Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003517.1 Hibiscus syriacus cultivar Beakdansim tig00007435_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: 133176
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:3628 original size:21 final size:21
Alignment explanation
Indices: 3602--3644 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
3592 TCGCTTCTTC
3602 TTCGTAAGCTGATATTTCCTT
1 TTCGTAAGCTGATATTTCCTT
3623 TTCGTAAGCTGATATTTCCTT
1 TTCGTAAGCTGATATTTCCTT
3644 T
1 T
3645 GTCAAAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (21 bp):
TTCGTAAGCTGATATTTCCTT
Found at i:4538 original size:154 final size:154
Alignment explanation
Indices: 4244--4566 Score: 511
Period size: 154 Copynumber: 2.1 Consensus size: 154
4234 GCTGTCCAAA
* ** *
4244 GGTTTGCTTGATGGATGTTCATTGGCTTCTCGACTGGCCATATTGACATCCTGTTCTGTCTAGTG
1 GGTTTGC-TCATGGATGTTCATTGGCTTCTCGACTACCCATATTGACATCCTGATCTGTCTAGTG
** * * *
4309 ATCACCAGTTTGTCAGCCTTGCAACCTTGGTTGCTTGAGGTCCTTTCTGACTCGGTAATTGGTAT
65 ATCACCAGTTTGTCAGCCTTGCAACCTAAGTTGCTTGAGGTCCTTTCCGACTCGATAACTGGTAT
* *
4374 TTGGCAGCTACTTGCAGTGCCAGTT
130 TTGGAAGCTACTTGCAGTGCCAGGT
*
4399 GGTTTGCTCATGTATGTTCATTGGCTTCTCGACTACCCATATTGACATCCTGATCTGTCTAGTGA
1 GGTTTGCTCATGGATGTTCATTGGCTTCTCGACTACCCATATTGACATCCTGATCTGTCTAGTGA
*
4464 TCACCTGTTTGTCAGCCTTGCAACCTAAGTTGCTTGAGGTCCTTTCCGACTCGATAACTGGTATT
66 TCACCAGTTTGTCAGCCTTGCAACCTAAGTTGCTTGAGGTCCTTTCCGACTCGATAACTGGTATT
4529 TGGAAGCTACTTGCAGTGCCAGGT
131 TGGAAGCTACTTGCAGTGCCAGGT
4553 GGTTTGCTCCATGG
1 GGTTTGCT-CATGG
4567 TCATGCTGAG
Statistics
Matches: 153, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
154 142 0.93
155 11 0.07
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.36
Consensus pattern (154 bp):
GGTTTGCTCATGGATGTTCATTGGCTTCTCGACTACCCATATTGACATCCTGATCTGTCTAGTGA
TCACCAGTTTGTCAGCCTTGCAACCTAAGTTGCTTGAGGTCCTTTCCGACTCGATAACTGGTATT
TGGAAGCTACTTGCAGTGCCAGGT
Found at i:10546 original size:20 final size:20
Alignment explanation
Indices: 10521--10560 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10511 AGTGTTACAT
10521 AATATCCCTTGAAGATCGAC
1 AATATCCCTTGAAGATCGAC
*
10541 AATATCCCTTGCAGATCGAC
1 AATATCCCTTGAAGATCGAC
10561 CTTATGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (20 bp):
AATATCCCTTGAAGATCGAC
Found at i:16501 original size:37 final size:37
Alignment explanation
Indices: 16460--16562 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
16450 TGTTATAACT
16460 GGAGTAGGCTTCTGGTTCTTTCCCTTTTTATAGTACA
1 GGAGTAGGCTTCTGGTTCTTTCCCTTTTTATAGTACA
16497 GGAGTAGGCTTCTGGTTCTTTCCCTTTTTATAGTACA
1 GGAGTAGGCTTCTGGTTCTTTCCCTTTTTATAGTACA
*
16534 GGAGTAGGCTTCTGTTTCTTTCCCTTTTT
1 GGAGTAGGCTTCTGGTTCTTTCCCTTTTT
16563 CTGCTAGTAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.46
Consensus pattern (37 bp):
GGAGTAGGCTTCTGGTTCTTTCCCTTTTTATAGTACA
Found at i:22545 original size:37 final size:37
Alignment explanation
Indices: 22471--22553 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 37
22461 TACGTTTAAC
*
22471 CTGAAGACGCCAAACAATCATGGAGTCTTATCGATTGG
1 CTGAAGACGCCAAACAATCAT-GAGTCTTATCCATTGG
22509 TCTGAAGACGCCAAACAATCAT-AGTCTTATCCATTGG
1 -CTGAAGACGCCAAACAATCATGAGTCTTATCCATTGG
22546 CTTGAAGA
1 C-TGAAGA
22554 AATCGTACAC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 1 0.02
37 20 0.48
39 21 0.50
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (37 bp):
CTGAAGACGCCAAACAATCATGAGTCTTATCCATTGG
Found at i:23107 original size:2 final size:2
Alignment explanation
Indices: 23102--23133 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23092 ATTGTGTGTG
