Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015025.1 Kokia drynarioides strain JFW-HI SEQ_130069, 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: 264816
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Warning! 291 characters in sequence are not A, C, G, or T
Found at i:1475 original size:11 final size:11
Alignment explanation
Indices: 1455--1528 Score: 76
Period size: 11 Copynumber: 6.7 Consensus size: 11
1445 ATAAAAAAAA
*
1455 TTATTGTTTTG
1 TTATTATTTTG
*
1466 TTATTATTTTC
1 TTATTATTTTG
1477 TTATTATTTTG
1 TTATTATTTTG
* * * *
1488 TTGTCATTATA
1 TTATTATTTTG
*
1499 TTATTATGTTG
1 TTATTATTTTG
*
1510 TTACTATTTTG
1 TTATTATTTTG
1521 TTATTATT
1 TTATTATT
1529 GTTTGGATAT
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 48 1.00
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (11 bp):
TTATTATTTTG
Found at i:2042 original size:18 final size:19
Alignment explanation
Indices: 2008--2045 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1998 AATTATAAAA
2008 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
2027 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
2045 A
1 A
2046 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:2466 original size:30 final size:31
Alignment explanation
Indices: 2430--2504 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
2420 TCCCAAAAAT
*
2430 TTTAAGTACCAACTTAA-AAAAAGTGTCAAG
1 TTTAAGTACCAAATTAAGAAAAAGTGTCAAG
*
2460 TTTAAGTACCAAATTAAGAAAATGTGTCAAG
1 TTTAAGTACCAAATTAAGAAAAAGTGTCAAG
2491 -TTAAGATACCAAAT
1 TTTAAG-TACCAAAT
2505 ATTATATTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.51
31 20 0.49
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.28
Consensus pattern (31 bp):
TTTAAGTACCAAATTAAGAAAAAGTGTCAAG
Found at i:16551 original size:28 final size:26
Alignment explanation
Indices: 16511--16564 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 26
16501 ATGTCAAGTT
16511 TTAGGTACCAAATTAGACAAAAAAAAAA
1 TTAGGTACCAAATTA-A-AAAAAAAAAA
16539 TTAGGTACCAAATTAAAAAAAAAAAA
1 TTAGGTACCAAATTAAAAAAAAAAAA
16565 GTGTTAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 10 0.38
27 1 0.04
28 15 0.58
ACGTcount: A:0.63, C:0.09, G:0.09, T:0.19
Consensus pattern (26 bp):
TTAGGTACCAAATTAAAAAAAAAAAA
Found at i:16594 original size:63 final size:62
Alignment explanation
Indices: 16453--16604 Score: 171
Period size: 63 Copynumber: 2.4 Consensus size: 62
16443 TATTGAAATA
** * * *
16453 ACCAAATTGGACAACAAAACAAGCTCAGGTACCAAATTAGAAAAAAAAATGTCAAGTTTTAGGT
1 ACCAAATTGGACAA-AAAA-AAAATCAGGTACCAAATTAAAAAAAAAAATGTCAAGTTTCAAGT
* * *
16517 ACCAAATTAGACAAAAAAAAAATTAGGTACCAAATTAAAAAAAAAAAAGTGTTAAG-TTCAAGT
1 ACCAAATTGGACAAAAAAAAAATCAGGTACCAAATT-AAAAAAAAAAA-TGTCAAGTTTCAAGT
**
16580 TTCAAATTGGACAAAAAAAAAATCA
1 ACCAAATTGGACAAAAAAAAAATCA
16605 AGATTTTTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
62 15 0.20
63 40 0.54
64 19 0.26
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (62 bp):
ACCAAATTGGACAAAAAAAAAATCAGGTACCAAATTAAAAAAAAAAATGTCAAGTTTCAAGT
Found at i:17865 original size:22 final size:22
Alignment explanation
Indices: 17840--17954 Score: 71
Period size: 23 Copynumber: 5.2 Consensus size: 22
17830 TTGGTCCCTT
17840 TTTTTTACTGTTTTG-ATTGATA
1 TTTTTTACTGTTTTGTATTG-TA
* * *
17862 TTTTTTATTGTTTTTGTGTTGTT
1 TTTTTTACTG-TTTTGTATTGTA
*
17885 TTTTTTACTGTTTTG--GTGCT-
1 TTTTTTACTGTTTTGTATTG-TA
*
17905 TTTTTTACTATTTTAGTTATTGT-
1 TTTTTTACTGTTTT-G-TATTGTA
* *
17928 TTTCTTGCTGTTTT-TATTGTTA
1 TTTTTTACTGTTTTGTATTG-TA
17950 TTTTT
1 TTTTT
17955 GTTGCTACTT
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
20 20 0.27
21 3 0.04
22 18 0.25
23 27 0.37
24 5 0.07
ACGTcount: A:0.10, C:0.05, G:0.14, T:0.70
Consensus pattern (22 bp):
TTTTTTACTGTTTTGTATTGTA
Found at i:17909 original size:23 final size:23
Alignment explanation
Indices: 17838--17910 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 23
17828 TTTTGGTCCC
*
17838 TTTTTTTTACTGTTTT-G-ATTG
1 TTTTTTTTACTGTTTTGGTGTTG
* * *
17859 ATATTTTTTATTGTTTTTGTGTTG
1 -TTTTTTTTACTGTTTTGGTGTTG
*
17883 TTTTTTTTACTGTTTTGGTGCT-
1 TTTTTTTTACTGTTTTGGTGTTG
17905 TTTTTT
1 TTTTTT
17911 ACTATTTTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 20 0.48
23 19 0.45
24 3 0.07
ACGTcount: A:0.08, C:0.04, G:0.15, T:0.73
Consensus pattern (23 bp):
TTTTTTTTACTGTTTTGGTGTTG
Found at i:17953 original size:12 final size:12
Alignment explanation
Indices: 17927--17981 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
17917 TTAGTTATTG
* *
17927 TTTTCTTGCTGT
1 TTTTGTTGCTAT
* *
17939 TTTTATTGTTAT
1 TTTTGTTGCTAT
*
17951 TTTTGTTGCTAC
1 TTTTGTTGCTAT
17963 TTTTGTTGCTAT
1 TTTTGTTGCTAT
17975 TTTTGTT
1 TTTTGTT
17982 ATTTTTGTTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.07, C:0.09, G:0.15, T:0.69
Consensus pattern (12 bp):
TTTTGTTGCTAT
Found at i:17992 original size:12 final size:12
Alignment explanation
Indices: 17938--17993 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
17928 TTTCTTGCTG
*
17938 TTTTTATTGTTA
1 TTTTTGTTGTTA
*
17950 TTTTTGTTGCTA
1 TTTTTGTTGTTA
* *
17962 CTTTTGTTGCTA
1 TTTTTGTTGTTA
17974 --TTT-TTGTTA
1 TTTTTGTTGTTA
17983 TTTTTGTTGTT
1 TTTTTGTTGTT
17994 TTGATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
9 5 0.14
10 3 0.08
11 3 0.08
12 26 0.70
ACGTcount: A:0.09, C:0.05, G:0.14, T:0.71
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:20006 original size:26 final size:29
Alignment explanation
Indices: 19968--20023 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
19958 TATGATATAT
*
19968 CAAATAAACTT-AAAA-ATATTAAAACAA
1 CAAACAAACTTAAAAACATATTAAAACAA
19995 CAAACAAA-TTAAAAACGATATTAAAACAA
1 CAAACAAACTTAAAAAC-ATATTAAAACAA
20024 TTCTTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 2 0.08
27 11 0.44
29 12 0.48
ACGTcount: A:0.66, C:0.12, G:0.02, T:0.20
Consensus pattern (29 bp):
CAAACAAACTTAAAAACATATTAAAACAA
Found at i:21731 original size:3 final size:3
Alignment explanation
Indices: 21723--21752 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
21713 AAAAGAAGCT
21723 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
21753 ACAACAACCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:30601 original size:3 final size:3
Alignment explanation
Indices: 30593--30618 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30583 AACATTACAA
30593 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
30619 CGACTTCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:42596 original size:24 final size:24
Alignment explanation
Indices: 42555--42605 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
42545 CATACAAACA
*
42555 TTTTTTTTTTTAACTTTTTGAAGT
1 TTTTTTTTTTTAACTTTTTAAAGT
***
42579 TTTTTTTTTTTTTTTTTTTAAAGT
1 TTTTTTTTTTTAACTTTTTAAAGT
42603 TTT
1 TTT
42606 GCATACTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (24 bp):
TTTTTTTTTTTAACTTTTTAAAGT
Found at i:42677 original size:10 final size:10
Alignment explanation
Indices: 42649--42678 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
42639 TAAAAAACCT
*
42649 AAAATTCAAA
1 AAAATTCAGA
42659 AAAATTCAGA
1 AAAATTCAGA
42669 AAAATTCAGA
1 AAAATTCAGA
42679 TTCACTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (10 bp):
AAAATTCAGA
Found at i:43819 original size:31 final size:34
Alignment explanation
Indices: 43738--43820 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 34
43728 TTAATATAAC
* * *
43738 ATTTGGTATTTAAATTTTACACTTTTTTTTGTCTA
1 ATTTGGTACTTAAACTTGACAC-TTTTTTTGTCTA
* *
43773 ATTTGATACTCAAACTTGACAC-TTTTTT-T-TA
1 ATTTGGTACTTAAACTTGACACTTTTTTTGTCTA
43804 ATTTGGTACTTAAACTT
1 ATTTGGTACTTAAACTT
43821 TTTGGGATCT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
31 17 0.41
32 1 0.02
33 6 0.15
35 17 0.41
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (34 bp):
ATTTGGTACTTAAACTTGACACTTTTTTTGTCTA
Found at i:43832 original size:59 final size:59
Alignment explanation
Indices: 43769--43882 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
43759 CTTTTTTTTG
* *
43769 TCTAATTTGATACTCAAACTTGACACTTTTTTTTAATTTGGTACTTAAACTTTTTGGGA
1 TCTAATTTGATACTCAAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTTTTGGGA
* ** * * * *
43828 TCTAATTTGGTACTTGAATTTGTCTCTTTTTTCTAATTTGGTACCTAATCTTTTT
1 TCTAATTTGATACTCAAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTTTT
43883 TTTTTTAATA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 46 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (59 bp):
TCTAATTTGATACTCAAACTTGACACTTTTTTCTAATTTGGTACCTAAACTTTTTGGGA
Found at i:45609 original size:5 final size:5
Alignment explanation
Indices: 45599--45629 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
45589 TTCTTTGTAG
45599 TTGGT TTGGT TTGGT TTGGT TTGGT TTGGT T
1 TTGGT TTGGT TTGGT TTGGT TTGGT TTGGT T
45630 GAACAGCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.39, T:0.61
