Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009153.1 Hibiscus syriacus cultivar Beakdansim tig00112679_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: 114696
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:368 original size:20 final size:20
Alignment explanation
Indices: 343--392 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
333 TGTGTTGTAC
343 TGTGGCACTTCGGTAATT-AT
1 TGTGGCACTTC-GTAATTAAT
**
363 TGTGGCACTTCGTGCTTAAT
1 TGTGGCACTTCGTAATTAAT
383 TGTGGCACTT
1 TGTGGCACTT
393 TGGTGCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.40
Consensus pattern (20 bp):
TGTGGCACTTCGTAATTAAT
Found at i:404 original size:20 final size:19
Alignment explanation
Indices: 360--404 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
350 CTTCGGTAAT
*
360 TATTGTGGCACTTCGTGCT
1 TATTGTGGCACTTCGTGCA
*
379 TAATTGTGGCACTTTGGTGCA
1 T-ATTGTGGCAC-TTCGTGCA
400 TATTG
1 TATTG
405 GTTTGCCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 14 0.64
21 7 0.32
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.42
Consensus pattern (19 bp):
TATTGTGGCACTTCGTGCA
Found at i:4059 original size:21 final size:21
Alignment explanation
Indices: 4035--4075 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
4025 GTGTTGTACT
*
4035 GTGGCACTTCGGTGCTTATTA
1 GTGGCACTTCAGTGCTTATTA
4056 GTGGCACTTCAGTGCTTATT
1 GTGGCACTTCAGTGCTTATT
4076 GGTATGGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.39
Consensus pattern (21 bp):
GTGGCACTTCAGTGCTTATTA
Found at i:4087 original size:23 final size:22
Alignment explanation
Indices: 4036--4122 Score: 77
Period size: 23 Copynumber: 3.9 Consensus size: 22
4026 TGTTGTACTG
* *
4036 TGGCACTTCGGTGCTTATTAG-
1 TGGCACTTCAGTGCTTATTGGT
4057 TGGCACTTCAGTGCTTATTGGT
1 TGGCACTTCAGTGCTTATTGGT
** * *
4079 ATGGCACTTTGGTGTTTACTGGTT
1 -TGGCACTTCAGTGCTTATTGG-T
* *
4103 TGGCACTTAAGTGTTTATTG
1 TGGCACTTCAGTGCTTATTG
4123 AGTACCTTGC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 19 0.35
23 34 0.63
24 1 0.02
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.43
Consensus pattern (22 bp):
TGGCACTTCAGTGCTTATTGGT
Found at i:20797 original size:20 final size:21
Alignment explanation
Indices: 20774--20816 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
20764 GAATTGAAAG
*
20774 TTAGAATATTAAATTTGA-TA
1 TTAGAATATGAAATTTGACTA
*
20794 TTAGAATGTGAAATTTGACTA
1 TTAGAATATGAAATTTGACTA
20815 TT
1 TT
20817 TTGGAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (21 bp):
TTAGAATATGAAATTTGACTA
Found at i:22565 original size:19 final size:19
Alignment explanation
Indices: 22449--22563 Score: 140
Period size: 19 Copynumber: 6.1 Consensus size: 19
22439 TATTCACTGG
*
22449 GCTATGAATATGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
22468 GCTATGAATTTAAAAATAA
1 GCTATGAATCTGAAAATAA
*
22487 GCTATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
* * *
22506 GATATGAATCTGATAGTAA
1 GCTATGAATCTGAAAATAA
*
22525 GCTATGAGTCTGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
22544 GTTATGAATCTGGAAATAA
1 GCTATGAATCTGAAAATAA
22563 G
1 G
22564 TTCTAATTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.46, C:0.06, G:0.18, T:0.30
Consensus pattern (19 bp):
GCTATGAATCTGAAAATAA
Found at i:30329 original size:21 final size:21
Alignment explanation
Indices: 30303--30346 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
30293 GTCTACGGGA
30303 AAGAATGTAATTTACCGATTG
1 AAGAATGTAATTTACCGATTG
30324 AAGAATGTAATTTACCGATTG
1 AAGAATGTAATTTACCGATTG
30345 AA
1 AA
30347 CTTGAACATA
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:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (21 bp):
AAGAATGTAATTTACCGATTG
Found at i:32744 original size:13 final size:13
Alignment explanation
Indices: 32726--32751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32716 CTCCCCTCCC
32726 AAACGACGCCGCA
1 AAACGACGCCGCA
32739 AAACGACGCCGCA
1 AAACGACGCCGCA
32752 TGAGGGCGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.38, G:0.23, T:0.00
Consensus pattern (13 bp):
AAACGACGCCGCA
Found at i:35041 original size:12 final size:12
Alignment explanation
Indices: 35024--35051 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
35014 CATTGGAGAG
35024 GAAAAAGAAGAA
1 GAAAAAGAAGAA
35036 GAAAAAGAAGAA
1 GAAAAAGAAGAA
35048 GAAA
1 GAAA
35052 GATGAAGAAA
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:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (12 bp):
GAAAAAGAAGAA
Found at i:39468 original size:29 final size:29
Alignment explanation
Indices: 39417--39492 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
39407 CTAAAATAAT
39417 AAAAACAGAAACATAAAGAACTAAAAAGC
1 AAAAACAGAAACATAAAGAACTAAAAAGC
* ** * * * *
39446 TAAAACAGAAAGTTAGAGGACTAAAATGG
1 AAAAACAGAAACATAAAGAACTAAAAAGC
*
39475 AAAAACAGAAACTTAAAG
1 AAAAACAGAAACATAAAG
39493 GGCCAAATAG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.62, C:0.11, G:0.16, T:0.12
Consensus pattern (29 bp):
AAAAACAGAAACATAAAGAACTAAAAAGC
Found at i:41009 original size:3 final size:3
Alignment explanation
Indices: 40996--41057 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
40986 GTAATATGTA
** *
40996 AAT AA- AAT AAT AAT AAT AAT GCT AAT AAT AAT AATT AA- AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
41040 GAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
41058 AAAAAAAGAC
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:41058 original size:24 final size:23
Alignment explanation
Indices: 40996--41059 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
40986 GTAATATGTA
* *
40996 AATAA-AATAATAATAATAATGCT
1 AATAATAATAATAA-AATAACGAT
41019 AATAATAATAATTAAAATAACGAT
1 AATAATAATAA-TAAAATAACGAT
41043 AATAATAATATATAAAA
1 AATAATAATA-ATAAAA