23102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23134 AAAGTTCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29768 original size:22 final size:22
Alignment explanation
Indices: 29742--29786 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
29732 GAAGATCAGC
29742 TATTAGGTTTAG-TTTAATATAT
1 TATTAGGTTTAGTTTTAA-ATAT
29764 TATTAGGTTTAGTTTTAAATAT
1 TATTAGGTTTAGTTTTAAATAT
29786 T
1 T
29787 GGTAATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (22 bp):
TATTAGGTTTAGTTTTAAATAT
Found at i:42806 original size:21 final size:21
Alignment explanation
Indices: 42780--42848 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
42770 ACCGAGAACA
* *
42780 TTATTATTTCTATCGGTTTTG
1 TTATTATTTCTACCGATTTTG
*** *
42801 TTATTA-TT-GGGCGCTTTTG
1 TTATTATTTCTACCGATTTTG
*
42820 TTATTTTTTCTACCGATTTTG
1 TTATTATTTCTACCGATTTTG
42841 TTATTATT
1 TTATTATT
42849 GGACACTTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 12 0.33
20 4 0.11
21 20 0.56
ACGTcount: A:0.14, C:0.10, G:0.14, T:0.61
Consensus pattern (21 bp):
TTATTATTTCTACCGATTTTG
Found at i:44965 original size:33 final size:33
Alignment explanation
Indices: 44919--44985 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
44909 CTGTCAGGGA
44919 TAGAGTCAAAATTAAACTATGACGGAGGTAAGT
1 TAGAGTCAAAATTAAACTATGACGGAGGTAAGT
*
44952 TAGAGTCATAATTAAACTATGACGGAGGTAAGT
1 TAGAGTCAAAATTAAACTATGACGGAGGTAAGT
44985 T
1 T
44986 GTAAACAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.27
Consensus pattern (33 bp):
TAGAGTCAAAATTAAACTATGACGGAGGTAAGT
Found at i:51651 original size:20 final size:20
Alignment explanation
Indices: 51613--51652 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51603 TAATCCTATT
**
51613 CCCTGATAATCTTTTATTCC
1 CCCTGATAATCTTACATTCC
*
51633 CCCTGGTAATCTTACATTCC
1 CCCTGATAATCTTACATTCC
51653 GTAAACCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (20 bp):
CCCTGATAATCTTACATTCC
Found at i:52899 original size:19 final size:20
Alignment explanation
Indices: 52875--52913 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
52865 GAACGCTGGA
52875 AACCGGTTTTG-ACCGGTTT
1 AACCGGTTTTGAACCGGTTT
52894 AACCGGTTTTGAACCGGTTT
1 AACCGGTTTTGAACCGGTTT
52914 TGACCGGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (20 bp):
AACCGGTTTTGAACCGGTTT
Found at i:52910 original size:11 final size:11
Alignment explanation
Indices: 52875--52920 Score: 64
Period size: 10 Copynumber: 4.5 Consensus size: 11
52865 GAACGCTGGA
52875 AACCGGTTTTG
1 AACCGGTTTTG
52886 -ACCGG-TTT-
1 AACCGGTTTTG
52894 AACCGGTTTTG
1 AACCGGTTTTG
52905 AACCGGTTTTG
1 AACCGGTTTTG
52916 -ACCGG
1 AACCGG
52921 GTTGACCGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 8 0.25
10 13 0.41
11 11 0.34
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:52923 original size:11 final size:10
Alignment explanation
Indices: 52876--52930 Score: 69
Period size: 9 Copynumber: 5.6 Consensus size: 10
52866 AACGCTGGAA
52876 ACCGGTTTTG
1 ACCGGTTTTG
*
52886 ACCGG-TTTA
1 ACCGGTTTTG
52895 ACCGGTTTTG
1 ACCGGTTTTG
52905 AACCGGTTTTG
1 -ACCGGTTTTG
*
52916 ACCGG-GTTG
1 ACCGGTTTTG
52925 ACCGGT
1 ACCGGT
52931 CACGACCCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
9 16 0.41
10 13 0.33
11 10 0.26
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.33
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:52952 original size:13 final size:13
Alignment explanation
Indices: 52934--53015 Score: 59
Period size: 13 Copynumber: 6.3 Consensus size: 13
52924 GACCGGTCAC
52934 GACCCGACCCGTT
1 GACCCGACCCGTT
52947 GACCCGACCCGACTGTT
1 GACCCGA-CC--C-GTT
52964 GACCCGACCC---
1 GACCCGACCCGTT
*
52974 GACCGTTGACCCG--
1 GACC--CGACCCGTT
52987 -ACCCGACCCGTT
1 GACCCGACCCGTT