Consensus pattern (5 bp):
TTGGT
Found at i:48411 original size:16 final size:17
Alignment explanation
Indices: 48353--48409 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 17
48343 TTCGTGTAAA
48353 AATTTATATGATTTTATAT
1 AATTTATAT-ATTTTA-AT
*
48372 AAATTTATATCTTTTAA-
1 -AATTTATATATTTTAAT
48389 AA-TTA-ATATTTTAAT
1 AATTTATATATTTTAAT
48404 AATTTA
1 AATTTA
48410 ATCATTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 5 0.15
18 1 0.03
19 5 0.15
20 9 0.27
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
AATTTATATATTTTAAT
Found at i:57058 original size:8 final size:8
Alignment explanation
Indices: 57045--57081 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
57035 TTATCGTATG
57045 GATATGGA
1 GATATGGA
57053 GATATGGA
1 GATATGGA
57061 GATATGGA
1 GATATGGA
57069 GATATGGA
1 GATATGGA
57077 GATAT
1 GATAT
57082 AACCTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (8 bp):
GATATGGA
Found at i:57848 original size:23 final size:23
Alignment explanation
Indices: 57817--57917 Score: 70
Period size: 22 Copynumber: 4.5 Consensus size: 23
57807 AAAGACACAT
57817 AAAAA-AAAAACCAAACAACAAC
1 AAAAATAAAAACCAAACAACAAC
*
57839 AAAAAT-AAAAGC-AA-AACAAC
1 AAAAATAAAAACCAAACAACAAC
* * * *
57859 AAAAATAACAACAAAAGCAATACC
1 AAAAATAAAAACCAAA-CAACAAC
*
57883 AAAACAATAAAAA--AAACAACACC
1 -AAA-AATAAAAACCAAACAACAAC
57906 AAAACATAAAAA
1 AAAA-ATAAAAA
57918 AAACAGTAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
20 12 0.19
21 6 0.10
22 22 0.35
23 6 0.10
24 7 0.11
25 3 0.05
26 7 0.11
ACGTcount: A:0.74, C:0.19, G:0.02, T:0.05
Consensus pattern (23 bp):
AAAAATAAAAACCAAACAACAAC
Found at i:57859 original size:26 final size:27
Alignment explanation
Indices: 57830--57895 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
57820 AAAAAAACCA
* *
57830 AACAACAACAAAAATAAAAGCAA-AAC
1 AACAACAATAAAAACAAAAGCAATAAC
* * *
57856 AACAAAAATAACAACAAAAGCAATACC
1 AACAACAATAAAAACAAAAGCAATAAC
57883 AA-AACAATAAAAA
1 AACAACAATAAAAA
57896 AAACAACACC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.73, C:0.18, G:0.03, T:0.06
Consensus pattern (27 bp):
AACAACAATAAAAACAAAAGCAATAAC
Found at i:57874 original size:32 final size:32
Alignment explanation
Indices: 57833--57903 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
57823 AAAACCAAAC
* * *
57833 AACAACAAAAATAAAAGCAAAACAACAAAAAT
1 AACAACAAAAACAAAACCAAAACAACAAAAAA
* * *
57865 AACAACAAAAGCAATACCAAAACAATAAAAAA
1 AACAACAAAAACAAAACCAAAACAACAAAAAA
57897 AACAACA
1 AACAACA
57904 CCAAAACATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.73, C:0.18, G:0.03, T:0.06
Consensus pattern (32 bp):
AACAACAAAAACAAAACCAAAACAACAAAAAA
Found at i:57918 original size:23 final size:23
Alignment explanation
Indices: 57829--57920 Score: 63
Period size: 23 Copynumber: 4.1 Consensus size: 23
57819 AAAAAAAACC
*
57829 AAACAACAACAAAAATAAAAGC-A
1 AAACAACACCAAAAATAAAA-CAA
57852 AAAC-A-A-CAAAAATAACAACAA
1 AAACAACACCAAAAATAA-AACAA
* *
57873 AAGCAATACCAAAACA-ATAAA-AA
1 AAACAACACCAAAA-ATA-AAACAA
57896 AAACAACACCAAAACATAAAA-AA
1 AAACAACACCAAAA-ATAAAACAA
57919 AA
1 AA
57921 CAGTAACCAA
Statistics
Matches: 58, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
20 10 0.17
21 7 0.12
22 2 0.03
23 28 0.48
24 9 0.16
25 2 0.03
ACGTcount: A:0.74, C:0.18, G:0.02, T:0.05
Consensus pattern (23 bp):
AAACAACACCAAAAATAAAACAA
Found at i:57929 original size:23 final size:22
Alignment explanation
Indices: 57829--57965 Score: 88
Period size: 24 Copynumber: 6.1 Consensus size: 22
57819 AAAAAAAACC
* *
57829 AAACAACAACAAAA-ATAAAAG
1 AAACAACACCAAAACATAAAAA
* *
57850 CAA-AACAACAAAA-ATAACAACA
1 AAACAACACCAAAACATAA-AA-A
*
57872 AAAGCAATACCAAAACAATAAAAA
1 AAA-CAACACCAAAAC-ATAAAAA
57896 AAACAACACCAAAACATAAAAA
1 AAACAACACCAAAACATAAAAA
* *
57918 AAACAGTA-ACCAAAATAGCAAAAA
1 AAACA--ACACCAAAACA-TAAAAA
*
57942 AAAC-ACAGCAAAA-ATAACAAA
1 AAACAACACCAAAACATAA-AAA
57963 AAA
1 AAA
57966 TACCAATATA
Statistics
Matches: 95, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
20 16 0.17
21 12 0.13
22 20 0.21
23 19 0.20
24 22 0.23
25 2 0.02
26 4 0.04
ACGTcount: A:0.72, C:0.18, G:0.04, T:0.06
Consensus pattern (22 bp):
AAACAACACCAAAACATAAAAA
Found at i:60449 original size:4 final size:4
Alignment explanation
Indices: 60423--60467 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
60413 ACCTGGATTG
* * * *
60423 GTAT GTAT ATAT GTGT ATGT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
60468 GAACTTTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:76935 original size:25 final size:26
Alignment explanation
Indices: 76894--76948 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
76884 AATTATTATT
76894 TTTTTTAAATTCAATTT-TAATATTTA
1 TTTTTTAAA-TCAATTTGTAATATTTA
*
76920 TTTTTTAAA-CACATTTGTAATTTTTA
1 TTTTTTAAATCA-ATTTGTAATATTTA
76946 TTT
1 TTT
76949 CATAATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 2 0.08
25 4 0.15
26 20 0.77
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTTTAAATCAATTTGTAATATTTA
Found at i:77198 original size:13 final size:14
Alignment explanation
Indices: 77182--77214 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
77172 TATATTTTTC
77182 TTTATATAT-AATA
1 TTTATATATAAATA
77195 TTTATATATCAAATA
1 TTTATATAT-AAATA
77210 TTTAT
1 TTTAT
77215 TTTCTTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
15 9 0.50
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTATATATAAATA
Found at i:77309 original size:35 final size:34
Alignment explanation
Indices: 77269--77346 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 34
77259 ATGAAATAAT
* *
77269 TATTTCAAATATAATTATTATTTTTATATGTAAAA
1 TATTTCAAATAT-ATCATTATGTTTATATGTAAAA
*
77304 TATTTC-AA-ATATCATTATGTTTATATGTGAAA
1 TATTTCAAATATATCATTATGTTTATATGTAAAA
*
77336 TATTTTAAATA
1 TATTTCAAATA
77347 CACATACAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 24 0.65
33 4 0.11
34 3 0.08
35 6 0.16
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (34 bp):
TATTTCAAATATATCATTATGTTTATATGTAAAA
Found at i:77639 original size:21 final size:22
Alignment explanation
Indices: 77615--77656 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
77605 ATTAAAAAAA
77615 GAAA-AAAAAT-TAAAACATGAT
1 GAAATAAAAATAT-AAACATGAT
77636 GAAATAAAAATATAAACATGA
1 GAAATAAAAATATAAACATGA
77657 GTGAGACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 14 0.74
23 1 0.05
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.19
Consensus pattern (22 bp):
GAAATAAAAATATAAACATGAT
Found at i:77667 original size:23 final size:22
Alignment explanation
Indices: 77615--77667 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
77605 ATTAAAAAAA
77615 GAAA-AAAAATTAAAACATGAT
1 GAAACAAAAATTAAAACATGAT
*
77636 GAAATAAAAA-TATAAACATGAGT
1 GAAACAAAAATTA-AAACATGA-T
*
77659 GAGACAAAA
1 GAAACAAAA
77668 TTCGAATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.22
22 13 0.48
23 8 0.30
ACGTcount: A:0.64, C:0.06, G:0.13, T:0.17
Consensus pattern (22 bp):
GAAACAAAAATTAAAACATGAT
Found at i:78003 original size:28 final size:29
Alignment explanation
Indices: 77948--78004 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
77938 ATTATTATAT
* *
77948 ATTATTTTTTATAATAATTATAAAATAAA
1 ATTATTTATTATAATAATTACAAAATAAA
77977 ATTATTTATTA-AATAA-TACAAATATAAA
1 ATTATTTATTATAATAATTACAAA-ATAAA
78005 CACATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 10 0.40
29 10 0.40
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTATTTATTATAATAATTACAAAATAAA
Found at i:78317 original size:31 final size:31
Alignment explanation
Indices: 78271--78344 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
78261 ATGTTGATCT
* *
78271 AATTAGGTACATGAACTTGGCTTAT-TAGTTCA
1 AATT-GGTACTTGAACTTGGCTT-TGTAGTCCA
78303 AATTGGTACTTGAACTTGGCTTTGTAGTCCA
1 AATTGGTACTTGAACTTGGCTTTGTAGTCCA
*
78334 AATTTGTACTT
1 AATTGGTACTT
78345 AGTAAATGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.03
31 33 0.87
32 4 0.11
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.41
Consensus pattern (31 bp):
AATTGGTACTTGAACTTGGCTTTGTAGTCCA
Found at i:78498 original size:117 final size:115
Alignment explanation
Indices: 78330--78553 Score: 272
Period size: 117 Copynumber: 1.9 Consensus size: 115
78320 GGCTTTGTAG
* * * *
78330 TCCAAATTTGTACTTAGTAAATGACTTATTTGAACCATGAAGCCGAGTTCAAGTATCTAATTGGA
1 TCCAAATTAGTACTTAGTAAATGACTAATTCGAACCATGAAGCCAAGTTCAAGTATCTAATTGGA
* * *
78395 CCCAAAAAACAAGTTTTGGTATCTAATTG-AACCAAAGAAGTTCTTTTTAA
66 CACAAAAAACAAGTTTAGGTAGCTAATTGCAACCAAA-AAGTTCTTTTTAA
* *
78445 TCCAAATTAGTACTTATCGTAAATGGCTAACTTCG-ACCATGAAGCCAATTTCAAGTATCTAATT
1 TCCAAATTAGTACTTA--GTAAATGACTAA-TTCGAACCATGAAGCCAAGTTCAAGTATCTAATT
* * ** *
78509 TGACATAAAAGCCAAGTTTAGGTAGCTAATTGCACCCAAAAAGTT
63 GGACACAAAAAACAAGTTTAGGTAGCTAATTGCAACCAAAAAGTT