41060 AAAAAGACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 27 0.75
25 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAAAATAACGAT
Found at i:41433 original size:40 final size:41
Alignment explanation
Indices: 41257--41570 Score: 219
Period size: 40 Copynumber: 7.4 Consensus size: 41
41247 TTAACGCGGT
* *
41257 TCCTACGTGATGAGGAAATCTGG-TC-GGGGAATGACACGGC
1 TCCTACGTGATGAGGAGATCTGGATCTAGGG-ATGACACGGC
* * * * *
41297 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGT
1 TCCTACGTGATGAGGAGATCTGG--ATCT--AGG-GATGACACGGC
* * *
41343 TCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGG--ATCTAGGGATGACACGGC
41386 TCCTACGTGATGAGGAGATCTGG-TCT-GGGAATGACACGGC
1 TCCTACGTGATGAGGAGATCTGGATCTAGGG-ATGACACGGC
* * * * *
41426 TCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGT
1 TCCTACGTGATGAGGAGATCTGG--ATCT--AGG-GATGACACGGC
* * * *
41472 TCCTACGTGATGAAGACG-GCTGGTTATCTATGGTTGACACGGC
1 TCCTACGTGATGAGGA-GATCTGG--ATCTAGGGATGACACGGC
* *
41515 TCCTACGTGATGAGGAGATCTGG-TCTGGGGATGACACGGT
1 TCCTACGTGATGAGGAGATCTGGATCTAGGGATGACACGGC
*
41555 TCCTACATGATGAGGA
1 TCCTACGTGATGAGGA
41571 CGGCTGGCCA
Statistics
Matches: 216, Mismatches: 39, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
39 2 0.01
40 79 0.37
42 2 0.01
43 60 0.28
44 4 0.02
46 65 0.30
47 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (41 bp):
TCCTACGTGATGAGGAGATCTGGATCTAGGGATGACACGGC
Found at i:41490 original size:129 final size:129
Alignment explanation
Indices: 41257--41567 Score: 559
Period size: 129 Copynumber: 2.4 Consensus size: 129
41247 TTAACGCGGT
* *
41257 TCCTACGTGATGAGGAAATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
*
41322 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
66 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAAGACGGCTGGTTATCTATGGTTGACACGGC
41386 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
41451 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAAGACGGCTGGTTATCTATGGTTGACACGGC
66 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAAGACGGCTGGTTATCTATGGTTGACACGGC
* * * *
41515 TCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACATGATGA
1 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGA
41568 GGACGGCTGG
Statistics
Matches: 175, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 175 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (129 bp):
TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
ATCTAAAGGTGATAACACGGTTCCTACGTGATGAAGACGGCTGGTTATCTATGGTTGACACGGC
Found at i:41636 original size:28 final size:28
Alignment explanation
Indices: 41596--41666 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
41586 AGGAGTTATG
* *
41596 GTTTCAAGAGAAACCA-AATTAAAGATTT
1 GTTTCAAAAGAAA-CAGAATCAAAGATTT
*
41624 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGAATCAAAGATTT
41652 GTTTCAAGAA-AAACA
1 GTTTCAA-AAGAAACA
41667 AGCTCAAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 2 0.05
28 34 0.89
29 2 0.05
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGAATCAAAGATTT
Found at i:41689 original size:31 final size:28
Alignment explanation
Indices: 41616--41691 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
41606 AAACCAAATT
41616 AAAGATTTGTTTCAAAAGAAACAGACTC
1 AAAGATTTGTTTCAAAAGAAACAGACTC
41644 AAAGATTTGTTTCAAGAA-AAACA-AGCTC
1 AAAGATTTGTTTCAA-AAGAAACAGA-CTC
41672 AAAGATAATGTGTTTCAAAA
1 AAAGAT--T-TGTTTCAAAA
41692 ACAACTGTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
27 1 0.02
28 29 0.67
29 2 0.05
30 3 0.07
31 8 0.19
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAGACTC
Found at i:41883 original size:66 final size:64
Alignment explanation
Indices: 41694--41883 Score: 168
Period size: 66 Copynumber: 2.9 Consensus size: 64
41684 TTTCAAAAAC
** * *
41694 AACTGTCTCGAAAGAGACAAAATTCATTTCAAATGAAAC-AACTCAAAAGATG-ACGTTTAAAGG
1 AACTGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACGATCTC-AAAGATGTATGTTTAAAGG
41757 G
64 G
* * ** * * * * * * *
41758 AATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAAATATCTGTGTTTCATGG
1 AACTGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACGATCTCAAAGATGTATGTTTAAAGG
41823 G
64 G
*
41824 AAACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGTTTGTTT
1 -AACTGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGTATGTTT
41884 TGTTTCAAGG
Statistics
Matches: 96, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
63 2 0.02
64 17 0.18
65 17 0.18
66 41 0.43
67 19 0.20
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (64 bp):
AACTGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGTATGTTTAAAGGG
Found at i:42663 original size:27 final size:28
Alignment explanation
Indices: 42633--42686 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
42623 CTGTCTCAAG
*
42633 AGATACAAA-ATTCATTTTAAGAGAAAC
1 AGATACAAAGATTCATTTTAAAAGAAAC
* **
42660 AGATTCAAAGATTTTTTTTAAAAGAAA
1 AGATACAAAGATTCATTTTAAAAGAAA
42687 ATATCTTAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.31
Consensus pattern (28 bp):
AGATACAAAGATTCATTTTAAAAGAAAC
Found at i:42686 original size:64 final size:64
Alignment explanation
Indices: 42593--42762 Score: 164
Period size: 64 Copynumber: 2.6 Consensus size: 64
42583 TTTCAAGATG
* ** * * * *
42593 AACATATTCAAAGATTTACTTCAAGAGAAACTGTCTCAAGAGATACAAAATTCAT-TTT-AAGAG
1 AACAGATTCAAAGATTTTTTTTAAAAGAAACTATCTCAAGAGAGACAAAATT-ATGTTTCAA-AG
42656 A
64 A
* * *
42657 AACAGATTCAAAGATTTTTTTTAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCCAAAGA
1 AACAGATTCAAAGATTTTTTTTAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTT-CAAAGA
** *
42722 AACAGACCCAAAGATTTTTGTTTCAAAAGAAACAATCTCAA
1 AACAGATTCAAAGATTTTT-TTT-AAAAGAAACTATCTCAA
42763 AGATTTTTTT
Statistics
