Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002330.1 Hibiscus syriacus cultivar Beakdansim tig00004760_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: 136268
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:2466 original size:18 final size:18
Alignment explanation
Indices: 2443--2478 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2433 AAGCAAAAGG
*
2443 AAATCAAAATCTCAATCA
1 AAATCAAAATCCCAATCA
2461 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
2479 CAACCGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:2827 original size:20 final size:20
Alignment explanation
Indices: 2798--2853 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2788 CCGAAAATCG
* *
2798 CGTTGTGAATTTGGCTTTCT
1 CGTTGCGAATTTGACTTTCT
*
2818 TGTTGCGAATTTGACTTTCT
1 CGTTGCGAATTTGACTTTCT
2838 CGTTGCGAATTTGACT
1 CGTTGCGAATTTGACT
2854 ATCGCAATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.46
Consensus pattern (20 bp):
CGTTGCGAATTTGACTTTCT
Found at i:3340 original size:18 final size:18
Alignment explanation
Indices: 3319--3355 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
3309 GTAATTGGAG
3319 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
3337 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
3355 T
1 T
3356 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:3362 original size:24 final size:24
Alignment explanation
Indices: 3311--3363 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
3301 TTTCATATGT
* * *
3311 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
3335 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
3359 AATTT
1 AATTT
3364 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:3753 original size:39 final size:39
Alignment explanation
Indices: 3666--3754 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 39
3656 TCTGATGCTC
* *
3666 ATCAAAATCCAAAGCTCATATGGTGTCAAGCAAAAAGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAAGAA
*
3705 ATCAAAATCTAAATCTCATATGGTGCCAAG-AAAAAGGAA
1 ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAA-GAA
3744 ATCAAAATCTA
1 ATCAAAATCTA
3755 CAACTTGAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 5 0.11
39 41 0.89
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.20
Consensus pattern (39 bp):
ATCAAAATCTAAAGCTCATATGGTGCCAAGCAAAAAGAA
Found at i:3989 original size:20 final size:20
Alignment explanation
Indices: 3966--4004 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3956 AATAAGCGTT
*
3966 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
*
3986 GCGAAAGTTAAATTCGCAA
1 GCGAAAGTCAAATTCGCAA
4005 ACCGAAAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:4042 original size:20 final size:20
Alignment explanation
Indices: 4013--4068 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
4003 AAACCGAAAA
*
4013 TCGCGTTGCGAATTTGGCTT
1 TCGCGTTGCGAATTTGACTT
*
4033 TCGCGATGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
4053 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
4069 TACCTTCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.14, C:0.20, G:0.29, T:0.38
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTT
Found at i:4213 original size:14 final size:14
Alignment explanation
Indices: 4194--4230 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4184 ATAAAATTAA
*
4194 ACAAATCAAGTTTT
1 ACAAATCAACTTTT
4208 ACAAATCAACTTTT
1 ACAAATCAACTTTT
4222 ACAAATCAA
1 ACAAATCAA
4231 TTAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5702 original size:21 final size:21
Alignment explanation
Indices: 5655--5754 Score: 85
Period size: 21 Copynumber: 4.7 Consensus size: 21
5645 GCGGGCAGGA
* **
5655 CCTCTTGAACGATGACAGAAG
1 CCTCTTGAACGATGAGAGGGG
* *
5676 CCTCTTGAACGGTGGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
* *
5697 CTTCTTCGAATGATGAGAGGGG
1 CCTCTT-GAACGATGAGAGGGG
**
5719 CCTCTTGAACGAT-AGGAGGCA
1 CCTCTTGAACGATGA-GAGGGG
*
5740 CCTCTTGAATGATGA
1 CCTCTTGAACGATGA
5755 TAGGTGCATC
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
20 1 0.02
21 43 0.69
22 18 0.29
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:15628 original size:14 final size:14
Alignment explanation
Indices: 15611--15655 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
15601 AATGAACATA
15611 AACGAACATAACCG
1 AACGAACATAACCG
15625 AACGAACATAACCG
1 AACGAACATAACCG
*
15639 AACGAATATAACCG
1 AACGAACATAACCG
15653 AAC
1 AAC
15656 ATTCATGAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.51, C:0.27, G:0.13, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:28434 original size:29 final size:29
Alignment explanation
Indices: 28377--28434 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
28367 ACTTCAGGAA
* *
28377 GCTTCTAACAATACTGCTAATGTATACAC
1 GCTTCTAACAACACTGCTAATGTACACAC
* *
28406 GCTTCTAACTACACTGCTAATGTGCACAC
1 GCTTCTAACAACACTGCTAATGTACACAC
28435 TGCATTAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
GCTTCTAACAACACTGCTAATGTACACAC
Found at i:28648 original size:35 final size:34
Alignment explanation
Indices: 28609--28741 Score: 140
Period size: 35 Copynumber: 3.8 Consensus size: 34
28599 AGATGAACAA
* *
28609 TTGAATCGAAAGTTCTTATGCTTCCTCCCGTTCAC
1 TTGAATCGAAAGTTC-GATGCTTCCTTCCGTTCAC
* * * **
28644 TTGAATCGACAGTGCCGATGCTTCCTTTCGTTTTTC
1 TTGAATCGAAAGT-TCGATGCTTCCTTCCG-TTCAC
*
28680 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAG
1 TTGAATCGAAAGT-TCGATGCTTCCTTCCGTTCAC
*
28715 TTGAATCGAAAGTGCCGATGCTTCCTT
1 TTGAATCGAAAGT-TCGATGCTTCCTT
28742 TCATTCTTCT
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
35 51 0.62
36 31 0.38
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (34 bp):
TTGAATCGAAAGTTCGATGCTTCCTTCCGTTCAC
Found at i:28687 original size:36 final size:36
Alignment explanation
Indices: 28643--28752 Score: 141
Period size: 36 Copynumber: 3.1 Consensus size: 36
28633 CTCCCGTTCA
*
28643 CTTGAATCGACAGTGCCGATGCTTCCTTTCGTTTTT
1 CTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTTTT
