Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007584.1 Hibiscus syriacus cultivar Beakdansim tig00021708_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: 251632
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:220 original size:55 final size:56
Alignment explanation
Indices: 154--265 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 56
144 GTATTTAGGA
154 GATTATATAGTGGAGTCTGTTTTACGTA-GTGGAGTCTGTTTCCTAGTTTATAGCT
1 GATTATATAGTGGAGTCTGTTTTACGTAGGTGGAGTCTGTTTCCTAGTTTATAGCT
* * *
209 GATTATGTAGTGGAGTCTGTTTTACGTAGTGTGGAGTTTGTTTCCTAGTTTCTAGCT
1 GATTATATAGTGGAGTCTGTTTTACGTAG-GTGGAGTCTGTTTCCTAGTTTATAGCT
266 TGCTTCTGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 27 0.52
57 25 0.48
ACGTcount: A:0.18, C:0.11, G:0.27, T:0.45
Consensus pattern (56 bp):
GATTATATAGTGGAGTCTGTTTTACGTAGGTGGAGTCTGTTTCCTAGTTTATAGCT
Found at i:1853 original size:23 final size:23
Alignment explanation
Indices: 1827--1870 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1817 ACGCCACTGC
1827 TGATCGAATCTTCTAGAAGCTGT
1 TGATCGAATCTTCTAGAAGCTGT
* **
1850 TGATTGGGTCTTCTAGAAGCT
1 TGATCGAATCTTCTAGAAGCT
1871 ATGATTGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (23 bp):
TGATCGAATCTTCTAGAAGCTGT
Found at i:1878 original size:22 final size:23
Alignment explanation
Indices: 1835--1880 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
1825 GCTGATCGAA
*
1835 TCTTCTAGAAGCTGTTGATTGGG
1 TCTTCTAGAAGCTGATGATTGGG
1858 TCTTCTAGAAGCT-ATGATTGGG
1 TCTTCTAGAAGCTGATGATTGGG
1880 T
1 T
1881 GCCACATCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39
Consensus pattern (23 bp):
TCTTCTAGAAGCTGATGATTGGG
Found at i:12695 original size:20 final size:20
Alignment explanation
Indices: 12670--12725 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
12660 TAGACCGGTG
* *
12670 TGTATGTAGGGGGAGATGTC
1 TGTATGGAGGGAGAGATGTC
*
12690 TGTATGGAGGGAGAGATGTG
1 TGTATGGAGGGAGAGATGTC
12710 TGTATGGAGGGAGAGA
1 TGTATGGAGGGAGAGA
12726 CACAGGGCAG
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:0.25, C:0.02, G:0.48, T:0.25
Consensus pattern (20 bp):
TGTATGGAGGGAGAGATGTC
Found at i:13127 original size:3 final size:3
Alignment explanation
Indices: 13119--13162 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
13109 TTATAATTTA
13119 TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13163 CTTTTACAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15008 original size:55 final size:56
Alignment explanation
Indices: 14942--15053 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 56
14932 GTATTTAGGA
14942 GATTATATAGTGGAGTCTGTTTTACGTA-GTGGAGTCTGTTTCCTAGTTTATAGCT
1 GATTATATAGTGGAGTCTGTTTTACGTAGGTGGAGTCTGTTTCCTAGTTTATAGCT
* * *
14997 GATTATGTAGTGGAGTCTGTTTTACGTAGTGTGGAGTTTGTTTCCTAGTTTCTAGCT
1 GATTATATAGTGGAGTCTGTTTTACGTAG-GTGGAGTCTGTTTCCTAGTTTATAGCT
15054 TGCTTCTGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
55 27 0.52
57 25 0.48
ACGTcount: A:0.18, C:0.11, G:0.27, T:0.45
Consensus pattern (56 bp):
GATTATATAGTGGAGTCTGTTTTACGTAGGTGGAGTCTGTTTCCTAGTTTATAGCT
Found at i:16596 original size:23 final size:23
Alignment explanation
Indices: 16570--16619 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
16560 ACGCCACTGC
*
16570 TGATCGAATCTTCTAGAAGCTGT
1 TGATCGAATCTTCTAGAAGCTAT
* **
16593 TGATTGGGTCTTCTAGAAGCTAT
1 TGATCGAATCTTCTAGAAGCTAT
16616 TGAT
1 TGAT
16620 TGGGTGCCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (23 bp):
TGATCGAATCTTCTAGAAGCTAT
Found at i:16620 original size:23 final size:23
Alignment explanation
Indices: 16578--16624 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
16568 GCTGATCGAA
*
16578 TCTTCTAGAAGCTGTTGATTGGG
1 TCTTCTAGAAGCTATTGATTGGG
16601 TCTTCTAGAAGCTATTGATTGGG
1 TCTTCTAGAAGCTATTGATTGGG
16624 T
1 T
16625 GCCACATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (23 bp):