Matches: 86, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
63 1 0.01
64 46 0.53
65 20 0.23
66 5 0.06
67 14 0.16
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.29
Consensus pattern (64 bp):
AACAGATTCAAAGATTTTTTTTAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTTCAAAGA
Found at i:42738 original size:29 final size:29
Alignment explanation
Indices: 42702--42778 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
42692 TTAAGAGAGA
42702 CAAA-ATTTTGTTTCCAAAGAAACAGA-CC
1 CAAAGATTTTGTTTCCAAAGAAACA-ATCC
* *
42730 CAAAGATTTTTGTTTCAAAAGAAACAATCT
1 CAAAGA-TTTTGTTTCCAAAGAAACAATCC
42760 CAAAGATTTT-TTTCACAAA
1 CAAAGATTTTGTTTC-CAAA
42779 ATTGTCTCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 8 0.19
29 9 0.21
30 25 0.60
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (29 bp):
CAAAGATTTTGTTTCCAAAGAAACAATCC
Found at i:42741 original size:30 final size:30
Alignment explanation
Indices: 42707--42770 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
42697 AGAGACAAAA
*
42707 TTTTGTTTCCAAAGAAACAGA-CCCAAAGAT
1 TTTTGTTTCAAAAGAAACA-ATCCCAAAGAT
*
42737 TTTTGTTTCAAAAGAAACAATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAATCCCAAAGAT
42767 TTTT
1 TTTT
42771 TTCACAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAATCCCAAAGAT
Found at i:42833 original size:52 final size:53
Alignment explanation
Indices: 42758--42861 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 53
42748 AAGAAACAAT
42758 CTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGA-TTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
* * *
42812 CTCAAAGA-TTTTTCACGAAATTGTCTTAAGAGAGATAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
42862 AAAGAAATAG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 39 0.83
54 8 0.17
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:42844 original size:145 final size:143
Alignment explanation
Indices: 42690--42950 Score: 432
Period size: 145 Copynumber: 1.8 Consensus size: 143
42680 AAAGAAAATA
* *
42690 TCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACCCAAAGATTTTTGTTTCAAAAGAAAC
1 TCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACCCAAAGATTTTTGTTTCAAAAGAAAC
*
42755 AATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGA
66 AATCTCAAAGA--TTCTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGA
42820 TTTTTCACGAAATTG
129 TTTTTCACGAAATTG
* * ** *
42835 TCTTAAGAGAGATAAAACTTTGTTTCAAAAGAAATAGATTCAAAGATTTTTTTTTCAAAAGAAAC
1 TCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACCCAAAGATTTTTGTTTCAAAAGAAAC
42900 AATCTCAAAGATTCTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTT
66 AATCTCAAAGATTCTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTT
42951 TAAAAGATTC
Statistics
Matches: 108, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
143 39 0.36
145 69 0.64
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.32
Consensus pattern (143 bp):
TCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACCCAAAGATTTTTGTTTCAAAAGAAAC
AATCTCAAAGATTCTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTCAAAGATT
TTTCACGAAATTG
Found at i:43248 original size:36 final size:36
Alignment explanation
Indices: 43164--43283 Score: 138
Period size: 36 Copynumber: 3.4 Consensus size: 36
43154 GAGAAAATGA
* *
43164 TGTCTCAAGTGAGACAAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAT
* *
43198 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAT
* * *
43234 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAA
1 TGTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAT
*
43269 CGATCTCAAGTGAGA
1 TG-TCTCAAGTGAGA
43284 TCAACTTTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
34 21 0.29
35 11 0.15
36 40 0.56
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (36 bp):
TGTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:43414 original size:105 final size:101
Alignment explanation
Indices: 43235--43467 Score: 283
Period size: 105 Copynumber: 2.3 Consensus size: 101
43225 TAGAGAAATT
*
43235 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
* *
43299 GTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
64 GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
43337 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
43401 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
43442 GTCTCGAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
43468 AAAATTCTCA
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 4 0.04
105 77 0.68
106 5 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:43544 original size:38 final size:36
Alignment explanation
Indices: 43493--43602 Score: 143
Period size: 38 Copynumber: 3.0 Consensus size: 36
43483 TGTGGAAAAA
* *
43493 TGTCTCAAGCGAGACATAATTTGTTTTAAAGAGAAAGT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAA-AGAAA-C
43531 TGTCTCAAGCGAGACAAAATTTGATTTT-AAA-AAAC
1 TGTCTCAAGCGAGACAAAATTTG-TTTTAAAAGAAAC
43566 TGTCTCAAGCGAGACAAAATTTGTTTTACAAAAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTT--AAAAGAAA
43603 TTGCCTATAG
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
34 4 0.06
35 23 0.35
36 3 0.05
37 4 0.06
38 27 0.42
39 4 0.06
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAAAGAAAC
Found at i:43577 original size:35 final size:33
Alignment explanation
Indices: 43488--43598 Score: 141
Period size: 35 Copynumber: 3.2 Consensus size: 33
43478 AAATTTGTGG
*
43488 AAAAATGTCTCAAGCGAGACATAATTTGTTTTAA
1 AAAAATGTCTCAAGCGAGACAAAATTTGTTTT-A
43522 AGAGAAAGTTGTCTCAAGCGAGACAAAATTTGATTTTA
1 A-A-AAA--TGTCTCAAGCGAGACAAAATTTG-TTTTA
43560 AAAAACTGTCTCAAGCGAGACAAAATTTGTTTTA
1 AAAAA-TGTCTCAAGCGAGACAAAATTTGTTTTA
*
43594 CAAAA
1 AAAAA
43599 GAAATTGCCT
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
