Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 35
Found at i:9836 original size:15 final size:16
Alignment explanation
Indices: 9818--9851 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
9808 TATGAACATC
9818 AAATAAAATAACAA-A
1 AAATAAAATAACAATA
*
9833 AAATAGAATAACAATA
1 AAATAAAATAACAATA
9849 AAA
1 AAA
9852 ATAATTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
AAATAAAATAACAATA
Found at i:12022 original size:25 final size:25
Alignment explanation
Indices: 11989--12050 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
11979 ACAAAATGTA
*
11989 AATACATATTAAATAATAATAATAAT
1 AATA-ATATTAAATAACAATAATAAT
* * *
12015 AATAATATAAAATGACAATAATAGT
1 AATAATATTAAATAACAATAATAAT
12040 AATAA-ATTAAA
1 AATAATATTAAA
12051 ATAGAAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 5 0.16
25 22 0.71
26 4 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (25 bp):
AATAATATTAAATAACAATAATAAT
Found at i:14331 original size:15 final size:15
Alignment explanation
Indices: 14311--14340 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14301 TCTTCAGGGG
14311 CTTCAAATTTGCAGA
1 CTTCAAATTTGCAGA
14326 CTTCAAATTTGCAGA
1 CTTCAAATTTGCAGA
14341 GGAGTCGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (15 bp):
CTTCAAATTTGCAGA
Found at i:17990 original size:13 final size:13
Alignment explanation
Indices: 17972--18015 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
17962 ATGATAAATA
*
17972 AAAAAATTACAAT
1 AAAAAACTACAAT
* *
17985 AAAAAAGTCCAAT
1 AAAAAACTACAAT
*
17998 AAACAACTACAAT
1 AAAAAACTACAAT
18011 AAAAA
1 AAAAA
18016 GTACTAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.68, C:0.14, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAACTACAAT
Found at i:18173 original size:15 final size:15
Alignment explanation
Indices: 18153--18183 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18143 GTCATCATCA
18153 TCATCGTCGTCGTCC
1 TCATCGTCGTCGTCC
*
18168 TCATCGTCGTTGTCC
1 TCATCGTCGTCGTCC
18183 T
1 T
18184 GAGCAGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.35, G:0.19, T:0.39
Consensus pattern (15 bp):
TCATCGTCGTCGTCC
Found at i:18601 original size:23 final size:23
Alignment explanation
Indices: 18569--18626 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
18559 TCGCTGCAGA
18569 TGGTGGCTGCTGTGAAGGTCTTGC
1 TGGT-GCTGCTGTGAAGGTCTTGC
18593 TGGTGCTGCTGTGAAGGTCTTGC
1 TGGTGCTGCTGTGAAGGTCTTGC
*
18616 TGGTGCAGCTG
1 TGGTGCTGCTG
18627 ATGATGAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 29 0.88
24 4 0.12
ACGTcount: A:0.09, C:0.17, G:0.41, T:0.33
Consensus pattern (23 bp):
TGGTGCTGCTGTGAAGGTCTTGC
Found at i:20293 original size:17 final size:16
Alignment explanation
Indices: 20258--20310 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
20248 TATATCTGCA
* *
20258 AAAAAATTAATTAAAT
1 AAAATATTAAATAAAT
20274 AAAATATTAAATAAAT
1 AAAATATTAAATAAAT
*
20290 TAAATACTTAAATAAACT
1 AAAATA-TTAAATAAA-T
20308 AAA
1 AAA
20311 TACAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 19 0.61
17 9 0.29
18 3 0.10
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAATATTAAATAAAT
Found at i:20311 original size:17 final size:17
Alignment explanation
Indices: 20275--20313 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
20265 TAATTAAATA
*
20275 AAATA-TTAAATAAATT
1 AAATACTTAAATAAACT
20291 AAATACTTAAATAAACT
1 AAATACTTAAATAAACT
20308 AAATAC
1 AAATAC
20314 AAAATATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATACTTAAATAAACT
Found at i:21056 original size:21 final size:21
Alignment explanation
Indices: 21032--21095 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
21022 GCAAATTCGC
21032 GTTGCATTTCGCGTTGTGATA
1 GTTGCATTTCGCGTTGTGATA
* ** *
21053 GTTGAAAATCGCGTTGCGAT-
1 GTTGCATTTCGCGTTGTGATA
* *
21073 TTTTCATTTCGCGTTGTGATA
1 GTTGCATTTCGCGTTGTGATA
21094 GT
1 GT
21096 CTACAGTTGT
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.42
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGTGATA
Found at i:21129 original size:19 final size:19
Alignment explanation
Indices: 21105--21152 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
21095 TCTACAGTTG
21105 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
21124 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
21143 TCGTTGCGAT
1 TCGTTGCGAT
21153 AGTCTACAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:21171 original size:22 final size:22
Alignment explanation
Indices: 21143--21196 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
21133 TTTTCCAAAT
21143 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
21165 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
21187 TCGTTGCGAT
1 TCGTTGCGAT
21197 TTTCCAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.17, C:0.19, G:0.28, T:0.37
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:21821 original size:6 final size:6
Alignment explanation
Indices: 21810--21842 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
21800 TCTCGTCTCG
21810 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
21843 AATACGTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:21962 original size:19 final size:19
Alignment explanation
Indices: 21938--22006 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
21928 CAACGAATTT
21938 TCGCAACGAATTTGGAAAA
1 TCGCAACGAATTTGGAAAA
* * **
21957 TCGCAACGATAACTGTAGACTA
1 TCGCAACG--AA-TTTGGAAAA
*
21979 TCGCAACGAATTTGAAAAA
1 TCGCAACGAATTTGGAAAA
*
21998 TTGCAACGA
1 TCGCAACGA
22007 CAACTGTAGA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 20 0.54
20 2 0.05
21 2 0.05
22 13 0.35
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (19 bp):
TCGCAACGAATTTGGAAAA
Found at i:21984 original size:22 final size:21
Alignment explanation
Indices: 21956--22027 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
21946 AATTTGGAAA
21956 ATCGCAACGATAACTGTAGACT
1 ATCGCAACGA-AACTGTAGACT
** **
21978 ATCGCAACGAATTTG-A-AAA
1 ATCGCAACGAAACTGTAGACT
*
21997 ATTGCAACGACAACTGTAGACT
1 ATCGCAACGA-AACTGTAGACT
22019 ATCGCAACG
1 ATCGCAACG
22028 CGAAATGGAA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 10 0.27
20 4 0.11
21 4 0.11
22 19 0.51
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAAACTGTAGACT
Found at i:21998 original size:41 final size:41
Alignment explanation
Indices: 21938--22027 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
21928 CAACGAATTT
* *
21938 TCGCAACGAATTTGGAAAATCGCAACGATAACTGTAGACTA
1 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
*
21979 TCGCAACGAATTTGAAAAATTGCAACGACAACTGTAGACTA
1 TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
22020 TCGCAACG
1 TCGCAACG
22028 CGAAATGGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (41 bp):
TCGCAACGAATTTGAAAAATCGCAACGACAACTGTAGACTA
Found at i:22079 original size:21 final size:21
Alignment explanation
Indices: 22016--22079 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
22006 ACAACTGTAG
*
22016 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* * ** *
22037 A-AATCGTAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
22057 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
22078 AC
1 AC
22080 GCGAATTTGC
Statistics
Matches: 31, Mismatches: 11, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:24004 original size:13 final size:12
Alignment explanation
Indices: 23987--24022 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
23977 AAAGGGCAGA
*
23987 GAAAAACAGAAG
1 GAAAAAAAGAAG
23999 GAAAAAAAGAAG
1 GAAAAAAAGAAG
*
24011 GAAAAAAGGAAG
1 GAAAAAAAGAAG
24023 AAATAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.69, C:0.03, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAAG
Found at i:26582 original size:12 final size:12
Alignment explanation
Indices: 26565--26595 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
26555 GTTAAGCTCA
26565 TTGCTCGACTCG
1 TTGCTCGACTCG
26577 TTGCTCGACTCG
1 TTGCTCGACTCG
26589 TTGCTCG
1 TTGCTCG
26596 TTAAGCTCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.32, G:0.26, T:0.35
Consensus pattern (12 bp):
TTGCTCGACTCG
Found at i:34563 original size:2 final size:2
Alignment explanation
Indices: 34556--34582 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
34546 TGTATATTCG
34556 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
34583 AATTTAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35538 original size:3 final size:3
Alignment explanation
Indices: 35530--35583 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
35520 CAACCCAGCA
* * *
35530 AAG AAG AAG CAG AAG AAG AAG AAG CAG AAG AAG AAG AAG TAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
35578 AAG AAG
1 AAG AAG
35584 CGTTGACTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.61, C:0.04, G:0.33, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:35550 original size:15 final size:15
Alignment explanation
Indices: 35530--35584 Score: 101
Period size: 15 Copynumber: 3.7 Consensus size: 15
35520 CAACCCAGCA
35530 AAGAAGAAGCAGAAG
1 AAGAAGAAGCAGAAG
35545 AAGAAGAAGCAGAAG
1 AAGAAGAAGCAGAAG
*
35560 AAGAAGAAGTAGAAG
1 AAGAAGAAGCAGAAG
35575 AAGAAGAAGC
1 AAGAAGAAGC
35585 GTTGACTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.60, C:0.05, G:0.33, T:0.02
Consensus pattern (15 bp):
AAGAAGAAGCAGAAG
Found at i:39817 original size:22 final size:23
Alignment explanation
Indices: 39755--39838 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
39745 ATTCCCCTAT
* *
39755 GGGGGAATCAGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTTAAA
39778 GGGGGAATCGGTTCCCCTTTAAA
1 GGGGGAATCGGTTCCCCTTTAAA
*