* * **
28679 CTTGAATCGAAAGTGTCGATGCTTCCTTCCG-TTCA
1 CTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTTTT
* * *
28714 GTTGAATCGAAAGTGCCGATGCTTCCTTTCATTCTT
1 CTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTTTT
28750 CTT
1 CTT
28753 ATTCACCTTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
35 29 0.48
36 31 0.52
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (36 bp):
CTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTTTT
Found at i:28729 original size:71 final size:71
Alignment explanation
Indices: 28609--28752 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
28599 AGATGAACAA
* * *
28609 TTGAATCGAAAGTTCTTATGCTTCCTCCCGTTCACTTGAATCGACAGTGCCGATGCTTCCTTTCG
1 TTGAATCGAAAGTTCTGATGCTTCCTCCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCA
*
28674 TTTTTC
66 TTCTTC
* *
28680 TTGAATCGAAAGTGTC-GATGCTTCCTTCCGTTCAGTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGT-TCTGATGCTTCCTCCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTC
28744 ATTCTTC
65 ATTCTTC
28751 TT
1 TT
28753 ATTCACCTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 64 0.97
72 2 0.03
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (71 bp):
TTGAATCGAAAGTTCTGATGCTTCCTCCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCA
TTCTTC
Found at i:28915 original size:15 final size:15
Alignment explanation
Indices: 28895--28924 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
28885 TGTCAAAGGT
28895 GGTAACAAGGGGTCA
1 GGTAACAAGGGGTCA
28910 GGTAACAAGGGGTCA
1 GGTAACAAGGGGTCA
28925 TATGTACTCT
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:0.13, G:0.40, T:0.13
Consensus pattern (15 bp):
GGTAACAAGGGGTCA
Found at i:30149 original size:29 final size:29
Alignment explanation
Indices: 30094--30149 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
30084 TTCAAGAAGC
* *
30094 TTCTAACAATACTGCTAACGTATACACGT
1 TTCTAACAACACTGCTAACGTACACACGT
* * *
30123 TTCTAACTACACTGCTAATGTGCACAC
1 TTCTAACAACACTGCTAACGTACACAC
30150 TGCATTAGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (29 bp):
TTCTAACAACACTGCTAACGTACACACGT
Found at i:39279 original size:20 final size:20
Alignment explanation
Indices: 39233--39280 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
39223 GTCGAGGGTT
**
39233 CATAGGTCCTTCGGGACATA
1 CATAGGTCCTTCAAGACATA
*
39253 CAGAGGTCCTTCAAGACATA
1 CATAGGTCCTTCAAGACATA
*
39273 TATAGGTC
1 CATAGGTC
39281 ATTCGGAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (20 bp):
CATAGGTCCTTCAAGACATA
Found at i:39373 original size:16 final size:17
Alignment explanation
Indices: 39352--39385 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
39342 GTGCACAACC
39352 TCTAT-GTACTCACATA
1 TCTATGGTACTCACATA
*
39368 TCTATGGTTCTCACATA
1 TCTATGGTACTCACATA
39385 T
1 T
39386 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (17 bp):
TCTATGGTACTCACATA
Found at i:42837 original size:3 final size:3
Alignment explanation
Indices: 42818--42885 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
42808 TTGTAATTTT
**
42818 TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTT
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
42865 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
42886 GCTTAAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:43063 original size:45 final size:45
Alignment explanation
Indices: 43012--43159 Score: 260
Period size: 45 Copynumber: 3.3 Consensus size: 45
43002 GATGGAAATG
* *
43012 TTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
43057 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
* *
43102 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGC
1 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
43147 TTTGAAAACATCA
1 TTTGAAAACATCA
43160 AAAAGCTACC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 99 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGT
Found at i:43192 original size:76 final size:76
Alignment explanation
Indices: 43093--44278 Score: 2207
Period size: 76 Copynumber: 15.6 Consensus size: 76
43083 TTACAGATGA
* * *
43093 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43156 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
43167 ACCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43232 ATCAAAAAGCT
66 ATCAAAAAGCT
*
43243 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTT-AAAA
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAAA
43307 CATCAAAAAGCT
65 CATCAAAAAGCT
*
43319 CCCGAAGGCTTTTTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTTGAAA
1 CCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTTGAAA
43384 ACATCAAAAAGCT
64 ACATCAAAAAGCT
*
43397 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43462 ATCAAAAAGCT
66 ATCAAAAAGCT
43473 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43538 ATCAAAAAGCT
66 ATCAAAAAGCT
43549 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43614 ATCAAAAAGCT
66 ATCAAAAAGCT
43625 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43690 ATCAAAAAGCT
66 ATCAAAAAGCT
43701 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43766 ATCAAAAAGCT
66 ATCAAAAAGCT
*
43777 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43842 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
43853 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGAATTACAGATGACCCGAAGGATTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43918 ATCAAAAAGCT
66 ATCAAAAAGCT
43929 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
43994 ATCAAAAAGCT
66 ATCAAAAAGCT
44005 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
44070 ATCAAAAAGCT
66 ATCAAAAAGCT
*
44081 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
44146 ATCAAAAAGCT
66 ATCAAAAAGCT
*
44157 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
44222 ATCAAAAAGCT
66 ATCAAAAAGCT
44233 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
44279 TGAGAAATAG
Statistics
Matches: 1093, Mismatches: 14, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
