Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013962.1 Kokia drynarioides strain JFW-HI SEQ_128993, 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: 94443
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Warning! 14 characters in sequence are not A, C, G, or T
Found at i:6380 original size:29 final size:29
Alignment explanation
Indices: 6348--6566 Score: 195
Period size: 29 Copynumber: 7.4 Consensus size: 29
6338 TCGGGGTCAC
*
6348 AAATGGGATTTTTGGAGGTTCGGGGGTAA
1 AAATGGGATTTTTGGAAGTTCGGGGGTAA
* * * ***
6377 AAATGGAACTTTTGAAAGTTTCGGTATTAA
1 AAATGGGATTTTTGGAAG-TTCGGGGGTAA
* *
6407 AAATGGGATTTTTAGAAGTTCAGGGGTAA
1 AAATGGGATTTTTGGAAGTTCGGGGGTAA
* ** *
6436 AAATGGGATTTTTGGAGGTTTTAGGGTTAA
1 AAATGGGATTTTTGGAAG-TTCGGGGGTAA
** * *
6466 AAATGGGATTTTTAAAAGTTTGAGGGTAA
1 AAATGGGATTTTTGGAAGTTCGGGGGTAA
***
6495 AAATGGGATTTTTGGAAGTTTTTGGGTCAA
1 AAATGGGATTTTTGGAAGTTCGGGGGT-AA
* * *
6525 AAATGAGATTTTTGGAAGTCCGAGGGTAA
1 AAATGGGATTTTTGGAAGTTCGGGGGTAA
*
6554 AAATGGAATTTTT
1 AAATGGGATTTTT
6567 AAAAAATTAG
Statistics
Matches: 151, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
29 81 0.54
30 70 0.46
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (29 bp):
AAATGGGATTTTTGGAAGTTCGGGGGTAA
Found at i:6400 original size:59 final size:59
Alignment explanation
Indices: 6337--6566 Score: 246
Period size: 59 Copynumber: 3.9 Consensus size: 59
6327 TTTGGGAAAA
* * * * * *
6337 TTCGGGGTCACAAATGGGATTTTTGGAGGTTCGGGGGTAAAAATGGAACTTTTGAAAGT
1 TTCGGGGTCAAAAATGGGATTTTTAGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGT
** * * *
6396 TTCGGTATTAAAAATGGGATTTTTAGAAGTTC-AGGGGTAAAAATGGGATTTTTGGAGGT
1 TTCGGGGTCAAAAATGGGATTTTTAGAAGTTCGA-GGGTAAAAATGGAATTTTTGGAAGT
** * * * *
6455 TTTAGGGTTAAAAATGGGATTTTTAAAAGTTTGAGGGTAAAAATGGGATTTTTGGAAGT
1 TTCGGGGTCAAAAATGGGATTTTTAGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGT
** * * *
6514 TTTTGGGTCAAAAATGAGATTTTTGGAAGTCCGAGGGTAAAAATGGAATTTTT
1 TTCGGGGTCAAAAATGGGATTTTTAGAAGTTCGAGGGTAAAAATGGAATTTTT
6567 AAAAAATTAG
Statistics
Matches: 143, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
59 142 0.99
60 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (59 bp):
TTCGGGGTCAAAAATGGGATTTTTAGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGT
Found at i:7673 original size:21 final size:21
Alignment explanation
Indices: 7649--7696 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7639 TATTACTGTC
*
7649 ATTAATA-CTATTATTATTATT
1 ATTAATATC-ATTAATATTATT
*
7670 ATTAATATCATTAATGTTATT
1 ATTAATATCATTAATATTATT
7691 ATTAAT
1 ATTAAT
7697 CAAAAGTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
ATTAATATCATTAATATTATT
Found at i:8465 original size:6 final size:6
Alignment explanation
Indices: 8443--8520 Score: 58
Period size: 6 Copynumber: 13.5 Consensus size: 6
8433 CTTTACTTAT
* *
8443 TTTAAA TTTATAA --TAAA TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* * *
8490 -TCAAA TTTAAA TTCAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
8521 TTAAACAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
4 2 0.04
5 12 0.21
6 37 0.66
7 5 0.09
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:8475 original size:18 final size:17
Alignment explanation
Indices: 8443--8553 Score: 116
Period size: 18 Copynumber: 6.4 Consensus size: 17
8433 CTTTACTTAT
*
8443 TTTAAATTTATAATAAA
1 TTTAAATTTAAAATAAA
8460 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
*
8478 TTTAAACTT-AAATCAAA
1 TTTAAATTTAAAAT-AAA
*
8495 TTTAAATTCAAAATAAA
1 TTTAAATTTAAAATAAA
* *
8512 TTTAAATTTTTAAACAAA
1 TTTAAA-TTTAAAATAAA
*
8530 TTTAATTTTTAAAATAAA
1 TTTAA-ATTTAAAATAAA
*
8548 CTTAAA
1 TTTAAA
8554 GGGAGTTTGG
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
16 4 0.05
17 28 0.36
18 45 0.58
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:11618 original size:21 final size:19
Alignment explanation
Indices: 11584--11622 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
11574 TGTAATATAT
11584 TTCTCTTCTTTTCTCTTTTC
1 TTCTCTTCTTTTCT-TTTTC
*
11604 TTCTACTTTTTTTCTTTTT
1 TTCT-CTTCTTTTCTTTTT
11623 GTGATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTCTTCTTTTCTTTTTC
Found at i:19874 original size:16 final size:16
Alignment explanation
Indices: 19853--19883 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19843 GATGTGCTAG
*
19853 TAAATTACGTACTAAA
1 TAAATTACATACTAAA
19869 TAAATTACATACTAA
1 TAAATTACATACTAA
19884 CTTAGTGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (16 bp):
TAAATTACATACTAAA
Found at i:30643 original size:71 final size:70
Alignment explanation
Indices: 30559--30713 Score: 283
Period size: 71 Copynumber: 2.2 Consensus size: 70
30549 ATTTACTTTC
*
30559 AATTGCACTGACATTTAACTTTTATAATTACATTGACAATATTAACTATTTTCAGTGTGCAGATC
1 AATTGCACTGACATTTAACTTTTATAATTACATTGACAATATTAACTATTTT-AGAGTGCAGATC
30624 TGACTA
65 TGACTA
30630 AATTGCACTGACATTTAACTTTTATAATTACATTGACAATATTAACTATTTTAGAGTGCAGATCT
1 AATTGCACTGACATTTAACTTTTATAATTACATTGACAATATTAACTATTTTAGAGTGCAGATCT
30695 GACTA
66 GACTA
*
30700 AATTGCGCTGACAT
1 AATTGCACTGACAT
30714 CTTTCCTCAC
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
70 30 0.37
71 52 0.63
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (70 bp):
AATTGCACTGACATTTAACTTTTATAATTACATTGACAATATTAACTATTTTAGAGTGCAGATCT
GACTA
Found at i:31363 original size:25 final size:27
Alignment explanation
Indices: 31342--31396 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 27
31332 ATGAAGCACA
31342 ACAG-TATAAAGCAAAGCAAAGCAAAG
1 ACAGATATAAAGCAAAGCAAAGCAAAG
31368 TACAGTAATATAAAGCAAAGCAAAGCAAA
1 -ACAG--ATATAAAGCAAAGCAAAGCAAA
31397 AAGCAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 4 0.16
30 21 0.84
ACGTcount: A:0.58, C:0.15, G:0.16, T:0.11
Consensus pattern (27 bp):
ACAGATATAAAGCAAAGCAAAGCAAAG
Found at i:36899 original size:25 final size:23
Alignment explanation
Indices: 36871--36952 Score: 80
Period size: 25 Copynumber: 3.5 Consensus size: 23
36861 CAAAAAAAGC
36871 AATATAAAGCAAAGCAAAGAAAAAT
1 AATATAAAGCAAAGCAAAG--AAAT
*
36896 AATATAAAGAAAAGCAAAG---T
1 AATATAAAGCAAAGCAAAGAAAT
*
36916 AATATAGAGCAAAGCAAAGCAAAGT
1 AATATAAAGCAAAGCAAAG-AAA-T
*
36941 AATATAATGCAA
1 AATATAAAGCAA
36953 GATTTATGAC
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
20 18 0.38
25 29 0.62
ACGTcount: A:0.62, C:0.09, G:0.15, T:0.15
Consensus pattern (23 bp):
AATATAAAGCAAAGCAAAGAAAT
Found at i:36930 original size:20 final size:20
Alignment explanation
Indices: 36881--36934 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
36871 AATATAAAGC
* *
36881 AAAGCAAAGAAAAATAATAT
1 AAAGCAAAGCAAAGTAATAT
*
36901 AAAGAAAAGCAAAGTAATAT
1 AAAGCAAAGCAAAGTAATAT
*
36921 AGAGCAAAGCAAAG
1 AAAGCAAAGCAAAG
36935 CAAAGTAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.65, C:0.07, G:0.17, T:0.11
Consensus pattern (20 bp):
AAAGCAAAGCAAAGTAATAT
Found at i:37950 original size:16 final size:16
Alignment explanation
Indices: 37929--37962 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
37919 TTTAGTTGAT
*
37929 AAAATATGAAAAATTA
1 AAAATAAGAAAAATTA