39801 GGGGGAATCGGTT-CCCTTTCAA
1 GGGGGAATCGGTTCCCCTTTAAA
* *
39823 GGGGGTATCGATTCCC
1 GGGGGAATCGGTTCCC
39839 TCTGCCCTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 19 0.35
23 36 0.65
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTTAAA
Found at i:39838 original size:45 final size:42
Alignment explanation
Indices: 39732--39838 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 42
39722 AACTAGAACC
*
39732 CAAGGGGGTATCGATTCCCCTATGGGGGAATCAGTTCCCCTT
1 CAAGGGGGTATCGATTCCCCTAAGGGGGAATCAGTTCCCCTT
* * * *
39774 CAAAGGGGGAATCGGTTCCCCTTTAAAGGGGGAATCGGTTCCCTTT
1 C-AAGGGGGTATCGATTCCCC--T-AAGGGGGAATCAGTTCCCCTT
39820 CAAGGGGGTATCGATTCCC
1 CAAGGGGGTATCGATTCCC
39839 TCTGCCCTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 1 0.02
43 17 0.31
45 17 0.31
46 19 0.35
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (42 bp):
CAAGGGGGTATCGATTCCCCTAAGGGGGAATCAGTTCCCCTT
Found at i:39839 original size:22 final size:22
Alignment explanation
Indices: 39732--39839 Score: 96
Period size: 23 Copynumber: 4.9 Consensus size: 22
39722 AACTAGAACC
* *
39732 CAAGGGGGTATCGATTCCC-CT
1 CAAGGGGGAATCGATTCCCTTT
* *
39753 -ATGGGGGAATC-AGTTCCCCTT
1 CAAGGGGGAATCGA-TTCCCTTT
*
39774 CAAAGGGGGAATCGGTTCCCCTTT
1 C-AAGGGGGAATCGATT-CCCTTT
* *
39798 AAAGGGGGAATCGGTTCCCTTT
1 CAAGGGGGAATCGATTCCCTTT
*
39820 CAAGGGGGTATCGATTCCCT
1 CAAGGGGGAATCGATTCCCT
39840 CTGCCCTATA
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
19 1 0.01
20 14 0.20
21 1 0.01
22 23 0.32
23 27 0.38
24 5 0.07
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (22 bp):
CAAGGGGGAATCGATTCCCTTT
Found at i:47576 original size:41 final size:41
Alignment explanation
Indices: 47465--47889 Score: 303
Period size: 41 Copynumber: 10.3 Consensus size: 41
47455 GCGTTTTTGA
* * * * *
47465 ACAAACGCCGCAAAATACTA-TAATTTAGTGGCATTTGT-AT
1 ACAAACGCCGCTATAGACTAGTATTTTAGTGGCGTTT-TAAT
* * * * * * * *
47505 AAAAACGCCGCTAAAGAATCGTAATGTAGTGGCATTTTTAT
1 ACAAACGCCGCTATAGACTAGTATTTTAGTGGCGTTTTAAT
* *
47546 ACAAACGCCGCTATAAACTAGTATTTTAGTGGCGTTTTTAT
1 ACAAACGCCGCTATAGACTAGTATTTTAGTGGCGTTTTAAT
*
47587 ACAAACGCTGCTATAGAC-ACGTACTTTT-GTGGCGTTTTAAT
1 ACAAACGCCGCTATAGACTA-GTA-TTTTAGTGGCGTTTTAAT
* * * ** * *
47628 ACCAAACGCCTCTATAGACTCGTACTTTAGTGGTATTTTTAC
1 A-CAAACGCCGCTATAGACTAGTATTTTAGTGGCGTTTTAAT
* *
47670 ACAATCGCCGCTATAGAC-ACGTACGTTT-GTGGCGTTTTAAT
1 ACAAACGCCGCTATAGACTA-GTA-TTTTAGTGGCGTTTTAAT
* * *
47711 ACCAAATGCCACTATAGAC-ACGTACTTTTA-TGGCATTTTAAT
1 A-CAAACGCCGCTATAGACTA-GTA-TTTTAGTGGCGTTTTAAT
* * * * * *
47753 ACCAAACACCGCTATAGATTCGTACTTTAGTGGCGTTTTTAC
1 A-CAAACGCCGCTATAGACTAGTATTTTAGTGGCGTTTTAAT
47795 ACAAACGCCGCTATAGAC-ATGTACTTTTA-TGGCGTTTTAAT
1 ACAAACGCCGCTATAGACTA-GTA-TTTTAGTGGCGTTTTAAT
* * * * *
47836 ACCAAACGCCACTATAAACTCGTACTTTAGTGGCCTTTTAAT
1 A-CAAACGCCGCTATAGACTAGTATTTTAGTGGCGTTTTAAT
47878 ACCAAACGCCGC
1 A-CAAACGCCGC
47890 AATTGTCATA
Statistics
Matches: 308, Mismatches: 59, Indels: 34
0.77 0.15 0.08
Matches are distributed among these distances:
40 17 0.06
41 150 0.49
42 141 0.46
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (41 bp):
ACAAACGCCGCTATAGACTAGTATTTTAGTGGCGTTTTAAT
Found at i:47643 original size:42 final size:42
Alignment explanation
Indices: 47507--47889 Score: 379
Period size: 42 Copynumber: 9.2 Consensus size: 42
47497 ATTTGTATAA
* * * * * *
47507 AAACGCCGCTAAAGA-ATCGTAATGTAGTGGCATTTTTATA-C
1 AAACGCCGCTATAGACA-CGTACTTTTGTGGCGTTTTAATACC
* *
47548 AAACGCCGCTATAAACTA-GTA-TTTTAGTGGCGTTTTTATA-C
1 AAACGCCGCTATAGAC-ACGTACTTTT-GTGGCGTTTTAATACC
*
47589 AAACGCTGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
* * * **
47631 AAACGCCTCTATAGACTCGTACTTTAGTGGTATTTT--TACAC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATAC-C
* *
47672 AATCGCCGCTATAGACACGTACGTTTGTGGCGTTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
* * * *
47714 AAATGCCACTATAGACACGTACTTTTATGGCATTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
* ** *
47756 AAACACCGCTATAGATTCGTACTTTAGTGGCGTTTT--TACAC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATAC-C
* *
47797 AAACGCCGCTATAGACATGTACTTTTATGGCGTTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
* * * * *
47839 AAACGCCACTATAAACTCGTACTTTAGTGGCCTTTTAATACC
1 AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
47881 AAACGCCGC
1 AAACGCCGC
47890 AATTGTCATA
Statistics
Matches: 281, Mismatches: 49, Indels: 23
0.80 0.14 0.07
Matches are distributed among these distances:
40 9 0.03
41 121 0.43
42 144 0.51
43 7 0.02
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
AAACGCCGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
Found at i:47659 original size:83 final size:84
Alignment explanation
Indices: 47488--47889 Score: 419
Period size: 83 Copynumber: 4.8 Consensus size: 84
47478 AATACTATAA
* * * * * * *
47488 TTTAGTGGCATTTGTATAAAAACGCCGCTAAAGA-ATCGTAATGTAGTGGCATTTTTATA-CAAA
1 TTTAGTGGCATTTTTATACAAACGCCGCTATAGACA-CGTACTTTAGTGGCGTTTTAATACCAAA
* *
47551 CGCCGCTATAAACTAGTA-T
65 CGCCGCTATAGACTCGTACT
* * *
47570 TTTAGTGGCGTTTTTATACAAACGCTGCTATAGACACGTACTTTTGTGGCGTTTTAATACCAAAC
1 TTTAGTGGCATTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCAAAC
*
47635 GCCTCTATAGACTCGTAC-
66 GCCGCTATAGACTCGTACT
* * *
47653 TTTAGTGGTATTTTTACACAATCGCCGCTATAGACACGTACGTTT-GTGGCGTTTTAATACCAAA
1 TTTAGTGGCATTTTTATACAAACGCCGCTATAGACACGTAC-TTTAGTGGCGTTTTAATACCAAA
* * *
47717 TGCCACTATAGACACGTACT
65 CGCCGCTATAGACTCGTACT
* * **
47737 TTTA-TGGCATTTTAATACCAAACACCGCTATAGATTCGTACTTTAGTGGCGTTTT--TACACAA
1 TTTAGTGGCATTTTTATA-CAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATAC-CAA
47799 ACGCCGCTATAGACAT-GTACT
64 ACGCCGCTATAGAC-TCGTACT
* * * * * *
47820 TTTA-TGGCGTTTTAATACCAAACGCCACTATAAACTCGTACTTTAGTGGCCTTTTAATACCAAA
1 TTTAGTGGCATTTTTATA-CAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCAAA
47884 CGCCGC
65 CGCCGC
47890 AATTGTCATA
Statistics
Matches: 272, Mismatches: 37, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
82 50 0.18
83 173 0.64
84 46 0.17
85 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (84 bp):
TTTAGTGGCATTTTTATACAAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCAAAC
GCCGCTATAGACTCGTACT
Found at i:47769 original size:125 final size:124
Alignment explanation
Indices: 47507--47889 Score: 493
Period size: 125 Copynumber: 3.1 Consensus size: 124
47497 ATTTGTATAA
* * * * *
47507 AAACGCCGCTAAAGAATCGTAATGTAGTGGCATTTTTATACAAACGCCGCTATAAACTAGTA-TT
1 AAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGAC-AGTACTT
* ** * *
47571 TTAGTGGCGTTTTTATA-CAAACGCTGCTATAGACACGTACTTTTGTGGCGTTTTAATACC
65 TT-GTGGCGTTTTAATACCAAACGCCACTATAGACACGTACTTTTATGGCATTTTAATACC
* * * * *
47631 AAACGCCTCTATAGACTCGTACTTTAGTGGTATTTTTACACAATCGCCGCTATAGACACGTACGT
1 AAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACA-GTACTT
*
47696 TTGTGGCGTTTTAATACCAAATGCCACTATAGACACGTACTTTTATGGCATTTTAATACC
65 TTGTGGCGTTTTAATACCAAACGCCACTATAGACACGTACTTTTATGGCATTTTAATACC
* * *
47756 AAACACCGCTATAGATTCGTACTTTAGTGGCGTTTTTACACAAACGCCGCTATAGACATGTACTT
1 AAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACA-GTACTT
* * * *
47821 TTATGGCGTTTTAATACCAAACGCCACTATAAACTCGTAC-TTTAGTGGCCTTTTAATACC
65 TTGTGGCGTTTTAATACCAAACGCCACTATAGACACGTACTTTTA-TGGCATTTTAATACC
47881 AAACGCCGC
1 AAACGCCGC
47890 AATTGTCATA
Statistics
Matches: 225, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
123 1 0.00
124 68 0.30
125 156 0.69
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (124 bp):
AAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACAGTACTTT
TGTGGCGTTTTAATACCAAACGCCACTATAGACACGTACTTTTATGGCATTTTAATACC
Found at i:51712 original size:43 final size:42
Alignment explanation
Indices: 51650--51888 Score: 264
Period size: 43 Copynumber: 5.6 Consensus size: 42
51640 AAGGTAATTA
51650 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACTTTTT
** * * *
51693 GCGGCGTTTGTGTTAAAAAACGTCGTTATATGTCTG-CTCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACT-TTTT
* *
51736 GCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACTTTTT
* * ** *
51779 ACGGCGTTTGTTCTAAAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTC-TGACTTTTT
* * * *
51822 GCGGCGTTTGTTCCAAAAACGCCACTATAGATATCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTCT-GACTTTTT
*
51865 GCGGCGTTTGTTCAAAAAACGCCG
1 GCGGCGTTTGTTCCAAAAACGCCG
51889 TAATAGATAT
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
42 22 0.13
43 140 0.86
44 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTCTGACTTTTT
Found at i:51765 original size:86 final size:85
Alignment explanation
Indices: 51653--51888 Score: 298
Period size: 86 Copynumber: 2.7 Consensus size: 85
51643 GTAATTAGCG
* *
51653 GCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTAAAAAACGTCG
1 GCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGT-TTAAAAAACGCCG
* * *
51718 TTATATGTC-T-GCTCTTTTGCA
64 CTATATATCATAACT-TTTTGCA
*
51739 GCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTTACGGCGTTTGTTCT-AAAAACGCCG
1 GCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTT-TAAAAAACGCCG
*
51803 CTATATATCATAACTTTTTGCG
64 CTATATATCATAACTTTTTGCA
* * * *
51825 GCGTTTGTTCCAAAAACGCCACTATAGATATCGACCTTTTGCGGCGTTTGTTCAAAAAACGCCG
1 GCGTTTGTTCCAAAAACGCCGCTATAGGTCT-GACCTTTTGCGGCGTTTGTTTAAAAAACGCCG
51889 TAATAGATAT
Statistics
Matches: 132, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
85 37 0.28
86 93 0.70
87 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.33
Consensus pattern (85 bp):
GCGTTTGTTCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTTAAAAAACGCCGCT
ATATATCATAACTTTTTGCA