TCTTCTAGAAGCTATTGATTGGG
Found at i:26144 original size:24 final size:24
Alignment explanation
Indices: 26117--26170 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
26107 CATTAAGTTG
26117 TCTTTGTGATTAAA-AAAATATTGT
1 TCTTT-TGATTAAATAAAATATTGT
*
26141 TCTTTTGATTAAATGAAATATTGT
1 TCTTTTGATTAAATAAAATATTGT
*
26165 TATTTT
1 TCTTTT
26171 TTGATATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (24 bp):
TCTTTTGATTAAATAAAATATTGT
Found at i:32763 original size:20 final size:20
Alignment explanation
Indices: 32738--32793 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
32728 TAGACCGGTG
* *
32738 TGTATGTAGGGGGAGATGTC
1 TGTATGGAGGGAGAGATGTC
*
32758 TGTATGGAGGGAGAGATGTG
1 TGTATGGAGGGAGAGATGTC
32778 TGTATGGAGGGAGAGA
1 TGTATGGAGGGAGAGA
32794 CACAGGGCAG
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:0.25, C:0.02, G:0.48, T:0.25
Consensus pattern (20 bp):
TGTATGGAGGGAGAGATGTC
Found at i:33191 original size:3 final size:3
Alignment explanation
Indices: 33174--33235 Score: 108
Period size: 3 Copynumber: 21.0 Consensus size: 3
33164 AATGAATTAA
*
33174 ATT ATA ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33221 ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT
33236 CTTTTACAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:35056 original size:18 final size:18
Alignment explanation
Indices: 35033--35110 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
35023 GGAGATTATA
35033 TAGTGGAGTCTGTTTACG
1 TAGTGGAGTCTGTTTACG
*
35051 TAGTGGAGTCTGTTT-CC
1 TAGTGGAGTCTGTTTACG
** * *
35068 TAGTTTA-TAGCTGATTATG
1 TAGTGGAGT--CTGTTTACG
35087 TAGTGGAGTCTGTTTTACG
1 TAGTGGAGTCTG-TTTACG
35106 TAGTG
1 TAGTG
35111 TGGAGTTTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
16 1 0.02
17 6 0.13
18 23 0.51
19 14 0.31
20 1 0.02
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.42
Consensus pattern (18 bp):
TAGTGGAGTCTGTTTACG
Found at i:35136 original size:57 final size:54
Alignment explanation
Indices: 35026--35136 Score: 168
Period size: 57 Copynumber: 2.0 Consensus size: 54
35016 GTATTTAGGA
35026 GATTATATAGTGGAGTCTGTTTACGTAGTGGAGTCTGTTTCCTAGTTTATAGCT
1 GATTATATAGTGGAGTCTGTTTACGTAGTGGAGTCTGTTTCCTAGTTTATAGCT
* * *
35080 GATTATGTAGTGGAGTCTGTTTTACGTAGTGTGGAGTTTGTTTCCTAGTTTCTAGCT
1 GATTATATAGTGGAGTCTG-TTTACGTA--GTGGAGTCTGTTTCCTAGTTTATAGCT
35137 TGCTTCTGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
54 18 0.35
55 8 0.16
57 25 0.49
ACGTcount: A:0.18, C:0.11, G:0.27, T:0.44
Consensus pattern (54 bp):
GATTATATAGTGGAGTCTGTTTACGTAGTGGAGTCTGTTTCCTAGTTTATAGCT
Found at i:36684 original size:23 final size:23
Alignment explanation
Indices: 36658--36707 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
36648 ACGCCACTGC
*
36658 TGATCGAATCTTCTAGAAGCTGT
1 TGATCGAATCTTCTAGAAGCTAT
* **
36681 TGATTGGGTCTTCTAGAAGCTAT
1 TGATCGAATCTTCTAGAAGCTAT
36704 TGAT
1 TGAT
36708 TGGGTGCCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (23 bp):
TGATCGAATCTTCTAGAAGCTAT
Found at i:36708 original size:23 final size:23
Alignment explanation
Indices: 36666--36712 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
36656 GCTGATCGAA
*
36666 TCTTCTAGAAGCTGTTGATTGGG
1 TCTTCTAGAAGCTATTGATTGGG
36689 TCTTCTAGAAGCTATTGATTGGG
1 TCTTCTAGAAGCTATTGATTGGG
36712 T
1 T
36713 GCCACATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.40
Consensus pattern (23 bp):
TCTTCTAGAAGCTATTGATTGGG
Found at i:43131 original size:14 final size:15
Alignment explanation
Indices: 43105--43135 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
43095 ATGTACCCTT
43105 TGATGATATATATGA
1 TGATGATATATATGA
43120 TGATGA-ATATATGA
1 TGATGATATATATGA
43134 TG
1 TG
43136 CTTCAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.39
Consensus pattern (15 bp):
TGATGATATATATGA
Found at i:45921 original size:24 final size:24