34 10 0.14
35 24 0.35
36 6 0.09
37 1 0.01
38 24 0.35
39 4 0.06
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (33 bp):
AAAAATGTCTCAAGCGAGACAAAATTTGTTTTA
Found at i:43618 original size:73 final size:72
Alignment explanation
Indices: 43488--43625 Score: 190
Period size: 73 Copynumber: 1.9 Consensus size: 72
43478 AAATTTGTGG
* * *
43488 AAAAATGTCTCAAGCGAGACATAATTTGTTTTAAAGAGAAAGTTGTCTCAAGCGAGACAAAATTT
1 AAAAATGTCTCAAGCGAGACAAAATTTGTTTTAAAAAGAAAGTTGCCTCAAGCGAGACAAAATTT
43553 GATTTTA
66 GATTTTA
* *
43560 AAAAACTGTCTCAAGCGAGACAAAATTTGTTTTACAAAAGAAA-TTGCCT-ATAGTGAGACAACA
1 AAAAA-TGTCTCAAGCGAGACAAAATTTGTTTTA-AAAAGAAAGTTGCCTCA-AGCGAGACAAAA
43623 TTT
63 TTT
43626 TGTTTCGATA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
72 6 0.10
73 45 0.78
74 7 0.12
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (72 bp):
AAAAATGTCTCAAGCGAGACAAAATTTGTTTTAAAAAGAAAGTTGCCTCAAGCGAGACAAAATTT
GATTTTA
Found at i:47599 original size:32 final size:32
Alignment explanation
Indices: 47552--47613 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
47542 ATGAAAAAAG
*
47552 ACACAAACAACAGAAAACAAATAAGTTAGTGC
1 ACACAAACAAAAGAAAACAAATAAGTTAGTGC
* * *
47584 ACACAAAGAAAAGAAAAGAAATTAGTTAGT
1 ACACAAACAAAAGAAAACAAATAAGTTAGT
47614 ACAGGTAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.58, C:0.13, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAAAACAAATAAGTTAGTGC
Found at i:49574 original size:29 final size:29
Alignment explanation
Indices: 49523--49598 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
49513 CCAAAATAAT
49523 AAAAACAGAAACATAAAGAACTAAAAAGC
1 AAAAACAGAAACATAAAGAACTAAAAAGC
* ** * * * *
49552 TAAAACAGAAAGTTAGAGGACTAAAATGG
1 AAAAACAGAAACATAAAGAACTAAAAAGC
*
49581 AAAAACAGAAACTTAAAG
1 AAAAACAGAAACATAAAG
49599 GGCCAAATAG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.62, C:0.11, G:0.16, T:0.12
Consensus pattern (29 bp):
AAAAACAGAAACATAAAGAACTAAAAAGC
Found at i:51118 original size:3 final size:3
Alignment explanation
Indices: 51105--51166 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
51095 GTAATATGTA
** *
51105 AAT AA- AAT AAT AAT AAT AAT GCT AAT AAT AAT AATT AA- AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
51149 GAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
51167 AAAAAAAGAC
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:51167 original size:24 final size:23
Alignment explanation
Indices: 51105--51168 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
51095 GTAATATGTA
* *
51105 AATAA-AATAATAATAATAATGCT
1 AATAATAATAATAA-AATAACGAT
51128 AATAATAATAATTAAAATAACGAT
1 AATAATAATAA-TAAAATAACGAT
51152 AATAATAATATATAAAA
1 AATAATAATA-ATAAAA
51169 AAAAAGACCC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 27 0.75
25 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAAAATAACGAT
Found at i:61583 original size:26 final size:27
Alignment explanation
Indices: 61508--61583 Score: 73
Period size: 31 Copynumber: 2.7 Consensus size: 27
61498 TTTGACAAAA
61508 AAAAATAGTTAAGATACTTAAAGTGACT
1 AAAAATAGTTAAGA-ACTTAAAGTGACT
* **
61536 ACATATAATAGTTTAAGGACTTAATTTGAC-
1 A-A-A-AATAG-TTAAGAACTTAAAGTGACT
61566 AAAAATAGTTAAGAACTT
1 AAAAATAGTTAAGAACTT
61584 CAGAGAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
26 9 0.22
27 5 0.12
28 2 0.05
29 2 0.05
30 2 0.05
31 15 0.38
32 5 0.12
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (27 bp):
AAAAATAGTTAAGAACTTAAAGTGACT
Found at i:64631 original size:25 final size:25
Alignment explanation
Indices: 64603--64676 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
64593 ATATTTACAC
64603 TTATATATAAATTATATCAATTTAA
1 TTATATATAAATTATATCAATTTAA
**
64628 TTATA-ATAAATT-TAAAAAGATATT-A
1 TTATATATAAATTAT-ATCA-AT-TTAA
64653 TTATATAT-AATTATATCAATTTAA
1 TTATATATAAATTATATCAATTTAA
64677 AATATAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
23 3 0.08
24 12 0.31
25 19 0.49
26 5 0.13
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (25 bp):
TTATATATAAATTATATCAATTTAA
Found at i:64707 original size:49 final size:50
Alignment explanation
Indices: 64604--64707 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 50
64594 TATTTACACT
* ** * *
64604 TATATATAAATTATATCAATTTAATTATAATAAATTTAAAAAGATATTAT
1 TATATATAAATTATATCAATTTAAATATAATAAAAATAAAAAGATATAAA
*
64654 TATATAT-AATTATATCAATTTAAAATATAATAAAAATATATAA-ATA-AAA
1 TATATATAAATTATATCAATTT-AAATATAATAAAAATA-AAAAGATATAAA
64703 TATAT
1 TATAT
64708 TTTATATAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
49 20 0.43
50 23 0.50
51 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (50 bp):
TATATATAAATTATATCAATTTAAATATAATAAAAATAAAAAGATATAAA
Found at i:69305 original size:44 final size:44
Alignment explanation
Indices: 69245--69328 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
69235 CAAAAGAAAA
*
69245 AGAATATATATTTTAACAAATGCAAGCTTGTGAAGCTTACAAAG
1 AGAATATATATGTTAACAAATGCAAGCTTGTGAAGCTTACAAAG
* *
69289 AGAATATATATGTTAACAAATGTAAGCTTGTGAAGTTTAC
1 AGAATATATATGTTAACAAATGCAAGCTTGTGAAGCTTAC
69329 TCACATTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (44 bp):
AGAATATATATGTTAACAAATGCAAGCTTGTGAAGCTTACAAAG
Found at i:72273 original size:45 final size:45
Alignment explanation
Indices: 72218--72520 Score: 497
Period size: 45 Copynumber: 6.8 Consensus size: 45
72208 TATAAAATTT
* *
72218 CTTATCATTTA-TCCTATAAGATCGTAAGCTTATTTTACCAA-ATTA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATA-TA
*
72263 CTTACAATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
72308 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
72353 CTTAACATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
72398 CTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