Found at i:51895 original size:43 final size:43
Alignment explanation
Indices: 51650--51916 Score: 258
Period size: 43 Copynumber: 6.2 Consensus size: 43
51640 AAGGTAATTA
* * * *
51650 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGATATGACCTTTT
** * * *
51693 GCGGCGTTTGTGTTAAAAAACGTCGTTATATG-TCTG-CTCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATA-GATATGAC-CTTTT
* * *
51736 GCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGATATGACCTTTT
* * * * *
51779 ACGGCGTTTGT-TCTAAAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGAT-ATGACCTTTT
*
51822 GCGGCGTTTGT-TCCAAAAACGCCACTATAGATATCGACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGATAT-GACCTTTT
* *
51865 GCGGCGTTTGT-TCAAAAAACGCCG-TAATAGATATTGACCTATT
1 GCGGCGTTTGTGTCCAAAAACGCCGCT-ATAGATA-TGACCTTTT
51908 GCGGCGTTT
1 GCGGCGTTT
51917 TTTGTTCTCA
Statistics
Matches: 188, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
42 23 0.12
43 162 0.86
44 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTGTGTCCAAAAACGCCGCTATAGATATGACCTTTT
Found at i:51903 original size:129 final size:129
Alignment explanation
Indices: 51646--51916 Score: 293
Period size: 129 Copynumber: 2.1 Consensus size: 129
51636 AAGAAAGGTA
* * *
51646 ATTAGCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTAAAA
1 ATTA-CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTAACTTTTTGCGGCGTTTGTGTCAAAA
* * * * * *
51711 AACGTCGTTATATGTCTGCTCTTTTGCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCT
65 AACGCCCTTAGATATCTGCTCTTTTGCAGCGTTTGTGTCAAAAAACGCCGCTATAGATCTGACCT
* * * *
51776 TTTACGGCGTTTGT-TCTAAAAACGCCGCTATATATCATAACTTTTTGCGGCGTTTGT-TCCAAA
1 ATTACGGCGTTTGTATCCAAAAACGCCGCTATAGATC-TAACTTTTTGCGGCGTTTGTGTCAAAA
* *
51839 AACGCCACTATAGATATC-GAC-CTTTTGCGGCGTTTGT-TCAAAAAACGCCG-TAATAGATATT
65 AACGCC-CT-TAGATATCTG-CTCTTTTGCAGCGTTTGTGTCAAAAAACGCCGCT-ATAGAT-CT
51900 GACCT
125 GACCT
*
51905 ATTGCGGCGTTT
1 ATTACGGCGTTT
51917 TTTGTTCTCA
Statistics
Matches: 118, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
127 1 0.01
128 45 0.38
129 62 0.53
130 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (129 bp):
ATTACGGCGTTTGTATCCAAAAACGCCGCTATAGATCTAACTTTTTGCGGCGTTTGTGTCAAAAA
ACGCCCTTAGATATCTGCTCTTTTGCAGCGTTTGTGTCAAAAAACGCCGCTATAGATCTGACCT
Found at i:51910 original size:86 final size:84
Alignment explanation
Indices: 51650--51916 Score: 297
Period size: 86 Copynumber: 3.1 Consensus size: 84
51640 AAGGTAATTA
* *
51650 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTAAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGT-TCAAAAAACG
* *
51715 TCGTTATATG-TCTG-CTCTTTT
65 CCG-TATA-GATATGAC-CTTTT
* * * *
51736 GCAGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTGACCTTTTACGGCGTTTGTTCTAAAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCAAAAAACGC
* * *
51801 CGCTATATATCATAACTTTTT
66 CG-TATAGAT-ATGACCTTTT
* * *
51822 GCGGCGTTTGT-TCCAAAAACGCCACTATAGATATCGACCTTTTGCGGCGTTTGTTCAAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCT-GACCTTTTGCGGCGTTTGTTCAAAAAACG
*
51886 CCGTAATAGATATTGACCTATT
65 CCGT-ATAGATA-TGACCTTTT
51908 GCGGCGTTT
1 GCGGCGTTT
51917 TTTGTTCTCA
Statistics
Matches: 153, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
85 37 0.24
86 115 0.75
87 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (84 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCAAAAAACGC
CGTATAGATATGACCTTTT
Found at i:53344 original size:22 final size:21
Alignment explanation
Indices: 53302--53344 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
53292 CAAGGATATA
*
53302 AAATAAATTGAATTGTAAATT
1 AAATAAATTGAATTCTAAATT
*
53323 AAATAAATTTGAATTCTTAATT
1 AAATAAA-TTGAATTCTAAATT
53345 TCTAACTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.49, C:0.02, G:0.07, T:0.42
Consensus pattern (21 bp):
AAATAAATTGAATTCTAAATT
Found at i:55585 original size:3 final size:3
Alignment explanation
Indices: 55579--55662 Score: 73
Period size: 3 Copynumber: 28.0 Consensus size: 3
55569 TATTTATTAT
* * **
55579 TAA TAA TAA TAA TATT TAT TAA TAA TAA TAA TAA TAA TAAA TGG TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
* * *
55626 TGA TAA TAA TAA TAT TAA -AA TAA TAA -AA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
55663 CAAAGAATGG
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
2 4 0.06
3 57 0.86
4 5 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:55595 original size:22 final size:22
Alignment explanation
Indices: 55569--55641 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
55559 AATATTTTTT
*
55569 TATTTATTATTAATAATAATAA
1 TATTTATTAATAATAATAATAA
55591 TATTTATTAATAATAATAATAA
1 TATTTATTAATAATAATAATAA
** *
55613 TAATAAATGGTAATGATAATAATAA
1 T-ATTTAT--TAATAATAATAATAA
55638 TATT
1 TATT
55642 AAAATAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 22 0.51
23 4 0.09
24 2 0.05
25 15 0.35
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (22 bp):
TATTTATTAATAATAATAATAA
Found at i:55599 original size:19 final size:19
Alignment explanation
Indices: 55575--55611 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
55565 TTTTTATTTA
55575 TTATTAATAATAATAATAT
1 TTATTAATAATAATAATAT
55594 TTATTAATAATAATAATA
1 TTATTAATAATAATAATA
55612 ATAATAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTATTAATAATAATAATAT
Found at i:55626 original size:25 final size:25
Alignment explanation
Indices: 55579--55662 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 25
55569 TATTTATTAT
** *
55579 TAATAATAATAATATTTATTAATAA
1 TAATAATAATAATAAATAGTAATAA
* *
55604 TAATAATAATAATAAATGGTAATGA
1 TAATAATAATAATAAATAGTAATAA
*
55629 TAATAATAATATTAAA-A-TAATAA
1 TAATAATAATAATAAATAGTAATAA
*
55652 -AAAAATAATAA
1 TAATAATAATAA
55663 CAAAGAATGG
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
22 9 0.18
23 5 0.10
25 35 0.71
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TAATAATAATAATAAATAGTAATAA
Found at i:56898 original size:17 final size:18
Alignment explanation
Indices: 56877--56925 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
56867 ATTGAATCAA
56877 TTTTAATGAATGAACTAG
1 TTTTAATGAATGAACTAG
* * *
56895 -TTTAATTAGTTAACTAG
1 TTTTAATGAATGAACTAG
*
56912 TTTTATTGAATGAA
1 TTTTAATGAATGAA
56926 ATAACATACT
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.37, C:0.04, G:0.14, T:0.45
Consensus pattern (18 bp):
TTTTAATGAATGAACTAG
Found at i:57003 original size:16 final size:17
Alignment explanation
Indices: 56952--57020 Score: 68
Period size: 18 Copynumber: 4.0 Consensus size: 17
56942 AAGTAAGTTT
*
56952 CTTAAAGGAAGTACATG
1 CTTAAATGAAGTACATG
** *
56969 CTTTAAATGATCTAAATG
1 C-TTAAATGAAGTACATG
56987 C-TAAATGAAGTACATG
1 CTTAAATGAAGTACATG
*
57003 CTTAATTGAAGTAGCATG
1 CTTAAATGAAGTA-CATG
57021 TTATTTATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
16 13 0.32
17 11 0.27
18 17 0.41
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (17 bp):
CTTAAATGAAGTACATG
Found at i:59380 original size:78 final size:78
Alignment explanation
Indices: 59242--59387 Score: 240
Period size: 78 Copynumber: 1.9 Consensus size: 78
59232 TAATGGAATA
* *
59242 TAAAAGACTTTTGAGATGATACAATGAATATCATCTATAGCTGTTACCAAGGTAATTAATGGTAG
1 TAAAAGACCTTTGAGATGATACAATGAATATCATCTATAGCTGTTACCAAGGCAATTAATGGTAG
59307 AGTCGTTTTATAT
66 AGTCGTTTTATAT
* *
59320 TAAATGACCTTTGAGATGATACAATGAATCTCATCTACT-GCTGTTACCAAGGCAATTAATGGTA
1 TAAAAGACCTTTGAGATGATACAATGAATATCATCTA-TAGCTGTTACCAAGGCAATTAATGGTA
59384 GAGT
65 GAGT
59388 TAGAAGCACA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 62 0.98
79 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (78 bp):
TAAAAGACCTTTGAGATGATACAATGAATATCATCTATAGCTGTTACCAAGGCAATTAATGGTAG
AGTCGTTTTATAT
Found at i:62824 original size:18 final size:18
Alignment explanation
Indices: 62801--62852 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
62791 GAGCAATAAA
62801 TAAAAATAAAGAAAATAT
1 TAAAAATAAAGAAAATAT
62819 TAAAAAT--A-AAAATA-
1 TAAAAATAAAGAAAATAT
62833 -AAAAATAAAGAAAATAT
1 TAAAAATAAAGAAAATAT
62850 TAA
1 TAA
62853 TTTCTAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
13 6 0.21
15 7 0.24
16 7 0.24
18 9 0.31
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (18 bp):
TAAAAATAAAGAAAATAT
Found at i:64898 original size:201 final size:202
Alignment explanation
Indices: 64548--64913 Score: 536
Period size: 201 Copynumber: 1.8 Consensus size: 202
64538 ATCGGGCCTT
** * ** *
64548 GGTCTTCTTCTTGGTTTAAAGACCCCGGCTTGAAAATTCTTTTGGAAAGTAGTTCCTTGATGCTA
1 GGTCTTCTTCTTGACTTAAAGACCCCGGCTTGAAAATTCATCCGGAAAGTAGTTCCTAGATGCTA
* * * * *
64613 CTATGTGTTTGATATGCCCTCGAGCTGAATGAAATCGAACTCAAAAATTCTTGTTGACAGATAGC
66 CCATGCGGTTGATATGCCCTCGAGCTGAATGAAATCGAACTAAAAAATTCTTGTTGACAGATAAC
**
64678 TTTTCTCGCCTTAAGCTATGTTGTAAATTTGACTAAGATATAGTTCCTTGTTGCTAAATCACAGC
131 CCTTCTCGCCTTAAGCTATGTTGTAAATTTGACTAAGATATAGTTCCTTGTTGCTAAATCACAGC
64743 CAACCCA
196 CAACCCA
* * * *
64750 GGTCTTCTTCTTGACTTAAAGACCTCGG-TTTAAAATTGATCCGGAAAGTAGTTCCTAGTTGCTA
1 GGTCTTCTTCTTGACTTAAAGACCCCGGCTTGAAAATTCATCCGGAAAGTAGTTCCTAGATGCTA
* * *
64814 CCATGCGGTTGATATGCCTTCGAGCTGAATGAAATGGAACTAAAAAATTCTTGTTGATAGATAAC
66 CCATGCGGTTGATATGCCCTCGAGCTGAATGAAATCGAACTAAAAAATTCTTGTTGACAGATAAC
*
64879 CCTTCTCGCCTTGAGCTATGTTGTAAATTTGACTA
131 CCTTCTCGCCTTAAGCTATGTTGTAAATTTGACTA
64914 GGAGATAACC
Statistics
Matches: 143, Mismatches: 21, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
201 118 0.83
202 25 0.17
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (202 bp):
GGTCTTCTTCTTGACTTAAAGACCCCGGCTTGAAAATTCATCCGGAAAGTAGTTCCTAGATGCTA
CCATGCGGTTGATATGCCCTCGAGCTGAATGAAATCGAACTAAAAAATTCTTGTTGACAGATAAC