37945 AAAATAAGAAAAATTA
1 AAAATAAGAAAAATTA
37961 AA
1 AA
37963 GAGATCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAATAAGAAAAATTA
Found at i:39184 original size:3 final size:3
Alignment explanation
Indices: 39176--39215 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
39166 ATAAACCTAT
*
39176 ATA ATA ATA ATA ATA ATA ATA ATA ATA CAGA A-A ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA A
39216 ATCAGTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:43559 original size:30 final size:31
Alignment explanation
Indices: 43525--43593 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
43515 GCATTTAGTA
** *
43525 TTTGCTTTA-CTTTTTTTTTCTT-TACTTTGT
1 TTTGCTTTAGCTTTGCTTTTCTTCT-CTTTGC
43555 TTTGC-TTAGCTTTGCTTTTCTTCTCTTTGC
1 TTTGCTTTAGCTTTGCTTTTCTTCTCTTTGC
43585 TTTGCTTTA
1 TTTGCTTTA
43594 TATTGCTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 3 0.09
30 26 0.79
31 4 0.12
ACGTcount: A:0.06, C:0.17, G:0.10, T:0.67
Consensus pattern (31 bp):
TTTGCTTTAGCTTTGCTTTTCTTCTCTTTGC
Found at i:43643 original size:5 final size:5
Alignment explanation
Indices: 43633--43695 Score: 58
Period size: 5 Copynumber: 12.6 Consensus size: 5
43623 AAAACAGTAT
* * * *
43633 AAAGC AAAGC AATGC AAAGC AATA-T AAAGC AAAGC AATGC AAAGC AATA-T
1 AAAGC AAAGC AAAGC AAAGC AA-AGC AAAGC AAAGC AAAGC AAAGC AA-AGC
43683 AAAGC AAAGC AAA
1 AAAGC AAAGC AAA
43696 ACTGTAACAC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
4 2 0.04
5 42 0.91
6 2 0.04
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.10
Consensus pattern (5 bp):
AAAGC
Found at i:43658 original size:25 final size:25
Alignment explanation
Indices: 43630--43694 Score: 130
Period size: 25 Copynumber: 2.6 Consensus size: 25
43620 AGTAAAACAG
43630 TATAAAGCAAAGCAATGCAAAGCAA
1 TATAAAGCAAAGCAATGCAAAGCAA
43655 TATAAAGCAAAGCAATGCAAAGCAA
1 TATAAAGCAAAGCAATGCAAAGCAA
43680 TATAAAGCAAAGCAA
1 TATAAAGCAAAGCAA
43695 AACTGTAACA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.57, C:0.15, G:0.15, T:0.12
Consensus pattern (25 bp):
TATAAAGCAAAGCAATGCAAAGCAA
Found at i:49906 original size:39 final size:39
Alignment explanation
Indices: 49714--49935 Score: 142
Period size: 39 Copynumber: 5.7 Consensus size: 39
49704 GATCTGGTAA
* * * ** * *
49714 TGTTTATAATGTCACTACCCATTCAATACAGCATTATGG
1 TGTTTACAATGTCACTACCAATTCAGTATTGCATTGTAG
* * * **
49753 TGTTTACAATGTCA-T-CGTCAGTTCAGTATTTCTTTGCGG
1 TGTTTACAATGTCACTAC--CAATTCAGTATTGCATTGTAG
* * ** * * *
49792 TGTTTATAGTGTCACCGCCAATTTAGTATTACATTGCAG
1 TGTTTACAATGTCACTACCAATTCAGTATTGCATTGTAG
* * * ** *
49831 TGTTTACAGTGTGACTGCCGGTTCAATATTGCATTGTAG
1 TGTTTACAATGTCACTACCAATTCAGTATTGCATTGTAG
* *
49870 TGTTTACAATGTCATTACCAATTCAGTATTGCATTGTAA
1 TGTTTACAATGTCACTACCAATTCAGTATTGCATTGTAG
* * *
49909 TGTTTGCAGTGTCACTACCAGTTCAGT
1 TGTTTACAATGTCACTACCAATTCAGT
49936 CTACAATCGA
Statistics
Matches: 140, Mismatches: 39, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 137 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (39 bp):
TGTTTACAATGTCACTACCAATTCAGTATTGCATTGTAG
Found at i:51692 original size:5 final size:5
Alignment explanation
Indices: 51682--51887 Score: 52
Period size: 5 Copynumber: 41.2 Consensus size: 5
51672 AACGATGAAC
* * * * * * *
51682 CAAAG CAAAG CAAAG TAAAG CAAAA TAATA- TAAAA TAAAG TAAAG CAAAG
1 CAAAG CAAAG CAAAG CAAAG CAAAG CAA-AG CAAAG CAAAG CAAAG CAAAG
* * * * *
51732 CAAAG CAATA- TAATA- TAAAG CAAAG CAAAG TAATA- TAAAG AAAAG
1 CAAAG CAA-AG CAA-AG CAAAG CAAAG CAAAG CAA-AG CAAAG CAAAG
* * * * * * * *
51777 AAAAG TAAAG CAATG CAAAG TAATA- TAAAG CAATG TAAAG CAAAG CAAAA
1 CAAAG CAAAG CAAAG CAAAG CAA-AG CAAAG CAAAG CAAAG CAAAG CAAAG
* * *
51827 CAATA- TAAGG CAAAG CAAAG CAATG CAAAG -AAA- CATAAAG CAATA-
1 CAA-AG CAAAG CAAAG CAAAG CAAAG CAAAG CAAAG C--AAAG CAA-AG
*
51872 TAAAG CAAAG CAAAG C
1 CAAAG CAAAG CAAAG C
51888 TTATTTGATA
Statistics
Matches: 156, Mismatches: 29, Indels: 32
0.72 0.13 0.15
Matches are distributed among these distances:
4 8 0.05
5 138 0.88
6 9 0.06
7 1 0.01
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.13
Consensus pattern (5 bp):
CAAAG
Found at i:51737 original size:35 final size:35
Alignment explanation
Indices: 51683--51761 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
51673 ACGATGAACC
*
51683 AAAGCAAAGCAAAGTAAAGCAAAATAATATAAAAT
1 AAAGCAAAGCAAAGCAAAGCAAAATAATATAAAAT
* * **
51718 AAAGTAAAGCAAAGCAAAGCAATATAATATAAAGC
1 AAAGCAAAGCAAAGCAAAGCAAAATAATATAAAAT
51753 AAAGCAAAG
1 AAAGCAAAG
51762 TAATATAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.63, C:0.10, G:0.14, T:0.13
Consensus pattern (35 bp):
AAAGCAAAGCAAAGCAAAGCAAAATAATATAAAAT
Found at i:51744 original size:25 final size:25
Alignment explanation
Indices: 51716--51799 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
51706 ATAATATAAA
51716 ATAAAGTAAAGCAAAGCAAAGCAAT
1 ATAAAGTAAAGCAAAGCAAAGCAAT
*
51741 ATAATA-TAAAGCAAAGCAAAGTAAT
1 ATAA-AGTAAAGCAAAGCAAAGCAAT
* * *
51766 ATAAAGAAAAGAAAAGTAAAGCAAT
1 ATAAAGTAAAGCAAAGCAAAGCAAT
**
51791 GCAAAGTAA
1 ATAAAGTAA
51800 TATAAAGCAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.02
25 47 0.96
26 1 0.02
ACGTcount: A:0.62, C:0.08, G:0.15, T:0.14
Consensus pattern (25 bp):
ATAAAGTAAAGCAAAGCAAAGCAAT
Found at i:51795 original size:35 final size:35
Alignment explanation
Indices: 51747--51825 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
51737 CAATATAATA
51747 TAAAGCAAAGCAAAGTAATATAAAGAAAAGAAAAG
1 TAAAGCAAAGCAAAGTAATATAAAGAAAAGAAAAG
* * * *
51782 TAAAGCAATGCAAAGTAATATAAAGCAATGTAAAG
1 TAAAGCAAAGCAAAGTAATATAAAGAAAAGAAAAG
*
51817 CAAAGCAAA
1 TAAAGCAAA
51826 ACAATATAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.61, C:0.09, G:0.16, T:0.14
Consensus pattern (35 bp):
TAAAGCAAAGCAAAGTAATATAAAGAAAAGAAAAG
Found at i:51847 original size:30 final size:29
Alignment explanation
Indices: 51683--51885 Score: 151
Period size: 30 Copynumber: 6.8 Consensus size: 29
51673 ACGATGAACC
* *
51683 AAAGCAAAGCAAAGTAAAGCAAAATAATAT
1 AAAGCAAAGTAAAGCAAAGCAAAA-AATAT
** *
51713 AAAATAAAGTAAAGCAAAGCAAAGCAATAT
1 AAAGCAAAGTAAAGCAAAGCAAA-AAATAT
* * * *
51743 AATA-TAAAGCAAAGCAAAGTAATATAAAGA-
1 AA-AGCAAAGTAAAGCAAAGCAA-A-AAATAT
* * *
51773 AAAGAAAAGTAAAGCAATGCAAAGTAATAT
1 AAAGCAAAGTAAAGCAAAGCAAA-AAATAT
*
51803 AAAGCAATGTAAAGCAAAGCAAAACAATAT
1 AAAGCAAAGTAAAGCAAAGCAAAA-AATAT
* * * *
51833 AAGGCAAAGCAAAGCAATGCAAAGAAACAT
1 AAAGCAAAGTAAAGCAAAGCAAA-AAATAT
51863 AAAGCAATA-TAAAGCAAAGCAAA
1 AAAGCAA-AGTAAAGCAAAGCAAA
51886 GCTTATTTGA
Statistics
Matches: 136, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
29 5 0.04
30 124 0.91
31 7 0.05
ACGTcount: A:0.62, C:0.11, G:0.15, T:0.13
Consensus pattern (29 bp):
AAAGCAAAGTAAAGCAAAGCAAAAAATAT
Found at i:51871 original size:40 final size:40
Alignment explanation
Indices: 51803--51887 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
51793 AAAGTAATAT
* *
51803 AAAGCAATGTAAAGCAAAGCAAAACAATATAAGGCAAAGC
1 AAAGCAATGCAAAGCAAAGCAAAACAATATAAAGCAAAGC
51843 AAAGCAATGCAAAG-AAA-CATAAAGCAATATAAAGCAAAGC