74 7 0.01
76 962 0.88
77 99 0.09
78 25 0.02
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTTGAAAAC
ATCAAAAAGCT
Found at i:44980 original size:22 final size:22
Alignment explanation
Indices: 44955--45031 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
44945 CATAAAGCTT
44955 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* * * *
44977 TCATCTTTAAAAAGAAAATTTG
1 TCATCTTTGAAAAGAGAATCTA
* **
44999 TCATCTCTGAAGTGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
45021 TCATTTTTGAA
1 TCATCTTTGAA
45032 GAGTGTAGAT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:45469 original size:54 final size:54
Alignment explanation
Indices: 45387--45498 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
45377 CGAATAGCAG
*** *
45387 GTTCGTAAAACATTTAACAGTGCATTCATCCTTTCCTGTGGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
* * **
45441 GTTCGTAAAACATTTGACAACACTTTCATCCTTTTTTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
45495 GTTC
1 GTTC
45499 TCAATCATTG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.40
Consensus pattern (54 bp):
GTTCGTAAAACATTTAACAACACATTCATCCTTTCCTGTGGCTTCTGCTCAGAT
Found at i:46959 original size:93 final size:92
Alignment explanation
Indices: 46789--46984 Score: 241
Period size: 93 Copynumber: 2.1 Consensus size: 92
46779 CTTATTTCTA
* ** * * *
46789 CTATGAGCAAAATTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCATATCAG
1 CTATGAGC-ACATTCATCTTTCAAATCCAATGACAGATTCTGGAGTTCATACCAAACCAGATCAG
*
46854 ATAATTCAAAGAACACTTCCCAAAAGATG
65 ATAACTCAAAGAACACTT-CCAAAAGATG
** *
46883 CTATGAGCACATTCATCTTTCAAATTTAATGACAGGTTCTGTG-GTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTTCAAATCCAATGACAGATTCTG-GAGTTCATACCAAACCAGATCAG
* *
46947 ATAACTCGAAGAACACTTCCAGAAGATG
65 ATAACTCAAAGAACACTTCCAAAAGATG
*
46975 CTATGGGCAC
1 CTATGAGCAC
46985 CTTATTTCTA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
92 18 0.20
93 61 0.69
94 9 0.10
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (92 bp):
CTATGAGCACATTCATCTTTCAAATCCAATGACAGATTCTGGAGTTCATACCAAACCAGATCAGA
TAACTCAAAGAACACTTCCAAAAGATG
Found at i:49205 original size:17 final size:16
Alignment explanation
Indices: 49183--49216 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
49173 TTCAATTTTC
49183 TTTTTTCTTCTTCTCTT
1 TTTTTTCTTCTT-TCTT
49200 TTTTTTCTTCTTTCTT
1 TTTTTTCTTCTTTCTT
49216 T
1 T
49217 GTTGGATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTTTCTTCTTTCTT
Found at i:51687 original size:14 final size:14
Alignment explanation
Indices: 51670--51708 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
51660 TAAAAATATG
51670 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
51684 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
51699 AATG-AAAATG
1 AATGCAAAATG
51709 CATGTATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:51692 original size:36 final size:36
Alignment explanation
Indices: 51607--51694 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 36
51597 TATAAAAATG
*
51607 TGAAAAATGCATAA-ATGGAAAAACAAGAATGCAAAA
1 TGAAAAATGCA-AAGATAGAAAAACAAGAATGCAAAA
*** * * * *
51643 TGTGCAATTCAAAGATATAAAAATATGAATGCAAAA
1 TGAAAAATGCAAAGATAGAAAAACAAGAATGCAAAA
51679 TGAAAAATGCAAAGAT
1 TGAAAAATGCAAAGAT
51695 GCAAAATGAA
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
35 2 0.05
36 37 0.95
ACGTcount: A:0.57, C:0.08, G:0.16, T:0.19
Consensus pattern (36 bp):
TGAAAAATGCAAAGATAGAAAAACAAGAATGCAAAA
Found at i:56307 original size:3 final size:3
Alignment explanation
Indices: 56288--56349 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
56278 TTGTAATTTT
** **
56288 TAA TAAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TTT TAA TTT
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
56335 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
56350 GCTTAAATGA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 43 0.88
4 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:64059 original size:33 final size:33
Alignment explanation
Indices: 64022--64088 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
64012 CGCAGAGGAT
*
64022 GCATCCA-CACCATCTGTTGCAGCAGACCTTCGA
1 GCATCCACCA-CATCTGTTGCAACAGACCTTCGA
64055 GCATCCACCACATCTGTTGCAACAGACCTTCGA
1 GCATCCACCACATCTGTTGCAACAGACCTTCGA
64088 G
1 G
64089 GTCGCCTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (33 bp):
GCATCCACCACATCTGTTGCAACAGACCTTCGA
Found at i:76795 original size:4 final size:4
Alignment explanation
Indices: 76786--77014 Score: 386
Period size: 4 Copynumber: 57.2 Consensus size: 4
76776 AACTCAAACC
76786 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
76834 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
76882 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
76930 CATA CATA CATA CATA CATA CATA CGTA AATA CGTA CATA CATA TATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
76978 TATA AATA CGTA CGTA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA C
77015 TTTAGTTACG
Statistics
Matches: 214, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 214 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:80306 original size:12 final size:12
Alignment explanation
Indices: 80291--80324 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
80281 GAACCAAATG
80291 AAGACAAGAGCC
1 AAGACAAGAGCC
80303 AAGACAAGAGCC
1 AAGACAAGAGCC
*
80315 AAGAAAAGAG
1 AAGACAAGAG
80325 TGCACTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.56, C:0.18, G:0.26, T:0.00
Consensus pattern (12 bp):
AAGACAAGAGCC
Found at i:81396 original size:17 final size:19
Alignment explanation
Indices: 81368--81417 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
81358 TTTATAAGAA
81368 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
81386 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
81405 CACCGATGCACTC
1 CATCGATGCACTC
81418 GGGCTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.25
18 7 0.25
19 14 0.50