CCTTCTCGCCTTAAGCTATGTTGTAAATTTGACTAAGATATAGTTCCTTGTTGCTAAATCACAGC
CAACCCA
Found at i:65726 original size:33 final size:34
Alignment explanation
Indices: 65689--65771 Score: 89
Period size: 36 Copynumber: 2.4 Consensus size: 34
65679 CATTTTAGGG
* * *
65689 GAAACAATCTCAAAG-ATATTTG-TTGTTTCATGA
1 GAAAC-ATCTCAAAGAAAATTGGATTGTTTCAAGA
*
65722 GAAACGGTCTCAAAGAAAATTGGATTTGTTTCAAGA
1 GAAAC-ATCTCAAAGAAAATTGGA-TTGTTTCAAGA
65758 GAAACATCTCAAAG
1 GAAACATCTCAAAG
65772 TTTGGTGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 13 0.32
34 5 0.12
35 8 0.20
36 15 0.37
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (34 bp):
GAAACATCTCAAAGAAAATTGGATTGTTTCAAGA
Found at i:65819 original size:36 final size:36
Alignment explanation
Indices: 65777--66124 Score: 396
Period size: 36 Copynumber: 9.6 Consensus size: 36
65767 CAAAGTTTGG
* * * *
65777 TGTTTCATA-AGAAATTATCTCGAGGGAGACAAAAGT
1 TGTTTCA-AGAGAAACTGTCTCAAGGGAGACAAAATT
* * *
65813 TGTTTCAAGAGAAACAGACTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* *
65849 TGATTCAAGAGAAATTGTCTCCAA-GGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCT-CAAGGGAGACAAAATT
*
65885 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* * *
65921 TGTTTTAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* *
65957 TGTTTCAA-AGGAAAGCTGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGA-GAAA-CTGTCTCAAGGGAGACAAAATT
* * *
65994 TGTTTCAAGAGAAATTGTCTTAAGGGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
** * *
66030 TGTTTCAAGAGAAGTTGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
* * *
66066 TGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TT
*
66103 TGTTTCCAGAGAAACTGTCTCA
1 TGTTTCAAGAGAAACTGTCTCA
66125 GAGGTGATCG
Statistics
Matches: 269, Mismatches: 36, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
35 4 0.01
36 207 0.77
37 57 0.21
38 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
Found at i:66005 original size:21 final size:21
Alignment explanation
Indices: 65940--66005 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
65930 GGAAACTGTC
65940 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
**
65961 TCAA-AG-G---AAAGCTGTCT
1 TCAAGAGAGACAAAATTTGT-T
65978 T-AAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
65998 TCAAGAGA
1 TCAAGAGA
66006 AATTGTCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
16 8 0.24
17 4 0.12
18 1 0.03
19 1 0.03
20 4 0.12
21 16 0.47
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:66121 original size:145 final size:144
Alignment explanation
Indices: 65802--66124 Score: 461
Period size: 145 Copynumber: 2.2 Consensus size: 144
65792 TATCTCGAGG
* * * *
65802 GAGACAAAAGTTGTTTCAAGAGAAACAGACTCAAGAGAGACAAAATTTGATTCAAGAGAAATTGT
1 GAGACAAAATTTGTTTCCAGAGAAACTGTCTCAAGAGAGACAAAATTTGATTCAAGAGAAATTGT
* *
65867 CTCCAAGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAACTTGTTTTAAGGG
66 CTCCAAGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTAAAGGG
65932 AAACTGTCTCAAGA
131 AAACTGTCTCAAGA
* * *
65946 GAGACAAAATTTGTTT-CAAAGGAAAGCTGTCTTAAGAGAGACAAAATTTGTTTCAAGAGAAATT
1 GAGACAAAATTTGTTTCCAGA-GAAA-CTGTCTCAAGAGAGACAAAATTTGATTCAAGAGAAATT
* * ** * *
66010 GTCT-TAAGGGAGACGAAATTTGTTTCAAGAGAAGTTGTCTTAAGAGAGACAAAATTTGTTTAAA
64 GTCTCCAA-GGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTAAA
66074 GGGAAACTGTCTCAAGA
128 GGGAAACTGTCTCAAGA
66091 GAGACAAAACTTTGTTTCCAGAGAAACTGTCTCA
1 GAGACAAAA-TTTGTTTCCAGAGAAACTGTCTCA
66125 GAGGTGATCG
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
143 2 0.01
144 21 0.13
145 120 0.76
146 11 0.07
147 3 0.02
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.26
Consensus pattern (144 bp):
GAGACAAAATTTGTTTCCAGAGAAACTGTCTCAAGAGAGACAAAATTTGATTCAAGAGAAATTGT
CTCCAAGGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTGTTTAAAGGG
AAACTGTCTCAAGA
Found at i:68509 original size:21 final size:21
Alignment explanation
Indices: 68485--68545 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
68475 TTGGTACCCA
68485 TCAAGGGGTATCGATACACAT
1 TCAAGGGGTATCGATACACAT
*
68506 TCAAAGAGGGTATCGATACATAT
1 TC-AAG-GGGTATCGATACACAT
* **
68529 TGAAGTAGTATCGATAC
1 TCAAGGGGTATCGATAC
68546 CTAACAAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 12 0.35
22 6 0.18
23 16 0.47
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (21 bp):
TCAAGGGGTATCGATACACAT
Found at i:72238 original size:188 final size:189
Alignment explanation
Indices: 71921--72298 Score: 562
Period size: 188 Copynumber: 2.0 Consensus size: 189
71911 GTACATATCT
* * * * *
71921 TATAATTGTCTTTGTTCGGCTAGATGAAGGATTCATGTCGTTACAAAGTCTTTGACTTGATAATC
1 TATAATTGTCTTTGTTCGGCTAGATGAAGGATTCATGTCGTCACAAAATCTTCGACTTAACAATC
* * *
71986 ATAGTGGACCATACACCGAATTACCGAGTACCCGATCAATGTCATAGTTTGAATGTAGTCTATTC
66 ACAGTGGACCATACACCGAATTACCGAGTACCCGATCAATGTCATAGTTTGAATATAATCTATTC
*
72051 ATAAAGCC-AGGGATTTCGAGTTTCCTCTATAACCAA-TGCCTTAAAGGAATAGCTCAGC
131 ATAAA-CCTAGGGATTTCGAGTTTCCTCAATAACCAATTGCCTTAAAGGAATAGCTCAGC
* *
72109 TATAATTTTCTTTGTTCGGCTAGCTGAAGGATTCATGTCGTCACAAAATCTTCGACTTAACAATC
1 TATAATTGTCTTTGTTCGGCTAGATGAAGGATTCATGTCGTCACAAAATCTTCGACTTAACAATC
* * *
72174 ACAGTGGAGCATACATCGAATTACCGAGTACCCGATCAATGTCATGGTTTGAATATAATCTATTC
66 ACAGTGGACCATACACCGAATTACCGAGTACCCGATCAATGTCATAGTTTGAATATAATCTATTC
* * * **
72239 ATAAACCTGGGGCTTTCGAGTTTCCTCAATAACCAATTGCTTTAGCGGAATAGCTCAGC
131 ATAAACCTAGGGATTTCGAGTTTCCTCAATAACCAATTGCCTTAAAGGAATAGCTCAGC
72298 T
1 T
72299 TTATTGTATA
Statistics
Matches: 169, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
187 2 0.01
188 147 0.87
189 20 0.12
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (189 bp):
TATAATTGTCTTTGTTCGGCTAGATGAAGGATTCATGTCGTCACAAAATCTTCGACTTAACAATC
ACAGTGGACCATACACCGAATTACCGAGTACCCGATCAATGTCATAGTTTGAATATAATCTATTC
ATAAACCTAGGGATTTCGAGTTTCCTCAATAACCAATTGCCTTAAAGGAATAGCTCAGC
Found at i:72325 original size:15 final size:15
Alignment explanation
Indices: 72305--72335 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
72295 AGCTTTATTG
72305 TATACATATATATAT
1 TATACATATATATAT
72320 TATACATATATATAT
1 TATACATATATATAT
72335 T
1 T
72336 TTTGTTCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TATACATATATATAT
Found at i:75322 original size:13 final size:13
Alignment explanation
Indices: 75304--75330 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
75294 AGGTAAGTAA
75304 TAAAATTTAAATT
1 TAAAATTTAAATT
75317 TAAAATTTAAATT
1 TAAAATTTAAATT
75330 T
1 T
75331 GTTATTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAATTTAAATT
Found at i:78233 original size:27 final size:27
Alignment explanation
Indices: 78202--78282 Score: 162
Period size: 27 Copynumber: 3.0 Consensus size: 27
78192 ATCTTGAGGT
78202 GTGTTAGTCTCGAGGTCCATTATCATA
1 GTGTTAGTCTCGAGGTCCATTATCATA
78229 GTGTTAGTCTCGAGGTCCATTATCATA
1 GTGTTAGTCTCGAGGTCCATTATCATA
78256 GTGTTAGTCTCGAGGTCCATTATCATA
1 GTGTTAGTCTCGAGGTCCATTATCATA
78283 CTTTCTCGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGTTAGTCTCGAGGTCCATTATCATA
Found at i:84981 original size:21 final size:22
Alignment explanation
Indices: 84940--84981 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
84930 TTTAAGTAAT
*
84940 CTAATTATAGAACCTTAATTCC
1 CTAATTATAGAACCATAATTCC
*
84962 CTAATTA-AGTACCATAATTC
1 CTAATTATAGAACCATAATTC
84982 ATGTATTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (22 bp):
CTAATTATAGAACCATAATTCC
Found at i:85481 original size:2 final size:2
Alignment explanation
Indices: 85476--85508 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
85466 TTTTTTATTT
85476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85509 GTAGGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85655 original size:21 final size:21
Alignment explanation
Indices: 85631--85689 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
85621 AAAATGAGTG
*
85631 GTCAATTCGAAAAGTTAAAAA
1 GTCAATTCGAAAAATTAAAAA
* **
85652 GTCAATTTGAAAAATTAAATG
1 GTCAATTCGAAAAATTAAAAA
* *
85673 GCCAATTTGAAAAATTA
1 GTCAATTCGAAAAATTA
85690 GTGAGCATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (21 bp):
GTCAATTCGAAAAATTAAAAA
Found at i:96502 original size:13 final size:13
Alignment explanation
Indices: 96484--96510 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96474 TCATTATGTA
96484 CGGTGAGCGGTGC
1 CGGTGAGCGGTGC
96497 CGGTGAGCGGTGC
1 CGGTGAGCGGTGC
96510 C
1 C
96511 ATATTTACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.26, G:0.52, T:0.15
Consensus pattern (13 bp):
CGGTGAGCGGTGC
Found at i:99202 original size:138 final size:138
Alignment explanation
Indices: 99027--99280 Score: 334
Period size: 138 Copynumber: 1.8 Consensus size: 138
99017 CGTATGATAG
* ** * *
99027 TTATCGATCGATTTTGATTAATGAATAACGGTGCATTTTTGTATTAGTATTATGTGTACTTTCGA
1 TTATCGATCGATTTTCATTAATGAATAACGGTGCATTTTCATATTAGTACTATATGTACTTTCGA
* *
99092 CACTA-GATGTGCAAT-CATGGTATTCATAATGA-GTTTATGAATTACCATTTCTATATACAATT
66 CACTATGA-GTAC-ATCCATGGAATTCATAAT-ATGTTTATGAATTACCATTTCTATATACAATT
99154 ATGTATAAAAA
128 ATGTATAAAAA
* * * * *
99165 TTATCGATTGATTTTCTTTAATGCATAACGGTGCATTTTCATATTAGTACTATATGTACTTTTGT
1 TTATCGATCGATTTTCATTAATGAATAACGGTGCATTTTCATATTAGTACTATATGTACTTTCGA
* *
99230 CACTATGAGTACATCCATGGAATTCATAATATGTTTGTGAATTTCCATTTC
66 CACTATGAGTACATCCATGGAATTCATAATATGTTTATGAATTACCATTTC
99281 GGCACTTTAG
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
137 3 0.03
138 94 0.95
139 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (138 bp):
TTATCGATCGATTTTCATTAATGAATAACGGTGCATTTTCATATTAGTACTATATGTACTTTCGA
CACTATGAGTACATCCATGGAATTCATAATATGTTTATGAATTACCATTTCTATATACAATTATG
TATAAAAA
Found at i:101489 original size:2 final size:2