78554 TAGGCACCAA
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
115 15 0.16
117 67 0.74
118 9 0.10
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (115 bp):
TCCAAATTAGTACTTAGTAAATGACTAATTCGAACCATGAAGCCAAGTTCAAGTATCTAATTGGA
CACAAAAAACAAGTTTAGGTAGCTAATTGCAACCAAAAAGTTCTTTTTAA
Found at i:93032 original size:2 final size:2
Alignment explanation
Indices: 93020--93057 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
93010 CTTTGCTTCA
*
93020 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93058 GCAATCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101310 original size:23 final size:23
Alignment explanation
Indices: 101284--101333 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
101274 AAAAATTAGC
*
101284 AATTAATTTTATA-TTAGGGTTTG
1 AATT-ATTTTAAAGTTAGGGTTTG
* *
101307 AATTTTTTTAAAGTTAGGTTTTG
1 AATTATTTTAAAGTTAGGGTTTG
101330 AATT
1 AATT
101334 TGTAGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (23 bp):
AATTATTTTAAAGTTAGGGTTTG
Found at i:101545 original size:31 final size:31
Alignment explanation
Indices: 101509--101568 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
101499 CAAGTTAACC
** * *
101509 CTTGAACTTGGTAATTATTTTTATATTGGAA
1 CTTGAACTTGACAATTATTCTCATATTGGAA
*
101540 CTTGAATTTGACAATTATTCTCATATTGG
1 CTTGAACTTGACAATTATTCTCATATTGG
101569 CGTTGAACTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (31 bp):
CTTGAACTTGACAATTATTCTCATATTGGAA
Found at i:101716 original size:58 final size:59
Alignment explanation
Indices: 101654--101784 Score: 142
Period size: 58 Copynumber: 2.2 Consensus size: 59
101644 GTAAAAACAA
* * ** * *
101654 TTGTCAAGTTCAAGACTTAA-TTCGGATAAAAAAAGTTT-AAACCTTAATGTGTG-AATAG
1 TTGTCAAGTTCAAGACCTAACTT-GGACAAAAAAA-TTTCAAACCCCAATGTGAGAAAAAG
* *
101712 TTGTCAAGTTTAAGGCCTAACTTGGACAAAAAAATTTCAAACCCCAATGTGAGAAAAAG
1 TTGTCAAGTTCAAGACCTAACTTGGACAAAAAAATTTCAAACCCCAATGTGAGAAAAAG
*
101771 TTATCAAGTTCAAG
1 TTGTCAAGTTCAAG
101785 CCTCAAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
57 3 0.05
58 39 0.65
59 18 0.30
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (59 bp):
TTGTCAAGTTCAAGACCTAACTTGGACAAAAAAATTTCAAACCCCAATGTGAGAAAAAG
Found at i:109844 original size:30 final size:30
Alignment explanation
Indices: 109799--109875 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
109789 TGATACCAAC
109799 AAATAAAAGATATTTAAGTATAATAATAGCAA
1 AAATAAAA-ATATTTAAGTATAATAATAG-AA
* * * * *
109831 AAAT-AAAATATTTATGTTTAATTATTGTA
1 AAATAAAAATATTTAAGTATAATAATAGAA
109860 AAATAAAAATATTTAA
1 AAATAAAAATATTTAA
109876 AATTATATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
29 5 0.13
30 26 0.68
31 3 0.08
32 4 0.11
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.36
Consensus pattern (30 bp):
AAATAAAAATATTTAAGTATAATAATAGAA
Found at i:124183 original size:96 final size:96
Alignment explanation
Indices: 124002--124193 Score: 235
Period size: 96 Copynumber: 2.0 Consensus size: 96
123992 TTTTCGGGAA
* * * * * *
124002 AAGGATATTCGATTATCCCGATTTGAAGAAAGATTGCACTTAGTGAGTTAAGGCGTAATATTTAA
1 AAGGATATTCAATTATCCCGATTTGAAGAAAAATTGCACCTAATGAGTTAAGGCGCAAAATTTAA
* * *
124067 GAATCGAAGATAAGAAAACATTGCCTCGATT
66 GAACCCAAAATAAGAAAACATTGCCTCGATT
* ** *
124098 AAGGGTATTCAATTATTTCGATTTGAAGAAAAATTGCACCTAATGAGTTAAGGCGCAAAATTT-C
1 AAGGATATTCAATTATCCCGATTTGAAGAAAAATTGCACCTAATGAGTTAAGGCGCAAAATTTAA
124162 GAAACCCAAAATAA-AAGAACATTGCCTCGATT
66 G-AACCCAAAATAAGAA-AACATTGCCTCGATT
124194 TTAAAGTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
95 3 0.04
96 78 0.96
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (96 bp):
AAGGATATTCAATTATCCCGATTTGAAGAAAAATTGCACCTAATGAGTTAAGGCGCAAAATTTAA
GAACCCAAAATAAGAAAACATTGCCTCGATT
Found at i:124442 original size:29 final size:28
Alignment explanation
Indices: 124405--124487 Score: 69
Period size: 29 Copynumber: 2.9 Consensus size: 28
124395 GACTTTTCGG
* *
124405 ATGTGCGAGAGCAAAATGGTAGTTTTGGA
1 ATGTTCGAG-GCAAAATGGTAATTTTGGA
* * *
124434 ATGTTCGAGTCAAAAATGGGATTTTTGGA
1 ATGTTCGAGGC-AAAATGGTAATTTTGGA
* *
124463 A-GTTCGGGGGTAAAATGGTAATTTT
1 ATGTTC-GAGGCAAAATGGTAATTTT
124488 TAGAAGGTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
28 17 0.40
29 26 0.60
ACGTcount: A:0.30, C:0.06, G:0.31, T:0.33
Consensus pattern (28 bp):
ATGTTCGAGGCAAAATGGTAATTTTGGA
Found at i:124510 original size:59 final size:59
Alignment explanation
Indices: 124442--124967 Score: 743
Period size: 59 Copynumber: 8.9 Consensus size: 59
124432 GAATGTTCGA
124442 GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
1 GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
* *
124501 GTCAAAAATGGGATTTTTGGAAGTTCGGTGGTAAAATAGTAATTTTTAGAAGGTTTGGG
1 GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
* * ** *
124560 GTCAAAAATGGGGTTTTTGGAAGTTTGGGGGTAAAATGGTAAAATTTAGAAGATTTGGG
1 GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
* * * * *
124619 GTTAAAAATGGGATTTTTAGAAATTTGGGGGTAAAATGGTAATTTTTGGAAGGTTTGGG
1 GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
** *
124678 GTCAAAAATGGGATTTTTGGAAGTTCAAGGGTAAAATAGTAATTTTTAGAAGGTTTGGG
1 GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
*
124737 GTAAAAAAT-GGAGTTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
1 GTCAAAAATGGGA-TTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
* * *
124796 GTCAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAATAGTAATTTTTAGAAGGTTCGGG
1 GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
* * * * *
124855 GTC-AAAATGAGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAAAAGGTTAGAG
1 GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
* * * * * * *
124913 GTC-AAAATGAGATTTTTTGAAGTTCGAGGGTACAATGTTTATTTTTAGAAAGTTT
1 GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTT
124968 AGGGACCTCC
Statistics
Matches: 418, Mismatches: 47, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
58 99 0.24
59 316 0.76
60 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.35
Consensus pattern (59 bp):
GTCAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTAGAAGGTTTGGG
Found at i:124921 original size:30 final size:30
Alignment explanation
Indices: 124416--124962 Score: 322
Period size: 29 Copynumber: 18.7 Consensus size: 30
124406 TGTGCGAGAG
* * * *
124416 CAAAATGGT-AGTTTTGGAATGTTC-GAGT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGGT
* *
124444 CAAAAATGG-GATTTTTGGAA-GTTCGGGGGT
1 C-AAAATGGTAATTTTTAGAAGGTTC-GGGGT
*
124474 -AAAATGGTAATTTTTAGAAGGTTTGGGGT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGGT
* *
124503 CAAAAATGG-GATTTTTGGAA-GTTCGGTGGT
1 C-AAAATGGTAATTTTTAGAAGGTTCGG-GGT
* *
124533 -AAAATAGTAATTTTTAGAAGGTTTGGGGT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGGT
** * * *
124562 CAAAAATGG-GGTTTTTGGAAGTTTGGGGGT
1 C-AAAATGGTAATTTTTAGAAGGTTCGGGGT
** * *
124592 -AAAATGGTAAAATTTAGAAGATTTGGGGTT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGG-T
* * ** *
124622 AAAAATGG-GATTTTTAGAAATTTGGGGGT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGGT
* *
124651 -AAAATGGTAATTTTTGGAAGGTTTGGGGT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGGT
* * *
124680 CAAAAATGG-GATTTTTGGAA-GTTCAAGGGT
1 C-AAAATGGTAATTTTTAGAAGGTTC-GGGGT
* *
124710 -AAAATAGTAATTTTTAGAAGGTTTGGGGT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGGT
* * *
124739 AAAAAATGG-AGTTTTTGGAA-GTTCGGGGGT
1 -CAAAATGGTAATTTTTAGAAGGTTC-GGGGT
*
124769 -AAAATGGTAATTTTTAGAAGGTTTGGGGT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGGT
* * * *
124798 CAAAAATGG-GATTTTTGGAAGTTTGGGGGT
1 C-AAAATGGTAATTTTTAGAAGGTTCGGGGT
*
124828 -AAAATAGTAATTTTTAGAAGGTTCGGGGT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGGT
*
124857 CAAAAT-G-AGATTTTTGGAA-GTTCGAGGGT
1 CAAAATGGTA-ATTTTTAGAAGGTTCG-GGGT
* * *
124886 -AAAATGGTAATTTTTAAAAGGTTAGAGGT
1 CAAAATGGTAATTTTTAGAAGGTTCGGGGT
*
124915 CAAAAT-G-AGATTTTTTGAA-GTTCGAGGGT
1 CAAAATGGTA-ATTTTTAGAAGGTTCG-GGGT
* * *
124944 -ACAATGTTTATTTTTAGAA
1 CAAAATGGTAATTTTTAGAA
124963 AGTTTAGGGA
Statistics
Matches: 405, Mismatches: 73, Indels: 81
0.72 0.13 0.14
Matches are distributed among these distances:
28 71 0.18
29 174 0.43
30 120 0.30
31 40 0.10
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.35
Consensus pattern (30 bp):
CAAAATGGTAATTTTTAGAAGGTTCGGGGT
Found at i:132457 original size:19 final size:19
Alignment explanation
Indices: 132429--132471 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
132419 TTTAGAAATG
** *
132429 TTTTTCAAAAGTATTAACA
1 TTTTTCAAAAAAATTAAAA
*
132448 TTTTTTAAAAAAATTAAAA
1 TTTTTCAAAAAAATTAAAA
132467 TTTTT
1 TTTTT
132472 AATTTCTGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTTTCAAAAAAATTAAAA
Found at i:139699 original size:2 final size:2
Alignment explanation
Indices: 139692--139721 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