52999 GACCCGACCCGTT
1 GACCCGACCCGTT
53012 GACC
1 GACC
53016 GGTGCTATTC
Statistics
Matches: 57, Mismatches: 2, Indels: 20
0.72 0.03 0.25
Matches are distributed among these distances:
10 10 0.18
12 8 0.14
13 23 0.40
14 3 0.05
16 3 0.05
17 10 0.18
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:52966 original size:17 final size:18
Alignment explanation
Indices: 52933--53009 Score: 131
Period size: 17 Copynumber: 4.4 Consensus size: 18
52923 TGACCGGTCA
52933 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
52951 CGACCCGA-CTGTTGACC
1 CGACCCGACCCGTTGACC
52968 CGACCCGA-CCGTTGACC
1 CGACCCGACCCGTTGACC
52985 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
53003 CGACCCG
1 CGACCCG
53010 TTGACCGGTG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
17 32 0.57
18 24 0.43
ACGTcount: A:0.17, C:0.48, G:0.23, T:0.12
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:53077 original size:29 final size:30
Alignment explanation
Indices: 53045--53113 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
53035 ATTCGGTTTT
53045 GGTGCTATTTTGGGAATTAATTCT-AAAAG
1 GGTGCTATTTTGGGAATTAATTCTAAAAAG
* * * *
53074 GGTGCTATATTGGTAATTATTTTTAAAAAG
1 GGTGCTATTTTGGGAATTAATTCTAAAAAG
53104 GGTGCTATTT
1 GGTGCTATTT
53114 GTGTAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (30 bp):
GGTGCTATTTTGGGAATTAATTCTAAAAAG
Found at i:53848 original size:24 final size:24
Alignment explanation
Indices: 53816--53884 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 24
53806 ATAGTTTATC
*
53816 TGATTTTTGACCTGGATTCTGATA
1 TGATATTTGACCTGGATTCTGATA
* * * *
53840 TGATATTTGATCTGAATTTTTATA
1 TGATATTTGACCTGGATTCTGATA
* * *
53864 TGATACTTGACATGGACTCTG
1 TGATATTTGACCTGGATTCTG
53885 TTTTGTACTT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.45
Consensus pattern (24 bp):
TGATATTTGACCTGGATTCTGATA
Found at i:60130 original size:19 final size:19
Alignment explanation
Indices: 60106--60161 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
60096 GAACGCTGGA
60106 AACCGGTTTTGACCGGTTT
1 AACCGGTTTTGACCGGTTT
60125 AACCGGTTTTGAACCGGTTTT
1 AACCGGTTTTG-ACCGG-TTT
*
60146 GACCGG-TTTGACCGGT
1 AACCGGTTTTGACCGGT
60162 CACGACCCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 9 0.26
21 8 0.24
ACGTcount: A:0.16, C:0.21, G:0.29, T:0.34
Consensus pattern (19 bp):
AACCGGTTTTGACCGGTTT
Found at i:60141 original size:11 final size:11
Alignment explanation
Indices: 60106--60154 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
60096 GAACGCTGGA
60106 AACCGGTTTTG
1 AACCGGTTTTG
60117 -ACCGG-TTT-
1 AACCGGTTTTG
60125 AACCGGTTTTG
1 AACCGGTTTTG
60136 AACCGGTTTTG
1 AACCGGTTTTG
60147 -ACCGGTTT
1 AACCGGTTT
60155 GACCGGTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.23
10 16 0.46
11 11 0.31
ACGTcount: A:0.16, C:0.20, G:0.27, T:0.37
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:60157 original size:9 final size:10
Alignment explanation
Indices: 60107--60161 Score: 78
Period size: 9 Copynumber: 5.6 Consensus size: 10
60097 AACGCTGGAA
60107 ACCGGTTTTG
1 ACCGGTTTTG
*
60117 ACCGG-TTTA
1 ACCGGTTTTG
60126 ACCGGTTTTG
1 ACCGGTTTTG
60136 AACCGGTTTTG
1 -ACCGGTTTTG
60147 ACCGG-TTTG
1 ACCGGTTTTG
60156 ACCGGT
1 ACCGGT
60162 CACGACCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 17 0.43
10 13 0.32
11 10 0.25
ACGTcount: A:0.15, C:0.22, G:0.29, T:0.35
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:60183 original size:13 final size:13
Alignment explanation
Indices: 60165--60246 Score: 59
Period size: 13 Copynumber: 6.3 Consensus size: 13
60155 GACCGGTCAC
60165 GACCCGACCCGTT
1 GACCCGACCCGTT
60178 GACCCGACCCGACTGTT
1 GACCCGA-CC--C-GTT