72442 CTTACCATTTATTCTATAAGCTCGTAAGCTTATTTTGCCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
72487 CTTACCA-TTATTCCATAAGCTCATAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
72521 GCATGCTTAC
Statistics
Matches: 245, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
44 69 0.28
45 172 0.70
46 4 0.02
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:72453 original size:89 final size:89
Alignment explanation
Indices: 72233--72520 Score: 497
Period size: 89 Copynumber: 3.2 Consensus size: 89
72223 CATTTATCCT
* *
72233 ATAAGATCGTAAGCTTATTTTACCAA-ATTACTTACAATTTATTCCATAAGCTCGTAAGCTTATT
1 ATAAGCTCGTAAGCTTATTTTACCAATA-TACTTACCATTTATTCCATAAGCTCGTAAGCTTATT
72297 TTACCAATATACTTACCATTTATTCC
65 TTACCAATATACTTACCA-TTATTCC
*
72323 ATAAGCTCGTAAGCTTATTTTACCAATATACTTAACATTTATTCCATAAGCTCGTAAGCTTATTT
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
72388 TACCAATATACTTACCATTATTCC
66 TACCAATATACTTACCATTATTCC
*
72412 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCTATAAGCTCGTAAGCTTATTT
1 ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
*
72477 TGCCAATATACTTACCATTATTCC
66 TACCAATATACTTACCATTATTCC
*
72501 ATAAGCTCATAAGCTTATTT
1 ATAAGCTCGTAAGCTTATTT
72521 GCATGCTTAC
Statistics
Matches: 190, Mismatches: 7, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
89 112 0.59
90 77 0.41
91 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.40
Consensus pattern (89 bp):
ATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
TACCAATATACTTACCATTATTCC
Found at i:72464 original size:134 final size:135
Alignment explanation
Indices: 72218--72520 Score: 497
Period size: 134 Copynumber: 2.3 Consensus size: 135
72208 TATAAAATTT
* *
72218 CTTATCATTTA-TCCTATAAGATCGTAAGCTTATTTTACCAAATTACTTACAATTTATTCCATAA
1 CTTAACATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAAATTACTTACAATTTATTCCATAA
72282 GCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
65 GCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
72347 AATATA
130 AATATA
*
72353 CTTAACATTTATTCCATAAGCTCGTAAGCTTATTTTACC-AATATACTTACCA-TTATTCCATAA
1 CTTAACATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAT-TACTTACAATTTATTCCATAA
* *
72416 GCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCTATAAGCTCGTAAGCTTATTTTGCC
65 GCTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACC
72481 AATATA
130 AATATA
* *
72487 CTTACCA-TTATTCCATAAGCTCATAAGCTTATTT
1 CTTAACATTTATTCCATAAGCTCGTAAGCTTATTT
72521 GCATGCTTAC
Statistics
Matches: 159, Mismatches: 7, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
133 26 0.16
134 89 0.56
135 41 0.26
136 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.41
Consensus pattern (135 bp):
CTTAACATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAATTACTTACAATTTATTCCATAAG
CTCGTAAGCTTATTTTACCAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCA
ATATA
Found at i:74922 original size:31 final size:30
Alignment explanation
Indices: 74884--74943 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
74874 TTATATACGC
74884 TATGTGATAAA-GTGATGGAACATGATATGTT
1 TATGTGATAAAGGT-ATGGAA-ATGATATGTT
*
74915 TATGTGATAAAGGTATGGAAATTATATGT
1 TATGTGATAAAGGTATGGAAATGATATGT
74944 CTATACAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 17 0.63
32 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (30 bp):
TATGTGATAAAGGTATGGAAATGATATGTT
Found at i:76451 original size:144 final size:144
Alignment explanation
Indices: 76291--76728 Score: 518
Period size: 132 Copynumber: 3.1 Consensus size: 144
76281 AATATACATA
76291 TAAGATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCTTAAGACAGCTCTTTTC
1 TAAGATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCTTAAGACAGCTCTTTTC
76356 TTCGATATTGAAAAATGAATAAATATAAAAACATTTTTCTAAAAATAATAATAAAAAATAGATAT
66 TTCGATATTGAAAAATGAATAAATATAAAAACATTTTTCTAAAAATAATAATAAAAAATAGATAT
76421 ATAATTTATAAAAG
131 ATAATTTATAAAAG
* ***
76435 TAAGATATTTACTTATTTAGAAATATCAGAAAA-GAGCTTCTAGGTATTTTAAGACAGCTCTTTT
1 TAAGATATTTATTTATTTAGAAATATCAGAAAATGA-CTTCTAGGTGCCTTAAGACAGCTCTTTT
* *
76499 CTTTGATATT-AAAAAT-AAGTAAATA-AGTAAAACA-TTTTCT--TAA-AA-AAT-AAAAAT--
65 CTTCGATATTGAAAAATGAA-TAAATATA--AAAACATTTTTCTAAAAATAATAATAAAAAATAG
*
76553 -T-TAT--TTTAATATAA-
127 ATATATAATTT-ATAAAAG
** * *
76567 TAAGATATTTATTTATTT-GAAAATATCAGAAAATGGTTTCTAGGTGCCTTAAGACAGCTATTCT
1 TAAGATATTTATTTATTTAG-AAATATCAGAAAATGACTTCTAGGTGCCTTAAGACAGCTCTTTT
* * *
76631 CTTCGATATTG-AAAATGAAAAAATATAAAAACATTTTTATAAAAATAATAATAATAAATAGATT
65 CTTCGATATTGAAAAATGAATAAATATAAAAACATTTTTCTAAAAATAATAATAAAAAATAG---
*
76695 AATATATAATTTATAAATG
127 -ATATATAATTTATAAAAG
76714 TAAGATATTTATTTA
1 TAAGATATTTATTTA
76729 ATATATATAA
Statistics
Matches: 245, Mismatches: 22, Indels: 51
0.77 0.07 0.16
Matches are distributed among these distances:
131 7 0.03
132 79 0.32
133 9 0.04
134 5 0.02
135 3 0.01
136 3 0.01
137 5 0.02
138 6 0.02
139 3 0.01
140 2 0.01
141 2 0.01
142 3 0.01
143 20 0.08
144 73 0.30
145 3 0.01
146 4 0.02
147 18 0.07
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (144 bp):
TAAGATATTTATTTATTTAGAAATATCAGAAAATGACTTCTAGGTGCCTTAAGACAGCTCTTTTC
TTCGATATTGAAAAATGAATAAATATAAAAACATTTTTCTAAAAATAATAATAAAAAATAGATAT
ATAATTTATAAAAG
Found at i:78580 original size:110 final size:110
Alignment explanation
Indices: 78320--79007 Score: 663
Period size: 124 Copynumber: 5.9 Consensus size: 110
78310 ATAGAGTCAT
*
78320 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAGCTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGA--ATCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* * *
78385 TTATGAAC-TCT-CTGGAAAAGTTGATCCATTGAGTGATGAATTCAA
64 TTATGAACTTCTCCTGGAAATGCTGATCCATCGAGTGATGAATTCAA
* *
78430 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAA--TCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* *