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:81443 original size:64 final size:65
Alignment explanation
Indices: 81306--81480 Score: 218
Period size: 64 Copynumber: 2.7 Consensus size: 65
81296 TAAATTGAAT
* * *
81306 ATCGAATGCA-TTCTATGCATCGATGCACAC-CA-TGCACCGATGCACTGAGGATTTTATAAGAA
1 ATCGAATGCACTT-GATGCATCGATGCACTCTTAGTGCACCGATGCACTGAGGATTTTATAAGAA
81368 C
65 C
* *
81369 ATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACTCG-GGCTATTT-TGA-A
1 ATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACT-GAGGAT-TTTATAAGA
81431 AC
64 AC
* *
81433 ATCGAATGCACTCGATGCATCGATGCACTCTTAGTGCACTGATGCACT
1 ATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACT
81481 AAGGTTCCAA
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
63 25 0.25
64 52 0.52
65 19 0.19
66 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (65 bp):
ATCGAATGCACTTGATGCATCGATGCACTCTTAGTGCACCGATGCACTGAGGATTTTATAAGAAC
Found at i:83076 original size:24 final size:24
Alignment explanation
Indices: 83044--83096 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
83034 AACTACAATC
83044 ATAGAGGTCCCCAAAGAACCTCTA
1 ATAGAGGTCCCCAAAGAACCTCTA
83068 ATAGAGGTCCCCAAAGAACCTCTA
1 ATAGAGGTCCCCAAAGAACCTCTA
83092 ATAGA
1 ATAGA
83097 AAAATCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.26, G:0.17, T:0.17
Consensus pattern (24 bp):
ATAGAGGTCCCCAAAGAACCTCTA
Found at i:88233 original size:21 final size:21
Alignment explanation
Indices: 88204--88247 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
88194 ACTCCGGGAG
* *
88204 CTAGTTCCTCTCGAGCTGCTC
1 CTAGCTCCTCTCGAGCTCCTC
*
88225 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCTCGAGCTCCTC
88246 CT
1 CT
88248 CCTCCTTTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.43, G:0.16, T:0.34
Consensus pattern (21 bp):
CTAGCTCCTCTCGAGCTCCTC
Found at i:89412 original size:17 final size:19
Alignment explanation
Indices: 89384--89432 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
89374 TTTATAAGAA
89384 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
89402 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
89421 CACCGATGCACT
1 CATCGATGCACT
89433 AAGGTTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:98112 original size:7 final size:7
Alignment explanation
Indices: 98100--98167 Score: 50
Period size: 7 Copynumber: 9.7 Consensus size: 7
98090 ATGATAGACC
98100 TAAAAAA
1 TAAAAAA
98107 T-AAAAA
1 TAAAAAA
98113 T-AAAAA
1 TAAAAAA
98119 TAAATAAA
1 TAAA-AAA
* *
98127 TAAACGAG
1 TAAA-AAA
*
98135 TAAATAA
1 TAAAAAA
*
98142 TAATAAA
1 TAAAAAA
* *
98149 CAAGAAA
1 TAAAAAA
98156 TAAAAAA
1 TAAAAAA
98163 TAAAA
1 TAAAA
98168 TACTACATAT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
6 12 0.25
7 24 0.50
8 12 0.25
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (7 bp):
TAAAAAA
Found at i:98148 original size:18 final size:17
Alignment explanation
Indices: 98104--98158 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 17
98094 TAGACCTAAA
* *
98104 AAATAAAAATAAA-AAT
1 AAATAATAATAAACAAG
*
98120 AAAT-A-AATAAACGAG
1 AAATAATAATAAACAAG
98135 TAAATAATAATAAACAAG
1 -AAATAATAATAAACAAG
98153 AAATAA
1 AAATAA
98159 AAAATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 6 0.19
15 2 0.06
16 8 0.25
17 7 0.22
18 9 0.28
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (17 bp):
AAATAATAATAAACAAG
Found at i:98306 original size:31 final size:33
Alignment explanation
Indices: 98232--98310 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
98222 CCATTTACTA
* * *
98232 TATAATTTTAAAAAATGTTTTAAAACTATATGT
1 TATAGTTTTCAAAAACGTTTTAAAACTATATGT
98265 TATAGTTTTCAAAAACGTTTTAAAACTATA--T
1 TATAGTTTTCAAAAACGTTTTAAAACTATATGT
98296 TATA-TGTTTCAAAAA
1 TATAGT-TTTCAAAAA
98311 AAATTTCAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 1 0.02
31 14 0.33
33 27 0.64
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (33 bp):
TATAGTTTTCAAAAACGTTTTAAAACTATATGT
Found at i:98429 original size:38 final size:37
Alignment explanation
Indices: 98194--98592 Score: 177
Period size: 38 Copynumber: 11.2 Consensus size: 37
98184 GTTTTAAAAC
* * * *
98194 TATATAT-ATTTCAAAAATATTTTC-AAAACCATTTAC
1 TATATATGTTTTCAAAAATA-TTTCAAAAACTATATAA
* * * * *
98230 TATATA-ATTTTAAAAAATGTTT-TAAAACTATAT-G
1 TATATATGTTTTCAAAAATATTTCAAAAACTATATAA
** *
98264 T-TATA-GTTTTCAAAAACGTTT-TAAAAC--TAT-A
1 TATATATGTTTTCAAAAATATTTCAAAAACTATATAA
* *
98295 T-TATATG-TTTCAAAAAAAATTTC---AACTATATAT
1 TATATATGTTTTC-AAAAATATTTCAAAAACTATATAA
** * * *
98328 TATATA-AATTTC-AAAATGATTT-TAAAACTATTTAT
1 TATATATGTTTTCAAAAAT-ATTTCAAAAACTATATAA
* * *
98363 TATATAAGTTTTC-AAAATGGTTTTAAAAACTATATAA
1 TATATATGTTTTCAAAAAT-ATTTCAAAAACTATATAA
*
98400 TATATATGGTTTCAAAAATATCTTCAAAAACTATATAA
1 TATATATGTTTTCAAAAATAT-TTCAAAAACTATATAA
*
98438 TATATATGTTTTCAAAAAAAATGTTTTC-AAAAC--TATAA
1 TATATATGTTTTC---AAAAAT-ATTTCAAAAACTATATAA
* * *
98476 TATATATGTTTTCAAAAATGATTTTAAAAATTATATAT
1 TATATATGTTTTCAAAAAT-ATTTCAAAAACTATATAA
* * * *** *
98514 TATATATATTTTCTAAAATGTTTTTTTTAAACTATATAT
1 TATATATGTTTTC-AAAA-ATATTTCAAAAACTATATAA
*
98553 TATATA-GTTTT-AAAAACTA-TT-AAAAACTATATAT
1 TATATATGTTTTCAAAAA-TATTTCAAAAACTATATAA
98587 TATATA
1 TATATA
98593 CGTAGTTTCA
Statistics
Matches: 292, Mismatches: 43, Indels: 58
0.74 0.11 0.15
Matches are distributed among these distances:
30 3 0.01
31 12 0.04
32 16 0.05
33 28 0.10
34 26 0.09
35 38 0.13
36 37 0.13
37 22 0.08
38 70 0.24
39 24 0.08
40 6 0.02
41 9 0.03
42 1 0.00
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATATGTTTTCAAAAATATTTCAAAAACTATATAA
Found at i:98505 original size:76 final size:75
Alignment explanation
Indices: 98194--98592 Score: 257
Period size: 76 Copynumber: 5.6 Consensus size: 75
98184 GTTTTAAAAC
* * * *
98194 TATATATA--TTTCAAAAAT-ATTTTCAAAACCATTTACTATATA-ATTTT---AAAAAATGTTT
1 TATATATAGTTTTCAAAAATGATTTT-AAAACTATATAATATATATGTTTTCAAAAAAAATGTTT
98252 T-AAAACTATA
65 TCAAAACTATA
* *
98262 TGT-TATAGTTTTCAAAAACG-TTTTAAAAC--TAT-AT-TATATG-TTTCAAAAAAAA---TTT