139682 CTTGTTTATT
139692 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
139722 CTCATAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:151200 original size:32 final size:33
Alignment explanation
Indices: 151142--151205 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
151132 AGTGAAATGA
* *
151142 CAGCAAAAGAGTGACAAAATAACAAGAAAACAG
1 CAGCAAAACAATGACAAAATAACAAGAAAACAG
*
151175 CAGCAAAACAATGA-AAAATAGCAAGAAAACA
1 CAGCAAAACAATGACAAAATAACAAGAAAACA
151206 ACAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.62, C:0.16, G:0.16, T:0.06
Consensus pattern (33 bp):
CAGCAAAACAATGACAAAATAACAAGAAAACAG
Found at i:153546 original size:32 final size:33
Alignment explanation
Indices: 153477--153564 Score: 106
Period size: 32 Copynumber: 2.6 Consensus size: 33
153467 TGGTATCTAA
*
153477 ATTTTTTTTGTTCAGTTTGGTACCCAAACTTTAAC
1 ATTTTTTTT-TT-AATTTGGTACCCAAACTTTAAC
* *
153512 ATTTTTTTTTTAATTTGGTACCTAAAC-TTGAC
1 ATTTTTTTTTTAATTTGGTACCCAAACTTTAAC
* *
153544 ATTTTTTTCTTAAGTTGGTAC
1 ATTTTTTTTTTAATTTGGTAC
153565 TTAACTTTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
32 23 0.48
33 14 0.29
34 2 0.04
35 9 0.19
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (33 bp):
ATTTTTTTTTTAATTTGGTACCCAAACTTTAAC
Found at i:160336 original size:4 final size:4
Alignment explanation
Indices: 160327--160357 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
160317 AGCTAATAAT
160327 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
160358 ATGTATAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:161905 original size:31 final size:30
Alignment explanation
Indices: 161849--161906 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
161839 AATATTTTTA
*
161849 ATTTATCTTTTTAAAAATAATAAAAATTTG
1 ATTTATCTTTTTAAAAATAACAAAAATTTG
161879 ATTTAATCTTTTTAAAAACT-ACAAAAAT
1 ATTT-ATCTTTTTAAAAA-TAACAAAAAT
161907 ATATGCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 4 0.16
31 20 0.80
32 1 0.04
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (30 bp):
ATTTATCTTTTTAAAAATAACAAAAATTTG
Found at i:163539 original size:77 final size:77
Alignment explanation
Indices: 163440--163584 Score: 281
Period size: 77 Copynumber: 1.9 Consensus size: 77
163430 GATAAAATTA
*
163440 CTGTCGAAACCATCCTTTTTTTTTAAAACGACGAGTTTTGAAAATTATTTTTTATGTTGGAAAAT
1 CTGTCGAAACCATCCTTTTTTTTTAAAACGACGAGTTTCGAAAATTATTTTTTATGTTGGAAAAT
163505 GGGTGTCTCCAG
66 GGGTGTCTCCAG
163517 CTGTCGAAACCATCCTTTTTTTTTAAAACGACGAGTTTCGAAAATTATTTTTTATGTTGGAAAAT
1 CTGTCGAAACCATCCTTTTTTTTTAAAACGACGAGTTTCGAAAATTATTTTTTATGTTGGAAAAT
163582 GGG
66 GGG
163585 ATTCGCCACC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 67 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (77 bp):
CTGTCGAAACCATCCTTTTTTTTTAAAACGACGAGTTTCGAAAATTATTTTTTATGTTGGAAAAT
GGGTGTCTCCAG
Found at i:164167 original size:96 final size:96
Alignment explanation
Indices: 163990--164174 Score: 250
Period size: 96 Copynumber: 1.9 Consensus size: 96
163980 GAAAAGGATG
* **
163990 TTCGATTATCTCGATTTTAAGAAAGGTTGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGA
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGA
*
164055 AGATAAGGAAACATTGCCTCGATTAAGGGTA
66 AGATAAAGAAACATTGCCTCGATTAAGGGTA
* * *
164086 TTCGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAGTTTTC-GAAACTC
1 TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAG-AA-TC
*
164150 GAA-ATAAA-AGAATATTGCCTCGATT
64 GAAGATAAAGA-AACATTGCCTCGATT
164175 TTAAAGTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
95 2 0.03
96 71 0.91
97 5 0.06
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (96 bp):
TTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAATTTTCAGAATCGA
AGATAAAGAAACATTGCCTCGATTAAGGGTA
Found at i:164423 original size:29 final size:28
Alignment explanation
Indices: 164391--164449 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
164381 TGAGACTTTC
**
164391 GGATACTCGGGGGGTAAAATGGTAATTTT
1 GGATACTC-GGGGACAAAATGGTAATTTT
*
164420 GGATTCTCGGGGACAAAATGGTAATTTT
1 GGATACTCGGGGACAAAATGGTAATTTT
164448 GG
1 GG
164450 GAAAGTTCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.27, C:0.08, G:0.34, T:0.31
Consensus pattern (28 bp):
GGATACTCGGGGACAAAATGGTAATTTT
Found at i:164489 original size:59 final size:58
Alignment explanation
Indices: 164426--164633 Score: 185
Period size: 59 Copynumber: 3.5 Consensus size: 58
164416 TTTTGGATTC
*
164426 TCGGGGACAAAATGGTAATTTTGGGAAAG-TTCGAGGTTAAAAATGAAATTTTTAGACA-T
1 TCGGGGA-AAAATGGTAATTTT-GGAAAGTTTCGAGGTCAAAAATGAAATTTTTAGA-AGT
* * * * * *
164485 TCGGGGGTAAAAGGGTAATTTT-GAGAGTTTCGAGGTCGAAAATGGAATTTTTGGAAGTT
1 TC-GGGGAAAAATGGTAATTTTGGAAAGTTTCGAGGTCAAAAATGAAATTTTTAGAAG-T
* * *
164544 TGGGGGTAAAAAT-GAAATTTTTGG-AAGTTTCGAGGTCAAAAATGAAATTTTTGGAAGT
1 TCGGGG-AAAAATGGTAA-TTTTGGAAAGTTTCGAGGTCAAAAATGAAATTTTTAGAAGT
*
164602 TCGGAGGTAAAAATGG-AATTTTTGGACAGTTT
1 TCGG-GG-AAAAATGGTAA-TTTTGGAAAGTTT
164634 AGGGACCTCC
Statistics
Matches: 123, Mismatches: 16, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
57 5 0.04
58 34 0.28
59 73 0.59
60 11 0.09
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (58 bp):
TCGGGGAAAAATGGTAATTTTGGAAAGTTTCGAGGTCAAAAATGAAATTTTTAGAAGT
Found at i:164495 original size:29 final size:29
Alignment explanation
Indices: 164442--164632 Score: 160
Period size: 29 Copynumber: 6.5 Consensus size: 29
164432 ACAAAATGGT
*
164442 AATTTTGGGAAAGTTC-GAGGTTAAAAATGA
1 AATTTTTGG-AAGTTCGGAGG-TAAAAATGA
* * ** *
164472 AATTTTTAGACA-TTCGGGGGTAAAAGGGT
1 AATTTTTGGA-AGTTCGGAGGTAAAAATGA
* *
164501 AA-TTTT-GAGAGTTTC-GAGGTCGAAAATGG
1 AATTTTTGGA-AG-TTCGGAGGT-AAAAATGA
* *
164530 AATTTTTGGAAGTTTGGGGGTAAAAATGA
1 AATTTTTGGAAGTTCGGAGGTAAAAATGA
164559 AATTTTTGGAAGTTTC-GAGGTCAAAAATGA
1 AATTTTTGGAAG-TTCGGAGGT-AAAAATGA
*
164589 AATTTTTGGAAGTTCGGAGGTAAAAATGG
1 AATTTTTGGAAGTTCGGAGGTAAAAATGA
164618 AATTTTTGGACAGTT
1 AATTTTTGGA-AGTT
164633 TAGGGACCTC
Statistics
Matches: 130, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
27 3 0.02
28 8 0.06
29 65 0.50
30 52 0.40
31 2 0.02
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (29 bp):
AATTTTTGGAAGTTCGGAGGTAAAAATGA
Found at i:166431 original size:16 final size:16
Alignment explanation
Indices: 166410--166462 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
166400 GTTTTTGGAC
* *
166410 TTTTAATTTAATTAAG
1 TTTTAATTAAATTAAA
* *
166426 TTTTAAATCAATTTAAA
1 TTTT-AATTAAATTAAA
166443 TTTTAATTAAATTTAAA
1 TTTTAATTAAA-TTAAA
166460 TTT
1 TTT
166463 AAAGCAAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTTAATTAAATTAAA
Found at i:166446 original size:17 final size:17
Alignment explanation
Indices: 166421--166527 Score: 92
Period size: 17 Copynumber: 6.1 Consensus size: 17
166411 TTTAATTTAA
* *
166421 TTAAGTTTTAAATCAAT
1 TTAAATTTTAAATAAAT
*
166438 TTAAATTTTAATTAAAT
1 TTAAATTTTAAATAAAT
*
166455 TTAAA-TTTAAAGCAAAT
1 TTAAATTTTAAA-TAAAT
*
166472 TTAAATTTAAAAGATAAAT
1 TTAAATTT-TAA-ATAAAT
*
166491 TTGAA-TTTAAGATAAAT
1 TTAAATTTTAA-ATAAAT
*
166508 TTAAATTTAAAAATAAAT
1 TTAAATTT-TAAATAAAT
166526 TT
1 TT
166528 GAATCAATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
16 5 0.07
17 41 0.56
18 14 0.19
19 12 0.16
20 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (17 bp):
TTAAATTTTAAATAAAT
Found at i:166450 original size:6 final size:6
Alignment explanation
Indices: 166435--166518 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
166425 GTTTTAAATC
* **
166435 AATTTA AATTTT AA-TTA AATTTA AATTTA AA-GCA AATTTA AATTTAA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A
** *
166482 AAGATA AATTTG AATTTA AGA--TA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA A-ATTTA AATTTA AATTTA AA
166519 AATAAATTTG
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
4 1 0.02
5 10 0.17
6 44 0.73
7 5 0.08
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:166498 original size:36 final size:35
Alignment explanation
Indices: 166435--166531 Score: 126
Period size: 36 Copynumber: 2.8 Consensus size: 35
166425 GTTTTAAATC
* * *
166435 AATTTAAATTT-TAATTAAATTTAAATTTAA-AGCA
1 AATTTAAATTTAAAAATAAATTTGAATTTAAGA-CA
*
166469 AATTTAAATTTAAAAGATAAATTTGAATTTAAGATA
1 AATTTAAATTTAAAA-ATAAATTTGAATTTAAGACA
166505 AATTTAAATTTAAAAATAAATTTGAAT
1 AATTTAAATTTAAAAATAAATTTGAAT
166532 CAATTTAAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
34 11 0.20
35 14 0.25
36 30 0.54
37 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (35 bp):
AATTTAAATTTAAAAATAAATTTGAATTTAAGACA
Found at i:172904 original size:29 final size:29
Alignment explanation
Indices: 172872--172932 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
172862 AAAATGAGAC
*
172872 TTTTTGGA-TACCCAGGGGCAAAATGGTAA
1 TTTTTGGACT-CCCAAGGGCAAAATGGTAA
* *
172901 -TTTTGGACTCTCAAGGGTAAAATGGTAA
1 TTTTTGGACTCCCAAGGGCAAAATGGTAA
172929 TTTT