78495 TTATGAACTTCTACCTGGCAATGCTGATCCATCGAGTGATGAATTGAA
64 TTATGAACTTCT-CCTGGAAATGCTGATCCATCGAGTGATGAATTCAA
*
78543 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAA--TCTTCTT-CCTCTTCAGATGAGTTCTTCTC
* * * * ** * *
78608 ATTATGAACTT-TATCTAGAAAAGTTGATGTTGATCTATCTCCTTCTGTGAT-AGAGTCAT
63 ATTATGAACTTCT-CCT-G-GAA----ATGCTGATCCA--T-C--GAGTGATGA-ATTCAA
*
78667 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAA--TCTTCTTCC-TCTTCAGATGAGTTCTTCTC
* ** * *
78732 ATTATGAACTT-TCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGAT-AGAGTCAT
63 ATTATGAACTTCTC-CTGG--AA----ATGCTGATCCA--T-C--GAGTGATGA-ATTCAA
78791 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAA--TCTTCTTCC-TCTTCAGATGAGTTCTTCTC
* * *
78856 ATTATGAAC-TCT-CTGGAAAAGTTGATCCATTGAGTGATGAATTCAA
63 ATTATGAACTTCTCCTGGAAATGCTGATCCATCGAGTGATGAATTCAA
* *
78902 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATGAGTTCTTATCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAA--TCTTCTTCCTCTTCAGATGAGTTCTTCTCA
* *
78967 TTATGAACTTCTACCTGGCAATGCTGATCCATCGAATGATG
64 TTATGAACTTCT-CCTGGAAATGCTGATCCATCGAGTGATG
79008 GATTTAAATC
Statistics
Matches: 507, Mismatches: 44, Indels: 51
0.84 0.07 0.08
Matches are distributed among these distances:
110 96 0.19
111 57 0.11
112 1 0.00
113 94 0.19
114 34 0.07
115 1 0.00
116 8 0.02
119 9 0.02
120 2 0.00
121 1 0.00
122 5 0.01
123 5 0.01
124 194 0.38
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (110 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAATCTTCTTCCTCTTCAGATGAGTTCTTCTCATT
ATGAACTTCTCCTGGAAATGCTGATCCATCGAGTGATGAATTCAA
Found at i:78857 original size:248 final size:225
Alignment explanation
Indices: 78314--78999 Score: 812
Period size: 248 Copynumber: 3.0 Consensus size: 225
78304 TCCGTAATAG
* * *
78314 AGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAGCTTCTTCTT-CCTCTTCAGATGAGTT
1 AGTCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGATGAGTT
* * * *
78378 CTTCTCATTATGAACTCTCTGGAAAAGTTGATCCATTGAGTGATGAATTCAAGCAAAAGGTTGAA
66 CTTCTCATTATGAACTATCTGAAAAAGTTGATCCATTCAGTGATGAAGTCAAGCAAAAGGTTGAA
78443 CAAATTCTTCTCATTATGAATTTCTTCTTCCTT-TTCAGATGAGTTCTTCTCATTATGAAC-TTC
131 CAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
* *
78506 TACCTGGCAATGCTGATCCATCGAGTGATGA
196 TA-CTGGAAATGCTGATCCATCCAGTGATGA
* *
78537 ATTGAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGATGAGTT
1 AGTCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGATGAGTT
* *
78602 CTTCTCATTATGAACTTTATCTAGAAAAGTTGATGTTGATCTATCTCCTTCTGTGAT-AGAGTCA
66 CTTCTCATTATGAAC--TATCT-GAAAA----A-GTTG----ATC-CATTCAGTGATGA-AGTCA
* * *
78666 TGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
117 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * *
78731 TATTATGAACTTTCT-CTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGAT-A
182 CATTATGAACTTTCTACTGG--AA----ATGCTGATCCA--T-C--CAGTGATGA
* * *
78784 GAGTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
1 -AGTCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGATGAGT
* * * *
78849 TCTTCTCATTATGAACTCTCTGGAAAAGTTGATCCATTGAGTGATGAATTCAAGCAAAAGGTTGA
65 TCTTCTCATTATGAACTATCTGAAAAAGTTGATCCATTCAGTGATGAAGTCAAGCAAAAGGTTGA
*
78914 ACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTATCATTATGAAC-TT
130 ACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT
*
78977 CTACCTGGCAATGCTGATCCATC
195 CTA-CTGGAAATGCTGATCCATC
79000 GAATGATGGA
Statistics
Matches: 394, Mismatches: 37, Indels: 61
0.80 0.08 0.12
Matches are distributed among these distances:
223 43 0.11
224 31 0.08
226 5 0.01
227 5 0.01
229 10 0.03
231 1 0.00
232 4 0.01
233 5 0.01
234 27 0.07
235 58 0.15
236 8 0.02
237 60 0.15
238 26 0.07
239 5 0.01
240 4 0.01
241 1 0.00
243 10 0.03
245 5 0.01
246 5 0.01
247 1 0.00
248 80 0.20
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (225 bp):
AGTCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCCTCTTCAGATGAGTT
CTTCTCATTATGAACTATCTGAAAAAGTTGATCCATTCAGTGATGAAGTCAAGCAAAAGGTTGAA
CAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC
TACTGGAAATGCTGATCCATCCAGTGATGA
Found at i:79440 original size:22 final size:22
Alignment explanation
Indices: 79415--79491 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
79405 GATAAAGCTT
* *
79415 TCATCTTTGAAAAGAGAAACTG
1 TCATCTTTGAAAAGAGAATCTA
*
79437 TCATCTTT-ATAAAGGGAATCTA
1 TCATCTTTGA-AAAGAGAATCTA
79459 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
79481 TCATCTTTGAA
1 TCATCTTTGAA
79492 GAGTGTAGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.02
22 47 0.96
23 1 0.02
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:79985 original size:54 final size:53
Alignment explanation
Indices: 79863--80063 Score: 232
Period size: 54 Copynumber: 3.8 Consensus size: 53
79853 CACTGGTTCA
* * *
79863 TAAAACATTTGACAATACATTCAT-CTTTTCCTGTGGTTTCTG-TC-GAG-ATG
1 TAAAACATTTGACAACACATTCATCCTTTT-CTGTGGCTTCTGCTCAGAGTTTG
* *
79913 TAAAACACTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCATATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGA-GTTTG
* * **
79967 TAAAACATTTGACAACACATTCATCC-TTTCTTGTGGTTTTTGCTCAGACGTTCA
1 TAAAACATTTGACAACACATTCATCCTTTTC-TGTGGCTTCTGCTCAGA-GTTTG
* *
80021 TAAAGCGTTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGC
80064 CAAGATTTCT
Statistics
Matches: 128, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
50 33 0.26
51 7 0.05
52 1 0.01
53 5 0.04
54 78 0.61
55 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (53 bp):
TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTCAGAGTTTG
Found at i:80060 original size:108 final size:104
Alignment explanation
Indices: 79863--80063 Score: 287