1 TATATATAGTTTTCAAAAATGATTTTAAAACTATATAATATATATGTTTTCAAAAAAAATGTTTT
98317 C--AACTATA
66 CAAAACTATA
** * * *
98325 TATTATATAAATTTC-AAAATGATTTTAAAACTATTTATTATATAAGTTTTC----AAAATGGTT
1 TA-TATATAGTTTTCAAAAATGATTTTAAAACTATATAATATATATGTTTTCAAAAAAAAT-GTT
*
98385 TTAAAAACTATA
64 TTCAAAACTATA
* *
98397 TAATATATATGGTTTCAAAAAT-ATCTTCAAAAACTATATAATATATATGTTTTCAAAAAAAATG
1 T-ATATATA-GTTTTCAAAAATGAT-TT-TAAAACTATATAATATATATGTTTTCAAAAAAAATG
98461 TTTTCAAAACTATA
62 TTTTCAAAACTATA
* * * * ** *
98475 -ATATATATGTTTTCAAAAATGATTTTAAAAATTATATATTATATATATTTTC-TAAAATGTTTT
1 TATATATA-GTTTTCAAAAATGATTTT-AAAACTATATAATATATATGTTTTCAAAAAAAATGTT
**
98538 TTTTAAACTATA
64 TTCAAAACTATA
* *
98550 TATTATATAGTTTT-AAAAACT-A-TTAAAAACTATATATTATATA
1 TA-TATATAGTTTTCAAAAA-TGATTTTAAAACTATATAATATATA
98593 CGTAGTTTCA
Statistics
Matches: 262, Mismatches: 33, Indels: 67
0.72 0.09 0.19
Matches are distributed among these distances:
63 8 0.03
64 16 0.06
65 18 0.07
66 6 0.02
67 12 0.05
68 8 0.03
69 18 0.07
70 7 0.03
72 14 0.05
73 24 0.09
74 9 0.03
75 45 0.17
76 50 0.19
77 8 0.03
78 14 0.05
79 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (75 bp):
TATATATAGTTTTCAAAAATGATTTTAAAACTATATAATATATATGTTTTCAAAAAAAATGTTTT
CAAAACTATA
Found at i:99488 original size:84 final size:83
Alignment explanation
Indices: 99261--99856 Score: 584
Period size: 84 Copynumber: 7.2 Consensus size: 83
99251 CCAGGGGTCT
* * * * *
99261 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTAGAGCTGAACGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
*
99326 CAAACTCGAAGGTCTTTG
66 CGAACTCGAAGGTCTTTG
* * * * *
99344 ATGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
*
99408 TCGAACTCAAAGGTCTTTTG
65 TCGAACTCGAAGGTC-TTTG
* * ** * *
99428 TTGGCAGACAACCCTTCTAGACTTAAGTTGTATTGCAAATAATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
99493 CGAACTCGAAGGTCTTTTG
66 CGAACTCGAAGGTC-TTTG
* ** * * * * * * *
99512 CTAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGGTATGCCCTTGAAGCTGAGTGT-G
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
*
99576 ATCGAACT-TAAGGGTC--T-
65 -TCGAACTCGAA-GGTCTTTG
* * *
99593 TTGGCAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
99658 CGAACTCGAAGGTCTTTG
66 CGAACTCGAAGGTCTTTG
** * * * * * * * * *
99676 GCGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
*
99741 TCGAACT-TAAGGGTC--T-
65 TCGAACTCGAA-GGTCTTTG
* * * *
99757 TTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
*
99822 CGAACTCGAAGGTCTTAG
66 CGAACTCGAAGGTCTTTG
* *
99840 -TGGCAGGTAGCCCTTCT
1 TTGGCAGATAACCCTTCT
99857 GGCCTTGAGC
Statistics
Matches: 411, Mismatches: 85, Indels: 35
0.77 0.16 0.07
Matches are distributed among these distances:
80 51 0.12
81 74 0.18
82 19 0.05
83 104 0.25
84 138 0.34
85 25 0.06
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (83 bp):
TTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTG
Found at i:99750 original size:164 final size:164
Alignment explanation
Indices: 99182--99837 Score: 911
Period size: 164 Copynumber: 4.0 Consensus size: 164
99172 CAATTTTATT
* * * * * * * * *
99182 GACAAATAGCCCTTCTTGCCTTGAGCTATGTTGTAATTGATATGACCTCGAAGTTGAGTGTAATC
1 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATC
* * * *
99247 GAACCCAGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTA
66 GAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTG
* * **
99312 GAGCTGAACGTAGTCAAACTCGAAGGTCTTTGAT
131 GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGC
* * * *
99346 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTG-AGCTGAGCGTAGTC
1 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATC
* * * * * * * *
99410 GAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTAT-TGCAAATAATATG
66 GAACTCAAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTAT-TCTGCAAATGATGTG
*
99474 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGC
126 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGC
* * *
99513 TAACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGGTATGCCCTTGAAGCTGAGTGTGAT
1 -GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAAT
* *
99578 CGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATTCTGCAAATGATGTGCCTT
65 CGAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTT
99643 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGC
130 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGC
*
99678 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATC
1 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATC
*
99743 GAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTG
66 GAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTG
99808 GAGCTGAGCGTAGTCGAACTCGAAGGTCTT
131 GAGCTGAGCGTAGTCGAACTCGAAGGTCTT
99838 AGTGGCAGGT
Statistics
Matches: 434, Mismatches: 50, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
163 21 0.05
164 197 0.45
165 76 0.18
166 2 0.00
167 70 0.16
168 46 0.11
169 22 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (164 bp):
GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATC
GAACTCAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTG
GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGC
Found at i:106324 original size:18 final size:18
Alignment explanation
Indices: 106301--106361 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
106291 ATAGACCTAA
106301 AAATAAAAATAAAAAAAT
1 AAATAAAAATAAAAAAAT
*
106319 AAATAAACGAGTAAATAATAAT
1 AAATAAA--AATAAA-AA-AAT
*
106341 AAACAAGAAAT-AAAAAAT
1 AAATAA-AAATAAAAAAAT
106359 AAA
1 AAA
106362 ATACTACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
18 13 0.37
19 2 0.06
20 7 0.20
21 4 0.11
22 8 0.23
23 1 0.03
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.16
Consensus pattern (18 bp):
AAATAAAAATAAAAAAAT
Found at i:106498 original size:31 final size:33
Alignment explanation
Indices: 106424--106502 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 33
106414 CCATTTACTA
* * *
106424 TATAATTTTAAAAAATGTTTTAAAACTATATGT