Alignment explanation
Indices: 101482--101510 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
101472 TTTCGTAAAT
101482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101511 GTAGATTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111160 original size:12 final size:12
Alignment explanation
Indices: 111143--111174 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
111133 TTGTTTGGTT
111143 AATAATGATAAG
1 AATAATGATAAG
*
111155 AATAATAATAAG
1 AATAATGATAAG
111167 AATAATGA
1 AATAATGA
111175 AATGATATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (12 bp):
AATAATGATAAG
Found at i:111188 original size:6 final size:6
Alignment explanation
Indices: 111179--111294 Score: 232
Period size: 6 Copynumber: 19.3 Consensus size: 6
111169 TAATGAAATG
111179 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
111227 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
111275 ATATGT ATATGT ATATGT AT
1 ATATGT ATATGT ATATGT AT
111295 GTATTTATGT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 110 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:119935 original size:20 final size:20
Alignment explanation
Indices: 119898--119950 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
119888 ATTAGACCCC
*
119898 GAGTATCGATATCCCTTAAAT
1 GAGTATCGATA-CCCTTAAAG
119919 GAGTATCGATACCCTTAAAG
1 GAGTATCGATACCCTTAAAG
119939 GAGTATCGATAC
1 GAGTATCGATAC
119951 TTCATTCACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (20 bp):
GAGTATCGATACCCTTAAAG
Found at i:126162 original size:23 final size:23
Alignment explanation
Indices: 126110--126171 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
126100 AAAAACCAAT
* *
126110 ATAATTAATATTT-TATTTTAAA
1 ATAATTTACATTTATATTTTAAA
* *
126132 ATATTTTACATTTATATTTTTAA
1 ATAATTTACATTTATATTTTAAA
* * *
126155 CTAATTTATAATTATAT
1 ATAATTTACATTTATAT
126172 GTAGAGTACT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (23 bp):
ATAATTTACATTTATATTTTAAA
Found at i:126570 original size:19 final size:19
Alignment explanation
Indices: 126548--126586 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
126538 TTTATTTGTT
126548 TTCTTTTCTT-TTCTTTTTA
1 TTCTTTTCTTATT-TTTTTA
126567 TTCTTTTCTTATTTTTTTA
1 TTCTTTTCTTATTTTTTTA
126586 T
1 T
126587 ATTAGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.08, C:0.13, G:0.00, T:0.79
Consensus pattern (19 bp):
TTCTTTTCTTATTTTTTTA
Found at i:126689 original size:21 final size:22
Alignment explanation
Indices: 126665--126709 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
126655 GTATATACAA
126665 TTATTAGTATTTTT-CTTTATT
1 TTATTAGTATTTTTACTTTATT
** *
126686 TTATTCTTATTTTTATTTTATT
1 TTATTAGTATTTTTACTTTATT
126708 TT
1 TT
126710 GCTCGTTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (22 bp):
TTATTAGTATTTTTACTTTATT
Found at i:126742 original size:9 final size:9
Alignment explanation
Indices: 126718--126836 Score: 61
Period size: 9 Copynumber: 13.1 Consensus size: 9
126708 TTGCTCGTTA
126718 TCTTTATTT
1 TCTTTATTT
**
126727 TGATTATTT
1 TCTTTATTT
126736 TCTTTATTTT
1 TCTTTA-TTT
*
126746 TCTTCATTT
1 TCTTTATTT
126755 T-TTTA-TT
1 TCTTTATTT
126762 TCTTT-TGTT
1 TCTTTAT-TT
*
126771 T-TTTATGT
1 TCTTTATTT
126779 TCTTTATTT
1 TCTTTATTT
* *
126788 TATTTTTTAT
1 TCTTTATT-T
126798 GTCTTT-TCTT
1 -TCTTTAT-TT
*
126808 TATCTTATTT
1 TCT-TTATTT
*
126818 TCCTT-TTT
1 TCTTTATTT
126826 TCATTTATTT
1 TC-TTTATTT
126836 T
1 T
126837 TATTTCCGGG
Statistics
Matches: 82, Mismatches: 15, Indels: 25
0.67 0.12 0.20
Matches are distributed among these distances:
7 3 0.04
8 16 0.20
9 37 0.45
10 20 0.24
11 6 0.07
ACGTcount: A:0.12, C:0.10, G:0.03, T:0.75
Consensus pattern (9 bp):
TCTTTATTT
Found at i:126810 original size:20 final size:21
Alignment explanation
Indices: 126764--126803 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
126754 TTTTTATTTC
*
126764 TTTTGTTTTTTATGTTCTTTA
1 TTTTATTTTTTATGTTCTTTA
126785 TTTTATTTTTTATG-TCTTT
1 TTTTATTTTTTATGTTCTTT
126804 TCTTTATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTTATGTTCTTTA
Found at i:127206 original size:18 final size:17
Alignment explanation
Indices: 127169--127219 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
127159 CAATTCTGTC
127169 ATTTTATATTCTTTATTTT
1 ATTTTAT-TT-TTTATTTT
127188 A-TTTAGTTTTTTATCTTT
1 ATTTTA-TTTTTTAT-TTT
127206 ATTTTATTTTTTAT
1 ATTTTATTTTTTAT
127220 GTCTTTTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.17
18 18 0.62
19 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (17 bp):
ATTTTATTTTTTATTTT
Found at i:127720 original size:17 final size:18
Alignment explanation
Indices: 127698--127746 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
127688 GTTTCAGATT
*
127698 CAGATTTCAATTCC-TGA
1 CAGATTTCAATTCCTTCA
127715 CAGATTTCAATTCCTTCA
1 CAGATTTCAATTCCTTCA
127733 CAGATTTCAATTCC
1 CAGATTTCAATTCC
127747 CTCAGAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.37
Consensus pattern (18 bp):
CAGATTTCAATTCCTTCA
Found at i:131420 original size:16 final size:16
Alignment explanation
Indices: 131401--131454 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
131391 TCTTTTTCTT
131401 GTACTGTTCTTTTACC
1 GTACTGTTCTTTTACC
*
131417 GTACTATTCTTTTACC
1 GTACTGTTCTTTTACC
* * *
131433 GTATTGTTTTATTTACT
1 GTACTGTTCT-TTTACC
131450 GTACT
1 GTACT
131455 ACATTTTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
16 22 0.71
17 9 0.29
ACGTcount: A:0.17, C:0.19, G:0.11, T:0.54
Consensus pattern (16 bp):
GTACTGTTCTTTTACC
Found at i:131471 original size:33 final size:34
Alignment explanation
Indices: 131434--131507 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
131424 TCTTTTACCG
* *
131434 TATTGTTTTATTTACTGTACTACAT-TTTTAATA
1 TATTGTTTCATTTACTGCACTACATATTTTAATA
* * * *
131467 TATTGTATCCTTTACTGCACTATATATTTTACTA
1 TATTGTTTCATTTACTGCACTACATATTTTAATA
131501 TATTGTT
1 TATTGTT
131508 ACTTTGTATT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
33 20 0.61
34 13 0.39
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.55
Consensus pattern (34 bp):
TATTGTTTCATTTACTGCACTACATATTTTAATA
Found at i:134471 original size:18 final size:18
Alignment explanation
Indices: 134448--134482 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
134438 TTCCATCCGG
*
134448 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
134466 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
134483 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:137866 original size:12 final size:12
Alignment explanation
Indices: 137849--137876 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
137839 TTACACTTTT
137849 AGTGTTAGTATG
1 AGTGTTAGTATG
137861 AGTGTTAGTATG
1 AGTGTTAGTATG
137873 AGTG
1 AGTG
137877 AATGTACAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (12 bp):
AGTGTTAGTATG
Found at i:145936 original size:13 final size:13
Alignment explanation
Indices: 145897--145936 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
145887 ATCTAGTATG
145897 CTTTTACATATTA
1 CTTTTACATATTA
* *
145910 TTTTATATATATTA
1 CTTT-TACATATTA
145924 CTTTTACATATTA
1 CTTTTACATATTA
145937 TGTGAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (13 bp):
CTTTTACATATTA
Found at i:146688 original size:30 final size:29
Alignment explanation
Indices: 146652--146848 Score: 145
Period size: 31 Copynumber: 6.7 Consensus size: 29
146642 ATATCTTTAA
*
146652 AAATATATTTTATTTTTATTTTAACTATTT
1 AAATATATTTTATTCTTATTTTAA-TATTT
* **
146682 AAATATATTTTATTATTAAATT-A-ATTT
1 AAATATATTTTATTCTTATTTTAATATTT
* *
146709 AAAAATATTTTATTATTA-TTTAA-ATTT
1 AAATATATTTTATTCTTATTTTAATATTT
* * **
146736 AAAATATACATTTTATTCTTATCTTAGCT-TAA
1 -AAATAT--ATTTTATTCTTATTTTA-ATATTT
*
146768 AAATATATTTTATTCTTATTTTAAATTTTT
1 AAATATATTTTATTCTTATTTT-AATATTT
* *
146798 AAAAAATATTTTATTCTTATTTTAAT-TTCA
1 -AAATATATTTTATTCTTATTTTAATATT-T
146828 AAATATATATTATATTCTTAT
1 AAATATAT-TT-TATTCTTAT
146849 ATGGGCCAAA
Statistics
Matches: 136, Mismatches: 18, Indels: 25
0.76 0.10 0.14
Matches are distributed among these distances:
26 2 0.01
27 26 0.19
28 5 0.04
29 26 0.19
30 37 0.27
31 39 0.29
32 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.56
Consensus pattern (29 bp):
AAATATATTTTATTCTTATTTTAATATTT
Found at i:146810 original size:31 final size:29
Alignment explanation
Indices: 146647--146848 Score: 196
Period size: 30 Copynumber: 6.8 Consensus size: 29
146637 TTTATATATC
*
146647 TTTAAAAATATATTTTATTTTTATTTTAA
1 TTTAAAAATATATTTTATTCTTATTTTAA
* * **
146676 CTATT-TAAATATATTTTATTATTAAATTAA
1 -T-TTAAAAATATATTTTATTCTTATTTTAA
* *
146706 TTT-AAAA-ATATTTTATTATTATTTAAA
1 TTTAAAAATATATTTTATTCTTATTTTAA
* * *
146733 TTTAAAATATACATTTTATTCTTATCTTAG
1 TTTAAAA-ATATATTTTATTCTTATTTTAA
*
146763 CTTAAAAATATATTTTATTCTTATTTTAAA
1 TTTAAAAATATATTTTATTCTTATTTT-AA
146793 TTTTTAAAAA-ATATTTTATTCTTATTTTAA
1 --TTTAAAAATATATTTTATTCTTATTTTAA
*
146823 TTTCAAAATATATATTATATTCTTAT
1 TTT-AAAA-ATATATTTTATTCTTAT
146849 ATGGGCCAAA
Statistics
Matches: 143, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
27 20 0.14
28 11 0.08
29 24 0.17
30 47 0.33
31 34 0.24
32 7 0.05
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTAAAAATATATTTTATTCTTATTTTAA
Found at i:150465 original size:14 final size:15
Alignment explanation
Indices: 150430--150459 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
150420 AAAATGAATT
150430 ACATTTTCTGGAAAA
1 ACATTTTCTGGAAAA
*
150445 ATATTTTCTGGAAAA
1 ACATTTTCTGGAAAA
150460 CGTTTTACGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (15 bp):
ACATTTTCTGGAAAA
Found at i:150795 original size:28 final size:29
Alignment explanation