Period size: 104 Copynumber: 1.9 Consensus size: 104
79853 CACTGGTTCA
* * *
79863 TAAAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTGTCGAGATGTAAAACACTTGACAA
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
79928 CACATTCATCCTTTTCTGTGGCTTCTGCTCATATGTTTG
66 CACATTCATCCTTTTCTGTGGCTTCTGCTCATATGTTTG
* * **
79967 TAAAACATTTGACAACACATTCATCCTTTCTTGTGGTTTTTGCTC-AGACGTTCATAAAGCGTTT
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTG-TCGAGACG-T-A-AAA-CACTT
80031 GACAACACATTCATCCTTTTCTGTGGCTTCTGC
61 GACAACACATTCATCCTTTTCTGTGGCTTCTGC
80064 CAAGATTTCT
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
104 42 0.49
105 3 0.04
106 1 0.01
107 3 0.04
108 36 0.42
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.39
Consensus pattern (104 bp):
TAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
CACATTCATCCTTTTCTGTGGCTTCTGCTCATATGTTTG
Found at i:82441 original size:94 final size:93
Alignment explanation
Indices: 82281--82471 Score: 287
Period size: 94 Copynumber: 2.0 Consensus size: 93
82271 CTTATTTCTA
* * *
82281 CTATGAGTAAATTCATCTTTCAATATCCAATGATTGGTTCTGTGGTTTCTACCAAACCAGATCAG
1 CTATGAGCAAATTCATCTTCCAATATCCAATGATTGGTTCTGTGGGTTCTACCAAACCAGATCAG
82346 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* * *
82374 CTATGAGCACATTCATCTTCCAA-ATTCAATGATTGGTT-TTTCGGGGTTCATACCAAACCAGAT
1 CTATGAGCAAATTCATCTTCCAATATCCAATGATTGGTTCTGT--GGGTTC-TACCAAACCAGAT
82437 CAGATAACTCAAAGAACACTTCCAGAAGATG
63 CAGATAACTCAAAGAACACTTCCAGAAGATG
82468 CTAT
1 CTAT
82472 TGAGTCTTCT
Statistics
Matches: 89, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
91 2 0.02
92 14 0.16
93 25 0.28
94 48 0.54
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (93 bp):
CTATGAGCAAATTCATCTTCCAATATCCAATGATTGGTTCTGTGGGTTCTACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:84777 original size:10 final size:9
Alignment explanation
Indices: 84758--84783 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
84748 TCAATTTTCC
84758 TTTTTCTTT
1 TTTTTCTTT
84767 TTTTTCTTT
1 TTTTTCTTT
84776 TTTTTCTT
1 TTTTTCTT
84784 CTTTCTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:88095 original size:14 final size:14
Alignment explanation
Indices: 88061--88114 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
88051 TTGTGCAATA
* *
88061 CAAATGCAAAGATG
1 CAAATGTAAATATG
88075 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
88090 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
88104 TAAATGTAAAT
1 CAAATGTAAAT
88115 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:94437 original size:20 final size:20
Alignment explanation
Indices: 94412--94472 Score: 97
Period size: 19 Copynumber: 3.1 Consensus size: 20
94402 AAATTGGCAT
* *
94412 GGGGGTATCGGTACCATCTG
1 GGGGGTACCAGTACCATCTG
94432 GGGGGTACCAGTACCATCT-
1 GGGGGTACCAGTACCATCTG
94451 GGGGGTACCAGTACCATCTG
1 GGGGGTACCAGTACCATCTG
94471 GG
1 GG
94473 CAATCTGGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.18, C:0.23, G:0.38, T:0.21
Consensus pattern (20 bp):
GGGGGTACCAGTACCATCTG
Found at i:97075 original size:22 final size:21
Alignment explanation
Indices: 97026--97082 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
97016 AAATCTCGAT
**
97026 GGGGTATCGGTACCCTCATGG
1 GGGGTATCGGTACCCTCATAA
97047 GGGGTATCGGTACCCATTCA-AA
1 GGGGTATCGGTACCC--TCATAA
*
97069 GGGGTATCGATACC
1 GGGGTATCGGTACC
97083 TAGCGCGCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.48
22 13 0.42
23 3 0.10
ACGTcount: A:0.21, C:0.23, G:0.33, T:0.23
Consensus pattern (21 bp):
GGGGTATCGGTACCCTCATAA
Found at i:100305 original size:89 final size:89
Alignment explanation
Indices: 100144--100315 Score: 274
Period size: 89 Copynumber: 1.9 Consensus size: 89
100134 TAATCCTGAA
* * *
100144 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTCAAATAAAAAATCTCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTCAAATAAAAAATCCCTAATATGATT
100209 AGGGTAACTTGGATATAAGAGGAT
66 AGGGTAACTTGGATATAAGAGGAT
* *
100233 TATTAAATTCCAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTCAAATAA-AAAATCCCTAATATGAT
*
100297 TAGGGTAACTTGGCTATAA
65 TAGGGTAACTTGGATATAA
100316 AAGGGTGTGT
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 72 0.95
90 4 0.05
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTCAAATAAAAAATCCCTAATATGATT
AGGGTAACTTGGATATAAGAGGAT
Found at i:105134 original size:22 final size:21
Alignment explanation
Indices: 105094--105157 Score: 62
Period size: 22 Copynumber: 3.1 Consensus size: 21
105084 AAAAATGGTC
*
105094 TCGGTACCGTA-T-TAGAGTA
1 TCGGTACCATAGTATAGAGTA
105113 TCGGTACCATAGTATAGTAGTA
1 TCGGTACCATAGTATAG-AGTA
* * *
105135 TCGATACCATGGTAT-GGGTA
1 TCGGTACCATAGTATAGAGTA
105155 TCG
1 TCG
105158 ATACTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
19 10 0.26
20 7 0.18
21 4 0.11
22 17 0.45
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (21 bp):
TCGGTACCATAGTATAGAGTA
Found at i:105561 original size:54 final size:54
Alignment explanation
Indices: 105480--106026 Score: 766
Period size: 54 Copynumber: 10.1 Consensus size: 54
105470 CCCAAATAGT
* *
105480 CACT-AGTGTGCAATTCACGAAATTCATCATTTGTTGATGAATAACCGTTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
* *
105533 CACTAAGTGTGAAATTCACGGAATTCATCATATATATGTTGATGAATAACCGTTTCGA
1 CACTAAGTGTGCAATTCACGGAATTCATC----ATATGTTGATGAATAACCGTTTCGG
* * * *
105591 CACTAAGTGTACAATTTACGAAATTCATCATA--TTGATGAATAACCGTTTCGA
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
* *
105643 CAATAAGTGTGCAATTCACGGAATTCACCATA---TGATGAATAACCGTTTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCG-TTTCGG
*
105695 CACTAAGTGTGCAATTCACGGAATTCATCATATATATGTTGATGAATAACCGTTTCAG
1 CACTAAGTGTGCAATTCACGGAATTCATC----ATATGTTGATGAATAACCGTTTCGG
*
105753 CACTAAGTTTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