1 AAAGCAATGCAAAGCAAAGCA-AAA-CAATATAAAGCAAAGC
51883 AAAGC
1 AAAGC
51888 TTATTTGATA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
38 2 0.05
39 6 0.15
40 33 0.80
ACGTcount: A:0.59, C:0.15, G:0.16, T:0.09
Consensus pattern (40 bp):
AAAGCAATGCAAAGCAAAGCAAAACAATATAAAGCAAAGC
Found at i:51886 original size:20 final size:20
Alignment explanation
Indices: 51728--51887 Score: 94
Period size: 20 Copynumber: 7.8 Consensus size: 20
51718 AAAGTAAAGC
*
51728 AAAGCAAAGCAATA-TAATAT
1 AAAGCAAAGCAA-AGCAATAT
*
51748 AAAGCAAAGCAAAGTAATAT
1 AAAGCAAAGCAAAGCAATAT
* * * *
51768 AAAGAAAAGAAAAGTAA-AGC
1 AAAGCAAAGCAAAGCAATA-T
* * *
51788 AATGCAAAGTAATATAAAGCAATGT
1 AAAGCAAAG-----CAAAGCAATAT
*
51813 AAAGCAAAGCAAAACAATAT
1 AAAGCAAAGCAAAGCAATAT
* **
51833 AAGGCAAAGCAAAGCAATGC
1 AAAGCAAAGCAAAGCAATAT
51853 AAAG-AAA-CATAAAGCAATAT
1 AAAGCAAAGC--AAAGCAATAT
51873 AAAGCAAAGCAAAGC
1 AAAGCAAAGCAAAGC
51888 TTATTTGATA
Statistics
Matches: 108, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
18 1 0.01
19 5 0.05
20 84 0.78
21 3 0.03
22 1 0.01
25 14 0.13
ACGTcount: A:0.60, C:0.12, G:0.16, T:0.12
Consensus pattern (20 bp):
AAAGCAAAGCAAAGCAATAT
Found at i:52475 original size:107 final size:106
Alignment explanation
Indices: 52286--52604 Score: 482
Period size: 107 Copynumber: 3.0 Consensus size: 106
52276 TGAAAATATG
* * * * *
52286 CCTTA-TTTTTAGAAAATCCTAATCAAACAGAAAAATATTAGAAATCCTTCTAGTAGACCAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAAAAAAATATTAGAAATCCTTCTAATAGACAAAAAA
*
52350 TATTAAGCTA-TAACGCATCATCCTGATGAACCATTTTCTTTT
66 TATGAAGCTATTAA-GCATCATCCTGATGAACC-TTTTCTTTT
* *
52392 CCTTATTTTTTAGAAAATCCTAATTAATCAAAAAAATATTAGAAATCCTTCTAACAAACAAAAAA
1 CCTTATTTTTTAGAAAATCCTAATTAATCAAAAAAATATTAGAAATCCTTCTAATAGACAAAAAA
*
52457 TATGAAGCTATTAAGCATCATCCTGATGAACCCTTTCTTTT
66 TATGAAGCTATTAAGCATCATCCTGATGAACCTTTTCTTTT
*
52498 CCTTATTTTTTTAGAAAATCCTAATTAATC-AAAAAATATTAGAAATCCTTCTCATAGACAAAAA
1 CCTTA-TTTTTTAGAAAATCCTAATTAATCAAAAAAATATTAGAAATCCTTCTAATAGACAAAAA
* *
52562 ATATGAATCTTTTAAGCATCATCCTGATGAACCTTTTCTTTT
65 ATATGAAGCTATTAAGCATCATCCTGATGAACCTTTTCTTTT
52604 C
1 C
52605 TTTACTAAAC
Statistics
Matches: 195, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
106 89 0.46
107 103 0.53
108 3 0.02
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.35
Consensus pattern (106 bp):
CCTTATTTTTTAGAAAATCCTAATTAATCAAAAAAATATTAGAAATCCTTCTAATAGACAAAAAA
TATGAAGCTATTAAGCATCATCCTGATGAACCTTTTCTTTT
Found at i:53204 original size:15 final size:15
Alignment explanation
Indices: 53147--53204 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
53137 GAAGCGAAAC
*
53147 AATATAAAGCAATAT
1 AATATAAAGCAAAAT
* *
53162 AA-AGTAAAGTAATAT
1 AATA-TAAAGCAAAAT
* *
53177 AAAAAAAAGCAAAAT
1 AATATAAAGCAAAAT
53192 AATATAAAGCAAA
1 AATATAAAGCAAA
53205 GCAAAGGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
14 1 0.03
15 33 0.94
16 1 0.03
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (15 bp):
AATATAAAGCAAAAT
Found at i:53220 original size:15 final size:15
Alignment explanation
Indices: 53202--53254 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
53192 AATATAAAGC
53202 AAAGCAAAGGAATAT
1 AAAGCAAAGGAATAT
*
53217 AAAGCAAAGGAA-AGC
1 AAAGCAAAGGAATA-T
* *
53232 AAAGCAAAGCAGTAT
1 AAAGCAAAGGAATAT
53247 AAAGCAAA
1 AAAGCAAA
53255 ACGAAGCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 1 0.03
15 30 0.94
16 1 0.03
ACGTcount: A:0.60, C:0.11, G:0.21, T:0.08
Consensus pattern (15 bp):
AAAGCAAAGGAATAT
Found at i:53220 original size:20 final size:20
Alignment explanation
Indices: 53162--53230 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
53152 AAAGCAATAT
* **
53162 AAAGTAAAGTAATATAAAAA
1 AAAGCAAAGTAATATAAAGC
*
53182 AAAGCAAAATAATATAAAGC
1 AAAGCAAAGTAATATAAAGC
*
53202 AAAGCAAAGGAATATAAAGC
1 AAAGCAAAGTAATATAAAGC
*
53222 AAAGGAAAG
1 AAAGCAAAG
53231 CAAAGCAAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.13
Consensus pattern (20 bp):
AAAGCAAAGTAATATAAAGC
Found at i:53233 original size:30 final size:30
Alignment explanation
Indices: 53197--53254 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
53187 AAAATAATAT
*
53197 AAAGCAAAGCAAAGGAATATAAAGCAAAGG
1 AAAGCAAAGCAAAGCAATATAAAGCAAAGG
*
53227 AAAGCAAAGCAAAGCAGTATAAAGCAAA
1 AAAGCAAAGCAAAGCAATATAAAGCAAA
53255 ACGAAGCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.60, C:0.12, G:0.21, T:0.07
Consensus pattern (30 bp):
AAAGCAAAGCAAAGCAATATAAAGCAAAGG
Found at i:53262 original size:30 final size:30
Alignment explanation
Indices: 53197--53264 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
53187 AAAATAATAT
* *
53197 AAAGCAAAGCAAAGGAATATAAAGCAAAGG
1 AAAGCAAAGCAAAGCAATATAAAGCAAACG
*
53227 AAAGCAAAGCAAAGCAGTATAAAGCAAAACG
1 AAAGCAAAGCAAAGCAATATAAAGC-AAACG
53258 -AAGCAAA
1 AAAGCAAA
53265 ATAATATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 30 0.88
31 4 0.12
ACGTcount: A:0.60, C:0.13, G:0.21, T:0.06
Consensus pattern (30 bp):
AAAGCAAAGCAAAGCAATATAAAGCAAACG
Found at i:53285 original size:20 final size:20
Alignment explanation
Indices: 53262--53300 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
53252 AAAACGAAGC
*
53262 AAAATAATATAAAACAAAAA
1 AAAAAAATATAAAACAAAAA
*
53282 AAAAAAATATAAAGCAAAA
1 AAAAAAATATAAAACAAAA
53301 CAAAGCAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (20 bp):
AAAAAAATATAAAACAAAAA
Found at i:53291 original size:75 final size:75
Alignment explanation
Indices: 53183--53329 Score: 204
Period size: 75 Copynumber: 2.0 Consensus size: 75
53173 ATATAAAAAA
* ** ** ** * *
53183 AAGCAAAATAATATAAAGCAAAGCAAAGGAATATAAAGCAAAGGAAAGCAAAGCAAAGCAGTATA
1 AAGCAAAATAATATAAAACAAAAAAAAAAAATATAAAGCAAAACAAAGCAAAGCAAAACAATATA
53248 AAGCAAAACG
66 AAGCAAAACG
*
53258 AAGCAAAATAATATAAAACAAAAAAAAAAAATATAAAGCAAAACAAAGCAAAGCAAAATAATATA
1 AAGCAAAATAATATAAAACAAAAAAAAAAAATATAAAGCAAAACAAAGCAAAGCAAAACAATATA
53323 AAGCAAA
66 AAGCAAA
53330 GTAATATAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.66, C:0.11, G:0.13, T:0.10
Consensus pattern (75 bp):
AAGCAAAATAATATAAAACAAAAAAAAAAAATATAAAGCAAAACAAAGCAAAGCAAAACAATATA
AAGCAAAACG
Found at i:53325 original size:15 final size:15
Alignment explanation
Indices: 53282--53342 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
53272 AAAACAAAAA
*
53282 AAAAAAATATAAAGC
1 AAAATAATATAAAGC
* *
53297 AAAACAA-AGCAAAGC
1 AAAATAATA-TAAAGC
53312 AAAATAATATAAAGC
1 AAAATAATATAAAGC
*
53327 AAAGTAATATAAAGC
1 AAAATAATATAAAGC
53342 A
1 A
53343 GAGCAAAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAATAATATAAAGC
Found at i:53336 original size:45 final size:45
Alignment explanation
Indices: 53231--53342 Score: 116
Period size: 45 Copynumber: 2.5 Consensus size: 45
53221 CAAAGGAAAG
* * * * *
53231 CAAAGCAAAGCAGTATAAAGCAAAACGAAGCAAAATAATATAAAA
1 CAAAGCAAAGAAATATAAAGCAAAACAAAGCAAAACAAAATAAAA
** * * *
53276 CAAAAAAAAAAAATATAAAGCAAAACAAAGCAAAGCAAAATAATA
1 CAAAGCAAAGAAATATAAAGCAAAACAAAGCAAAACAAAATAAAA
* *
53321 TAAAGCAAAGTAATATAAAGCA
1 CAAAGCAAAGAAATATAAAGCA
53343 GAGCAAAACA
Statistics