60195 GACCCGACCC---
1 GACCCGACCCGTT
*
60205 GACCGTTGACCCG--
1 GACC--CGACCCGTT
60218 -ACCCGACCCGTT
1 GACCCGACCCGTT
60230 GACCCGACCCGTT
1 GACCCGACCCGTT
60243 GACC
1 GACC
60247 GGTGCTATTC
Statistics
Matches: 57, Mismatches: 2, Indels: 20
0.72 0.03 0.25
Matches are distributed among these distances:
10 10 0.18
12 8 0.14
13 23 0.40
14 3 0.05
16 3 0.05
17 10 0.18
ACGTcount: A:0.17, C:0.46, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:60197 original size:17 final size:18
Alignment explanation
Indices: 60164--60240 Score: 131
Period size: 17 Copynumber: 4.4 Consensus size: 18
60154 TGACCGGTCA
60164 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
*
60182 CGACCCGA-CTGTTGACC
1 CGACCCGACCCGTTGACC
60199 CGACCCGA-CCGTTGACC
1 CGACCCGACCCGTTGACC
60216 CGACCCGACCCGTTGACC
1 CGACCCGACCCGTTGACC
60234 CGACCCG
1 CGACCCG
60241 TTGACCGGTG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
17 32 0.57
18 24 0.43
ACGTcount: A:0.17, C:0.48, G:0.23, T:0.12
Consensus pattern (18 bp):
CGACCCGACCCGTTGACC
Found at i:60334 original size:29 final size:29
Alignment explanation
Indices: 60275--60330 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
60265 AATTCTGTTT
*
60275 GGTGCTATTTTGGGAATTAATTCTAAAAG
1 GGTGCTATATTGGGAATTAATTCTAAAAG
* *
60304 GGTGCTATATTGGTAATT-ATTTTAAAA
1 GGTGCTATATTGGGAATTAATTCTAAAA
60331 AGGGGTGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.41
Consensus pattern (29 bp):
GGTGCTATATTGGGAATTAATTCTAAAAG
Found at i:61075 original size:24 final size:24
Alignment explanation
Indices: 61044--61111 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 24
61034 ATAGTTTATC
61044 TGAT-TTTGACCTGGATTCTGATA
1 TGATATTTGACCTGGATTCTGATA
* * * *
61067 TGATATTTGATCTGAATTTTTATA
1 TGATATTTGACCTGGATTCTGATA
* * *
61091 TGATACTTGACATGGACTCTG
1 TGATATTTGACCTGGATTCTG
61112 TTTTGTACTT
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
23 4 0.12
24 29 0.88
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (24 bp):
TGATATTTGACCTGGATTCTGATA
Found at i:68756 original size:21 final size:20
Alignment explanation
Indices: 68713--68757 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
68703 ATCAATTTTT
**
68713 TTAAATGAACAATGTGGGAA
1 TTAAATGAACAATGAAGGAA
*
68733 TTAAATGAACAATGCAATGAA
1 TTAAATGAACAATG-AAGGAA
68754 TTAA
1 TTAA
68758 GCTGTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.27
Consensus pattern (20 bp):
TTAAATGAACAATGAAGGAA
Found at i:68757 original size:83 final size:83
Alignment explanation
Indices: 68548--68797 Score: 360
Period size: 83 Copynumber: 3.0 Consensus size: 83
68538 TACCACGAAA
* * *
68548 TTAAATGAACAATATGAGAATTGAAA-GAACAATGCAATGAATTAAGTTGTATTAATTAAATACC
1 TTAAATGAACAATGTGGGAATT-AAATGAACAATGCAATGAATTAAGCTGTATTAATTAAATACC
68612 ATGCATTAAATCAA-TTTT
65 ATGCATTAAATCAATTTTT
* * * * * * *
68630 TTAAGTGAACAATGTGGGAATTAAATTAACACTACAAAGAATTAAGCTGCATTAATTAAATATCA
1 TTAAATGAACAATGTGGGAATTAAATGAACAATGCAATGAATTAAGCTGTATTAATTAAATACCA
* *
68695 TGCGTTCAATCAATTTTT
66 TGCATTAAATCAATTTTT
*
68713 TTAAATGAACAATGTGGGAATTAAATGAACAATGCAATGAATTAAGCTGTATTAATTAAACACCA
1 TTAAATGAACAATGTGGGAATTAAATGAACAATGCAATGAATTAAGCTGTATTAATTAAATACCA
68778 TGCATTAAATCAATTTTT
66 TGCATTAAATCAATTTTT
68796 TT
1 TT
68798 TTGAGTTTCA
Statistics
Matches: 144, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
81 3 0.02
82 62 0.43
83 79 0.55
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (83 bp):
TTAAATGAACAATGTGGGAATTAAATGAACAATGCAATGAATTAAGCTGTATTAATTAAATACCA
TGCATTAAATCAATTTTT
Found at i:69705 original size:20 final size:20
Alignment explanation
Indices: 69677--69714 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69667 GAAGAGTCGA
