAC-AAAG
*
196733 CAACATACGAAATATGCCATAAAG
1 -AACATACGAAATATGCCACAAAG
196757 GTTATCAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 13
0.70 0.06 0.25
Matches are distributed among these distances:
21 3 0.08
22 12 0.32
23 4 0.11
24 4 0.11
25 11 0.30
26 3 0.08
ACGTcount: A:0.49, C:0.21, G:0.11, T:0.19
Consensus pattern (23 bp):
AACATACGAAATATGCCACAAAG
Found at i:196825 original size:47 final size:47
Alignment explanation
Indices: 196687--196850 Score: 161
Period size: 47 Copynumber: 3.5 Consensus size: 47
196677 TACGCCAGGT
** * * * *
196687 AACATACGAAATATGCCACAAAGACTATCATAATATGCCTCAAAAGC
1 AACATACGAAATACACCACAAAGGCTATCAAAATATGCCACAAAGGC
** * *
196734 AACATACGAAATATGCCATAAAGGTTATC-AAA-ATGCGCAGCAAAGGC
1 AACATACGAAATACACCACAAAGGCTATCAAAATATGC-CA-CAAAGGC
* *
196781 AACATACAAAATACACCACAAAGGCTATCAAAATATGCCACAAAGGT
1 AACATACGAAATACACCACAAAGGCTATCAAAATATGCCACAAAGGC
** *
196828 AACATGTGGAATACACCACAAAG
1 AACATACGAAATACACCACAAAG
196851 AGGCCAAACA
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
45 4 0.04
46 3 0.03
47 81 0.84
48 5 0.05
49 4 0.04
ACGTcount: A:0.48, C:0.22, G:0.14, T:0.16
Consensus pattern (47 bp):
AACATACGAAATACACCACAAAGGCTATCAAAATATGCCACAAAGGC
Found at i:199594 original size:33 final size:34
Alignment explanation
Indices: 199557--199626 Score: 124
Period size: 33 Copynumber: 2.1 Consensus size: 34
199547 AGAAACCTTC
199557 TAATTATGTTAAAACAAGTTG-AAAAAATACTTT
1 TAATTATGTTAAAACAAGTTGAAAAAAATACTTT
*
199590 TAATTATGTTAAAACAGGTTGAAAAAAATACTTT
1 TAATTATGTTAAAACAAGTTGAAAAAAATACTTT
199624 TAA
1 TAA
199627 ACCACGTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 20 0.57
34 15 0.43
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.36
Consensus pattern (34 bp):
TAATTATGTTAAAACAAGTTGAAAAAAATACTTT
Found at i:200909 original size:30 final size:32
Alignment explanation
Indices: 200839--200912 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
200829 AAAACCCAAT
200839 TTAA-AGTCCATAATAAATATCCAAAATTAAC
1 TTAATAGTCCATAATAAATATCCAAAATTAAC
* * *
200870 TTAAATAGTCCTTAA-AAA-ATCCCAAATTATC
1 TT-AATAGTCCATAATAAATATCCAAAATTAAC
200901 TTAATAGTCCAT
1 TTAATAGTCCAT
200913 TACCAAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 9 0.24
31 15 0.41
32 5 0.14
33 8 0.22
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (32 bp):
TTAATAGTCCATAATAAATATCCAAAATTAAC
Found at i:203521 original size:17 final size:17
Alignment explanation
Indices: 203486--203527 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
203476 CGAAAAAGTA
*
203486 GTTACAAGAATATGAAAG
1 GTTA-AAGAAGATGAAAG
*
203504 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGAAAG
203521 GTTAAAG
1 GTTAAAG
203528 GTCAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.29, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGAAAG
Found at i:203527 original size:24 final size:24
Alignment explanation
Indices: 203500--203547 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
203490 CAAGAATATG
* *
203500 AAAGGTTAAAGAAGATGGAAGGTT
1 AAAGGTCAAAGAAGATGAAAGGTT
* *
203524 AAAGGTCAAGGGAGATGAAAGGTT
1 AAAGGTCAAAGAAGATGAAAGGTT
203548 GAACATCCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.02, G:0.35, T:0.19
Consensus pattern (24 bp):
AAAGGTCAAAGAAGATGAAAGGTT
Found at i:209110 original size:29 final size:28
Alignment explanation
Indices: 209055--209129 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 28
209045 ACAATAGGTT
209055 TATTT-AAAATAAAAATATTAAATTTAAA
1 TATTTAAAAATAAAAA-ATTAAATTTAAA
*
209083 T-TTTAAAAATGAAAAATTATAATATTAAA
1 TATTTAAAAATAAAAAATTA-AAT-TTAAA
*
209112 TATTTAAATATTAAAAAA
1 TATTTAAA-AATAAAAAA
209130 CACTTTGGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 7 0.18
28 13 0.33
29 6 0.15
30 6 0.15
31 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (28 bp):
TATTTAAAAATAAAAAATTAAATTTAAA
Found at i:209113 original size:7 final size:7
Alignment explanation
Indices: 209067--209126 Score: 59
Period size: 7 Copynumber: 8.4 Consensus size: 7
209057 TTTAAAATAA
209067 AAATATT
1 AAATATT
209074 AAAT-TT
1 AAATATT
*
209080 AAATTTT
1 AAATATT
* *
209087 AAAAATG
1 AAATATT
*
209094 AAAAATT
1 AAATATT
209101 ATAATATT
1 A-AATATT
209109 AAATATTT
1 AAATA-TT
209117 AAATATT
1 AAATATT
209124 AAA
1 AAA
209127 AAACACTTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
6 6 0.13
7 26 0.58
8 13 0.29
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:209123 original size:15 final size:15