Indices: 150727--150797 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 29
150717 GTAATAGTGT
150727 TATATT-ATATTTTAAAAATATTAATTAG
1 TATATTAATATTTTAAAAATATTAATTAG
150755 TATATTTGAAATATTTTAAAAATATTAGATTA-
1 TATA-TT--AATATTTTAAAAATATTA-ATTAG
150787 T-TATTAATATT
1 TATATTAATATT
150798 AAATATATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
28 10 0.26
29 2 0.05
30 2 0.05
31 2 0.05
32 18 0.47
33 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (29 bp):
TATATTAATATTTTAAAAATATTAATTAG
Found at i:150929 original size:8 final size:8
Alignment explanation
Indices: 150918--151024 Score: 66
Period size: 8 Copynumber: 14.0 Consensus size: 8
150908 ATATAATATC
*
150918 TTATATTA
1 TTATAATA
150926 TTATAATA
1 TTATAATA
* *
150934 TAAT-TTA
1 TTATAATA
** *
150941 TTATTTTG
1 TTATAATA
150949 TTATAATA
1 TTATAATA
150957 TTATAATA
1 TTATAATA
150965 TTA-AA-A
1 TTATAATA
*
150971 ATATAATA
1 TTATAATA
*
150979 TTATATTA
1 TTATAATA
150987 TTATAAATA
1 TTAT-AATA
150996 TTAATAA-A
1 TT-ATAATA
151004 -TAT-ATA
1 TTATAATA
151010 TTA-AATA
1 TTATAATA
*
151017 TTTTAATA
1 TTATAATA
151025 AGTAATATTT
Statistics
Matches: 77, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
5 1 0.01
6 6 0.08
7 17 0.22
8 44 0.57
9 7 0.09
10 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (8 bp):
TTATAATA
Found at i:150937 original size:23 final size:23
Alignment explanation
Indices: 150907--151012 Score: 75
Period size: 23 Copynumber: 4.8 Consensus size: 23
150897 TTAAAATAAA
*
150907 AATATAATATCTTATATTATTAT
1 AATATAATATATTATATTATTAT
* * *
150930 AATATAATTTATTATTTTGTTAT
1 AATATAATATATTATATTATTAT
*
150953 AATAT--TATA--ATATTA--AA
1 AATATAATATATTATATTATTAT
150970 AATATAATAT--TATATTATTAT
1 AATATAATATATTATATTATTAT
*
150991 AAATATTAATAAATATATATTA
1 -AATA-TAATATAT-TATATTA
151013 AATATTTTAA
Statistics
Matches: 63, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
17 6 0.10
19 13 0.21
21 4 0.06
22 4 0.06
23 29 0.46
26 7 0.11
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (23 bp):
AATATAATATATTATATTATTAT
Found at i:150977 original size:14 final size:15
Alignment explanation
Indices: 150958--151013 Score: 62
Period size: 14 Copynumber: 3.7 Consensus size: 15
150948 GTTATAATAT
150958 TATAATATTAA-AAA
1 TATAATATTAATAAA
* *
150972 TATAATATTATATTAT
1 TATAATATTA-ATAAA
150988 TATAAATATTAATAAA
1 TAT-AATATTAATAAA
151004 TAT-ATATTAA
1 TATAATATTAA
151014 ATATTTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 17 0.49
15 1 0.03
16 10 0.29
17 7 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATAATATTAATAAA
Found at i:150978 original size:22 final size:22
Alignment explanation
Indices: 150950--151014 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 22
150940 ATTATTTTGT
150950 TATAATATTATAATATTAAAAA
1 TATAATATTATAATATTAAAAA
* *
150972 TATAATATTATATTATTATAAA
1 TATAATATTATAATATTAAAAA
*
150994 TATTAATA-AATATATATTAAA
1 TA-TAATATTATA-ATATTAAA
151015 TATTTTAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 25 0.69
23 11 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATAATATTATAATATTAAAAA
Found at i:150999 original size:31 final size:30
Alignment explanation
Indices: 150890--151012 Score: 103
Period size: 31 Copynumber: 4.1 Consensus size: 30
150880 TAATTTATTA
150890 TATATTATTA-AA-ATAA-AAATATAATATCT
1 TATATTATTATAATATAATAAATATAATA--T
* * ** *
150919 TATATTATTATAATATAATTTATTATTTTGT
1 TATATTATTATAATATAA-TAAATATAATAT
*
150950 TATAATATTATAATATTAA-AAATATAATAT
1 TATATTATTATAATA-TAATAAATATAATAT
150980 TATATTATTATAAATATTAATAAATAT-ATAT
1 TATATTATTAT-AATA-TAATAAATATAATAT
151011 TA
1 TA
151013 AATATTTTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
29 10 0.13
30 18 0.24
31 33 0.44
32 9 0.12
33 5 0.07
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (30 bp):
TATATTATTATAATATAATAAATATAATAT
Found at i:151450 original size:9 final size:9
Alignment explanation
Indices: 151436--151460 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
151426 GTCAATATTT
151436 AAAAAATTA
1 AAAAAATTA
151445 AAAAAATTA
1 AAAAAATTA
151454 AAAAAAT
1 AAAAAAT
151461 GACACATCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATTA
Found at i:153287 original size:50 final size:49
Alignment explanation
Indices: 153187--153287 Score: 112
Period size: 50 Copynumber: 2.0 Consensus size: 49
153177 TTTAATAAAA
* * * **
153187 AAAATTATATTTTATTTAAACTCATCACCTCAGCATGTTGAATTCGAAT
1 AAAATTATATTTTATTAAAACTCATCACATCACCATGACGAATTCGAAT
* * * *
153236 AAAATATATTTTTTATTAAAATTCATCACATCACCATGACGAGTTCTAAT
1 AAAAT-TATATTTTATTAAAACTCATCACATCACCATGACGAATTCGAAT
153286 AA
1 AA
153288 CATTGTAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 5 0.12
50 37 0.88
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (49 bp):
AAAATTATATTTTATTAAAACTCATCACATCACCATGACGAATTCGAAT
Found at i:153623 original size:56 final size:57
Alignment explanation
Indices: 153537--153649 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 57
153527 TTGTAACCAA
* *
153537 GTCTCCCATTTCGCTGCCACGTTTACACCGGAGTTGGTGGAGTCAAGAGAGA-AAGG
1 GTCTCCCATTTCGCCGCCACGTTTACACCGGAGTCGGTGGAGTCAAGAGAGAGAAGG
* * * *
153593 GTCTCTCATTTCGCCGTCACGTTTATACCGGAGTCGGTGGAGTCTAGAGAGAGAAGG
1 GTCTCCCATTTCGCCGCCACGTTTACACCGGAGTCGGTGGAGTCAAGAGAGAGAAGG
153650 AATCACTCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
56 46 0.92
57 4 0.08
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (57 bp):
GTCTCCCATTTCGCCGCCACGTTTACACCGGAGTCGGTGGAGTCAAGAGAGAGAAGG
Found at i:155457 original size:28 final size:28
Alignment explanation
Indices: 155421--155484 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
155411 GAAAATAATA
155421 TATTATA-TTACATTAATTAATATTTTAG
1 TATTATATTTA-ATTAATTAATATTTTAG
* * * *
155449 TATTTTATTTAATTATTTTATATTTTTG
1 TATTATATTTAATTAATTAATATTTTAG
155477 TAGTTATA
1 TA-TTATA
155485 AAATGGAAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (28 bp):
TATTATATTTAATTAATTAATATTTTAG
Found at i:155460 original size:20 final size:20
Alignment explanation
Indices: 155437--155474 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
155427 ATTACATTAA
155437 TTAA-TATTTTAGTATTTTAT
1 TTAATTATTTTA-TATTTTAT
155457 TTAATTATTTTATATTTT
1 TTAATTATTTTATATTTT
155475 TGTAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
TTAATTATTTTATATTTTAT
Found at i:157241 original size:27 final size:27
Alignment explanation
Indices: 157188--157254 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
157178 GCAGTCATAT
* *
157188 CAGATATCGCCACCGTCATTCATATTC
1 CAGATACCGCCACCGTCATTCACATTC
** *
157215 CAGATACCGCCACCGTTGTTCCCATTC
1 CAGATACCGCCACCGTCATTCACATTC
*
157242 CAGATGCCGCCAC
1 CAGATACCGCCAC
157255 TGCAACAGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.39, G:0.15, T:0.24
Consensus pattern (27 bp):
CAGATACCGCCACCGTCATTCACATTC
Found at i:157572 original size:3 final size:3
Alignment explanation
Indices: 157566--157612 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
157556 GGACGACGAC
** *
157566 GAT GAT GAT GAT GAT GAT GAT GGC GAT GAT GAT GAT GAT GGT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
157613 CAGTGAGGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.30, C:0.02, G:0.38, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:160351 original size:16 final size:16
Alignment explanation
Indices: 160330--160362 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
160320 TAACTCACCA
160330 TTAATTATTGATGAGT
1 TTAATTATTGATGAGT
*
160346 TTAATTATTGATTAGT
1 TTAATTATTGATGAGT
160362 T
1 T
160363 AAATCCATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (16 bp):
TTAATTATTGATGAGT
Found at i:161723 original size:30 final size:30
Alignment explanation
Indices: 161687--161780 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
161677 ATCAAAGATA
* *
161687 AGAGGATTGATGGGTGATGTTTATGGGTTG
1 AGAGGATTGATGTGTGATGTTTACGGGTTG
* *
161717 AGAGGATTGTTGTGTGATGTTTACGAGTTG
1 AGAGGATTGATGTGTGATGTTTACGGGTTG
* *
161747 AGAGGATTGCTGTGTGATGTTTACAGGTTG
1 AGAGGATTGATGTGTGATGTTTACGGGTTG
161777 AGAG
1 AGAG
161781 CGTATTATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.21, C:0.03, G:0.39, T:0.36
Consensus pattern (30 bp):
AGAGGATTGATGTGTGATGTTTACGGGTTG
Found at i:166156 original size:17 final size:17
Alignment explanation
Indices: 166134--166167 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
166124 TTCATATATT
166134 ATACTAAATATATCTAA
1 ATACTAAATATATCTAA
* *
166151 ATACTAAGTATTTCTAA
1 ATACTAAATATATCTAA
166168 GCGAGTCTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (17 bp):
ATACTAAATATATCTAA
Found at i:166706 original size:41 final size:40
Alignment explanation
Indices: 166664--166858 Score: 286
Period size: 41 Copynumber: 4.8 Consensus size: 40
166654 CTGCATTTCG
* *
166664 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCG-
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTT-ACAGT-GT
* * *
166705 CGTTGCGGTTTTTCATTTCCCGTTGCGATAG-TACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTACAGTGT
166744 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TACAGTGT
*
166785 CGTTGCGGTTTTCCATTTCGCGTTGCGATAGTCTACAGTGT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TACAGTGT
166826 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTT
166859 TTAAAAATGG
Statistics
Matches: 141, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 31 0.22
40 2 0.01
41 107 0.76
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.39
Consensus pattern (40 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTACAGTGT
Found at i:166790 original size:21 final size:21
Alignment explanation