*
69677 GTCATCGTTGACCGTTGACC
1 GTCACCGTTGACCGTTGACC
*
69697 GTCACCGTTGACTGTTGA
1 GTCACCGTTGACCGTTGA
69715 TCATATTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (20 bp):
GTCACCGTTGACCGTTGACC
Found at i:70574 original size:2 final size:2
Alignment explanation
Indices: 70561--70600 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
70551 ATGCATCCAA
*
70561 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
70601 CATACATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:72529 original size:21 final size:21
Alignment explanation
Indices: 72503--72557 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
72493 GAAATATTGA
72503 TGCATCGATGCACCCCCTTAC
1 TGCATCGATGCACCCCCTTAC
72524 TGCATCGATGCA-CCCCTTAC
1 TGCATCGATGCACCCCCTTAC
*
72544 TACATCGATGCACC
1 TGCATCGATGCACC
72558 TTCAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.22, C:0.40, G:0.15, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACCCCCTTAC
Found at i:79089 original size:35 final size:35
Alignment explanation
Indices: 79034--79145 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
79024 TCTAAACCTT
* * * *
79034 AAATTAAAGTATTTTAGAATTTGGGGTTTAAAATT
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
* * *
79069 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
* * *
79104 AAATTGAATTACTTTGGAAATTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
79139 AAATTGA
1 AAATTGA
79146 GGACTATTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
Found at i:84544 original size:53 final size:53
Alignment explanation
Indices: 84444--84706 Score: 357
Period size: 53 Copynumber: 4.9 Consensus size: 53
84434 TCTTCAAATG
* * * ****
84444 ACGGGTCCGCTCCCTCTTG-TTCCGGGATTAAGGAACTCGAACAATCTTCTAAAA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTGCCT
* * * *
84498 ATGGGTTCGCTCCCTATTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* *
84551 ACGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTTGAACAATCTTCTGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * *
84604 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAATCTTTTGTCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
84657 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
84707 GTGTGATTCT
Statistics
Matches: 185, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
53 160 0.86
54 17 0.09
55 8 0.04
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.30
Consensus pattern (53 bp):
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
Found at i:85159 original size:42 final size:42
Alignment explanation
Indices: 85078--85286 Score: 145
Period size: 42 Copynumber: 5.1 Consensus size: 42
85068 TCCGAGAAGG
*
85078 CTTA-AAATGGCCCGAAGGACTTATCAT-ATCA--CTCGAAAGA
1 CTTACAAATGACCCGAAGGA-TT-TCATCATCATGCTCGAAAGA
85118 CTTACAAATGACCCGAAGGATTTCATCATCATGCTCGAAAGA
1 CTTACAAATGACCCGAAGGATTTCATCATCATGCTCGAAAGA
* ** * * * *
85160 CTTAC---TGA--TGAATTTACTTCA-CTACTCTTCGGT-G-AAGG
1 CTTACAAATGACCCGAA-GGATTTCATC-A-TCAT-GCTCGAAAGA
* * *
85198 CTTACAAATTATCCGAAGGATTTAATCATCATGCTCGAAAGA
1 CTTACAAATGACCCGAAGGATTTCATCATCATGCTCGAAAGA
** * *
85240 CTTACTGATGGCCCGAAGGATTTCATCATCATGCTCAAAAGA
1 CTTACAAATGACCCGAAGGATTTCATCATCATGCTCGAAAGA
85282 CTTAC
1 CTTAC
85287 TGATGGACCG
Statistics
Matches: 129, Mismatches: 24, Indels: 30
0.70 0.13 0.16
Matches are distributed among these distances:
37 4 0.03
38 14 0.11
39 11 0.09
40 14 0.11
41 20 0.16
42 62 0.48
43 4 0.03
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (42 bp):
CTTACAAATGACCCGAAGGATTTCATCATCATGCTCGAAAGA
Found at i:85287 original size:42 final size:42
Alignment explanation