1 TATAGTTTTCAAAAACGTTTTAAAACTATATGT
106457 TATAGTTTTCAAAAACGTTTTAAAACTATA--T
1 TATAGTTTTCAAAAACGTTTTAAAACTATATGT
106488 TATA-TGTTTCAAAAA
1 TATAGT-TTTCAAAAA
106503 AAAATTTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 1 0.02
31 14 0.33
33 27 0.64
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (33 bp):
TATAGTTTTCAAAAACGTTTTAAAACTATATGT
Found at i:106622 original size:38 final size:37
Alignment explanation
Indices: 106511--106786 Score: 169
Period size: 38 Copynumber: 7.4 Consensus size: 37
106501 AAAAAATTTC
* ** *
106511 AACTATATATTATATA-AATTTC-AAAATGATTT-TAA
1 AACTATATAATATATATGTTTTCAAAAAT-ATTTCAAA
* * * * *
106546 AACTATTTATTATATAAGTTTTC-AAAATGGTTTTAAA
1 AACTATATAATATATATGTTTTCAAAAAT-ATTTCAAA
*
106583 AACTATATAATATATATGGTTTCAAAAATATCTTCAAA
1 AACTATATAATATATATGTTTTCAAAAATAT-TTCAAA
*
106621 AACTATATAATATATATGTTTTCAAAAAAAATGTTTTC-AA
1 AACTATATAATATATATGTTTTC---AAAAAT-ATTTCAAA
*
106661 AAC--TATAATATATATGTTTTCAAAAATGATTTTAAA
1 AACTATATAATATATATGTTTTCAAAAAT-ATTTCAAA
* * * * * ***
106697 AATTATATATTATATATATTTTCTAAAATGTTTTTTTTTA
1 AACTATATAATATATATGTTTTC-AAAA--ATATTTCAAA
*
106737 AACTATATATTATATA-GTTTT-AAAAACTA-TT-AAA
1 AACTATATAATATATATGTTTTCAAAAA-TATTTCAAA
*
106771 AACTATATATTATATA
1 AACTATATAATATATA
106787 CGTAGTTTCA
Statistics
Matches: 198, Mismatches: 28, Indels: 31
0.77 0.11 0.12
Matches are distributed among these distances:
34 17 0.09
35 27 0.14
36 18 0.09
37 26 0.13
38 66 0.33
39 8 0.04
40 25 0.13
41 10 0.05
42 1 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
AACTATATAATATATATGTTTTCAAAAATATTTCAAA
Found at i:106698 original size:76 final size:75
Alignment explanation
Indices: 106433--106786 Score: 257
Period size: 76 Copynumber: 4.9 Consensus size: 75
106423 ATATAATTTT
* *
106433 AAAAAATGTTTT-AAAACTATATGT-TATAGTTTTCAAAAACG-TTTTAAAAC--TAT-AT-TAT
1 AAAAAATGTTTTCAAAACTATATATATATAGTTTTCAAAAATGATTTTAAAACTATATAATATAT
106491 ATG-TTTCAA
66 ATGTTTTCAA
* ** * *
106500 AAAAAA--ATTTC--AACTATATATTATATAAATTTC-AAAATGATTTTAAAACTATTTATTATA
1 AAAAAATGTTTTCAAAACTATATA-TATATAGTTTTCAAAAATGATTTTAAAACTATATAATATA
*
106560 TAAGTTTTC--
65 TATGTTTTCAA
* * *
106569 --AAAATGGTTTTAAAAACTATATAATATATATGGTTTCAAAAAT-ATCTTCAAAAACTATATAA
1 AAAAAAT-GTTTTCAAAACTATAT-ATATATA-GTTTTCAAAAATGAT-TT-TAAAACTATATAA
106631 TATATATGTTTTCAA
61 TATATATGTTTTCAA
* *
106646 AAAAAATGTTTTCAAAACTATA-ATATATATGTTTTCAAAAATGATTTTAAAAATTATATATTAT
1 AAAAAATGTTTTCAAAACTATATATATATA-GTTTTCAAAAATGATTTT-AAAACTATATAATAT
* *
106710 ATATATTTTCTA
64 ATATGTTTTCAA
*** * ** * *
106722 AAATGTTTTTTTTTAAACTATATATTATATAGTTTT-AAAAACT-A-TTAAAAACTATATATTAT
1 AAAAAATGTTTTCAAAACTATATA-TATATAGTTTTCAAAAA-TGATTTTAAAACTATATAATAT
106784 ATA
64 ATA
106787 CGTAGTTTCA
Statistics
Matches: 228, Mismatches: 31, Indels: 49
0.74 0.10 0.16
Matches are distributed among these distances:
64 8 0.04
65 9 0.04
66 17 0.07
67 10 0.04
68 2 0.01
69 1 0.00
70 8 0.04
71 4 0.02
72 14 0.06
73 7 0.03
74 24 0.11
75 24 0.11
76 66 0.29
77 9 0.04
78 20 0.09
79 5 0.02
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (75 bp):
AAAAAATGTTTTCAAAACTATATATATATAGTTTTCAAAAATGATTTTAAAACTATATAATATAT
ATGTTTTCAA
Found at i:107869 original size:30 final size:30
Alignment explanation
Indices: 107833--107890 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
107823 ACCTAAATGG
107833 AGAGTTCTTTTAATTAATTTTAATATTTGA
1 AGAGTTCTTTTAATTAATTTTAATATTTGA
107863 AGAGTTCTTTTAATTAATTTTAATATTT
1 AGAGTTCTTTTAATTAATTTTAATATTT
107891 AATTAAATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (30 bp):
AGAGTTCTTTTAATTAATTTTAATATTTGA
Found at i:113252 original size:22 final size:22
Alignment explanation
Indices: 113226--113276 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
113216 GACTTTTTGA
* *
113226 TCAAAGTTAAAGTTAACTATGG
1 TCAAAGTTAAAGTCAACTATAG
*
113248 TCAAAGTTAAAGTCAACTCTAG
1 TCAAAGTTAAAGTCAACTATAG
113270 TCAAAGT
1 TCAAAGT
113277 CAAAAGTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (22 bp):
TCAAAGTTAAAGTCAACTATAG
Found at i:118524 original size:21 final size:21
Alignment explanation
Indices: 118491--118538 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
118481 TAATTATTAA
*
118491 AATATTTAAAAT-ATATTTATT
1 AATATTTAAAATAATA-TAATT
**
118512 AATATTTCTAATAATATAATT
1 AATATTTAAAATAATATAATT
118533 AATATT
1 AATATT
118539 ATATTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTAAAATAATATAATT
Found at i:118535 original size:12 final size:12
Alignment explanation
Indices: 118492--118544 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
118482 AATTATTAAA
118492 ATATTTAA-AAT
1 ATATTTAATAAT
*
118503 ATATTTATTAAT
1 ATATTTAATAAT
118515 AT-TTCTAATAAT
1 ATATT-TAATAAT
* *
118527 ATAATTAATATT
1 ATATTTAATAAT
118539 ATATTT
1 ATATTT
118545 TTTAATATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
11 9 0.26
12 24 0.71
13 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:118959 original size:24 final size:23
Alignment explanation
Indices: 118884--118968 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 23
118874 ATAAAATTAT
*
118884 AAAATAATATT-TTAATAATTATA
1 AAAATAATATTATTAAT-ATTTTA
**
118907 TTAATAA-ATTATTTTAATATTTTA
1 AAAATAATATTA--TTAATATTTTA
*
118931 AAAATAATATTATTAATTTTTTGA
1 AAAATAATATTATTAATATTTT-A
*
118955 TAAATAATATTATT
1 AAAATAATATTATT
118969 TATTGAGTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
22 3 0.06
23 14 0.28
24 24 0.48
25 9 0.18
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
AAAATAATATTATTAATATTTTA
Found at i:119846 original size:3 final size:3
Alignment explanation
Indices: 119827--119883 Score: 73
Period size: 3 Copynumber: 18.7 Consensus size: 3
119817 ATCATTTTAA
119827 TAT TAT T-T ATAT T-T TAT TAT TAT TAT TAT TAT TAT TATT TAT TATT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T
119873 TAT TAT TAT TA
1 TAT TAT TAT TA
119884 CTAAATAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
2 3 0.06
3 39 0.80