Indices: 166764--166834 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
166754 TTCCATTTCG
166764 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
* * * *
166785 CGTTGCGGT--TTTCCA-TTT
1 CGTTGCGATAGTCTACAGTGT
166803 CGCGTTGCGATAGTCTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
166826 CGTTGCGAT
1 CGTTGCGAT
166835 TTTCCATTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
18 2 0.05
19 4 0.11
20 8 0.22
21 17 0.46
22 4 0.11
23 2 0.05
ACGTcount: A:0.14, C:0.21, G:0.28, T:0.37
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTGT
Found at i:166802 original size:80 final size:81
Alignment explanation
Indices: 166664--166858 Score: 306
Period size: 80 Copynumber: 2.4 Consensus size: 81
166654 CTGCATTTCG
*
166664 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGGTTTTTCATTTCCCGTT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGGTTTTCCATTTCCCGTT
166729 GCGATAG-TACAGTGT
66 GCGATAGCTACAGTGT
* * *
166744 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTCT-ACAGT-GTCGTTGCGGTTTTCCATTTCGCG
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGGTTTTCCATTTCCCG
166807 TTGCGATAGTCTACAGTGT
64 TTGCGATAG-CTACAGTGT
166826 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTT
1 CGTTGCGATTTTCCATTTCGCGTTGCGATAGTT
166859 TTAAAAATGG
Statistics
Matches: 107, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
79 1 0.01
80 64 0.60
81 2 0.02
82 40 0.37
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.39
Consensus pattern (81 bp):
CGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGGTTTTCCATTTCCCGTT
GCGATAGCTACAGTGT
Found at i:167711 original size:6 final size:6
Alignment explanation
Indices: 167690--167732 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
167680 TCTCGTCTCG
167690 GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
167733 AATACGTGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.00, C:0.16, G:0.53, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:167872 original size:41 final size:41
Alignment explanation
Indices: 167815--167967 Score: 270
Period size: 41 Copynumber: 3.7 Consensus size: 41
167805 CATTTTTAAA
* * *
167815 ACTATCGCAGCGCGAAATGGAAAATCACAACGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTAG
167856 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTAG
167897 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTAG
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTAG
*
167938 ACTATCGCAACGCGAAATGGAAAACCGCAA
1 ACTATCGCAACGCGAAATGGAAAATCGCAA
167968 CGCGAAATGG
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 108 1.00
ACGTcount: A:0.40, C:0.24, G:0.22, T:0.15
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAATGACACTGTAG
Found at i:167905 original size:21 final size:21
Alignment explanation
Indices: 167879--167947 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
167869 GAAATGGAAA
167879 ATCGCAATGACACTGTAGACT
1 ATCGCAATGACACTGTAGACT
* * **
167900 ATCGCAACG-CGAAATG--GAAA
1 ATCGCAATGAC--ACTGTAGACT
167920 ATCGCAATGACACTGTAGACT
1 ATCGCAATGACACTGTAGACT
167941 ATCGCAA
1 ATCGCAA
167948 CGCGAAATGG
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
19 3 0.09
20 11 0.31
21 18 0.51
22 3 0.09
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (21 bp):
ATCGCAATGACACTGTAGACT
Found at i:168003 original size:61 final size:61
Alignment explanation
Indices: 167902--168033 Score: 160
Period size: 61 Copynumber: 2.2 Consensus size: 61
167892 TGTAGACTAT
* * *
167902 CGCAACGCGAAATGGAAAATCGCAATGACACTGTAGACTATCGCAACGCGAAATGGAAAAC
1 CGCAACGCGAAATGGAAAACCGCAACGACACTGTAGACTATCGCAACGCAAAATGGAAAAC
* * * *
167963 CGCAACGCGAAATGGAAAACCGCAACG-CGATTTTCA-ACTATCGTAACGCAAAATGGAAAAT
1 CGCAACGCGAAATGGAAAACCGCAACGAC-ACTGT-AGACTATCGCAACGCAAAATGGAAAAC
*
168024 CTCAACGCGA
1 CGCAACGCGA
168034 TTTTCAACTA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
60 1 0.02
61 59 0.97
62 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.14
Consensus pattern (61 bp):
CGCAACGCGAAATGGAAAACCGCAACGACACTGTAGACTATCGCAACGCAAAATGGAAAAC
Found at i:168017 original size:41 final size:41
Alignment explanation
Indices: 167961--168058 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
167951 GAAATGGAAA
167961 ACCGCAACGCGAAATGGAAAACCGCAACGCGATTTTCAACT
1 ACCGCAACGCGAAATGGAAAACCGCAACGCGATTTTCAACT
* * * * *
168002 ATCGTAACGCAAAATGGAAAATCTCAACGCGATTTTCAACT
1 ACCGCAACGCGAAATGGAAAACCGCAACGCGATTTTCAACT
168043 ACCGCAACGCGAAATG
1 ACCGCAACGCGAAATG
168059 CAGCGCGAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.38, C:0.27, G:0.18, T:0.17
Consensus pattern (41 bp):
ACCGCAACGCGAAATGGAAAACCGCAACGCGATTTTCAACT
Found at i:168049 original size:102 final size:102
Alignment explanation
Indices: 167861--168058 Score: 233
Period size: 102 Copynumber: 1.9 Consensus size: 102
167851 TGTAGACTAT
* * *
167861 CGCAACGCGAAATGGAAAATCGCAATGACACTGTAGACTATCGCAACGCGAAATGGAAAATCGCA
1 CGCAACGCGAAATGGAAAACCGCAACGACACTGTAGACTATCGCAACGCAAAATGGAAAATCGCA
* *
167926 ATGACACTGTAGACTATCGCAACGCGAAATGGAAAAC
66 ACGACACTGTAGACTACCGCAACGCGAAATGGAAAAC
* * * *
167963 CGCAACGCGAAATGGAAAACCGCAACG-CGATTTTCA-ACTATCGTAACGCAAAATGGAAAATCT
1 CGCAACGCGAAATGGAAAACCGCAACGAC-ACTGT-AGACTATCGCAACGCAAAATGGAAAATCG
* *
168026 CAACG-CGATTTTCA-ACTACCGCAACGCGAAATG
64 CAACGAC-ACTGT-AGACTACCGCAACGCGAAATG
168059 CAGCGCGAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
101 2 0.02
102 77 0.95
103 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (102 bp):
CGCAACGCGAAATGGAAAACCGCAACGACACTGTAGACTATCGCAACGCAAAATGGAAAATCGCA
ACGACACTGTAGACTACCGCAACGCGAAATGGAAAAC
Found at i:174429 original size:3 final size:3
Alignment explanation
Indices: 174411--174469 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
174401 TCTACAAAAA
* * *
174411 TAT TAT AAT ATAT TAT TAT TAT TAT TAT TAT TTT TAT TAA T-T TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
174456 ATAT TAT AAT TAT T
1 -TAT TAT TAT TAT T
174470 TTTCGGGCCC
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
2 1 0.02
3 39 0.87
4 5 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:175946 original size:3 final size:3
Alignment explanation
Indices: 175940--175970 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
175930 TTATTTCACC
*
175940 TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
175971 CTTAATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:178913 original size:2 final size:2
Alignment explanation
Indices: 178901--178942 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
178891 TCATTTATCC
*
178901 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
178943 CCCTTGTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:179173 original size:16 final size:17
Alignment explanation
Indices: 179144--179192 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
179134 AGAAAAAAAG
179144 ATAAAAACAAAGAGAAA
1 ATAAAAACAAAGAGAAA
*
179161 ATAAAAA-AGAGAG-AA
1 ATAAAAACAAAGAGAAA
*
179176 ACAAAAACAAAG-GAAA
1 ATAAAAACAAAGAGAAA
179192 A
1 A
179193 AGTGAAGACA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 11 0.41
17 7 0.26
ACGTcount: A:0.76, C:0.06, G:0.14, T:0.04
Consensus pattern (17 bp):
ATAAAAACAAAGAGAAA
Found at i:186341 original size:51 final size:51
Alignment explanation
Indices: 186274--186383 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
186264 AGGATTCAAT
* *
186274 TTATTATTTTAATAGGAATTAAGA-AATAGT-TAAAACATTAT-TTTTAGTTTA
1 TTATTATTTTAATAGGAACTAAGATAA-AATCT-AAACATTATCTTTT-GTTTA
* *
186325 TTATTATTTTATTAGGAACTAGGATAAAATCTAAACATTATCTTTTGTTTA
1 TTATTATTTTAATAGGAACTAAGATAAAATCTAAACATTATCTTTTGTTTA
186376 TTATTATT
1 TTATTATT
186384 ATTTCTATTC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
51 45 0.87
52 7 0.13
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (51 bp):
TTATTATTTTAATAGGAACTAAGATAAAATCTAAACATTATCTTTTGTTTA
Found at i:188082 original size:21 final size:21
Alignment explanation
Indices: 188056--188099 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
188046 TTAGGAACCC
188056 GTACTTGTTTGATTCTAAAAA
1 GTACTTGTTTGATTCTAAAAA
188077 GTACTTGTTTGATTCTAAAAA
1 GTACTTGTTTGATTCTAAAAA
188098 GT
1 GT
188100 TTTCTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (21 bp):
GTACTTGTTTGATTCTAAAAA
Found at i:188792 original size:3 final size:3
Alignment explanation
Indices: 188784--188820 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
188774 TCATACCTCT
*
188784 TTC TTC TTC TTG TTC TT- TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
188821 GTTTCCTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:188805 original size:17 final size:17
Alignment explanation
Indices: 188783--188817 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
188773 TTCATACCTC
*
188783 TTTCTTCTTCTTGTTCT
1 TTTCTTCTTCTTCTTCT
188800 TTTCTTCTTCTTCTTCT
1 TTTCTTCTTCTTCTTCT
188817 T
1 T
188818 CTTGTTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTCTTCTTCTTCTTCT
Found at i:191420 original size:13 final size:13
Alignment explanation
Indices: 191402--191426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
191392 TCAACACCCT
191402 AAACCCAAATCCG
1 AAACCCAAATCCG
191415 AAACCCAAATCC
1 AAACCCAAATCC
191427 TCTAAAATCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.40, G:0.04, T:0.08
Consensus pattern (13 bp):
AAACCCAAATCCG
Found at i:192204 original size:35 final size:35
Alignment explanation
Indices: 192125--192356 Score: 183
Period size: 36 Copynumber: 6.7 Consensus size: 35
192115 ATACTAAAAA
** * *
192125 TAAAAACTATATATTATATGTTTTCAATACCATTTT
1 TAAAAACTATATATTATACATTTTCAAAATCA-TTT
*