Matches: 52, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.66, C:0.12, G:0.11, T:0.12
Consensus pattern (45 bp):
CAAAGCAAAGAAATATAAAGCAAAACAAAGCAAAACAAAATAAAA
Found at i:54856 original size:17 final size:17
Alignment explanation
Indices: 54827--55018 Score: 251
Period size: 17 Copynumber: 11.2 Consensus size: 17
54817 GAACTCATTT
54827 TTTAAATTTTATTTTAAGA
1 TTTAAA-TTTATTTTAA-A
54846 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
54862 TTTAAATTTATATTAAA
1 TTTAAATTTATTTTAAA
*
54879 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
54896 TTTAAATTTATATTAAA
1 TTTAAATTTATTTTAAA
54913 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
54930 TTTAAATTTATATTAAA
1 TTTAAATTTATTTTAAA
*
54947 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
* * *
54964 TTTAAATTTAATATAAG
1 TTTAAATTTATTTTAAA
*
54981 TTAAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
54999 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
55016 TTT
1 TTT
55019 GAATGATGAA
Statistics
Matches: 153, Mismatches: 18, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
16 1 0.01
17 135 0.88
18 17 0.11
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:55719 original size:3 final size:3
Alignment explanation
Indices: 55711--55768 Score: 98
Period size: 3 Copynumber: 18.7 Consensus size: 3
55701 TAAATAACAT
55711 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
55757 TAA TAAA TAA TA
1 TAA T-AA TAA TA
55769 CGAAAAGGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:56033 original size:25 final size:25
Alignment explanation
Indices: 55999--56077 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
55989 ATCAAAACTT
55999 TTTTTAAAGAATGAAAAGAGAAAAG
1 TTTTTAAAGAATGAAAAGAGAAAAG
** **
56024 TTTTTAAAGAA-GAAATCA-ATACCG
1 TTTTTAAAGAATGAAAAGAGA-AAAG
56048 -TTTTAAAGAAATGAAAAGAGAAAAG
1 TTTTTAAAG-AATGAAAAGAGAAAAG
56073 TTTTT
1 TTTTT
56078 TTTAAAGGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
23 9 0.22
24 9 0.22
25 18 0.44
26 5 0.12
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (25 bp):
TTTTTAAAGAATGAAAAGAGAAAAG
Found at i:56040 original size:49 final size:49
Alignment explanation
Indices: 55976--56077 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
55966 GAGAAGGGAG
**
55976 TTTTAAAGGAAAAATCAAAACTTTTTTTAAAG-AATGAAAAGAGAAAAGT
1 TTTTAAAGGAAAAATCAAAAC-CGTTTTAAAGAAATGAAAAGAGAAAAGT
*
56025 TTTTAAA-GAAGAAATCAATACCGTTTTAAAGAAATGAAAAGAGAAAAGT
1 TTTTAAAGGAA-AAATCAAAACCGTTTTAAAGAAATGAAAAGAGAAAAGT
56074 TTTT
1 TTTT
56078 TTTAAAGGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
48 11 0.23
49 37 0.77
ACGTcount: A:0.51, C:0.05, G:0.15, T:0.29
Consensus pattern (49 bp):
TTTTAAAGGAAAAATCAAAACCGTTTTAAAGAAATGAAAAGAGAAAAGT
Found at i:56872 original size:30 final size:30
Alignment explanation
Indices: 56838--57187 Score: 218
Period size: 30 Copynumber: 11.7 Consensus size: 30
56828 TTGACTCTTA
56838 AACTTCTCAAAAATTACATTTTTGCCCTCG
1 AACTTCTCAAAAATTACATTTTTGCCCTCG
* * *
56868 AACTTC-CAAAATTTACATTTTTTGACCTTG
1 AACTTCTCAAAAATTACA-TTTTTGCCCTCG
* * ** *
56898 AACTTTTCAAAAAATACATTTTAACCC-CA
1 AACTTCTCAAAAATTACATTTTTGCCCTCG
* * ** *
56927 AACTTTTCAAAAACTACATTTTTAACCTCA
1 AACTTCTCAAAAATTACATTTTTGCCCTCG
* * * *
56957 AAATT-TCCAAAAATCACATTTTTACCCACG
1 AACTTCT-CAAAAATTACATTTTTGCCCTCG
* * *
56987 GACTTC-CAAAAATTACAATTTTGACCTCG
1 AACTTCTCAAAAATTACATTTTTGCCCTCG
* * * *
57016 AA-TTTTCCAAAAATCACATTTTTACCCACG
1 AACTTCT-CAAAAATTACATTTTTGCCCTCG
**
57046 AACTTC-CAAAAAATTACATTTTTGAACTCG
1 AACTTCTC-AAAAATTACATTTTTGCCCTCG
* *
57076 AACCTTC-CAAAAATCATATTTTTGCCCTCG
1 AA-CTTCTCAAAAATTACATTTTTGCCCTCG
* * * *
57106 AACTT-TCCAAAATTACCA-TTTTACCCCCT
1 AACTTCTCAAAAATTA-CATTTTTGCCCTCG
* * *
57135 AAATATC-CAAAAATTCCATTTTTGACCTCG
1 AACT-TCTCAAAAATTACATTTTTGCCCTCG
*
57165 TACTT-TCCAAAAATTACCATTTT
1 AACTTCT-CAAAAATTA-CATTTT
57188 ACCTCATATG
Statistics
Matches: 242, Mismatches: 60, Indels: 35
0.72 0.18 0.10
Matches are distributed among these distances:
28 2 0.01
29 79 0.33
30 139 0.57
31 22 0.09
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (30 bp):
AACTTCTCAAAAATTACATTTTTGCCCTCG
Found at i:56976 original size:59 final size:59
Alignment explanation
Indices: 56845--57339 Score: 306
Period size: 59 Copynumber: 8.3 Consensus size: 59
56835 TTAAACTTCT
* * * * * * *
56845 CAAAAATTACATTTTTGCCCTCGAACTTCCAAAATTTACATTTTTTGACCTTGAACTTTTC
1 CAAAAATCACATTTTTACCCACGAACTTCCAAAAATTACA-TTTTTAACCTCGAA-ATTTC
* * * * * *
56906 AAAAAAT-ACATTTTAACCC-CAAACTTTTCAAAAACTACATTTTTAACCTCAAAATTTC
1 CAAAAATCACATTTTTACCCACGAAC-TTCCAAAAATTACATTTTTAACCTCGAAATTTC
* * * *
56964 CAAAAATCACATTTTTACCCACGGACTTCCAAAAATTACAATTTTGACCTCGAATTTTC
1 CAAAAATCACATTTTTACCCACGAACTTCCAAAAATTACATTTTTAACCTCGAAATTTC
**
57023 CAAAAATCACATTTTTACCCACGAACTTCCAAAAAATTACATTTTTGAA-CTCGAACCTTC
1 CAAAAATCACATTTTTACCCACGAACTTCC-AAAAATTACATTTTT-AACCTCGAAATTTC
* * * * * * *
57083 CAAAAATCATATTTTTGCCCTCGAACTTTCC-AAAATTACCA-TTTTACCCCCTAAATATC
1 CAAAAATCACATTTTTACCCACGAAC-TTCCAAAAATTA-CATTTTTAACCTCGAAATTTC
* * * *
57142 CAAAAATTC-CATTTTTGA-CCTCGTACTTTCCAAAAATTACCA-TTTT-ACCTC-ATATGTC
1 CAAAAA-TCACATTTTT-ACCCACGAAC-TTCCAAAAATTA-CATTTTTAACCTCGAAATTTC
* ** * * * **
57200 CAAAAAT-ACCATTTTTTACCC-TGAACTTTTTAAAGATCACCA-TTTTATCCTCG-AATGAC
1 CAAAAATCA-CA-TTTTTACCCACGAAC-TTCCAAAAATTA-CATTTTTAACCTCGAAATTTC
* * *
57259 GAAAACAAATC-CATTTTTAACCC-CGAACTTCCAAAAATTACATTTTTAACC-CCAAACTTC
1 --CAA-AAATCACATTTTT-ACCCACGAACTTCCAAAAATTACATTTTTAACCTCGAAATTTC
57319 ACAAAAAAT-ACATTTTTACCC
1 -C-AAAAATCACATTTTTACCC
57340 TCGGGCATCC
Statistics
Matches: 345, Mismatches: 63, Indels: 55
0.75 0.14 0.12
Matches are distributed among these distances:
57 1 0.00
58 48 0.14
59 156 0.45
60 113 0.33
61 23 0.07
62 4 0.01
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.34
Consensus pattern (59 bp):
CAAAAATCACATTTTTACCCACGAACTTCCAAAAATTACATTTTTAACCTCGAAATTTC
Found at i:57216 original size:29 final size:30
Alignment explanation
Indices: 57140--57219 Score: 94
Period size: 29 Copynumber: 2.7 Consensus size: 30
57130 CCCCTAAATA
* * * *
57140 TCCAAAAATTCCATTTTTGACCTCGTACTT
1 TCCAAAAATACCATTTTTTACCTCATACTG
57170 TCCAAAAATTACCA--TTTTACCTCATA-TG
1 TCCAAAAA-TACCATTTTTTACCTCATACTG
57198 TCCAAAAATACCATTTTTTACC
1 TCCAAAAATACCATTTTTTACC
57220 CTGAACTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 5 0.12
28 9 0.21
29 17 0.40
30 8 0.19
31 4 0.09
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.38
Consensus pattern (30 bp):
TCCAAAAATACCATTTTTTACCTCATACTG
Found at i:57339 original size:29 final size:29
Alignment explanation
Indices: 56837--57336 Score: 125
Period size: 30 Copynumber: 16.8 Consensus size: 29
56827 TTTGACTCTT
* *
56837 AAACTTCTCAAAAATTACATTTTT-GCCCTC
1 AAACTTC-CAAAAAATACATTTTTAACCC-C
* ** * **
56867 GAACTTCCAAAATTTACATTTTTTGACCTT
1 AAACTTCCAAAAAATACA-TTTTTAACCCC
* *
56897 GAACTTTTCAAAAAATACA-TTTTAACCCC
1 AAAC-TTCCAAAAAATACATTTTTAACCCC
* * *
56926 AAACTTTTCAAAAACTACATTTTTAACCTCA
1 AAAC-TTCCAAAAAATACATTTTTAACC-CC
*
56957 AAATTTCC-AAAAATCACATTTTT-ACCCAC
1 AAACTTCCAAAAAAT-ACATTTTTAACCC-C