1 TTTT
172933 GGGGTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (29 bp):
TTTTTGGACTCCCAAGGGCAAAATGGTAA
Found at i:173070 original size:29 final size:29
Alignment explanation
Indices: 173027--173184 Score: 187
Period size: 28 Copynumber: 5.4 Consensus size: 29
173017 AATTGGGGGT
*
173027 AAAATGGTAATTTTTGAAAGTTTCGAGGTCA
1 AAAATGG-AATTTTTGGAAG-TTCGAGGTCA
* **
173058 AAAATGGAATTTTTGGATGTTCG-GGGAA
1 AAAATGGAATTTTTGGAAGTTCGAGGTCA
*
173086 AAAATGTAATTTTTGGAAGTATCGAGGTCA
1 AAAATGGAATTTTTGGAAGT-TCGAGGTCA
173116 AAAATGGAATTTTTGGAAGTTCGAGGAT-A
1 AAAATGGAATTTTTGGAAGTTCGAGG-TCA
* *
173145 AAAATGTAA-TTTTGGAAGTTCGGGGTCA
1 AAAATGGAATTTTTGGAAGTTCGAGGTCA
*
173173 AAAATGTAATTT
1 AAAATGGAATTT
173185 CTAGACAGTT
Statistics
Matches: 111, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
27 1 0.01
28 46 0.41
29 24 0.22
30 33 0.30
31 7 0.06
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTCGAGGTCA
Found at i:173102 original size:87 final size:86
Alignment explanation
Indices: 172996--173184 Score: 215
Period size: 87 Copynumber: 2.2 Consensus size: 86
172986 AAAATCGAGA
* * * *
172996 TAAAAAATGGAGTTTTTGGATAAT-TGGGGGT-AAAATGGTAATTTTTGAAAGTTTCGAGG-TCA
1 TAAAAAATGTAATTTTTGGA-AATATCGAGGTAAAAATGG-AATTTTTGAAAG-TTCGAGGAT-A
*
173058 AAAATGGAATTTTTGGATGTTCGGGG
62 AAAATGGAA-TTTTGGAAGTTCGGGG
* *
173084 -AAAAAATGTAATTTTTGGAAGTATCGAGGTCAAAAATGGAATTTTTGGAAGTTCGAGGATAAAA
1 TAAAAAATGTAATTTTTGGAAATATCGAGGT-AAAAATGGAATTTTTGAAAGTTCGAGGATAAAA
*
173148 ATGTAATTTTGGAAGTTCGGGG
65 ATGGAATTTTGGAAGTTCGGGG
*
173170 TCAAAAATGTAATTT
1 TAAAAAATGTAATTT
173185 CTAGACAGTT
Statistics
Matches: 87, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
86 17 0.20
87 51 0.59
88 12 0.14
89 7 0.08
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.34
Consensus pattern (86 bp):
TAAAAAATGTAATTTTTGGAAATATCGAGGTAAAAATGGAATTTTTGAAAGTTCGAGGATAAAAA
TGGAATTTTGGAAGTTCGGGG
Found at i:173120 original size:58 final size:58
Alignment explanation
Indices: 172939--173184 Score: 257
Period size: 59 Copynumber: 4.2 Consensus size: 58
172929 TTTTGGGGTT
* ** * ** * *
172939 AAAAATGGAATTTTTAGG-TGTTCGAGGGTAAAACGGTAATTTTTAGAAAAATCGAGATA
1 AAAAATGGAATTTTT-GGATGTTCG-GGGAAAAAATGTAATTTTTGGAAGTATCGAGGTC
* * ** * *
172998 AAAAATGGAGTTTTTGGATAATT-GGGGGTAAAATGGTAATTTTTGAAAGTTTCGAGGTC
1 AAAAATGGAATTTTTGGAT-GTTCGGGGAAAAAAT-GTAATTTTTGGAAGTATCGAGGTC
173057 AAAAATGGAATTTTTGGATGTTCGGGGAAAAAATGTAATTTTTGGAAGTATCGAGGTC
1 AAAAATGGAATTTTTGGATGTTCGGGGAAAAAATGTAATTTTTGGAAGTATCGAGGTC
* * *
173115 AAAAATGGAATTTTTGGAAGTTCGAGGATAAAAATGTAA-TTTTGGAAGT-TCGGGGTC
1 AAAAATGGAATTTTTGGATGTTCGGGGA-AAAAATGTAATTTTTGGAAGTATCGAGGTC
*
173172 AAAAATGTAATTT
1 AAAAATGGAATTT
173185 CTAGACAGTT
Statistics
Matches: 159, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
57 19 0.12
58 68 0.43
59 70 0.44
60 2 0.01
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (58 bp):
AAAAATGGAATTTTTGGATGTTCGGGGAAAAAATGTAATTTTTGGAAGTATCGAGGTC
Found at i:174380 original size:3 final size:3
Alignment explanation
Indices: 174361--174442 Score: 58
Period size: 3 Copynumber: 25.7 Consensus size: 3
174351 GAATTTTTTG
*
174361 TTA TTA TTGA TGT- TTA TTA TTA GTA TTA TGTA TTTA TTA TTA TTA TTA
1 TTA TTA TT-A T-TA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA
** * *
174409 TTA AAA ATA GTTA TTA TTA TTAA TAA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TT-A TTA TTA TTA TT
174443 GATATAATAA
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
2 1 0.02
3 51 0.80
4 10 0.16
5 2 0.03
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:174422 original size:16 final size:16
Alignment explanation
Indices: 174402--174442 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
174392 ATTTATTATT
174402 ATTATTATTAAAAATA
1 ATTATTATTAAAAATA
* **
174418 GTTATTATTATTAATA
1 ATTATTATTAAAAATA
174434 ATTATTATT
1 ATTATTATT
174443 GATATAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
ATTATTATTAAAAATA
Found at i:175244 original size:6 final size:6
Alignment explanation
Indices: 175233--175290 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
175223 GTTTTAAATC
** **
175233 AATTTA AATTTA AATTTA AA-GCA AATTTA AATTTAAA AAGATA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT--A AATTTA AATTTA
175282 AATTTA AAT
1 AATTTA AAT
175291 CAATTTAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
5 3 0.07
6 34 0.83
8 4 0.10
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:175245 original size:23 final size:23
Alignment explanation
Indices: 175225--175269 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
175215 AATATTAAGT
*
175225 TTTAAATC-AATTTAAATTTAAA
1 TTTAAAGCAAATTTAAATTTAAA
175247 TTTAAAGCAAATTTAAATTTAAA
1 TTTAAAGCAAATTTAAATTTAAA
175270 AAGATAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
TTTAAAGCAAATTTAAATTTAAA
Found at i:175258 original size:17 final size:17
Alignment explanation
Indices: 175238--175299 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 17
175228 AAATCAATTT
175238 AAATTTAAATTTAAAGC
1 AAATTTAAATTTAAAGC
*
175255 AAATTTAAATTTAAAAAGAT
1 AAATTTAAATTT--AAAG-C
*
175275 AAATTTAAATTTAAATC
1 AAATTTAAATTTAAAGC
175292 -AATTTAAA
1 AAATTTAAA
175300 CCCAACAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
16 8 0.21
17 12 0.31
18 3 0.08
19 4 0.10
20 12 0.31
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
AAATTTAAATTTAAAGC
Found at i:175280 original size:20 final size:19
Alignment explanation
Indices: 175237--175289 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
175227 TAAATCAATT
175237 TAAATTTAAATTT--AAAG
1 TAAATTTAAATTTAAAAAG
*
175254 CAAATTTAAATTTAAAAAG
1 TAAATTTAAATTTAAAAAG
175273 ATAAATTTAAATTTAAA
1 -TAAATTTAAATTTAAA
175290 TCAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 12 0.39
19 4 0.13
20 15 0.48
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TAAATTTAAATTTAAAAAG
Found at i:188881 original size:22 final size:21
Alignment explanation
Indices: 188838--188883 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
188828 TTTAATACAC
* * *
188838 TTTATAATTTATAGATCTGAA
1 TTTATAATTTAGAAATCGGAA
188859 TTTATAAATTTAGAAATCGGAA
1 TTTAT-AATTTAGAAATCGGAA
188881 TTT
1 TTT
188884 TCGTAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (21 bp):
TTTATAATTTAGAAATCGGAA
Found at i:192360 original size:12 final size:12
Alignment explanation
Indices: 192345--192378 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
192335 GCTTGATGAT
*
192345 GATGAAGATGGG
1 GATGAGGATGGG
*
192357 GATGGGGATGGG
1 GATGAGGATGGG
192369 GATGAGGATG
1 GATGAGGATG
192379 ATTACAATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.56, T:0.18
Consensus pattern (12 bp):
GATGAGGATGGG
Found at i:223256 original size:59 final size:58
Alignment explanation
Indices: 223193--223354 Score: 157
Period size: 59 Copynumber: 2.7 Consensus size: 58
223183 CTTTGGGAAC
* *
223193 AAAATGGTAATTTTCGAAAGGTTTGGGGTTGAAAATGGAATTTTTAGACATCCAGGAG-T
1 AAAATGGTAATTTTCGAAAGGTTTAGGGTT-AAAATGGAATTTTTAAACAT-CAGGAGAT
* * * * * ** *
223252 AAAATGGTAATTTTTGGAAGGTTCA-GGTTAAAAAATGGAGTTTCTAAACATTTGGGGAT
1 AAAATGGTAATTTTCGAAAGGTTTAGGGTT--AAAATGGAATTTTTAAACATCAGGAGAT
* *
223311 AAAATGGTAATTTTCAAAAAGTTTAGGGTTAAAGATGGAATTTT
1 AAAATGGTAATTTTCGAAAGGTTTAGGGTTAAA-ATGGAATTTT
223355 GGAAAGTTTG
Statistics
Matches: 81, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
58 10 0.12
59 67 0.83
60 4 0.05
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (58 bp):
AAAATGGTAATTTTCGAAAGGTTTAGGGTTAAAATGGAATTTTTAAACATCAGGAGAT
Found at i:223369 original size:30 final size:31
Alignment explanation
Indices: 223328--223628 Score: 255
Period size: 30 Copynumber: 10.2 Consensus size: 31
223318 TAATTTTCAA
* *
223328 AAAGTTT-AGGGTTAAAGATGGAA-TTTTGG
1 AAAGTTTGAGGGTTAAAAATGTAATTTTTGG
223357 AAAGTTTGAGGG-TAAAAATGTAATTTTTGG
1 AAAGTTTGAGGGTTAAAAATGTAATTTTTGG
*
223387 AAAATTTTG-GGG-TAAAAATGTAACTTTTTGG
1 -AAAGTTTGAGGGTTAAAAATGTAA-TTTTTGG
* * *
223418 AAAATTT-AGGG-TCAAAATG-AAATTTTGG
1 AAAGTTTGAGGGTTAAAAATGTAATTTTTGG
* *
223446 AAAGTTAG-GGGGTAAAAATGTAATTTTTGG
1 AAAGTTTGAGGGTTAAAAATGTAATTTTTGG
*
223476 AAAGTTTG-GGG-TCAAAATGTAATTTTTTTGG
1 AAAGTTTGAGGGTTAAAAATGTAA--TTTTTGG
* *
223507 AAAGTTT-A--GTCAAAAATGGAA-TTTTGG
1 AAAGTTTGAGGGTTAAAAATGTAATTTTTGG
* *
223534 AAAGTTTG-GGGGTAAAGATGTAA-TTTTGG
1 AAAGTTTGAGGGTTAAAAATGTAATTTTTGG
* * * *
223563 -AAGATTCAGGGTTAGAAATGGAA-TTTTGG
1 AAAGTTTGAGGGTTAAAAATGTAATTTTTGG
*
223592 AAAGTTTAAGGG-TAAAAATGTAATTTTTGG
1 AAAGTTTGAGGGTTAAAAATGTAATTTTTGG
*
223622 ATAGTTT
1 AAAGTTT
223629 AGAGACCTTC
Statistics
Matches: 224, Mismatches: 30, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
27 13 0.06
28 19 0.08
29 77 0.34
30 87 0.39
31 28 0.12
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (31 bp):
AAAGTTTGAGGGTTAAAAATGTAATTTTTGG