4 7 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:119897 original size:26 final size:25
Alignment explanation
Indices: 119837--119900 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
119827 TATTATTTAT
* *
119837 ATTTTATTATTATTATTATTATTATTA
1 ATTTTA-T-TTATTATTATTATAAATA
*
119864 TTTATTATTTATTATTATTACTAAATA
1 ATT-TTATTTATTATTATTA-TAAATA
119891 ATTTTATTTA
1 ATTTTATTTA
119901 CATTGCAAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 19 0.61
27 9 0.29
28 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTTATTTATTATTATTATAAATA
Found at i:121199 original size:2 final size:2
Alignment explanation
Indices: 121192--121259 Score: 81
Period size: 2 Copynumber: 36.0 Consensus size: 2
121182 ATTTAAACTT
*
121192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
121233 AA TA T- TA T- TA T- TA TA AA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
121260 AATAATATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
1 4 0.07
2 53 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:121203 original size:28 final size:28
Alignment explanation
Indices: 121149--121203 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
121139 TTATTAGTTT
** *
121149 TTATTATTTTTACTTTCATTTATTATAG
1 TTATTATTTAAACTTTCATATATTATAG
121177 TTATTATTTAAACTTT-ATATATATATA
1 TTATTATTTAAACTTTCATATAT-TATA
121204 TATATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATTATTTAAACTTTCATATATTATAG
Found at i:126645 original size:72 final size:72
Alignment explanation
Indices: 126554--126688 Score: 225
Period size: 72 Copynumber: 1.9 Consensus size: 72
126544 ATACAATAAA
126554 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATAATCAGCTAGT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATAATCAGCTAGT
126619 CTATTAT
66 CTATTAT
* * * * *
126626 GCTTGAGTTGTCCCTCTAAAGCAATTGGTTAATAGCCCTGGCTTTATGGATAATATTCAGCTA
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATAATCAGCTA
126689 ACCCATTCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATAATCAGCTAGT
CTATTAT
Found at i:131697 original size:113 final size:113
Alignment explanation
Indices: 131368--132156 Score: 826
Period size: 113 Copynumber: 6.9 Consensus size: 113
131358 GATTTGAATC
** * * *
131368 CATCACCCAATGGATTACCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 CATCACCTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
131433 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATT
* * **
131481 CATCACTTGATGGATCAACATTTCCAGA-AGCGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACCTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
131545 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATT
* * *
131593 CATCACCCGATGGATTAGCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACCTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * * *
131658 AGAAGGAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGC-ATAACT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATT
* *
131705 CTATCA-CAGAAGGAGATAGATCAGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTC
1 C-ATCACCTG-ATG-GAT---T-A--A-C-A--TTTCCAGAGAAAGTTCATAATGAGAAGAACTC
* * * * **
131769 ATATGAAGAAGGAAGAAGAAGTTCATATTGTGAAGAACTTGTTTAACCTTTTGCTCAAATT
53 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATT
* * * * *
131830 CATCACTTGATGGATTAACTTTTCCAAAGAGAGTTCGTAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACCTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * **
131895 AGAATAAATTCATAATGAGAAGAATTTGTTCAAATATTTTG-TTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTC-AACCTTTTGCTTT-AATT
** * * *
131944 CATCATTTGATGGATCAACTTTTCCAGAG-AAGTTCATAATGAGAAGAACTTATCTGAAG-AGGA
1 CATCACCTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
132007 AGAAGAAGTTCATAATAAGAAGATA-TTGTTCAACCTTTTGC-ATGACT
66 AGAAGAAGTTCATAATGAGAAGA-ACTTGTTCAACCTTTTGCTTTAATT
* * * ** *
132054 CTATCA-CAGAAGGAGATATATCAACATTTACAGA-AGTGTTCATAATGAGAAGAACTCATTTGA
1 C-ATCACCTG-ATG-G--AT-T-AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
132117 A-AAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
59 AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
132157 TTTAAGAGAT
Statistics
Matches: 567, Mismatches: 79, Indels: 57
0.81 0.11 0.08
Matches are distributed among these distances:
110 4 0.01
111 14 0.02
112 142 0.25
113 195 0.34
114 42 0.07
115 1 0.00
116 70 0.12
117 2 0.00
118 1 0.00
119 1 0.00
120 1 0.00
121 1 0.00
122 1 0.00
123 3 0.01
124 84 0.15
125 5 0.01
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (113 bp):
CATCACCTGATGGATTAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATT
Found at i:131927 original size:237 final size:236
Alignment explanation
Indices: 131368--132047 Score: 728
Period size: 237 Copynumber: 3.0 Consensus size: 236
131358 GATTTGAATC
* * * * *
131368 CATCACCCAATGGATTACCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 CATCACCCGATGGATTAACATTACCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
131433 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTC-ATCAC---------T
66 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACATTTTGC-ATAACTCTATCACAGAAGGAGAT
* * ** *
131488 TGAT--GGATCAACATTTCCAGAAGCGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
130 AGATCAGCATCAACATTTCCAGAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGA
**
131551 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATT
195 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
* *
131593 CATCACCCGATGGATTAGCATTACCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACCCGATGGATTAACATTACCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * *
131658 AGAAGGAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGCATAACTCTATCACAGAAGGAGATA
66 AGAAGAAATTCATAATGAGAAGAACTTGTTCAACATTTTGCATAACTCTATCACAGAAGGAGATA
*
131723 GATCAGCATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGA
131 GATCAGCATCAACATTTCCAGA-AAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGA
* * *
131788 AGTTCATATTGTGAAGAACTTGTTTAACCTTTTGCTCAAATT