Alignment explanation
Indices: 45894--45947 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
45884 CATTAAGTTG
45894 TCTTTGTGATTAAA-AAAATATTGT
1 TCTTT-TGATTAAATAAAATATTGT
*
45918 TCTTTTGATTAAATGAAATATTGT
1 TCTTTTGATTAAATAAAATATTGT
*
45942 TATTTT
1 TCTTTT
45948 TTGATATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.52
Consensus pattern (24 bp):
TCTTTTGATTAAATAAAATATTGT
Found at i:46150 original size:2 final size:2
Alignment explanation
Indices: 46143--46192 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
46133 TTCGTTGTGA
46143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46185 AT AT -T AT A
1 AT AT AT AT A
46193 AGAATTCATT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47640 original size:20 final size:20
Alignment explanation
Indices: 47615--47670 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
47605 TAGACCGGTG
* *
47615 TGTATGTAGGGGGAGATGTC
1 TGTATGGAGGGAGAGATGTC
*
47635 TGTATGGAGGGAGAGATGTG
1 TGTATGGAGGGAGAGATGTC
47655 TGTATGGAGGGAGAGA
1 TGTATGGAGGGAGAGA
47671 CACAGGGCAG
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:0.25, C:0.02, G:0.48, T:0.25
Consensus pattern (20 bp):
TGTATGGAGGGAGAGATGTC
Found at i:48070 original size:3 final size:3
Alignment explanation
Indices: 48053--48105 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
48043 AATGAATTAA
*
48053 ATT ATA ATT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48100 ATT ATT
1 ATT ATT
48106 CTTTTACAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:55377 original size:20 final size:20
Alignment explanation
Indices: 55352--55508 Score: 86
Period size: 20 Copynumber: 7.7 Consensus size: 20
55342 CGATCTCTAA
*
55352 ATCGCAACGCGATTTTGACT
1 ATCGCAACGCGATTATGACT
** ** *
55372 ATCGCATTGCGATT-TTCCAA
1 ATCGCAACGCGATTATGAC-T
* *
55392 ATTCCGCAACGCAATTCTGACT
1 A-TC-GCAACGCGATTATGACT
*
55414 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTATGAC-T
* *
55434 AATCGCAACGCGATAATGATT
1 -ATCGCAACGCGATTATGACT
*
55455 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTATGAC-T
* * **
55475 AATCGCAACACGATTCTGGTT
1 -ATCGCAACGCGATTATGACT
55496 ATCGCAACGCGAT
1 ATCGCAACGCGAT
55509 AATACATAAT
Statistics
Matches: 105, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
19 5 0.05
20 53 0.50
21 35 0.33
22 10 0.10
23 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTATGACT
Found at i:55458 original size:41 final size:41
Alignment explanation
Indices: 55413--55518 Score: 176
Period size: 41 Copynumber: 2.6 Consensus size: 41
55403 CAATTCTGAC
*
55413 TATCGCAACGCGATAATACATAATCGCAACGCGATAATGAT
1 TATCGCAACGCGATAATACATAATCGCAACACGATAATGAT
** *
55454 TATCGCAACGCGATAATACATAATCGCAACACGATTCTGGT
1 TATCGCAACGCGATAATACATAATCGCAACACGATAATGAT
55495 TATCGCAACGCGATAATACATAAT
1 TATCGCAACGCGATAATACATAAT
55519 TATGACCACG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (41 bp):
TATCGCAACGCGATAATACATAATCGCAACACGATAATGAT
Found at i:55949 original size:19 final size:19
Alignment explanation
Indices: 55925--56033 Score: 128
Period size: 19 Copynumber: 5.4 Consensus size: 19
55915 TTATTTTGGA
55925 TTTTTCACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
55944 TTTTTCACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
55963 TTTTTCACTATCGCAACAACAC
1 TTTTTCACTATCG---CAACAC
*
55985 GTTTTTCAAACTCTCGCAACAC
1 -TTTTTC--ACTATCGCAACAC
* *
56007 ATTTTAACTATCGCAACAC
1 TTTTTCACTATCGCAACAC
56026 ATTTTTCA
1 -TTTTTCA
56034 AAATCGCGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
19 44 0.57
20 5 0.06
21 4 0.05
22 12 0.16
23 6 0.08
25 6 0.08
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.36
Consensus pattern (19 bp):
TTTTTCACTATCGCAACAC
Found at i:56004 original size:44 final size:43
Alignment explanation
Indices: 55925--56035 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 43
55915 TTATTTTGGA