Found at i:223500 original size:58 final size:57
Alignment explanation
Indices: 223302--223627 Score: 279
Period size: 59 Copynumber: 5.5 Consensus size: 57
223292 TTTCTAAACA
*** * *
223302 TTTGGGG-ATAAAATGGTAATTTTCAAAAAGTTTAGGGTTAAAGATGGAATTTTGGAAAG
1 TTTGGGGTA-AAAAT-GTAATTTTTGGAAAG-TTAGGGGTAAAAATGGAATTTTGGAAAG
* * * *
223361 TTTGAGGGTAAAAATGTAATTTTTGGAAAATTTTGGGGTAAAAATGTAACTTTTTGGAAAA
1 TTTG-GGGTAAAAATGTAATTTTTGG-AAAGTTAGGGGTAAAAATGGAA--TTTTGGAAAG
* * * *
223422 TTTAGGGTCAAAATG-AAATTTTGGAAAGTTAGGGGGTAAAAATGTAATTTTTGGAAAG
1 TTTGGGGTAAAAATGTAATTTTTGGAAAGTTA-GGGGTAAAAATGGAA-TTTTGGAAAG
*
223480 TTTGGGGTCAAAATGTAATTTTTTTGGAAAGTTTA---GTCAAAAATGGAATTTTGGAAAG
1 TTTGGGGTAAAAATGTAA--TTTTTGGAAAG-TTAGGGGT-AAAAATGGAATTTTGGAAAG
* * *
223538 TTTGGGGGTAAAGATGTAA-TTTTGG-AAGATTCAGGGTTAGAAATGGAATTTTGGAAAG
1 TTT-GGGGTAAAAATGTAATTTTTGGAAAG-TT-AGGGGTAAAAATGGAATTTTGGAAAG
* *
223596 TTTAAGGGTAAAAATGTAATTTTTGGATAGTT
1 TTT-GGGGTAAAAATGTAATTTTTGGAAAGTT
223628 TAGAGACCTT
Statistics
Matches: 222, Mismatches: 27, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
55 5 0.02
56 7 0.03
58 79 0.36
59 82 0.37
60 23 0.10
61 23 0.10
62 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (57 bp):
TTTGGGGTAAAAATGTAATTTTTGGAAAGTTAGGGGTAAAAATGGAATTTTGGAAAG
Found at i:223545 original size:88 final size:87
Alignment explanation
Indices: 223327--223564 Score: 318
Period size: 88 Copynumber: 2.7 Consensus size: 87
223317 GTAATTTTCA
* * *
223327 AAAAGTTTAGGGTTAAAGATGGAATTTTGGAAAGTTTGAGGGTAAAAATGTAATTTTTGGAAAAT
1 AAAA-TTTA-GGTCAAA-ATGGAATTTTGGAAAGTTTGGGGGTAAAAATGTAATTTTTGG-AAAG
223392 TTTGGGGTAAAAATGTAACTTTTTGG
62 TTTGGGGTAAAAATGTAACTTTTTGG
* *
223418 AAAATTTAGGGTCAAAATGAAATTTTGGAAAGTTAGGGGGTAAAAATGTAATTTTTGGAAAGTTT
1 AAAATTTA-GGTCAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAGTTT
* *
223483 GGGGTCAAAATGTAATTTTTTTGG
65 GGGGTAAAAATGTAA-CTTTTTGG
* *
223507 AAAGTTTA-GTCAAAAATGGAATTTTGGAAAGTTTGGGGGTAAAGATGTAA-TTTTGGAA
1 AAAATTTAGGTC-AAAATGGAATTTTGGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAA
223565 GATTCAGGGT
Statistics
Matches: 134, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
87 11 0.08
88 55 0.41
89 53 0.40
90 11 0.08
91 4 0.03
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (87 bp):
AAAATTTAGGTCAAAATGGAATTTTGGAAAGTTTGGGGGTAAAAATGTAATTTTTGGAAAGTTTG
GGGTAAAAATGTAACTTTTTGG
Found at i:223629 original size:30 final size:29
Alignment explanation
Indices: 223328--223630 Score: 282
Period size: 29 Copynumber: 10.3 Consensus size: 29
223318 TAATTTTCAA
* *
223328 AAAGTTTAGGGTTAAAGATGGAA-TTTTGG
1 AAAGTTTAGGG-TAAAAATGTAATTTTTGG
223357 AAAGTTTGAGGGTAAAAATGTAATTTTTGG
1 AAAGTTT-AGGGTAAAAATGTAATTTTTGG
* *
223387 AAAATTTTGGGGTAAAAATGTAACTTTTTGG
1 -AAAGTTTAGGGTAAAAATGTAA-TTTTTGG
* * *
223418 AAAATTTAGGGTCAAAATG-AAATTTTGG
1 AAAGTTTAGGGTAAAAATGTAATTTTTGG
223446 AAAG-TTAGGGGGTAAAAATGTAATTTTTGG
1 AAAGTTTA--GGGTAAAAATGTAATTTTTGG
* *
223476 AAAGTTTGGGGTCAAAATGTAATTTTTTTGG
1 AAAGTTTAGGGTAAAAATGTAA--TTTTTGG
*
223507 AAAGTTTA--GTCAAAAATGGAA-TTTTGG
1 AAAGTTTAGGGT-AAAAATGTAATTTTTGG
* *
223534 AAAGTTTGGGGGTAAAGATGTAA-TTTTGG
1 AAAGTTT-AGGGTAAAAATGTAATTTTTGG
* * *
223563 -AAGATTCAGGGTTAGAAATGGAA-TTTTGG
1 AAAG-TTTAGGG-TAAAAATGTAATTTTTGG
223592 AAAGTTTAAGGGTAAAAATGTAATTTTTGG
1 AAAGTTT-AGGGTAAAAATGTAATTTTTGG
*
223622 ATAGTTTAG
1 AAAGTTTAG
223631 AGACCTTCAA
Statistics
Matches: 227, Mismatches: 28, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
27 16 0.07
28 15 0.07
29 86 0.38
30 81 0.36
31 29 0.13
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.36
Consensus pattern (29 bp):
AAAGTTTAGGGTAAAAATGTAATTTTTGG
Found at i:224695 original size:3 final size:3
Alignment explanation
Indices: 224689--224714 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
224679 TATTAAAATG
224689 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
224715 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:224734 original size:9 final size:10
Alignment explanation
Indices: 224689--224737 Score: 52
Period size: 9 Copynumber: 5.3 Consensus size: 10
224679 TATTAAAATG
224689 ATAATAA-TA
1 ATAATAATTA
224698 ATAATAA-TA
1 ATAATAATTA
224707 ATAATAATT-
1 ATAATAATTA
* *
224716 ATTATTATTA
1 ATAATAATTA
224726 A-AATAATTA
1 ATAATAATTA
224735 ATA
1 ATA
224738 TATATATATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 30 0.91
10 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATAATAATTA
Found at i:225462 original size:17 final size:16
Alignment explanation
Indices: 225435--225514 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 16
225425 AAATTTAAAG
*
225435 TTAAGTTTAAAATCAT
1 TTAAATTTAAAATCAT
* *
225451 TTCAAATTTAAACTAAAT
1 TT-AAATTTAAAAT-CAT
225469 TTAAATTTAAAA-CAAAT
1 TTAAATTTAAAATC--AT
*
225486 TTAAATTTAAAAATAAAT
1 TTAAATTT-AAAAT-CAT
225504 TTAAATTTAAA
1 TTAAATTTAAA
225515 TTTGAATTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
16 2 0.04
17 31 0.61
18 18 0.35
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (16 bp):
TTAAATTTAAAATCAT
Found at i:225523 original size:30 final size:30
Alignment explanation
Indices: 225482--225573 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
225472 AATTTAAAAC
*
225482 AAATTTAAATTTAAAAATAAATTTAAATTT
1 AAATTTGAATTTAAAAATAAATTTAAATTT
225512 AAATTTGAATTTAAAAATAAATTTAAATTT
1 AAATTTGAATTTAAAAATAAATTTAAATTT
* *
225542 AAATTTGAATTT-AAAGTAAACTTAAATTT
1 AAATTTGAATTTAAAAATAAATTTAAATTT
225571 AAA
1 AAA
225574 AATAAATTTA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
29 18 0.31
30 41 0.69
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTTGAATTTAAAAATAAATTTAAATTT
Found at i:225602 original size:6 final size:6
Alignment explanation
Indices: 225416--225585 Score: 134
Period size: 6 Copynumber: 29.0 Consensus size: 6
225406 GTATTTGGAC
* * * * *
225416 TTTAAA ATTAAA TTTAAA GTTAAG TTTAAA -AT-CA TTTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
* ** **
225463 -CTAAA TTTAAA TTTAAA -ACAAA TTTAAA TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** *
225509 TTTAAA TTTGAA TTTAAA AATAAA TTTAAA TTTAAA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * **
225557 -GTAAA CTTAAA TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
225586 ACCAATCTAA
Statistics
Matches: 123, Mismatches: 35, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
4 1 0.01
5 13 0.11
6 105 0.85
7 4 0.03
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:236038 original size:21 final size:20
Alignment explanation
Indices: 236006--236052 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
235996 ACCCTTACTA
236006 TTATTTATTTATATATAT-TT
1 TTATTTATTTATATAT-TCTT
*
236026 TTATTTAATTTATTTATTCTT
1 TTATTT-ATTTATATATTCTT
236047 TTATTT
1 TTATTT
236053 TTGATTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTATTTATATATTCTT
Found at i:237194 original size:96 final size:96
Alignment explanation
Indices: 237010--237201 Score: 255
Period size: 96 Copynumber: 2.0 Consensus size: 96
237000 AATTTTGGAA
** * *
237010 AAGGATATTCGATTATCTCGATTTGAAGAAAGGTTGCACCTAGTAAGTTAAGGCGCAAATTTTCA
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCA
*
237075 GAATCGAAGATAAGGAAACATTGCCTCGATT
66 GAATCGAAGATAAAGAAACATTGCCTCGATT
* * *
237106 AAGGGTATTCGATTATTTTGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTC-
1 AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCA
*
237170 GAAACTCGAA-ATAAA-AGAATATTGCCTCGATT
66 G-AA-TCGAAGATAAAGA-AACATTGCCTCGATT
237202 TTAAAGTTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
95 2 0.02
96 77 0.92
97 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (96 bp):
AAGGATATTCGATTATCTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCACAAAATTTCA
GAATCGAAGATAAAGAAACATTGCCTCGATT
Found at i:237586 original size:30 final size:30
Alignment explanation
Indices: 237489--237617 Score: 115
Period size: 30 Copynumber: 4.3 Consensus size: 30
237479 GGAAAAATGG
* *
237489 GGGTCAAAATGGAATTTTAGGG-AGTTCGA
1 GGGTAAAAATGGAATTTTTGGGAAGTTCGA
*
237518 GGGT-AAAATGGTAATTTTTGGTGAA-ATC-A
1 GGGTAAAAATGG-AATTTTTGG-GAAGTTCGA
*
237547 GAGTAAAAAACTGGAA-TTTTGGGAAGTTCGA
1 GGGT-AAAAA-TGGAATTTTTGGGAAGTTCGA
* * * *
237578 GGGTAAAAATGTAATTTTTAGAAAGTTCGG
1 GGGTAAAAATGGAATTTTTGGGAAGTTCGA
237608 GGGTAAAAAT
1 GGGTAAAAAT
237618 ATAATTTTAG
Statistics
Matches: 82, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
28 7 0.09
29 23 0.28
30 38 0.46
31 11 0.13
32 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.29
Consensus pattern (30 bp):
GGGTAAAAATGGAATTTTTGGGAAGTTCGA
Found at i:237616 original size:60 final size:58
Alignment explanation
Indices: 237456--237627 Score: 156
Period size: 60 Copynumber: 2.9 Consensus size: 58
237446 TTTTAGACAC
* * * *
237456 TCGAGGGAAAGAATGGTAATTTTGGAAAAAT-GGGGGTCAAAATGGAATTTTAGGGAGT