Indices: 85210--85301 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
85200 TACAAATTAT
* *
85210 CCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC
1 CCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGA
*
85252 CCGAAGGATTTCATCATCATGCTCAAAAGACTTACTGATGGA
1 CCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGA
85294 CCGAAGGA
1 CCGAAGGA
85302 CTTATAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
CCGAAGGATTTAATCATCATGCTCAAAAGACTTACTGATGGA
Found at i:85469 original size:41 final size:41
Alignment explanation
Indices: 85414--85520 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 41
85404 CCCGAAGGTT
* * * *
85414 TTACGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGC
1 TTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGAC
* * *
85455 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTACAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGAC
*
85497 TTACTGATGGCCCGAAGGACTTAT
1 TTACAGATGGCCCGAAGGACTTAT
85521 AAATTGTGAA
Statistics
Matches: 54, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 20 0.37
42 34 0.63
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (41 bp):
TTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGAC
Found at i:85502 original size:214 final size:215
Alignment explanation
Indices: 85210--85637 Score: 696
Period size: 214 Copynumber: 2.0 Consensus size: 215
85200 TACAAATTAT
* * * * *
85210 CCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGATTTCATCATCATGCT
1 CCGAAGGACTTAATCATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCT
* *
85275 CAAAAGACTTACTGATGGACCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTATTTGT
66 CAAAAGACTTACTGATGGACCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTATTCGT
*
85340 TTTCAAAAATTTCATCTTCTCAAAACATCATTTTTCATTTTCAAATTCTTTTGAAAACATCTTAC
131 TTTCAAAAATTCCATCTTCTCAAAACATCATTTTTCATTTTCAAATTCTTTTGAAAACATCTTAC
85405 CCGAAGGTTTTACGGATGGC
196 CCGAAGGTTTTACGGATGGC
* * *
85425 CCGAAGGACTT-ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCT
1 CCGAAGGACTTAATCATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCT
* * *
85489 CGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGT
66 CAAAAGACTTACTGATGGACCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTATTCGT
* * *
85554 TTTCAAAAATTCCATCTTCTTAAAACATTATTTTTTATTTTCAAATTCTTTTGAAAACATCTTAC
131 TTTCAAAAATTCCATCTTCTCAAAACATCATTTTTCATTTTCAAATTCTTTTGAAAACATCTTAC
85619 CCGAAGGTTTTACGGATGG
196 CCGAAGGTTTTACGGATGG
85638 TTTGCTTCAC
Statistics
Matches: 196, Mismatches: 17, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
214 186 0.95
215 10 0.05
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (215 bp):
CCGAAGGACTTAATCATCATGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCT
CAAAAGACTTACTGATGGACCGAAGGACTTATAAATTGTGAAATTTTGAAAATCACATTATTCGT
TTTCAAAAATTCCATCTTCTCAAAACATCATTTTTCATTTTCAAATTCTTTTGAAAACATCTTAC
CCGAAGGTTTTACGGATGGC
Found at i:97805 original size:2 final size:2
Alignment explanation
Indices: 97798--97831 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
97788 GTCTTTGGAT
97798 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
97832 ATTGGTTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:102451 original size:39 final size:39
Alignment explanation
Indices: 102408--102490 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 39
102398 AGACAAATAT
*
102408 GAAGACTAC-ACGACTGCATGATATCTTCAGGCAAATGAA
1 GAAGAC-ACTACGACTGCATGACATCTTCAGGCAAATGAA
* *
102447 GAAGACCCTACGACTGCATGACATCTTCAGGCAAATGGA
1 GAAGACACTACGACTGCATGACATCTTCAGGCAAATGAA
102486 GAAGA
1 GAAGA
102491 TCCCAAGAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.03