Alignment explanation
Indices: 209067--209126 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
209057 TTTAAAATAA
209067 AAATA-TTAAAT-TT
1 AAATATTTAAATATT
* *
209080 AAAT-TTTAAAAATG
1 AAATATTTAAATATT
*
209094 AAA-AATTATAATATT
1 AAATATTTA-AATATT
209109 AAATATTTAAATATT
1 AAATATTTAAATATT
209124 AAA
1 AAA
209127 AAACACTTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
13 9 0.25
14 7 0.19
15 16 0.44
16 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (15 bp):
AAATATTTAAATATT
Found at i:209339 original size:20 final size:18
Alignment explanation
Indices: 209314--209356 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
209304 TTACAAATTT
209314 TAAAAAGTCAAAATAATATA
1 TAAAAAGTCAAAAT-AT-TA
* *
209334 TAAAAATTTAAAATATTA
1 TAAAAAGTCAAAATATTA
209352 TAAAA
1 TAAAA
209357 TTAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 2 0.10
20 12 0.57
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAAAAGTCAAAATATTA
Found at i:209486 original size:16 final size:17
Alignment explanation
Indices: 209467--209501 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
209457 AATTTTATTT
*
209467 TTAAACTTTTTTAA-AA
1 TTAAAATTTTTTAATAA
209483 TTAAAATTTTTTAATAA
1 TTAAAATTTTTTAATAA
209500 TT
1 TT
209502 TTTTACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAAAATTTTTTAATAA
Found at i:209503 original size:11 final size:10
Alignment explanation
Indices: 209464--209516 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
209454 ATAAATTTTA
*
209464 TTTTTAAACT
1 TTTTTAAAAT
209474 TTTTTAAAA-
1 TTTTTAAAAT
209483 ---TTAAAAT
1 TTTTTAAAAT
209490 TTTTTAATAAT
1 TTTTTAA-AAT
*
209501 TTTTTACAAT
1 TTTTTAAAAT
209511 TTTTTA
1 TTTTTA
209517 GAGTTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 6 0.17
10 21 0.58
11 9 0.25
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:222425 original size:22 final size:23
Alignment explanation
Indices: 222380--222425 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
222370 TTTAATCTTT
* *
222380 TAAAAATTATATTTTTACTATCG
1 TAAAAATTATATATTTAATATCG
*
222403 TAAAAATTATA-ATTTAATTTCG
1 TAAAAATTATATATTTAATATCG
222425 T
1 T
222426 TCTCTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (23 bp):
TAAAAATTATATATTTAATATCG
Found at i:226079 original size:36 final size:36
Alignment explanation
Indices: 226039--226123 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
226029 CAATGTACAG
*
226039 ATGAAGACGAGG-TCGAAGATCAACCACAACATGCAC
1 ATGAAGACGAGGCT-AAAGATCAACCACAACATGCAC
* * *
226075 ATGAAGACAAGGCTAAAGATCAACCCCAACGTGCAC
1 ATGAAGACGAGGCTAAAGATCAACCACAACATGCAC
226111 ATGAAGACGAGGC
1 ATGAAGACGAGGC
226124 AAGTCTCAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 42 0.98
37 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.24, T:0.11
Consensus pattern (36 bp):
ATGAAGACGAGGCTAAAGATCAACCACAACATGCAC
Found at i:229735 original size:19 final size:20
Alignment explanation
Indices: 229711--229754 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
229701 CGTTATTTTC
229711 AAAAAAGGTG-G-AAGAGGAA
1 AAAAAAGGTGAGAAAGA-GAA
*
229730 AAAAAAGTTGAGAAAGAGAA
1 AAAAAAGGTGAGAAAGAGAA
229750 AAAAA
1 AAAAA
229755 GTGACGTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 9 0.41
21 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.27, T:0.07
Consensus pattern (20 bp):
AAAAAAGGTGAGAAAGAGAA
Found at i:231013 original size:29 final size:28
Alignment explanation
Indices: 230963--231057 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 28
230953 TTCACCACTG
*
230963 AGGTTATTCCTTTCATAATTCATCACAAAA
1 AGGTTATT-CTTTCAGAATTCA-CACAAAA
* *
230993 AGGTTATTCTTTCAGATTTCAC-CAGAA
1 AGGTTATTCTTTCAGAATTCACACAAAA
* * * * *
231020 AGGCTAATCTTTTAGAGTTCAC-CACAA
1 AGGTTATTCTTTCAGAATTCACACAAAA
*
231047 AGGTTAATCTT
1 AGGTTATTCTT
231058 CCCTGGCGTG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
27 36 0.64
28 1 0.02
29 11 0.20
30 8 0.14
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (28 bp):
AGGTTATTCTTTCAGAATTCACACAAAA
Found at i:231030 original size:27 final size:27
Alignment explanation
Indices: 230991--231057 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
230981 TTCATCACAA
* * *
230991 AAAGGTTATTCTTTCAGATTTCACCAG
1 AAAGGTTAATCTTTCAGAGTTCACCAC
* *
231018 AAAGGCTAATCTTTTAGAGTTCACCAC
1 AAAGGTTAATCTTTCAGAGTTCACCAC
231045 AAAGGTTAATCTT
1 AAAGGTTAATCTT
231058 CCCTGGCGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (27 bp):
AAAGGTTAATCTTTCAGAGTTCACCAC
Done.