** * * * *
56986 GGACTTCCAAAAATTACAATTTTGACCTCG
1 AAACTTCCAAAAAATACATTTTTAACC-CC
**
57016 AATTTTCC-AAAAATCACATTTTT-ACCCAC
1 AAACTTCCAAAAAAT-ACATTTTTAACCC-C
* * *
57045 GAACTTCCAAAAAATTACATTTTTGAACTCG
1 AAACTTCCAAAAAA-TACATTTTT-AACCCC
* **
57076 AACCTTCC-AAAAAT-CATATTTTTGCCCTC
1 AAACTTCCAAAAAATACAT-TTTTAACCC-C
* * *
57105 GAACTTTCC-AAAATTACCA-TTTTACCCCC
1 AAAC-TTCCAAAAAATA-CATTTTTAACCCC
* * * *
57134 TAAA-TATCCAAAAATTCCATTTTTGACCTC
1 -AAACT-TCCAAAAAATACATTTTTAACCCC
** * *
57164 GTACTTTCCAAAAATTACCA-TTTT-ACCTC
1 AAAC-TTCCAAAAAATA-CATTTTTAACCCC
* * *
57193 ATA-TGTCC-AAAAATACCATTTTTTACCCT
1 AAACT-TCCAAAAAATA-CATTTTTAACCCC
* *** * * *
57222 GAACTTTTTAAAGATCACCA-TTTTATCCTC
1 AAACTTCCAAAAAAT-A-CATTTTTAACCCC
* * * *
57252 GAA-TGACGAAAACAAATCCATTTTTAACCCC
1 AAACT-TC-CAAA-AAATACATTTTTAACCCC
* *
57283 GAACTTCCAAAAATTACATTTTTAACCCC
1 AAACTTCCAAAAAATACATTTTTAACCCC
57312 AAACTTCACAAAAAATACATTTTTA
1 AAACTTC-CAAAAAATACATTTTTA
57337 CCCTCGGGCA
Statistics
Matches: 348, Mismatches: 82, Indels: 80
0.68 0.16 0.16
Matches are distributed among these distances:
27 10 0.03
28 15 0.04
29 116 0.33
30 152 0.44
31 46 0.13
32 9 0.03
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAAATACATTTTTAACCCC
Found at i:69937 original size:209 final size:209
Alignment explanation
Indices: 69371--70471 Score: 1679
Period size: 209 Copynumber: 5.3 Consensus size: 209
69361 CAATTACCCA
*
69371 AAACAA-TGA-GCTGGTCATCTTCTTGATGAGATACTAAGAAGAAGACCAAATCAATGAAGCCAA
1 AAACAAGTGATGC-GGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAA
* * *
69434 GCTCAAAGTGAGCAAATCTTCAAACCCAAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCA
65 GCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
69499 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
130 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
*
69564 CAGAGACGCGGATTG
195 CAGAGAAGCGGATTG
* * * *
69579 AAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAAAAGAGAGACCAAATCAATGAAGTCAA
1 AAACAAGTGATGCGGTCATCTTCTTGATGAGATACTGAGAAGA-AGACCAAATCAATGAAGCCAA
* * **
69644 GCTCAAAATGAGCAAATCTTTGAACCCTAGCTTCCTGATGAGATACTGAGAAGCACATCGAAGCA
65 GCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* * *
69709 ATAAAATGGTTAACTTCCTGATGAGATACTGAGAAGTGGACCAAATTTGTCTTCTTGATGAGATA
130 ATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATA
*
69774 CAGAGAAGTGGATTG
195 CAGAGAAGCGGATTG
*
69789 AAACAAGTGATGCGGTCATCTTCTTGATTAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAG
1 AAACAAGTGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAG
* * *
69854 CTCAAAGTGAGTAAATCTTTGAACCCTAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGCAA
66 CTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
* * * *
69919 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCGTCTTGAAGAGATAC
131 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
*
69984 ATAGAAGCGGATTG
196 AGAGAAGCGGATTG
*
69998 AAACAAGTGATGCGGTCATCTT-TCTAATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAA
1 AAACAAGTGATGCGGTCATCTTCT-TGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAA
*
70062 GTTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAG-A
65 GCTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCA
* *
70126 ATTAAAATGGTTAGCTTCCTGATGAAATACTGAGAAGTGGACCAAAATCGTCTTCCTGATGAGAT
130 A-TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
* *
70191 ATAGAGAAGCGGATTA
194 ACAGAGAAGCGGATTG
* * * *
70207 AAACAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAGTCAGG
1 AAACAAGTGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAG
* * *
70272 CTCAAAGTGAGCAAATCTTCAAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAG
66 CTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
** * * * * *
70337 TAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGTCTTCCTGATGCGACAC
131 TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
* **
70402 AGAGAAGTGGATCA
196 AGAGAAGCGGATTG
* *
70416 AAACAAGTGATGCGGTCATCTTTTTGATGAGATACTGAGAAGTAGACCAAATCAAT
1 AAACAAGTGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAT
70472 AACACCAAAC
Statistics
Matches: 814, Mismatches: 72, Indels: 13
0.91 0.08 0.01
Matches are distributed among these distances:
208 9 0.01
209 610 0.75
210 195 0.24
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (209 bp):
AAACAAGTGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAATGAAGCCAAG
CTCAAAGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA
TAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATAC
AGAGAAGCGGATTG
Found at i:70809 original size:6 final size:6
Alignment explanation
Indices: 70800--70898 Score: 66
Period size: 6 Copynumber: 17.2 Consensus size: 6
70790 TTAAGTTTAC
** *
70800 TTTAAA TTTAAA TTT--A TGTTAAA TTTAAA TTT-GT TTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * ** *
70846 TTT-AA TATAAG TTTAAA TTTATT TTTAAA TTTAAA ATT--A TTCTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
70892 TTTAAA T
1 TTTAAA T
70899 GATGAAAGCC
Statistics
Matches: 70, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
4 4 0.06
5 10 0.14
6 51 0.73
7 5 0.07
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:70810 original size:17 final size:17
Alignment explanation
Indices: 70771--70898 Score: 132
Period size: 17 Copynumber: 7.4 Consensus size: 17
70761 AAACCCATTT
70771 TTTAAATTTTATTTTAAGA
1 TTTAAA-TTTATTTTAA-A
* *
70790 -TTAAGTTTACTTTAAA
1 TTTAAATTTATTTTAAA
*
70806 TTTAAATTTATGTTAAA
1 TTTAAATTTATTTTAAA
* *
70823 TTTAAATTTGTTTTAAG
1 TTTAAATTTATTTTAAA
* * *
70840 TTTAAATTTAATATAAG
1 TTTAAATTTATTTTAAA
70857 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* *
70875 TTTAAAATTATTCTAAA
1 TTTAAATTTATTTTAAA
70892 TTTAAAT
1 TTTAAAT
70899 GATGAAAGCC
Statistics
Matches: 90, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
16 1 0.01
17 72 0.80
18 17 0.19
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:70866 original size:29 final size:29
Alignment explanation
Indices: 70834--70896 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
70824 TTAAATTTGT
*
70834 TTTAAGTTTAAATTTAATATAAGTT-TAAA
1 TTTAAGTTTAAATTTAAAATAA-TTCTAAA
** *
70863 TTTATTTTTAAATTTAAAATTATTCTAAA
1 TTTAAGTTTAAATTTAAAATAATTCTAAA
70892 TTTAA
1 TTTAA
70897 ATGATGAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (29 bp):
TTTAAGTTTAAATTTAAAATAATTCTAAA
Found at i:71887 original size:48 final size:49
Alignment explanation
Indices: 71820--71982 Score: 154
Period size: 52 Copynumber: 3.2 Consensus size: 49
71810 GGAACAGATC
*
71820 TGAAAAGAGAAGGGAGTTTTAAAAGAAAAATCAAAACTTTTTTTAAAGAA
1 TGAAAAGAGAA-GAAGTTTTAAAAGAAAAATCAAAACTTTTTTTAAAGAA
* **
71870 TGAAAAGAGAA-AAGTTTTTAAAGAAGAAATCAAAAC-CGTTTTAAAGAAA
1 TGAAAAGAGAAGAAGTTTTAAAAGAA-AAATCAAAACTTTTTTTAAAG-AA
***
71919 TGAAAAGAGAAGTTTTTTTAAAGGAGAAAATATCAAAA-TTGGTTTTT-AAGAA
1 TGAAAAGAGAAGAAGTTTTAAA--AGAAAA-ATCAAAACTT--TTTTTAAAGAA
*
71971 AGAAAAGAGAAG
1 TGAAAAGAGAAG
71983 GCAAGGAAGA
Statistics
Matches: 93, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
48 20 0.22
49 23 0.25
50 17 0.18
51 2 0.02
52 24 0.26
53 3 0.03