39 39 0.98
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (39 bp):
GAAGACACTACGACTGCATGACATCTTCAGGCAAATGAA
Found at i:104942 original size:16 final size:17
Alignment explanation
Indices: 104917--104960 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
104907 ATCCGAAGGT
104917 AATT-TTTATTTATTT-
1 AATTATTTATTTATTTG
*
104932 AGTTATTTATTT-TTTG
1 AATTATTTATTTATTTG
104948 AATTATTTATTTA
1 AATTATTTATTTA
104961 ATTTTTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 6 0.25
16 18 0.75
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (17 bp):
AATTATTTATTTATTTG
Found at i:107059 original size:39 final size:39
Alignment explanation
Indices: 106987--107075 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 39
106977 TGTGCTCAAG
* * * *
106987 GTAAGTCCTTACCGTAAGTTCCTATTCTTTGTGCACATGA
1 GTAAGTCCTTACCGCAAGCTCCTATACTCTGTGCACA-GA
* * *
107027 -TAAGTCCTTACTGCAAGCTCCTCTACTCTGTGCATAGA
1 GTAAGTCCTTACCGCAAGCTCCTATACTCTGTGCACAGA
107065 GTAAGTCCTTA
1 GTAAGTCCTTA
107076 TTGAGTGTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
38 2 0.05
39 39 0.95
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.35
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAAGCTCCTATACTCTGTGCACAGA
Found at i:107480 original size:38 final size:38
Alignment explanation
Indices: 107409--107481 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
107399 GTATTACTGA
* * *
107409 TATTTTGTTCTGTAAATGTTTTATACGTTTTTCTGTGG
1 TATTTTGATATGTAAATGTTTTATACGTCTTTCTGTGG
*
107447 TATTTTGATATGTATATGTTTTATACAG-CTTTCTG
1 TATTTTGATATGTAAATGTTTTATAC-GTCTTTCTG
107482 ACATATGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 29 0.97
39 1 0.03
ACGTcount: A:0.19, C:0.08, G:0.16, T:0.56
Consensus pattern (38 bp):
TATTTTGATATGTAAATGTTTTATACGTCTTTCTGTGG
Found at i:108536 original size:293 final size:293
Alignment explanation
Indices: 108004--108589 Score: 1093
Period size: 293 Copynumber: 2.0 Consensus size: 293
107994 GGGACACCAT
* *
108004 TAATAGAGATGTCTTTCGTATGTTTAGGAGAGCTTCTCGAGTCCCTGGTAATATGTCTGCTGTTG
1 TAATAGAGATGTCTTTCGTATGTTCAGGAGAGCTTCTCGAGTCCCTGGTAATATGTCTGCTGTTA
108069 AGATTTGAAAGTCTTTGGTAGCCGCTGGAGAAGTTCATTTCGAAGGCATTACTGGTTGACCTCTG
66 AGATTTGAAAGTCTTTGGTAGCCGCTGGAGAAGTTCATTTCGAAGGCATTACTGGTTGACCTCTG
108134 ACTGACATTGAGTATTGGTTGGAGGATTCAAAGAGAATTATGGATGAGATGGATTTTATGCATGA
131 ACTGACATTGAGTATTGGTTGGAGGATTCAAAGAGAATTATGGATGAGATGGATTTTATGCATGA
*
108199 GAAAAAGTTAAAAGGGGCCCTAATTATGCTAAAGAAAGAGAGTTTTTTGTGGTGGCAATCAATTT
196 GAAAAAGTTAAAAGGGGCCCTAATTATGCTAAAGAAAGAGAGTTTTTGGTGGTGGCAATCAATTT
108264 CTGGTAGTATTCTAGGAAATTAGTTGAATTGGG
261 CTGGTAGTATTCTAGGAAATTAGTTGAATTGGG
108297 TAATAGAGATGTCTTTCGTATGTTCAGGAGAGCTTCTCGAGTCCCTGGTAATATGTCTGCTGTTA
1 TAATAGAGATGTCTTTCGTATGTTCAGGAGAGCTTCTCGAGTCCCTGGTAATATGTCTGCTGTTA
*
108362 AGATTTTG-AAGTCTTTGGTAGCCGCTGGAGTAGTTCATTTCGAAGGCATTACTGGTTGACCTCT
66 AGA-TTTGAAAGTCTTTGGTAGCCGCTGGAGAAGTTCATTTCGAAGGCATTACTGGTTGACCTCT
* *
108426 GACTGACATTGAGTATTGGTTGGAGGATTCAAAGTGAATTATTGATGAGATGGATTTTATGCATG
130 GACTGACATTGAGTATTGGTTGGAGGATTCAAAGAGAATTATGGATGAGATGGATTTTATGCATG
*
108491 AGAAAAAGTTAAAAGGGGCCCTAATTATGCTAAAGAAATAGAGTTTTTGGTGGTGGCAATCAATT
195 AGAAAAAGTTAAAAGGGGCCCTAATTATGCTAAAGAAAGAGAGTTTTTGGTGGTGGCAATCAATT
108556 TCTGGTAGTATTCTAGGAAATTAGTTGAATTGGG
260 TCTGGTAGTATTCTAGGAAATTAGTTGAATTGGG
108590 ATCTTCTCAA
Statistics
Matches: 285, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
293 281 0.99
294 4 0.01
ACGTcount: A:0.28, C:0.11, G:0.27, T:0.34
Consensus pattern (293 bp):
TAATAGAGATGTCTTTCGTATGTTCAGGAGAGCTTCTCGAGTCCCTGGTAATATGTCTGCTGTTA
AGATTTGAAAGTCTTTGGTAGCCGCTGGAGAAGTTCATTTCGAAGGCATTACTGGTTGACCTCTG