192161 TAAAAACTATATATTATACATTTTCAAAATTATTT
1 TAAAAACTATATATTATACATTTTCAAAATCATTT
* *
192196 TAAAAAC----TATTATACATTTTTTAAAATTATTT
1 TAAAAACTATATATTATACA-TTTTCAAAATCATTT
* * * *
192228 TAAAAAACTACATACTATATATTTTCAAAACCATTT
1 T-AAAAACTATATATTATACATTTTCAAAATCATTT
** *
192264 TAAAAA--ACTATATTATATGTTTTCAAAATTATTT
1 TAAAAACTA-TATATTATACATTTTCAAAATCATTT
* * *
192298 TAAAAACTATATACTAT--ATGTTTAAAAATCGTTT
1 TAAAAACTATATATTATACAT-TTTCAAAATCATTT
* *
192332 TAAAAAACTATATATTTTACGTTTT
1 T-AAAAACTATATATTATACATTTT
192357 TAACACTATA
Statistics
Matches: 159, Mismatches: 24, Indels: 26
0.76 0.11 0.12
Matches are distributed among these distances:
31 9 0.06
32 15 0.09
33 8 0.05
34 39 0.25
35 36 0.23
36 44 0.28
37 8 0.05
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (35 bp):
TAAAAACTATATATTATACATTTTCAAAATCATTT
Found at i:192252 original size:68 final size:70
Alignment explanation
Indices: 192126--192347 Score: 247
Period size: 68 Copynumber: 3.2 Consensus size: 70
192116 TACTAAAAAT
* * ** * *
192126 AAAAACTATATATTATATGTTTTCAATACCATTTTTAAAAACTATATATTATACATTTTCAAAAT
1 AAAAACTAT-TATTACATGTTTTCAAAATTA-TTTTAAAAACTATATACTATATATTTTCAAAAT
*
192191 TATTTT-
64 CATTTTA
* * *
192197 AAAAACTATTA-TACAT-TTTTTAAAATTATTTTAAAAAACTACATACTATATATTTTCAAAACC
1 AAAAACTATTATTACATGTTTTCAAAATTATTTT-AAAAACTATATACTATATATTTTCAAAATC
192260 ATTTTA
65 ATTTTA
* * * *
192266 AAAAACTA-TATTATATGTTTTCAAAATTATTTTAAAAACTATATACTATAT-GTTTAAAAATCG
1 AAAAACTATTATTACATGTTTTCAAAATTATTTTAAAAACTATATACTATATATTTTCAAAATCA
192329 TTTTA
66 TTTTA
192334 AAAAACTATATATT
1 AAAAACTAT-TATT
192348 TTACGTTTTT
Statistics
Matches: 128, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
67 4 0.03
68 61 0.48
69 33 0.26
70 21 0.16
71 9 0.07
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (70 bp):
AAAAACTATTATTACATGTTTTCAAAATTATTTTAAAAACTATATACTATATATTTTCAAAATCA
TTTTA
Found at i:192253 original size:104 final size:104
Alignment explanation
Indices: 192126--192341 Score: 294
Period size: 104 Copynumber: 2.1 Consensus size: 104
192116 TACTAAAAAT
* * * * *
192126 AAAAACTATATATTATATGTTTTCAATACCATTTTTAAAAACTATATATTATACATTTTCAAAAT
1 AAAAACTACATACTATATATTTTCAAAACCATTTTAAAAAAC--TATATTATACATTTTCAAAAT
* *
192191 TATTTTAAAAACTATTATAC-AT-T-TTTTAAAATTATTTTA
64 TATTTTAAAAACTA-TATACTATATGTTTAAAAATCATTTTA
**
192230 AAAAACTACATACTATATATTTTCAAAACCATTTTAAAAAACTATATTATATGTTTTCAAAATTA
1 AAAAACTACATACTATATATTTTCAAAACCATTTTAAAAAACTATATTATACATTTTCAAAATTA
*
192295 TTTTAAAAACTATATACTATATGTTTAAAAATCGTTTTA
66 TTTTAAAAACTATATACTATATGTTTAAAAATCATTTTA
192334 AAAAACTA
1 AAAAACTA
192342 TATATTTTAC
Statistics
Matches: 99, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
101 5 0.05
102 35 0.35
103 1 0.01
104 58 0.59
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (104 bp):
AAAAACTACATACTATATATTTTCAAAACCATTTTAAAAAACTATATTATACATTTTCAAAATTA
TTTTAAAAACTATATACTATATGTTTAAAAATCATTTTA
Found at i:197628 original size:258 final size:258
Alignment explanation
Indices: 197162--197640 Score: 550
Period size: 258 Copynumber: 1.9 Consensus size: 258
197152 TCGATTCAGT
* * * * *
197162 TGGTTGTACCACCGGATGGCTGAACCAGACGGACTCTCCTGGAAATAATTAATCAGGAGTTGGTC
1 TGGTTGTACCACCGGATAGCTGAACCAGACGGACTCTCCTAGAAACAATGAATCAGAAGTTGGTC
* * * * * * * * *
197227 GTTTCCTACGTATCCTGTCATCTTTCGATAGAACATGGTAATGTGGGCTGAAGGGCAGCTGTTCC
66 ATTTCCCACATATCCTGTCATCTTCCGACAGAACATAGTAATATGAGCTGAAGGGCAACTGTTCC
* * * * * *
197292 CATCGAATTTCTCAAACTCGTGGGATTTGAATTTCGGAGGAAGAAACAAATCTGGGACTAAACTT
131 CATCAAACTTCTCAAACTCGCGAGATTTGAATTTCGGAGGAAGAAACAAATCTGGGACCAAACTC
* **
197357 AGTTCTGTTGCATCAACTCCATAGTAATCATTGTCTCCCTAAACCATCTACATTTGGATGAGC
196 AGCTCCATTGCATCAACTCCATAGTAATCATTGTCTCCCTAAACCATCTACATTTGGATGAGC
* * * * *
197420 TGGTTGTACCACCGGATAGCTGAACCGGACATG-CTCTCCTAGAAGCAATGGATGAGAAGTTGGT
1 TGGTTGTACCACCGGATAGCTGAACCAGAC-GGACTCTCCTAGAAACAATGAATCAGAAGTTGGT
* *
197484 CATTTCCCCCATATCCTGTCATCTTCCGACAGAACATAGTGATATGAGCTGAAGGGCAACTGTTC
65 CATTTCCCACATATCCTGTCATCTTCCGACAGAACATAGTAATATGAGCTGAAGGGCAACTGTTC
* * * * ** * *
197549 CCGTCAAACTTCTCGAACTC-CGAGACTTTGAATTTTGGTGGAATCACCAAATC-GGGAACCAGA
130 CCATCAAACTTCTCAAACTCGCGAGA-TTTGAATTTCGGAGGAAGAAACAAATCTGGG-ACCAAA
* *
197612 CTCAGCTCCATTGCATCCACTCCGTAGTA
193 CTCAGCTCCATTGCATCAACTCCATAGTA
197641 GTCGTGGACT
Statistics
Matches: 178, Mismatches: 40, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
257 6 0.03
258 171 0.96
259 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (258 bp):
TGGTTGTACCACCGGATAGCTGAACCAGACGGACTCTCCTAGAAACAATGAATCAGAAGTTGGTC
ATTTCCCACATATCCTGTCATCTTCCGACAGAACATAGTAATATGAGCTGAAGGGCAACTGTTCC
CATCAAACTTCTCAAACTCGCGAGATTTGAATTTCGGAGGAAGAAACAAATCTGGGACCAAACTC
AGCTCCATTGCATCAACTCCATAGTAATCATTGTCTCCCTAAACCATCTACATTTGGATGAGC
Found at i:201539 original size:27 final size:27
Alignment explanation
Indices: 201508--201559 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
201498 AAAAAGGTAA
201508 AGAAAAGAAA-ATAACAA-AAATAAAAAT
1 AGAAAA-AAACATAA-AATAAATAAAAAT
201535 AGAAAAAAACATAAAATAAATAAAA
1 AGAAAAAAACATAAAATAAATAAAA
201560 GAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.12
Consensus pattern (27 bp):
AGAAAAAAACATAAAATAAATAAAAAT
Found at i:203761 original size:12 final size:13
Alignment explanation
Indices: 203744--203772 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
203734 TTTCTTTTAT
203744 TTTTTAAA-ATAA
1 TTTTTAAATATAA
203756 TTTTTAAATATAA
1 TTTTTAAATATAA
203769 TTTT
1 TTTT
203773 AAAGGATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTTTAAATATAA
Found at i:212947 original size:20 final size:20
Alignment explanation
Indices: 212922--212973 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
212912 TAGCATAGTA
212922 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
212942 GTATCGATACCATGGTAAGG
1 GTATCGATACCATGGTAAGG
*
212962 GTATCAATACCA
1 GTATCGATACCA
212974 AGCAACATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (20 bp):
GTATCGATACCATGGTAAGG
Found at i:213048 original size:115 final size:113
Alignment explanation
Indices: 212829--213063 Score: 294
Period size: 115 Copynumber: 2.1 Consensus size: 113
212819 TGACGAGATA
* * * * * *
212829 GTATCGATACCATGTTAAGGGTATCGATACTAGGAAATCATCATCTAAAACTGGTATTGATACCA
1 GTATCGATACCATGGTAAGGGTATCAATACCAAGAAATCATCAACTAAAACTGGTATCGATACCA
* * *
212894 GAAGGGGTATCAGTACCATAGCATAGTAGTATCGATACCATGGTAAG-G
66 AAAGGGGTATCAGTACCATAGCATAGAAGTATCGATACCAAGGT-AGTG
* *
212942 GTATCGATACCATGGTAAGGGTATCAATACCAAGCAA-CATCGAAACTAAAATTGGTATCGATAC
1 GTATCGATACCATGGTAAGGGTATCAATACCAAGAAATCATC--AACTAAAACTGGTATCGATAC
* * *
213006 CAAAAGGGGGTATCGGTACCATAGTATAGAAGTATCGGTACCAAGGTAGTG
64 CAAAA-GGGGTATCAGTACCATAGCATAGAAGTATCGATACCAAGGTAGTG
213057 GTATCGA
1 GTATCGA
213064 ACTATTGAGC
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
112 4 0.04
113 32 0.31
114 24 0.23
115 44 0.42
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (113 bp):
GTATCGATACCATGGTAAGGGTATCAATACCAAGAAATCATCAACTAAAACTGGTATCGATACCA
AAAGGGGTATCAGTACCATAGCATAGAAGTATCGATACCAAGGTAGTG
Found at i:213446 original size:58 final size:57
Alignment explanation
Indices: 213384--213553 Score: 202
Period size: 59 Copynumber: 3.0 Consensus size: 57
213374 ATTACCAAAT
* **
213384 GGCACTAAGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTTTGTATTG
1 GGCACTATGTGTGCAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* *
213442 GGCACTTTGTGTGCTAAAAGGTTAAGAAATTCATACTAAGTGTATTAATTTCCGTATTG
1 GGCACTATGTGTGC-AAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* * * *
213501 GGCACTATGTATGCGAAA--TAAGAAATTCATA-TCAATTGTATAAATTTCCGTAT
1 GGCACTATGTGTGCAAAAGTTAAGAAATTCATACT-AAGTGTATGAATTTCCGTAT
213554 GGGAAATATA
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.01
55 31 0.31
58 15 0.15
59 52 0.53
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (57 bp):
GGCACTATGTGTGCAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
Found at i:213969 original size:68 final size:68
Alignment explanation
Indices: 213767--214285 Score: 799
Period size: 68 Copynumber: 7.6 Consensus size: 68
213757 GATTAATAGA
* * * * *
213767 CCTAACTGTGCATTTGATAGAAAGGTGTCATTTATGCTAGGTAGATGAAAGGCCAAGTACCTTTA
1 CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTGCCTTTG
213832 AGG
66 AGG
* * *
213835 CCTAATTGTGCATTTGACAGAAAGCTATCATTTA--CACAGTTAGATGAAAGGCCAAGTGCCTTT
1 CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGC-CAGTTAGATGAAAGGCCAAGTGCCTTT
213898 GAGG
65 GAGG
* * * * *
213902 CCTAACTATGCATTTGACAGAAATGTGGCATTTATGCGAGTTAGATGAAAGGCCAAGTTCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTGCCTTTG
213967 AGG
66 AGG
*
213970 CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCCAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTGCCTTTG
214035 AGG
66 AGG
* * *
214038 CCTAACTATGCATTTGACAGAAATGTGTCATTTATTCCAGTTAGATGAAAGGCCAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTGCCTTTG
214103 AGG
66 AGG
* * * *
214106 CCTAACTGTGCATTTGACATAAAGGTGCCATTTATACCAGTTAGATGAAAGGCCAAGTGCCTTTA
1 CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTGCCTTTG
214171 AGG
66 AGG
* *
214174 CCTAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTGCCTTTG
214239 AGG
66 AGG
*
214242 CCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAG
1 CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAG
214286 GTAAATGGGT
Statistics
Matches: 409, Mismatches: 39, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
66 1 0.00
67 55 0.13
68 352 0.86
69 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (68 bp):
CCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCCAAGTGCCTTTG
AGG
Done.