54 4 0.04
ACGTcount: A:0.52, C:0.04, G:0.19, T:0.25
Consensus pattern (49 bp):
TGAAAAGAGAAGAAGTTTTAAAAGAAAAATCAAAACTTTTTTTAAAGAA
Found at i:71890 original size:49 final size:49
Alignment explanation
Indices: 71836--71981 Score: 147
Period size: 49 Copynumber: 2.9 Consensus size: 49
71826 GAGAAGGGAG
71836 TTTTAAAAGAAAAATCAAAACTTTTTTTAAAGAATGAAAAGAGAAAAGT
1 TTTTAAAAGAAAAATCAAAACTTTTTTTAAAGAATGAAAAGAGAAAAGT
** ***
71885 TTTT-AAAGAAGAAATCAAAAC-CGTTTTAAAGAAATGAAAAGAGAAGTTT
1 TTTTAAAAGAA-AAATCAAAACTTTTTTTAAAG-AATGAAAAGAGAAAAGT
*
71934 TTTTAAAGGAGAAAATATCAAAA-TTGGTTTTT-AAGAAAGAAAAGAGAA
1 TTTTAAA--AGAAAA-ATCAAAACTT--TTTTTAAAGAATGAAAAGAGAA
71982 GGCAAGGAAG
Statistics
Matches: 80, Mismatches: 8, Indels: 15
0.78 0.08 0.15
Matches are distributed among these distances:
48 14 0.17
49 32 0.40
50 2 0.03
51 2 0.03
52 23 0.29
53 3 0.04
54 4 0.05
ACGTcount: A:0.53, C:0.04, G:0.16, T:0.27
Consensus pattern (49 bp):
TTTTAAAAGAAAAATCAAAACTTTTTTTAAAGAATGAAAAGAGAAAAGT
Found at i:71893 original size:25 final size:26
Alignment explanation
Indices: 71859--71929 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
71849 ATCAAAACTT
71859 TTTTTAAAGAATGAAAAGAGAAA-AG
1 TTTTTAAAGAATGAAAAGAGAAACAG
** *
71884 TTTTTAAAGAA-GAAATCA-AAACCG
1 TTTTTAAAGAATGAAAAGAGAAACAG
71908 -TTTTAAAGAAATGAAAAGAGAA
1 TTTTTAAAG-AATGAAAAGAGAA
71930 GTTTTTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 11 0.30
24 8 0.22
25 16 0.43
26 2 0.05
ACGTcount: A:0.55, C:0.04, G:0.17, T:0.24
Consensus pattern (26 bp):
TTTTTAAAGAATGAAAAGAGAAACAG
Found at i:71936 original size:25 final size:24
Alignment explanation
Indices: 71858--71941 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 24
71848 AATCAAAACT
71858 TTTTTTAAAGAATGAAAAGAGAAAAG
1 TTTTTTAAAGAATGAAAAGAG--AAG
** * *
71884 -TTTTTAAAGAA-GAAATCAAAAC
1 TTTTTTAAAGAATGAAAAGAGAAG
**
71906 CGTTTTAAAGAAATGAAAAGAGAAG
1 TTTTTTAAAG-AATGAAAAGAGAAG
71931 TTTTTTTAAAG
1 -TTTTTTAAAG
71942 GAGAAAATAT
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
22 2 0.05
23 8 0.19
24 7 0.16
25 18 0.42
26 8 0.19
ACGTcount: A:0.50, C:0.04, G:0.17, T:0.30
Consensus pattern (24 bp):
TTTTTTAAAGAATGAAAAGAGAAG
Found at i:72707 original size:30 final size:28
Alignment explanation
Indices: 72665--73060 Score: 132
Period size: 29 Copynumber: 13.5 Consensus size: 28
72655 GGAAGTCCTT
*
72665 GAACTATCTAAAAATCATATTTTGACCCC
1 GAACT-TCCAAAAATCATATTTTGACCCC
* *
72694 TGAACTTCATAAAAATTACAT-TTTTGTCCCC
1 -GAACTTC-CAAAAA-T-CATATTTTGACCCC
* * * *
72725 GAATTTCCAAAAATCACATTTTTACACAC
1 GAACTTCCAAAAATCATATTTTGAC-CCC
* *
72754 GAACTTCCAAAAATTATATTTTGAACCTC
1 GAACTTCCAAAAATCATATTTTG-ACCCC
* **
72783 GAACCTTCCAAAAATCACATTTTTTCCCCCC
1 GAA-CTTCCAAAAAT--CATATTTTGACCCC
* *
72814 GAACTTTCC-AAAATTACCATTTT-ACCCTC
1 GAAC-TTCCAAAAATCA-TATTTTGACCC-C
* * * *
72843 GAA-TGTCCAAAAATTCCTTTTTTGATCTC
1 GAACT-TCCAAAAA-TCATATTTTGACCCC
* *
72872 GAACTTTCCAAAAATTACCATTTT-ACCCC
1 GAAC-TTCCAAAAATCA-TATTTTGACCCC
* * * *
72901 GGA-TGTCAAAAAAT-ACCATTTTGACCTC
1 GAACT-TCCAAAAATCA-TATTTTGACCCC
72929 GAACTTCTCAAAAATC-TCCATTTT-ACCCTC
1 GAACTTC-CAAAAATCAT--ATTTTGACCC-C
* * *
72959 GAA-TGACCAAAAAATTCA-GTTTTGACCTC
1 GAACT-TCC-AAAAA-TCATATTTTGACCCC
* *
72988 GAACTTTCAAAATTTACAT-TTTTGACCCC
1 GAACTTCCAAAA-AT-CATATTTTGACCCC
* * *
73017 GAACTTCACAAAAATTACATTTTTACCCTC
1 GAACTTC-CAAAAATCATATTTTGACCC-C
* *
73047 GAGCATCCAAAAAT
1 GAACTTCCAAAAAT
73061 TACATTAAAT
Statistics
Matches: 273, Mismatches: 54, Indels: 79
0.67 0.13 0.19
Matches are distributed among these distances:
27 12 0.04
28 35 0.13
29 113 0.41
30 81 0.30
31 23 0.08
32 9 0.03
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.33
Consensus pattern (28 bp):
GAACTTCCAAAAATCATATTTTGACCCC
Found at i:72852 original size:59 final size:59
Alignment explanation
Indices: 72674--73063 Score: 257
Period size: 59 Copynumber: 6.7 Consensus size: 59
72664 TGAACTATCT
* * * * *
72674 AAAAATCATA-TTTTGACCCCTGAAC-TTCATAAAAATTA-CATTTTTGTCCC-CGAATTTCC
1 AAAAATCACATTTTTGACCTC-GAACTTTC-CAAAAATTACCA-TTTT-ACCCTCGAATGTCC
* * *
72733 AAAAATCACATTTTT-ACACACGAAC-TTCCAAAAATTA-TATTTTGAACCTCGAACCT-TCC
1 AAAAATCACATTTTTGAC-CTCGAACTTTCCAAAAATTACCATTTT-ACCCTCGAA--TGTCC
** *
72792 AAAAATCACATTTTTTCCCCCCGAACTTTCC-AAAATTACCATTTTACCCTCGAATGTCC
1 AAAAATCACA-TTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCTCGAATGTCC
* * * *
72851 AAAAATTC-CTTTTTTGATCTCGAACTTTCCAAAAATTACCATTTTACCC-CGGATGTCA
1 AAAAA-TCACATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCTCGAATGTCC
*
72909 AAAAAT-ACCA-TTTTGACCTCGAAC-TTCTCAAAAATCT-CCATTTTACCCTCGAATGACC
1 AAAAATCA-CATTTTTGACCTCGAACTTTC-CAAAAAT-TACCATTTTACCCTCGAATGTCC
* * *
72967 AAAAAAT-TCAGTTTTGACCTCGAACTTT-CAAAATTTA-CATTTTTGACCC-CGAACT-TCAC
1 -AAAAATCACATTTTTGACCTCGAACTTTCCAAAAATTACCA-TTTT-ACCCTCGAA-TGTC-C
* * *
73026 AAAAATTACATTTTT-ACCCTCGAGC-ATCCAAAAATTAC
1 AAAAATCACATTTTTGA-CCTCGAACTTTCCAAAAATTAC
73064 ATTAAATCCC
Statistics
Matches: 272, Mismatches: 30, Indels: 57
0.76 0.08 0.16
Matches are distributed among these distances:
56 3 0.01
57 42 0.15
58 75 0.28
59 105 0.39
60 37 0.14
61 10 0.04
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.33
Consensus pattern (59 bp):
AAAAATCACATTTTTGACCTCGAACTTTCCAAAAATTACCATTTTACCCTCGAATGTCC
Found at i:72853 original size:89 final size:87
Alignment explanation
Indices: 72665--73066 Score: 224
Period size: 87 Copynumber: 4.6 Consensus size: 87
72655 GGAAGTCCTT
* * * *
72665 GAACTATCTAAAAATCATATTTTGACCCCTGAA-CTTCATAAAAATTACATTTTTGTCCCCGAAT
1 GAACT-TCCAAAAATTATATTTTGACCTC-GAACCTTC-CAAAAATTACATTTTTGTCCCCGAAT
72729 TTCCAAAAATCACATTTTTACACAC
63 TTCCAAAAATCACATTTTTACACAC
*
72754 GAACTTCCAAAAATTATATTTTGAACCTCGAACCTTCCAAAAATCACATTTTT-TCCCCCCGAAC
1 GAACTTCCAAAAATTATATTTTG-ACCTCGAACCTTCCAAAAATTACATTTTTGT--CCCCGAA-
* * *
72818 TTTCC-AAAATTACCA-TTTTACCCTC
62 TTTCCAAAAATCA-CATTTTTACACAC
* * * * * *
72843 GAA-TGTCCAAAAATTCCTTTTTTGATCTCGAACTTTCCAAAAATTACCA-TTTT-ACCCCGGAT
1 GAACT-TCCAAAAATT-ATATTTTGACCTCGAACCTTCCAAAAATTA-CATTTTTGTCCCCGAAT
* * * *
72905 GTCAAAAAAT-ACCATTTTGAC-CTC
63 TTCCAAAAATCA-CATTTTTACACAC
** * * * *
72929 GAACTTCTCAAAAATCTCCATTTT-ACCCTCGAA--TGACCAAAAAATT-CAGTTTTGACCTCGA
1 GAACTTC-CAAAAAT-TATATTTTGA-CCTCGAACCT-TCC-AAAAATTACATTTTTGTCCCCGA
* * *
72990 ACTTT-CAAAATTTACATTTTTGAC-CCC
61 A-TTTCCAAAAATCACATTTTT-ACACAC
* * * *
73017 GAACTTCACAAAAATTACATTTTTACCCTCG-AGCATCCAAAAATTACATT
1 GAACTTC-CAAAAATTATATTTTGA-CCTCGAACCTTCCAAAAATTACATT
73067 AAATCCCGTT
Statistics
Matches: 253, Mismatches: 34, Indels: 53
0.74 0.10 0.16
Matches are distributed among these distances:
85 3 0.01
86 22 0.09
87 75 0.30
88 68 0.27
89 70 0.28
90 15 0.06
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.33
Consensus pattern (87 bp):
GAACTTCCAAAAATTATATTTTGACCTCGAACCTTCCAAAAATTACATTTTTGTCCCCGAATTTC
CAAAAATCACATTTTTACACAC
Found at i:72879 original size:58 final size:57
Alignment explanation
Indices: 72813--73048 Score: 234
Period size: 58 Copynumber: 4.1 Consensus size: 57
72803 TTTTTCCCCC
* *