ACTGACATTGAGTATTGGTTGGAGGATTCAAAGAGAATTATGGATGAGATGGATTTTATGCATGA
GAAAAAGTTAAAAGGGGCCCTAATTATGCTAAAGAAAGAGAGTTTTTGGTGGTGGCAATCAATTT
CTGGTAGTATTCTAGGAAATTAGTTGAATTGGG
Found at i:117574 original size:23 final size:20
Alignment explanation
Indices: 117521--117580 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
117511 TTTTGGTGCA
117521 GAGGGAATCGA-TCCCCCAT
1 GAGGGAATCGATTCCCCCAT
* *
117540 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCC-AT
*
117561 GAAGGGGAATCGATACCCCC
1 G-A-GGGAATCGATTCCCCC
117581 CTAGGGTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.30
20 6 0.18
21 2 0.06
22 1 0.03
23 14 0.42
ACGTcount: A:0.25, C:0.32, G:0.27, T:0.17
Consensus pattern (20 bp):
GAGGGAATCGATTCCCCCAT
Found at i:132008 original size:63 final size:62
Alignment explanation
Indices: 131867--132170 Score: 182
Period size: 63 Copynumber: 5.0 Consensus size: 62
131857 TTATCGTTTC
* * * * **
131867 GCTGAAGCTGAAAATCTATATG-TTTTTCACTCGGTATTGACGCTATTTAGCTCTATCTTTTA
1 GCTGAAACTGAAAATCT-TTTGTTTTTTCACTCGATTTTGACGCTATTTAGCTCTATCTTAAA
* ** * *
131929 GCTGTAACCAAAAATCTGTTTGTTTTTTCATTCGATTTTGACGCTATTTAGCTCTGTCTTAAA
1 GCTGAAACTGAAAATCT-TTTGTTTTTTCACTCGATTTTGACGCTATTTAGCTCTATCTTAAA
* * * * **
131992 GCTGAAACTGAGAATC--TT-TTTTTTCACTCTAATTTGACGCTCTTTAGCT-TAAT-TGTGTA
1 GCTGAAACTGAAAATCTTTTGTTTTTTCACTCGATTTTGACGCTATTTAGCTCT-ATCT-TAAA
* * * * *
132051 GCTGAAGCTGAAAATC-TATG-TTTTTCACTC-AGTGTTGACTCTATTTAGCTCTATCATTTTAA
1 GCTGAAACTGAAAATCTTTTGTTTTTTCACTCGA-TTTTGACGCTATTTAGCTCTATC--TTAAA
** * * * * *
132113 --TGAAACTGAATTTTTTTAATGTCTGTTCACTC-CTTTTGACGCTATTTAGCTCCATCTT
1 GCTGAAACTGAAAATCTTT--TGTTTTTTCACTCGATTTTGACGCTATTTAGCTCTATCTT
132171 TTTTTCACTC
Statistics
Matches: 185, Mismatches: 43, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
58 2 0.01
59 45 0.24
60 39 0.21
61 4 0.02
62 18 0.10
63 69 0.37
64 8 0.04
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (62 bp):
GCTGAAACTGAAAATCTTTTGTTTTTTCACTCGATTTTGACGCTATTTAGCTCTATCTTAAA
Found at i:132152 original size:182 final size:176
Alignment explanation
Indices: 131761--132170 Score: 416
Period size: 182 Copynumber: 2.3 Consensus size: 176
131751 AGCTCTATCT
* * * * * * **
131761 AAAAATCTTTTTG-CTTTTGCACTCAATTCTAACGCTATTTAGCTTTATCTTTTAGCTGAAACTG
1 AAAAATCTGTTTGTCTGTT-CACTCGATTTTGACGCTATTTAGCTCTATCTTAAAGCTGAAACTG
* * *
131825 AGAATCCTTTTTTCACTCTGATTTGACGCTCCTTATCGTTTCGCTGAAGCTGAAAATCTATATGT
65 AGAATCCTTTTTTCACTCTAATTTGACGCTCCTTATCGTGTAGCTGAAGCTGAAAATC-ATATGT
* * *
131890 TTTTCACTCGGTATTGACGCTATTTAGCTCTATCTTTTAGCTGTAACC
129 TTTTCACTCAGTATTGACGCTATTTAGCTCTATCTTTTAGATGTAAAC
* * * *
131938 AAAAATCTGTTTGTTTTTTCATTCGATTTTGACGCTATTTAGCTCTGTCTTAAAGCTGAAACTGA
1 AAAAATCTGTTTGTCTGTTCACTCGATTTTGACGCTATTTAGCTCTATCTTAAAGCTGAAACTGA
* *
132003 GAATCTTTTTTTTCACTCTAATTTGACGCTCTTTAGCTTAATTGTGTAGCTGAAGCTGAAAATC-
66 GAATC-CTTTTTTCACTCTAATTTGACGCTC-----CTT-ATCGTGTAGCTGAAGCTGAAAATCA
* *
132067 TATGTTTTTCACTCAGTGTTGACTCTATTTAGCTCTATCATTTTA-ATG-AAAC
124 TATGTTTTTCACTCAGTATTGACGCTATTTAGCTCTATC-TTTTAGATGTAAAC
** * * * * *
132119 TGAATTTTTTTAATGTCTGTTCACTC-CTTTTGACGCTATTTAGCTCCATCTT
1 AAAAATCTGTT--TGTCTGTTCACTCGATTTTGACGCTATTTAGCTCTATCTT
132171 TTTTTCACTC
Statistics
Matches: 191, Mismatches: 31, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
177 55 0.29
178 27 0.14
181 9 0.05
182 61 0.32
183 18 0.09
184 21 0.11
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (176 bp):
AAAAATCTGTTTGTCTGTTCACTCGATTTTGACGCTATTTAGCTCTATCTTAAAGCTGAAACTGA
GAATCCTTTTTTCACTCTAATTTGACGCTCCTTATCGTGTAGCTGAAGCTGAAAATCATATGTTT
TTCACTCAGTATTGACGCTATTTAGCTCTATCTTTTAGATGTAAAC
Done.