1 TCGAGGGTAA-AATGGTAATTTTTGAGAAATCGGGGGTAAAAATGGAATTTTAGGGAGT
* * *
237514 TCGAGGGTAAAATGGTAATTTTTGGTGAAATC-AGAGTAAAAAACTGGAATTTT-GGGAAGT
1 TCGAGGGTAAAATGGTAATTTTT-GAGAAATCGGGGGT-AAAAA-TGGAATTTTAGGG-AGT
**
237574 TCGAGGGTAAAAAT-GTAATTTTT-AGAAAGTTCGGGGGTAAAAATATAATTTTAG
1 TCGAGGGT-AAAATGGTAATTTTTGAGAAA--TCGGGGGTAAAAATGGAATTTTAG
237628 AGAAGTTTAG
Statistics
Matches: 92, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
57 12 0.13
58 21 0.23
59 14 0.15
60 37 0.40
61 8 0.09
ACGTcount: A:0.37, C:0.04, G:0.29, T:0.30
Consensus pattern (58 bp):
TCGAGGGTAAAATGGTAATTTTTGAGAAATCGGGGGTAAAAATGGAATTTTAGGGAGT
Found at i:237623 original size:30 final size:30
Alignment explanation
Indices: 237561--237634 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
237551 AAAAAACTGG
* *
237561 AATTTT-GGGAAGTTCGAGGGTAAAAATGT
1 AATTTTAGAGAAGTTCGAGGGTAAAAATAT
*
237590 AATTTTTAGA-AAGTTCGGGGGTAAAAATAT
1 AA-TTTTAGAGAAGTTCGAGGGTAAAAATAT
237620 AATTTTAGAGAAGTT
1 AATTTTAGAGAAGTT
237635 TAGGGGTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 9 0.23
30 29 0.74
31 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.34
Consensus pattern (30 bp):
AATTTTAGAGAAGTTCGAGGGTAAAAATAT
Found at i:237665 original size:30 final size:29
Alignment explanation
Indices: 237552--237666 Score: 88
Period size: 30 Copynumber: 3.8 Consensus size: 29
237542 AATCAGAGTA
* * *
237552 AAAAACTGGAATTTTGGGAAG-TTCGAGGGT
1 AAAAA-TGTAATTTTTGGAAGTTTAG-GGGT
* **
237582 AAAAATGTAATTTTTAGAAAGTTCGGGGGT
1 AAAAATGTAATTTTT-GGAAGTTTAGGGGT
* *
237612 AAAAATATAATTTTAGAGAAGTTTAGGGGT
1 AAAAATGTAATTTTTG-GAAGTTTAGGGGT
* *
237642 CAAAATGTGATTTTTGGACAGTTTA
1 AAAAATGTAATTTTTGGA-AGTTTA
237667 AGGACCTCCA
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
29 11 0.16
30 54 0.81
31 2 0.03
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTTAGGGGT
Found at i:238776 original size:3 final size:3
Alignment explanation
Indices: 238701--238758 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
238691 TTTCATTTTT
** *
238701 TTA TTA TTA TTA AAA ATA TTA TTA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
238747 TTA TTA TTA TTA
1 TTA TTA TTA TTA
238759 ATAACACATT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:239533 original size:17 final size:17
Alignment explanation
Indices: 239508--239570 Score: 83
Period size: 17 Copynumber: 3.7 Consensus size: 17
239498 TAAATAGATT
*
239508 TAAACTTAAATTTATAA
1 TAAATTTAAATTTATAA
239525 TAAATTTAAATTT-TAA
1 TAAATTTAAATTTATAA
* *
239541 GTAAATTTAAACTTAAAA
1 -TAAATTTAAATTTATAA
239559 TAAATTTAAATT
1 TAAATTTAAATT
239571 ATATTGGGCC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
16 3 0.08
17 35 0.88
18 2 0.05
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:239534 original size:6 final size:6
Alignment explanation
Indices: 239505--239570 Score: 50
Period size: 6 Copynumber: 11.5 Consensus size: 6
239495 ATTTAAATAG
* * *
239505 ATTTAA ACTTAA ATTTATA A--TAA ATTTAA ATTTTA A-GTAA ATTTAA
1 ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
* *
239551 ACTTAA A-ATAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATT
239571 ATATTGGGCC
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
4 2 0.04
5 9 0.20
6 33 0.72
7 2 0.04
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (6 bp):
ATTTAA
Found at i:240129 original size:25 final size:25
Alignment explanation
Indices: 240094--240152 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
240084 ATTAGTTACT
* * *
240094 ATTATTAAAAAATTATATTTGAAAA
1 ATTATTAAAATATAAAATTTGAAAA
*
240119 GTTTATTAAAATATAAAATTTGAAAA
1 -ATTATTAAAATATAAAATTTGAAAA
240145 ATTATTAA
1 ATTATTAA
240153 CCCCTCATGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 7 0.25
26 21 0.75
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (25 bp):
ATTATTAAAATATAAAATTTGAAAA
Found at i:243445 original size:16 final size:16
Alignment explanation
Indices: 243411--243457 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
243401 TAAAAAGAGA
243411 AAAATAAAAATAAA-AT
1 AAAAT-AAAATAAATAT
*
243427 AAAATAAAATAAATGT
1 AAAATAAAATAAATAT
243443 AAAGAT-AAATAAATA
1 AAA-ATAAAATAAATA
243458 GAACCTTCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.30
16 17 0.63
17 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (16 bp):
AAAATAAAATAAATAT
Found at i:243445 original size:21 final size:21
Alignment explanation
Indices: 243411--243455 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
243401 TAAAAAGAGA
243411 AAAATAAAAATAAA-ATAAAAT
1 AAAATAAAAATAAAGAT-AAAT
**
243432 AAAATAAATGTAAAGATAAAT
1 AAAATAAAAATAAAGATAAAT
243453 AAA
1 AAA
243456 TAGAACCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAATAAAAATAAAGATAAAT
Found at i:246427 original size:8 final size:9
Alignment explanation
Indices: 246407--246436 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
246397 TTTGACATAC
246407 AAAATAATA
1 AAAATAATA
246416 AAAATAATA
1 AAAATAATA
246425 AAAATAAATA
1 AAAAT-AATA
246435 AA
1 AA
246437 TGTTCGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 14 0.70
10 6 0.30
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAATAATA
Found at i:247613 original size:29 final size:28
Alignment explanation
Indices: 247572--247770 Score: 179
Period size: 29 Copynumber: 6.8 Consensus size: 28
247562 ACTCGGGGGC
247572 AAAATGATAATTTTGGGAAAGTTT-GGGTCA
1 AAAATGA-AATTTT-GGAAAGTTTAGGGT-A
* *
247602 AAAATGAAATTTTTAGAAAGTTCAAGGGTA
1 AAAATGAAA-TTTTGGAAAGTT-TAGGGTA
* *
247632 AAAAT-ATATTTTTTTAGAAAGTTTAGGGTTA
1 AAAATGA-A--ATTTTGGAAAGTTTAGGG-TA
* *
247663 AAAATGGAATTTTGTAAAGTTTAAGGGT-
1 AAAATGAAATTTTGGAAAGTTT-AGGGTA
* *
247691 AAAATGTAATTTTTAGAAAGTTTAGGGTTA
1 AAAATG-AAATTTTGGAAAGTTTAGGG-TA
*
247721 AAAATGGAATTTTGGAAAGTTTAGGGGTA
1 AAAATGAAATTTTGGAAAGTTTA-GGGTA
247750 AAAATGAAATTTTGGAAAGTT
1 AAAATGAAATTTTGGAAAGTT
247771 CATGGACCTA
Statistics
Matches: 140, Mismatches: 16, Indels: 27
0.77 0.09 0.15
Matches are distributed among these distances:
28 10 0.07
29 71 0.51
30 35 0.25
31 24 0.17
ACGTcount: A:0.41, C:0.01, G:0.23, T:0.36
Consensus pattern (28 bp):
AAAATGAAATTTTGGAAAGTTTAGGGTA
Found at i:247643 original size:58 final size:59
Alignment explanation
Indices: 247572--247770 Score: 239
Period size: 58 Copynumber: 3.4 Consensus size: 59
247562 ACTCGGGGGC
** * * *
247572 AAAATGATAATTTTGGGAAAGTTT-GGGTCAAAAATGAAATTTTTAGAAAGTTCAAGGGTA
1 AAAATGATAATTTTTAGAAAGTTTAGGGTTAAAAATGGAA-TTTT-GAAAGTTTAAGGGTA
*
247632 AAAAT-ATATTTTTTTAGAAAGTTTAGGGTTAAAAATGGAATTTTGTAAAGTTTAAGGGT-
1 AAAATGATA-ATTTTTAGAAAGTTTAGGGTTAAAAATGGAATTTTG-AAAGTTTAAGGGTA
*
247691 AAAATG-TAATTTTTAGAAAGTTTAGGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGTA
1 AAAATGATAATTTTTAGAAAGTTTAGGGTTAAAAATGGAATTTT-GAAAGTTTAAGGGTA
*
247750 AAAATGA-AA-TTTTGGAAAGTT
1 AAAATGATAATTTTTAGAAAGTT
247771 CATGGACCTA
Statistics
Matches: 123, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
58 57 0.46
59 20 0.16
60 33 0.27
61 13 0.11
ACGTcount: A:0.41, C:0.01, G:0.23, T:0.36
Consensus pattern (59 bp):
AAAATGATAATTTTTAGAAAGTTTAGGGTTAAAAATGGAATTTTGAAAGTTTAAGGGTA
Found at i:248755 original size:3 final size:3
Alignment explanation
Indices: 248745--248820 Score: 82
Period size: 3 Copynumber: 24.7 Consensus size: 3
248735 TTTTTTTTTG
* * * *
248745 TAT T-T TAT TAT TAT TAA TAT TAT TAT TAT TAT TAA TGT TGTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT
248790 TAT TAT TAAT TAT TAT TAAT TAT TAT TAT TA
1 TAT TAT T-AT TAT TAT T-AT TAT TAT TAT TA
248821 ATGGCCTATT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
2 2 0.03
3 52 0.84
4 8 0.13
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:248803 original size:10 final size:10
Alignment explanation
Indices: 248751--248817 Score: 86
Period size: 10 Copynumber: 7.0 Consensus size: 10
248741 TTTGTATTTT
248751 ATTATTATTA
1 ATTATTATTA
248761 A-TATTATT-
1 ATTATTATTA
248769 ATTATTATTA
1 ATTATTATTA
* * *
248779 A-TGTTGTTT
1 ATTATTATTA
248788 ATTATTATTA
1 ATTATTATTA
248798 ATTATTATTA
1 ATTATTATTA
248808 ATTATTATTA
1 ATTATTATTA
248818 TTAATGGCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
8 1 0.02
9 20 0.42
10 27 0.56
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (10 bp):
ATTATTATTA
Found at i:249534 original size:6 final size:6
Alignment explanation
Indices: 249514--249620 Score: 91
Period size: 6 Copynumber: 18.7 Consensus size: 6
249504 TGGATTTTAA
* ** *
249514 TAAATT T-ATTT TAAATT TAAAAA TAAATT TAAACT TAAA-T TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * *
249560 TAAATT TAAA-A TAAATT TAAATT TAAA-A CAAATT T-AATCT TAAA-A
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAAT-T TAAATT
249605 TAAATT TAAATT TAAA
1 TAAATT TAAATT TAAA
249621 ACAAATTTAA
Statistics
Matches: 79, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