72813 CGAACTTTCCAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCCTTTTTTGATCT
1 CGAACTTTCCAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCC-ATTTTGACCT
* * *
72871 CGAACTTTCCAAAAATTACCATTTTACCC-CGGATGTCAAAAAATACCATTTTGACCT
1 CGAACTTTCC-AAAATTACCATTTTACCCTCGAATGTCCAAAAATTCCATTTTGACCT
* *
72928 CGAACTTCTCAAAAATCT-CCATTTTACCCTCGAATGACCAAAAAATT-CAGTTTTGACCT
1 CGAACTT-TCCAAAAT-TACCATTTTACCCTCGAATGTCC-AAAAATTCCA-TTTTGACCT
* *
72987 CGAACTTT-CAAAATTTA-CATTTTTGACCC-CGAACT-TCACAAAAATTACATTTTTACCCT
1 CGAACTTTCCAAAA-TTACCA-TTTT-ACCCTCGAA-TGTC-CAAAAATTCCATTTTGA-CCT
73046 CGA
1 CGA
73049 GCATCCAAAA
Statistics
Matches: 151, Mismatches: 13, Indels: 27
0.79 0.07 0.14
Matches are distributed among these distances:
57 38 0.25
58 59 0.39
59 54 0.36
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (57 bp):
CGAACTTTCCAAAATTACCATTTTACCCTCGAATGTCCAAAAATTCCATTTTGACCT
Found at i:74606 original size:28 final size:27
Alignment explanation
Indices: 74562--74625 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
74552 AAATGAATAG
**
74562 AAAATAAAATATGAAGA-TTAAAGTTAA
1 AAAATAAAATAACAAGACTT-AAGTTAA
*
74589 AAAATAATAATAACAAGACTTAATTTAA
1 AAAATAA-AATAACAAGACTTAAGTTAA
*
74617 AAAAAAAAA
1 AAAATAAAA
74626 AGAAATAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 9 0.29
28 20 0.65
29 2 0.06
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.23
Consensus pattern (27 bp):
AAAATAAAATAACAAGACTTAAGTTAA
Found at i:76258 original size:42 final size:42
Alignment explanation
Indices: 76127--76570 Score: 272
Period size: 42 Copynumber: 10.9 Consensus size: 42
76117 TCGTAACCTA
** *
76127 TCTTCAATCT-ACCCACTGAAT-GGGTAAAAGATCGGATGGTG
1 TCTTCAATCTGACCCA-TGGTTAGGGTAAAAGATTGGATGGTG
* * * * *
76168 TCTTTAATTTG-CCCTTTGATTAGAGTAAATA-ATTGGAT-G-G
1 TCTTCAATCTGACCC-ATGGTTAGGGTAAA-AGATTGGATGGTG
* ** *
76208 -CTTCAATCTGTCCCATGGTCGGGGTAAGAGATTGGATGGTG
1 TCTTCAATCTGACCCATGGTTAGGGTAAAAGATTGGATGGTG
* *
76249 TCTTCAATCT-ACCCTCTAGTTAGGGTAAAAGATTGGA---TG
1 TCTTCAATCTGACCC-ATGGTTAGGGTAAAAGATTGGATGGTG
* * * ** * *
76288 -CTTCAATCTGTCCTATGATCGGGGTAAGAGATTGGATGATG
1 TCTTCAATCTGACCCATGGTTAGGGTAAAAGATTGGATGGTG
*
76329 TCTTCAATCTG-CCTTC-TGGTTAAGGTAAAAGATTGGATGGTG
1 TCTTCAATCTGACC--CATGGTTAGGGTAAAAGATTGGATGGTG
* * *
76371 TCTTCAATTTG-CTCTC-TGGTTAGGGTAAAAGATTGAAT--AG
1 TCTTCAATCTGAC-C-CATGGTTAGGGTAAAAGATTGGATGGTG
* *
76411 -CTTTAATCT-ACTCCATGGTTAGGGGAAAAGATTGGATGGTG
1 TCTTCAATCTGAC-CCATGGTTAGGGTAAAAGATTGGATGGTG
* * *
76452 TCTTCAATCT-ACCCTCTAGTTAGGGTAAAAGATTGGATTGTG
1 TCTTCAATCTGACCC-ATGGTTAGGGTAAAAGATTGGATGGTG
* *
76494 TCTTCAATCT-ACCCTCTAGTTAGGGTAAAAGATTGGA---TG
1 TCTTCAATCTGACCC-ATGGTTAGGGTAAAAGATTGGATGGTG
* * * ** *
76533 ACTTCAATCTGCCCCATAGTCGGGGTAAGAGATTGGAT
1 TCTTCAATCTGACCCATGGTTAGGGTAAAAGATTGGAT
76571 TGTAGCTTTG
Statistics
Matches: 322, Mismatches: 55, Indels: 53
0.75 0.13 0.12
Matches are distributed among these distances:
38 27 0.08
39 86 0.27
40 9 0.03
41 27 0.08
42 171 0.53
43 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
TCTTCAATCTGACCCATGGTTAGGGTAAAAGATTGGATGGTG
Found at i:76277 original size:81 final size:81
Alignment explanation
Indices: 76148--76570 Score: 369
Period size: 81 Copynumber: 5.2 Consensus size: 81
76138 CCCACTGAAT
* * * * * *
76148 GGGTAAAAGATCGGATGGTGTCTTTAATTTGCCCT-TTGATTAGAGTAAATA-ATTGGATGGCTT
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTAG-TTAGGGTAAA-AGATTGGATGGCTT
76211 CAATCTGTCCCATGGTCG
64 CAATCTGTCCCATGGTCG
*
76229 GGGTAAGAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGAT-GCTTCA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
* *
76293 ATCTGTCCTATGATCG
66 ATCTGTCCCATGGTCG
* * * * * *
76309 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCTTCTGGTTAAGGTAAAAGATTGGATGGTGTCT
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGAT-G-G-CT
* * **
76374 TCAATTTGCTCTC-TGGTTA
63 TCAATCTG-TCCCATGGTCG
* * * * * *
76393 GGGTAAAAGATTGAAT--AG-CTTTAATCTACTCC-ATGGTTAGGGGAAAAGATTGGATGGTGTC
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTAC-CCTCTAGTTAGGGTAAAAGATTGGAT-G-G-C
* * * **
76454 TTCAATCT-ACCCTCTAGTTA
62 TTCAATCTGTCCC-ATGGTCG
* *
76474 GGGTAAAAGATTGGATTGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGACTTCA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
* *
76539 ATCTGCCCCATAGTCG
66 ATCTGTCCCATGGTCG
*
76555 GGGTAAGAGATTGGAT
1 GGGTAAAAGATTGGAT
76571 TGTAGCTTTG
Statistics
Matches: 282, Mismatches: 45, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
79 2 0.01
80 74 0.26
81 136 0.48
82 7 0.02
83 5 0.02
84 56 0.20
85 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (81 bp):
GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCA
ATCTGTCCCATGGTCG
Found at i:76313 original size:38 final size:38
Alignment explanation
Indices: 76199--76325 Score: 121
Period size: 38 Copynumber: 3.2 Consensus size: 38
76189 AGAGTAAATA
* *
76199 ATTGGATGGCTTCAATCTGTCCCATGGTCGGGGTAAGAG
1 ATTGGAT-GCTTCAATCTGTCCTATGATCGGGGTAAGAG
** * ** *
76238 ATTGGATGGTGTCTTCAATCTACCCTCT-AGTTAGGGTAAAAG
1 ATTGGA---TG-CTTCAATCTGTCCTATGA-TCGGGGTAAGAG
76280 ATTGGATGCTTCAATCTGTCCTATGATCGGGGTAAGAG
1 ATTGGATGCTTCAATCTGTCCTATGATCGGGGTAAGAG
76318 ATTGGATG
1 ATTGGATG
76326 ATGTCTTCAA
Statistics
Matches: 68, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
38 30 0.44
39 9 0.13
41 1 0.01
42 28 0.41
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (38 bp):
ATTGGATGCTTCAATCTGTCCTATGATCGGGGTAAGAG
Found at i:76566 original size:123 final size:123
Alignment explanation
Indices: 76229--76570 Score: 449
Period size: 123 Copynumber: 2.8 Consensus size: 123
76219 CCCATGGTCG
*
76229 GGGTAAGAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATG-CTTCA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGACTTCA
* * * * *
76293 ATCTGTCCTATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTGCCTTCTGGTTA
66 ATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCTCTAGTTA
* * * * * * *
76351 AGGTAAAAGATTGGATGGTGTCTTCAATTTGCTCTCTGGTTAGGGTAAAAGATTGAAT-AGCTTT
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGA-CTTC
* * * * * *
76415 AATCTACTCCATGGTTAGGGG-AAAAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTA
65 AATCTGCCCCAT-GATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCTCTAGTTA
*
76474 GGGTAAAAGATTGGATTGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGACTTCA
1 GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGACTTCA
76539 ATCTGCCCCAT-AGTCGGGGTAAGAGATTGGAT
66 ATCTGCCCCATGA-TCGGGGTAAGAGATTGGAT
76571 TGTAGCTTTG
Statistics
Matches: 182, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
122 56 0.31
123 119 0.65
124 7 0.04
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (123 bp):
GGGTAAAAGATTGGATGGTGTCTTCAATCTACCCTCTAGTTAGGGTAAAAGATTGGATGACTTCA
ATCTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTTCAATCTACCCTCTAGTTA
Found at i:77459 original size:119 final size:119
Alignment explanation
Indices: 77248--77486 Score: 460
Period size: 119 Copynumber: 2.0 Consensus size: 119
77238 CATGAACGAA
77248 ATTAAGTGTCCTAGATATCAATGTATGAGCTTCCCGAGCAGACTTGATGAGGATCACTTTGAGCA