195 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
** * * * *
131830 CATCACTTGATGGATTAACTTTTCCAAAGAGAGTTCGTAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACCCGATGGATTAACATTACCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * ** * *
131895 AGAATAAATTCATAATGAGAAGAATTTGTTCAAATATTTTGTTTGAATTC-AT--C------A-T
66 AGAAGAAATTCATAATGAGAAGAACTTGTTC-AACATTTTGCAT-AACTCTATCACAGAAGGAGA
* * * * * *
131950 TTGAT--GGATCAACTTTTCCAGAGAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAG
129 TAGATCAGCATCAACATTTCCAGAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAG
*
132012 AAGTTCATAATAAGAAGATA-TTGTTCAACCTTTTGC
194 AAGTTCATAATGAGAAGA-ACTTGTTCAACCTTTTGC
132048 ATGACTCTAT
Statistics
Matches: 392, Mismatches: 47, Indels: 32
0.83 0.10 0.07
Matches are distributed among these distances:
224 5 0.01
225 143 0.36
226 29 0.07
227 16 0.04
229 4 0.01
230 1 0.00
234 4 0.01
236 16 0.04
237 159 0.41
238 11 0.03
239 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (236 bp):
CATCACCCGATGGATTAACATTACCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAATTCATAATGAGAAGAACTTGTTCAACATTTTGCATAACTCTATCACAGAAGGAGATA
GATCAGCATCAACATTTCCAGAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAA
GTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATT
Found at i:132038 original size:349 final size:343
Alignment explanation
Indices: 131386--132156 Score: 1084
Period size: 349 Copynumber: 2.2 Consensus size: 343
131376 AATGGATTAC
* *
131386 CATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGA
1 CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAAGAAGTTCATAATGA
** * *
131451 GAAGAACTTGTTCAACCTTTTGCTTTAATTCATCACTTGATGGATCAACATTTCCAGAAGCGTTC
66 GAAGAACTTGTTCAACCTTTTGCTCAAATTCATCACTTGATGGATCAACATTTCCAAAAGAGTTC
* *
131516 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCT
131 ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACAT
* *
131581 TTTGCTTTAATTCATCACCCGATGGATTAGCATTACCAGAGAAAGTTCATAATGAGAAGAACTCA
196 TTTGCTTTAATTCATCACCCGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCA
* * *
131646 TCTGAAGAAGGAAGAAGGAGTTCATAATGAGAAGAGCTTGTTCAACATTTTGCATAACTCTATCA
261 TCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAGATTGTTCAACATTTTGCATAACTCTATCA
131711 CAGAAGGAGATAGATCAGCATCAA
326 CAGAAGGAGAT--AT----ATCAA
* * * *
131735 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAGTTCATATTGT
1 CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAAGAAGTTCATAATGA
* * *
131800 GAAGAACTTGTTTAACCTTTTGCTCAAATTCATCACTTGATGGATTAACTTTTCCAAAGAGAGTT
66 GAAGAACTTGTTCAACCTTTTGCTCAAATTCATCACTTGATGGATCAACATTTCCAAA-AGAGTT
* * * *
131865 CGTAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAATTCATAATGAGAAGAATTTGTTCAAAT
130 CATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTC-AAC
*** * *
131930 ATTTTG-TTTGAATTCATCATTTGATGGATCAACTTTTCCAGAG-AAGTTCATAATGAGAAGAAC
194 ATTTTGCTTT-AATTCATCACCCGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAAC
* * * *
131993 TTATCTGAAG-AGGAAGAAGAAGTTCATAATAAGAAGATATTGTTCAACCTTTTGCATGACTCTA
258 TCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAGATTGTTCAACATTTTGCATAACTCTA
132057 TCACAGAAGGAGATATATCAA
323 TCACAGAAGGAGATATATCAA
* ** *
132078 CATTTACAGA-AGTGTTCATAATGAGAAGAACTCATTTGAA-AAAGAAGAAGAAGTTCATAATGA
1 CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAAGAAGTTCATAATGA
*
132141 GAAGAATTTGTTCAAC
66 GAAGAACTTGTTCAAC
132157 TTTAAGAGAT
Statistics
Matches: 376, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
341 34 0.09
342 27 0.07
343 13 0.03
347 2 0.01
349 173 0.46
350 94 0.25
351 33 0.09
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (343 bp):
CATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTTTGCTCAAATTCATCACTTGATGGATCAACATTTCCAAAAGAGTTC
ATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAACTTGTTCAACAT
TTTGCTTTAATTCATCACCCGATGGATCAACATTACCAGAGAAAGTTCATAATGAGAAGAACTCA
TCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAGATTGTTCAACATTTTGCATAACTCTATCA
CAGAAGGAGATATATCAA
Found at i:132366 original size:3 final size:3
Alignment explanation
Indices: 132360--132403 Score: 70
Period size: 3 Copynumber: 14.0 Consensus size: 3
132350 TTTTTTCATT
132360 TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA
132404 CTAAATAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:132417 original size:26 final size:25
Alignment explanation
Indices: 132357--132420 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
132347 CATTTTTTTC
* *
132357 ATTTTATTATTATTATTATTATTATTA
1 ATTTTA-T-TTATTATTATTATAAATA
*
132384 TTTATTATTTATTATTATTACTAAATA
1 ATT-TTATTTATTATTATTA-TAAATA
132411 ATTTTATTTA
1 ATTTTATTTA
132421 CATTACAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 19 0.61
27 9 0.29
28 3 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTTATTTATTATTATTATAAATA
Found at i:133780 original size:28 final size:27
Alignment explanation
Indices: 133717--133789 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
133707 TAAACTTTAT
* *
133717 ATATATATTATATATATATATATTTAAAA
1 ATATTTATTAT-TAT-TATATATATAAAA
*
133746 TTA-TTATTATTATTATATATATAAATA
1 ATATTTATTATTATTATATATATAAA-A
133773 ATATTTATTTATT-TTAT
1 ATATTTA-TTATTATTAT
133790 TTTATTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 11 0.30
27 6 0.16
28 13 0.35
29 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
ATATTTATTATTATTATATATATAAAA
Found at i:133786 original size:45 final size:45
Alignment explanation
Indices: 133713--133801 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
133703 TATTTAAACT
*
133713 TTATATATATATTATATATATATATATTTAAAATTATTATTATTA
1 TTATATATATAATATATATATATATATTTAAAATTATTATTATTA
* * * **
133758 TTATATATATAA-ATAATATTTATTTATTTTATTTTATTATTATT
1 TTATATATATAATAT-ATATATATATATTTAAAATTATTATTATT
133802 TTTAAATCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 35 0.95
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (45 bp):
TTATATATATAATATATATATATATATTTAAAATTATTATTATTA
Done.