5 23 0.29
6 54 0.68
7 2 0.03
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (6 bp):
TAAATT
Found at i:249559 original size:17 final size:17
Alignment explanation
Indices: 249523--249648 Score: 175
Period size: 17 Copynumber: 7.4 Consensus size: 17
249513 ATAAATTTAT
249523 TTTAAATTTAAAAATAAA
1 TTTAAATTT-AAAATAAA
* *
249541 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
249558 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
*
249575 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
249592 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
*
249609 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
249626 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
249643 TTTAAA
1 TTTAAA
249649 ACAAGTTTAG
Statistics
Matches: 96, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
16 6 0.06
17 77 0.80
18 13 0.14
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:249579 original size:23 final size:24
Alignment explanation
Indices: 249525--249586 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 24
249515 AAATTTATTT
** *
249525 TAAATTTAAAAATAAATTTAAACT
1 TAAATTTAAATTTAAATTTAAACA
249549 TAAA-TTAAATTTAAATTTAAA-A
1 TAAATTTAAATTTAAATTTAAACA
249571 TAAATTTAAATTTAAA
1 TAAATTTAAATTTAAA
249587 ACAAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.12
23 26 0.76
24 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAATTTAAATTTAAATTTAAACA
Found at i:250176 original size:49 final size:49
Alignment explanation
Indices: 250123--250505 Score: 284
Period size: 49 Copynumber: 7.8 Consensus size: 49
250113 CTTTCTTGTT
** *
250123 TCTGAGGTACTAGGTTCGCTGTTGCGACTTAAACATTTCCCTTTGTTTC
1 TCTGAGGTACTAGGTTCGCCATTGCGACTTAAACATTTCCCTTTGTGTC
*
250172 TCTGAGGTACTAGGTTTGCCATTGCGACTTAAACATTTCCCTTTGTGTC
1 TCTGAGGTACTAGGTTCGCCATTGCGACTTAAACATTTCCCTTTGTGTC
* * * **
250221 T-TGGCGGTACT-GGATTCGCCGTTGCGGCTTAAATC-TTTCCCTTCCTGTC
1 TCT-GAGGTACTAGG-TTCGCCATTGCGACTTAAA-CATTTCCCTTTGTGTC
* * * * * * *
250270 TTTGTGGTACTAGATTCGCCATTGTGGCTTAAA-TTTTCCCTTTATG-C
1 TCTGAGGTACTAGGTTCGCCATTGCGACTTAAACATTTCCCTTTGTGTC
* * * *
250317 TTCTGAGGT-TTAAGGTTTGCCATTGCGACTTAAACATTTCTCC-TCGTATC
1 -TCTGAGGTACT-AGGTTCGCCATTGCGACTTAAACATTTC-CCTTTGTGTC
* * * * * * **
250367 TCCGCGGTACT-GGATCCGCCGTTGCGGCTTAAATC-CTTCCCTTCATGTC
1 TCTGAGGTACTAGG-TTCGCCATTGCGACTTAAA-CATTTCCCTTTGTGTC
* * * *
250416 TCTGAGGTACTAGGTTCGCCATTGCAACTTAAACCTTTCCATTTATG-C
1 TCTGAGGTACTAGGTTCGCCATTGCGACTTAAACATTTCCCTTTGTGTC
* * *
250464 TTCTGAGGTAC-ACAGTTCGCCGTTGCGACTTAAACTTTTCCC
1 -TCTGAGGTACTA-GGTTCGCCATTGCGACTTAAACATTTCCC
250506 CGCTTATCTT
Statistics
Matches: 264, Mismatches: 51, Indels: 38
0.75 0.14 0.11
Matches are distributed among these distances:
47 2 0.01
48 44 0.17
49 208 0.79
50 10 0.04
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (49 bp):
TCTGAGGTACTAGGTTCGCCATTGCGACTTAAACATTTCCCTTTGTGTC
Found at i:250438 original size:98 final size:98
Alignment explanation
Indices: 249990--250455 Score: 346
Period size: 98 Copynumber: 4.8 Consensus size: 98
249980 ATGGTATTAA
* * *
249990 ATTCGCCGTTGTGGCTTAAAT-TTTCCTTTCATG-CTTCTGAGGTA-TAAGGTTCGCCGTTACGA
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACT-AGGTTCGCCGTTGCGA
* * * * *
250052 CTTAAACCTTTCTCC-TCATGTCTTCACAGTACTGG
64 CTTAAACATTTC-CCTTCGTGTCTCCGCGGTACTGG
* * * * * * * *
250087 ATTCGTCGTTGCGGCCTGAATCCTTCCTTTCTTGTTTCTGAGGTACTAGGTTCGCTGTTGCGACT
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGACT
* * * *
250152 TAAACATTTCCCTTTGTTTCTCTGAGGTACTAGG
66 TAAACATTTCCCTTCGTGTCTCCGCGGTACT-GG
* * * ** *
250186 -TTTGCCATTGCGACTTAAA-CATTTCCCTTTGTGTCT-TGGCGGTACT-GGATTCGCCGTTGCG
1 ATTCGCCGTTGCGGCTTAAATC-TTTCCCTTCATGTCTCT-GAGGTACTAGG-TTCGCCGTTGCG
* * ** * *
250247 GCTTAAATC-TTTCCCTTCCTGTCTTTGTGGTACTAG
63 ACTTAAA-CATTTCCCTTCGTGTCTCCGCGGTACTGG
* * * * * *
250283 ATTCGCCATTGTGGCTTAAAT-TTTCCCTTTATG-CTTCTGAGGT-TTAAGGTTTGCCATTGCGA
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACT-AGGTTCGCCGTTGCGA
*
250345 CTTAAACATTTCTCC-TCGTATCTCCGCGGTACTGG
64 CTTAAACATTTC-CCTTCGTGTCTCCGCGGTACTGG
* * * *
250380 ATCCGCCGTTGCGGCTTAAATCCTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCAACT
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGACT
*
250445 TAAACCTTTCC
66 TAAACATTTCC
250456 ATTTATGCTT
Statistics
Matches: 287, Mismatches: 62, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
96 3 0.01
97 93 0.32
98 185 0.64
99 6 0.02
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.38
Consensus pattern (98 bp):
ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGACT
TAAACATTTCCCTTCGTGTCTCCGCGGTACTGG
Found at i:250474 original size:98 final size:98
Alignment explanation
Indices: 249990--250564 Score: 344
Period size: 98 Copynumber: 5.9 Consensus size: 98
249980 ATGGTATTAA
* * *
249990 ATTCGCCGTTGTGGCTTAAAT-TTTCCTTTCATG-CTTCTGAGGTA-TAAGGTTCGCCGTTACGA
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACT-AGGTTCGCCGTTGCGA
* **
250052 CTTAAACCTTTCTCC-TCATGTCTTCACA-GTACTGG
64 CTTAAACCTTTC-CCTTTATG-CTTCTGAGGTACTGG
* * * * * * * *
250087 ATTCGTCGTTGCGGCCTGAATCCTTCCTTTCTTGTTTCTGAGGTACTAGGTTCGCTGTTGCGACT
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGACT
* * *
250152 TAAACATTTCCCTTTGT-TTCTCTGAGGTACTAGG
66 TAAACCTTTCCCTTTATGCT-TCTGAGGTACT-GG
* * * ** *
250186 -TTTGCCATTGCGACTTAAA-CATTTCCCTTTGTGTCT-TGGCGGTACT-GGATTCGCCGTTGCG
1 ATTCGCCGTTGCGGCTTAAATC-TTTCCCTTCATGTCTCT-GAGGTACTAGG-TTCGCCGTTGCG
* * ** * *
250247 GCTTAAATCTTTCCCTTCCTGTCTT-TGTGGTACTAG
63 ACTTAAACCTTTCCCTTTATG-CTTCTGAGGTACTGG
* * * * * *
250283 ATTCGCCATTGTGGCTTAAAT-TTTCCCTTTATG-CTTCTGAGGT-TTAAGGTTTGCCATTGCGA
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACT-AGGTTCGCCGTTGCGA
* * * *
250345 CTTAAACATTTCTCCTCGTAT-C-TCCGCGGTACTGG
64 CTTAAACCTTTC-CCT-TTATGCTTCTGAGGTACTGG
* * * *
250380 ATCCGCCGTTGCGGCTTAAATCCTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCAACT
1 ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGACT
* **
250445 TAAACCTTTCCATTTATGCTTCTGAGGTAC-AC
66 TAAACCTTTCCCTTTATGCTTCTGAGGTACTGG
* ** * * * * *
250477 AGTTCGCCGTTGCGACTTAAA-CTTTTCCCCGCTTATCT-TCATGGTACT-GGATTTGCCGTTGT
1 A-TTCGCCGTTGCGGCTTAAATC-TTTCCCTTCATGTCTCTGA-GGTACTAGG-TTCGCCGTTGC
* *
250539 GGCTTAAACCTTTCCCTTCATGCTTC
62 GACTTAAACCTTTCCCTTTATGCTTC
250565 AAAATACTGA
Statistics
Matches: 365, Mismatches: 83, Indels: 59
0.72 0.16 0.12
Matches are distributed among these distances:
96 7 0.02
97 99 0.27
98 251 0.69
99 7 0.02
100 1 0.00
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (98 bp):
ATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCGTTGCGACT
TAAACCTTTCCCTTTATGCTTCTGAGGTACTGG
Found at i:250525 original size:293 final size:293
Alignment explanation
Indices: 249981--250557 Score: 730
Period size: 293 Copynumber: 2.0 Consensus size: 293
249971 TCAATCCACA
* * *
249981 TGGTATTAAATTCGCCGTTGTGGCTTAAATTTTCCTTTCATGCTTCTGAGGTATAAGGTTCGCCG
1 TGGTACTAAATTCGCCATTGTGGCTTAAATTTTCCTTTCATGCTTCTGAGGTATAAGGTTCGCCA
* * * * * *
250046 TTACGACTTAAACCTTTCTCCTCATGTCTTCACAGTACTGGATTCGTCGTTGCGGCCTGAATCCT
66 TTACGACTTAAACATTTCTCCTCATATCTCCACAGTACTGGATCCGCCGTTGCGGCCTAAATCCT
* * * ** * * * *
250111 TCCTTTCTTGTTTCTGAGGTACTAGGTTCGCTGTTGCGACTTAAACATTTCCCTTTGTTTCTCTG
131 TCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCAACTTAAACATTTCCATTTATCTCTCTG
* * ** * **
250176 AGGTACTAGGTTTGCCATTGCGACTTAAACATTTCCCTTTGTGTCTTGGCGGTACTGGATTCGCC
196 AGGTACTAAGTTCGCCATTGCGACTTAAACATTTCCCGCTGTATCTTCACGGTACTGGATTCGCC
*
250241 GTTGCGGCTTAAATCTTTCCCTTCCTGTCTTTG
261 GTTGCGGCTTAAACCTTTCCCTTCCTGTCTTTG
* * *
250274 TGGTACTAGATTCGCCATTGTGGCTTAAATTTTCCCTTT-ATGCTTCTGAGGTTTAAGGTTTGCC
1 TGGTACTAAATTCGCCATTGTGGCTTAAATTTT-CCTTTCATGCTTCTGAGGTATAAGGTTCGCC
* * * * *
250338 ATTGCGACTTAAACATTTCTCCTCGTATCTCCGCGGTACTGGATCCGCCGTTGCGGCTTAAATCC
65 ATTACGACTTAAACATTTCTCCTCATATCTCCACAGTACTGGATCCGCCGTTGCGGCCTAAATCC
*
250403 TTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCAACTTAAACCTTTCCATTTATGCT-TC
130 TTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCAACTTAAACATTTCCATTTAT-CTCTC
* * *
250467 TGAGGTAC-ACAGTTCGCCGTTGCGACTTAAACTTTTCCCCGCT-TATCTTCATGGTACTGGATT
194 TGAGGTACTA-AGTTCGCCATTGCGACTTAAACATTT-CCCGCTGTATCTTCACGGTACTGGATT
* *
250530 TGCCGTTGTGGCTTAAACCTTTCCCTTC
257 CGCCGTTGCGGCTTAAACCTTTCCCTTC
250558 ATGCTTCAAA
Statistics
Matches: 240, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
292 1 0.00
293 229 0.95
294 10 0.04
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (293 bp):
TGGTACTAAATTCGCCATTGTGGCTTAAATTTTCCTTTCATGCTTCTGAGGTATAAGGTTCGCCA
TTACGACTTAAACATTTCTCCTCATATCTCCACAGTACTGGATCCGCCGTTGCGGCCTAAATCCT
TCCCTTCATGTCTCTGAGGTACTAGGTTCGCCATTGCAACTTAAACATTTCCATTTATCTCTCTG
AGGTACTAAGTTCGCCATTGCGACTTAAACATTTCCCGCTGTATCTTCACGGTACTGGATTCGCC
GTTGCGGCTTAAACCTTTCCCTTCCTGTCTTTG
Done.