* *
105807 CACTAAGTGTGC-ATTCACGTAATTCATCATATGTTGATGAATAACAGTTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
* *
105860 CACTAAGTGTGCACTTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGA
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
* *
105914 CACTAAGTGTACAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
** * *
105968 CACTAAGTGTGCAATTCACAAAATTCATCATATGTTGATGAATAACCGTATGGG
1 CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
106022 CACTA
1 CACTA
106027 TTGGTGCATT
Statistics
Matches: 446, Mismatches: 34, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
51 13 0.03
52 79 0.18
53 55 0.12
54 202 0.45
56 3 0.01
58 81 0.18
59 13 0.03
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (54 bp):
CACTAAGTGTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
Found at i:105737 original size:110 final size:106
Alignment explanation
Indices: 105480--106016 Score: 724
Period size: 110 Copynumber: 5.0 Consensus size: 106
105470 CCCAAATAGT
*
105480 CACT-AGTGTGCAATTCACGAAATTCATCATTTGTTGATGAATAACCGTTTCGGCACTAAGTGTG
1 CACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTG
*
105544 AAATTCACGGAATTCATCATATATATGTTGATGAATAACCGTTTCGA
66 CAATTCACGGAATTCATC----ATA--TTGATGAATAACCGTTTCGA
* * * *
105591 CACTAAGTGTACAATTTACGAAATTCATCATA--TTGATGAATAACCGTTTCGACAATAAGTGTG
1 CACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTG
* *
105654 CAATTCACGGAATTCACCATA-TGATGAATAACCGTTTTCGG
66 CAATTCACGGAATTCATCATATTGATGAATAACCG-TTTCGA
* *
105695 CACTAAGTGTGCAATTCACGGAATTCATCATATATATGTTGATGAATAACCGTTTCAGCACTAAG
1 CACTAAGTGTGCAATTCACGAAATTCATC----ATATGTTGATGAATAACCGTTTCGGCACTAAG
* *
105760 TTTGCAATTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGG
62 TGTGCAATTCACGGAATTCATCATA--TTGATGAATAACCGTTTCGA
* *
105807 CACTAAGTGTGC-ATTCACGTAATTCATCATATGTTGATGAATAACAGTTTCGGCACTAAGTGTG
1 CACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTG
*
105871 CACTTCACGGAATTCATCATATGTTGATGAATAACCGTTTCGA
66 CAATTCACGGAATTCATCATA--TTGATGAATAACCGTTTCGA
*
105914 CACTAAGTGTACAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTG
1 CACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTG
**
105979 CAATTCACAAAATTCATCATATGTTGATGAATAACCGT
66 CAATTCACGGAATTCATCATA--TTGATGAATAACCGT
106017 ATGGGCACTA
Statistics
Matches: 386, Mismatches: 28, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
103 13 0.03
104 31 0.08
106 3 0.01
107 85 0.22
108 88 0.23
110 92 0.24
111 19 0.05
112 42 0.11
113 13 0.03
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (106 bp):
CACTAAGTGTGCAATTCACGAAATTCATCATATGTTGATGAATAACCGTTTCGGCACTAAGTGTG
CAATTCACGGAATTCATCATATTGATGAATAACCGTTTCGA
Found at i:107432 original size:20 final size:19
Alignment explanation
Indices: 107387--107436 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
107377 ATAATTATTT
*
107387 TTTATATAT-ATTATAATA
1 TTTATATTTAATTATAATA
*
107405 TTACATATTTAATTATTAATA
1 TT-TATATTTAATTA-TAATA
107426 TTTATATTTAA
1 TTTATATTTAA
107437 ATTAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.08
19 5 0.19
20 12 0.46
21 7 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTATATTTAATTATAATA
Found at i:109394 original size:12 final size:12
Alignment explanation
Indices: 109366--109430 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 12
109356 ACCCTCTCAG
109366 CAGCACAATC-A
1 CAGCACAATCAA
109377 CTAGCACAATCAA
1 C-AGCACAATCAA
**
109390 CAGCAC-CCCAA
1 CAGCACAATCAA
* *
109401 CAGTACAATCAG
1 CAGCACAATCAA
* *
109413 CAGCACACTCAT
1 CAGCACAATCAA
109425 CAGCAC
1 CAGCAC
109431 CCTCACCAGT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
11 9 0.21
12 31 0.74
13 2 0.05
ACGTcount: A:0.40, C:0.38, G:0.11, T:0.11
Consensus pattern (12 bp):
CAGCACAATCAA
Found at i:109394 original size:75 final size:77
Alignment explanation
Indices: 109246--109397 Score: 211
Period size: 75 Copynumber: 2.0 Consensus size: 77
109236 ATCTCCAATA
**
109246 TCATCAAGACCAACAATCACACTACATTTTCAACAACCCTCTCAGCAGCACAATCAACAACACCC
1 TCATCAAGACCAACAATCACACTACATTTTCAACAACCCTCTCAGCAGCACAATCAACAACACAA
* *
109311 TTACCAGCACCC
66 TCAACAGCACCC
* * *
109323 TCATCAAGACCACCAAT-A-ACTACATTTTCAGCAACCCTCTCAGCAGCACAATC-ACTAGCACA
1 TCATCAAGACCAACAATCACACTACATTTTCAACAACCCTCTCAGCAGCACAATCAAC-AACACA
109385 ATCAACAGCACCC
65 ATCAACAGCACCC
109398 CAACAGTACA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
74 2 0.03
75 48 0.72
76 1 0.01
77 16 0.24
ACGTcount: A:0.38, C:0.39, G:0.07, T:0.17
Consensus pattern (77 bp):
TCATCAAGACCAACAATCACACTACATTTTCAACAACCCTCTCAGCAGCACAATCAACAACACAA
TCAACAGCACCC
Found at i:109409 original size:35 final size:36
Alignment explanation
Indices: 109361--109442 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 36
109351 CAGCAACCCT
* *
109361 CTCAGCAGCACAATCA-CTAGCACAATCAACAGCACC
1 CTCAACAGTACAATCAGC-AGCACAATCAACAGCACC
* *
109397 C-CAACAGTACAATCAGCAGCACACTCATCAGCACC
1 CTCAACAGTACAATCAGCAGCACAATCAACAGCACC
*
109432 CTCACCAGTAC
1 CTCAACAGTAC
109443 CCTCACCAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
35 29 0.74
36 10 0.26
ACGTcount: A:0.37, C:0.40, G:0.11, T:0.12
Consensus pattern (36 bp):
CTCAACAGTACAATCAGCAGCACAATCAACAGCACC
Found at i:109435 original size:12 final size:12
Alignment explanation
Indices: 109413--109470 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
109403 GTACAATCAG
* *
109413 CAGCACACTCAT
1 CAGCACCCTCAC
109425 CAGCACCCTCAC
1 CAGCACCCTCAC
*
109437 CAGTACCCTCAC
1 CAGCACCCTCAC
*
109449 CAGCACCCTCAT
1 CAGCACCCTCAC
109461 CA-CACCCTCA
1 CAGCACCCTCA
109471 GCGGCAGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 8 0.20
12 33 0.80
ACGTcount: A:0.28, C:0.52, G:0.07, T:0.14
Consensus pattern (12 bp):
CAGCACCCTCAC
Done.