1 ATTAAGTGTCCTAGATATCAATGTATGAGCTTCCCGAGCAGACTTGATGAGGATCACTTTGAGCA
*
77313 TGATATGTATTTAGAAAACCTAAGTGCTTCGTCGATGGCCCAAGATGTAAACTT
66 TGATATGTATTTAGAAAACCTAAGTGCTTCGTCGATGCCCCAAGATGTAAACTT
77367 ATTAAGTGTCCTAGATATCAATGTATGAGCTTCCCGAGCAGACTTGATGAGGATCACTTTGAGCA
1 ATTAAGTGTCCTAGATATCAATGTATGAGCTTCCCGAGCAGACTTGATGAGGATCACTTTGAGCA
*
77432 TGATATGTATTTAGGAAACCTAAGTGCTTCGTCGATGCCCCAAGATGTAAACTT
66 TGATATGTATTTAGAAAACCTAAGTGCTTCGTCGATGCCCCAAGATGTAAACTT
77486 A
1 A
77487 GTTACTTTTG
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 118 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (119 bp):
ATTAAGTGTCCTAGATATCAATGTATGAGCTTCCCGAGCAGACTTGATGAGGATCACTTTGAGCA
TGATATGTATTTAGAAAACCTAAGTGCTTCGTCGATGCCCCAAGATGTAAACTT
Found at i:88203 original size:22 final size:22
Alignment explanation
Indices: 88175--88228 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 22
88165 ATTTTAAATT
88175 TATTTTTAAATTTAAAATTTTC
1 TATTTTTAAATTTAAAATTTTC
88197 TA---TT---TTTAAAATTTTC
1 TATTTTTAAATTTAAAATTTTC
88213 TATTTTTAAATTTAAA
1 TATTTTTAAATTTAAA
88229 TTTGTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
16 14 0.54
19 4 0.15
22 8 0.31
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (22 bp):
TATTTTTAAATTTAAAATTTTC
Found at i:88225 original size:15 final size:16
Alignment explanation
Indices: 88185--88222 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
88175 TATTTTTAAA
88185 TTTAAAATTTTCTATT
1 TTTAAAATTTTCTATT
88201 TTTAAAATTTTCTATT
1 TTTAAAATTTTCTATT
88217 TTTAAA
1 TTTAAA
88223 TTTAAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTTCTATT
Found at i:88236 original size:17 final size:17
Alignment explanation
Indices: 88216--88248 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
88206 AATTTTCTAT
88216 TTTTAAATTTAAATTTG
1 TTTTAAATTTAAATTTG
88233 TTTTAAATTTAAATTT
1 TTTTAAATTTAAATTT
88249 AATTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTAAATTTAAATTTG
Found at i:88977 original size:3 final size:3
Alignment explanation
Indices: 88971--89035 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
88961 AATAATGTTT
* * * * *
88971 ATA ATAA ATA ACA GTA ATA ATA ATA TTA TTA ATA ATA ATA ATT ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
89017 ATA TTA ATG ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
89036 AAAAGAAAAC
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:90240 original size:29 final size:29
Alignment explanation
Indices: 90208--90554 Score: 175
Period size: 29 Copynumber: 11.9 Consensus size: 29
90198 ACCTTGATTT
90208 TTCCAAAAATTACCATTTTACCCTCGAAC
1 TTCCAAAAATTACCATTTTACCCTCGAAC
*
90237 TTCCAAAAATT-CCATTTTAACCC-C-AATTT
1 TTCCAAAAATTACCATTTT-ACCCTCGAA--C
*
90266 TTCTAAAAATTACCATTTTACCCTCGAAC
1 TTCCAAAAATTACCATTTTACCCTCGAAC
* * **
90295 TTCC-AAAATTTCCATTTTTTATCCT-GATTT
1 TTCCAAAAATTACCA--TTTTACCCTCGA-AC
*
90325 TTCCAAAAAAATTACCATTTTACCCTTGAAC
1 TTCC--AAAAATTACCATTTTACCCTCGAAC
* **
90356 TTCCTAAAATT-CCATTTTTAACCCT-GATTT
1 TTCCAAAAATTACCA-TTTT-ACCCTCGA-AC
*** * *
90386 TTTTTAAGATTACCATTTTAGCCTCGAAC
1 TTCCAAAAATTACCATTTTACCCTCGAAC
**
90415 TTCCAAAAATT-CCATTTTTGACCCT-GATTT
1 TTCCAAAAATTACCA-TTTT-ACCCTCGA-AC
* *
90445 TTTC-AAAATTACCATTTTACCCTCGGA-
1 TTCCAAAAATTACCATTTTACCCTCGAAC
* ****
90472 TGTCTAAAAATTTTGTTTTTGACCC-CGAAC
1 T-TCCAAAAATTACCATTTT-ACCCTCGAAC
* * *
90502 TTCCCAAAATTACCATTTT-GCCTCCG-AG
1 TTCCAAAAATTACCATTTTACCCT-CGAAC
*
90530 TGTTC-AAAATTACCATTTTACCCTC
1 T-TCCAAAAATTACCATTTTACCCTC
90555 AGGTAACCAA
Statistics
Matches: 239, Mismatches: 48, Indels: 63
0.68 0.14 0.18
Matches are distributed among these distances:
27 5 0.02
28 46 0.19
29 106 0.44
30 54 0.23
31 17 0.07
32 2 0.01
33 9 0.04
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (29 bp):
TTCCAAAAATTACCATTTTACCCTCGAAC
Found at i:90274 original size:58 final size:59
Alignment explanation
Indices: 90161--90469 Score: 372
Period size: 58 Copynumber: 5.2 Consensus size: 59
90151 CAAAAATCAT
* * * * * *
90161 ATTTTGACCCTTGAACTTTTCC-AAAATTCCACTCTTGACCTTGATTTTTCCAAAAATTACC
1 ATTTT-ACCCTCGAAC--TTCCAAAAATTCCATTTTTAACCCTGATTTTTCTAAAAATTACC
**
90222 ATTTTACCCTCGAACTTCCAAAAATTCCA-TTTTAACCCCAATTTTTCTAAAAATTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTGATTTTTCTAAAAATTACC
* * * *
90280 ATTTTACCCTCGAACTTCCAAAATTTCCATTTTTTATCCTGATTTTTCCAAAAAAATTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTGATTTTT-C-TAAAAATTACC
* * * * *
90341 ATTTTACCCTTGAACTTCCTAAAATTCCATTTTTAACCCTGATTTTTTTTAAGATTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTGATTTTTCTAAAAATTACC
* * *
90400 ATTTTAGCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTT-TCAAAATTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTGATTTTTCTAAAAATTACC
90458 ATTTTACCCTCG
1 ATTTTACCCTCG
90470 GATGTCTAAA
Statistics
Matches: 215, Mismatches: 29, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
58 75 0.35
59 73 0.34
60 10 0.05
61 57 0.27
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.40
Consensus pattern (59 bp):
ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTAACCCTGATTTTTCTAAAAATTACC
Found at i:90481 original size:58 final size:58
Alignment explanation
Indices: 90161--90520 Score: 357
Period size: 58 Copynumber: 6.1 Consensus size: 58
90151 CAAAAATCAT
* * * *
90161 ATTTTGACCCTTGAACTTTTCC-AAAATTCCACTCTTGACCTTGATTTTTCCAAAAATTACC
1 ATTTT-ACCCTCGAAC--TTCCAAAAATTCCATTTTTGACCCTGATTTTTCC-AAAATTACC
* ** *
90222 ATTTTACCCTCGAACTTCCAAAAATTCCA-TTTTAACCCCAATTTTTCTAAAAATTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTC-CAAAATTACC
* * *
90280 ATTTTACCCTCGAACTTCCAAAATTTCCATTTTTTATCCTGATTTTTCCAAAAAAATTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCC---AAAATTACC
* * * ** *
90341 ATTTTACCCTTGAACTTCCTAAAATTCCATTTTTAACCCTGATTTTTTTTAAGATTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGA-TTTTTCCAAAATTACC
* *
90400 ATTTTAGCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTTCAAAATTACC
1 ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCAAAATTACC
* * *** * ** *
90458 ATTTTACCCTCGGA-TGTCTAAAAATTTTGTTTTTGACCCCGAACTTCCCAAAATTACC
1 ATTTTACCCTCGAACT-TCCAAAAATTCCATTTTTGACCCTGATTTTTCCAAAATTACC
90516 ATTTT
1 ATTTT
90521 GCCTCCGAGT
Statistics
Matches: 253, Mismatches: 38, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
57 1 0.00
58 118 0.47
59 69 0.27
60 9 0.04
61 51 0.20
62 5 0.02
ACGTcount: A:0.29, C:0.25, G:0.06, T:0.40
Consensus pattern (58 bp):
ATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCTGATTTTTCCAAAATTACC
Found at i:94056 original size:15 final size:14
Alignment explanation
Indices: 94029--94086 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
94019 AATATCATAT
*
94029 AAATAAAGTAAAGC
1 AAATAAAGCAAAGC
94043 AAAGTAAAGCAAAGC
1 AAA-TAAAGCAAAGC
* *
94058 AAATTAAATCAAAAC
1 AAA-TAAAGCAAAGC
94073 AATATAAAGCAAAG
1 AA-ATAAAGCAAAG
94087 ATGATATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
14 3 0.08
15 32 0.89
16 1 0.03
ACGTcount: A:0.64, C:0.10, G:0.12, T:0.14
Consensus pattern (14 bp):
AAATAAAGCAAAGC
Done.