55925 TTTTTCACTATCG---CAACACTTTTTC--ACTATCGCAACAC
1 TTTTTCACTATCGCAACAACACTTTTTCAAACTATCGCAACAC
*
55963 TTTTTCACTATCGCAACAACACGTTTTTCAAACTCTCGCAACAC
1 TTTTTCACTATCGCAACAACAC-TTTTTCAAACTATCGCAACAC
* *
56007 ATTTTAACTATCGCAAC-ACA-TTTTTCAAA
1 TTTTTCACTATCGCAACAACACTTTTTCAAA
56036 ATCGCGTTGC
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
38 13 0.20
41 15 0.23
42 6 0.09
43 3 0.05
44 27 0.42
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (43 bp):
TTTTTCACTATCGCAACAACACTTTTTCAAACTATCGCAACAC
Found at i:59881 original size:20 final size:20
Alignment explanation
Indices: 59856--59903 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
59846 GACCAACAAA
* * *
59856 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCAATTCTAACT
59876 ATCGCAACGCAATTCTAACT
1 ATCGCAACGCAATTCTAACT
59896 ATCGCAAC
1 ATCGCAAC
59904 AAAATAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCAATTCTAACT
Found at i:60049 original size:21 final size:21
Alignment explanation
Indices: 60020--60085 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
60010 ACCAGTCGTT
*
60020 GCGATTTTGAAAAATCGCAAC
1 GCGAATTTGAAAAATCGCAAC
* **
60041 GCGAATTTGGATTATCGCAA-
1 GCGAATTTGAAAAATCGCAAC
60061 -CGAATTTGAAAAATCGCAAC
1 GCGAATTTGAAAAATCGCAAC
60081 GCGAA
1 GCGAA
60086 CTTCGATTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 16 0.44
21 20 0.56
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (21 bp):
GCGAATTTGAAAAATCGCAAC
Found at i:60076 original size:19 final size:19
Alignment explanation
Indices: 60025--60081 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
60015 TCGTTGCGAT
60025 TTTGAAAAATCGCAACGCGAA
1 TTTGAAAAATCGCAA--CGAA
* **
60046 TTTGGATTATCGCAACGAA
1 TTTGAAAAATCGCAACGAA
60065 TTTGAAAAATCGCAACG
1 TTTGAAAAATCGCAACG
60082 CGAACTTCGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 18 0.60
21 12 0.40
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (19 bp):
TTTGAAAAATCGCAACGAA
Found at i:60113 original size:21 final size:21
Alignment explanation
Indices: 60089--60155 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
60079 ACGCGAACTT
*
60089 CGATTATGTATTATCGCGTTG
1 CGATTATGTATTATCGCATTG
** *
60110 CGA-TA-GTCAGAATCGCTTTG
1 CGATTATGT-ATTATCGCATTG
*
60130 CGATTTTGTATTATCGCATTG
1 CGATTATGTATTATCGCATTG
60151 CGATT
1 CGATT
60156 TAGAGATCGC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 2 0.06
20 14 0.39
21 18 0.50
22 2 0.06
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.40
Consensus pattern (21 bp):
CGATTATGTATTATCGCATTG
Found at i:60156 original size:21 final size:20
Alignment explanation
Indices: 60121--60178 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
60111 GATAGTCAGA
* *
60121 ATCGCTTTGCGATTTTGTATT
1 ATCGCATTGCGATTTTGTA-G
*
60142 ATCGCATTGCGATTTAG-AG
1 ATCGCATTGCGATTTTGTAG
60161 ATCGCATTGCGATTTTGT
1 ATCGCATTGCGATTTTGT
60179 TGGTCATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 16 0.50
20 1 0.03
21 15 0.47
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (20 bp):
ATCGCATTGCGATTTTGTAG
Found at i:60176 original size:40 final size:40
Alignment explanation
Indices: 60089--60178 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 40
60079 ACGCGAACTT
* * *
60089 CGATTATGTATTATCGCGTTGCGATAGTCAGAATCGCTTTG
1 CGATTTTGTATTATCGCATTGCGATA-TCAGAATCGCATTG
*
60130 CGATTTTGTATTATCGCATTGCGAT-TTAGAGATCGCATTG
1 CGATTTTGTATTATCGCATTGCGATATCAGA-ATCGCATTG
60170 CGATTTTGT
1 CGATTTTGT
60179 TGGTCATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 4 0.09
40 17 0.39
41 23 0.52
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.40
Consensus pattern (40 bp):
CGATTTTGTATTATCGCATTGCGATATCAGAATCGCATTG
Found at i:61707 original size:23 final size:23
Alignment explanation
Indices: 61681--61728 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
61671 ATAAAGTACA
*
61681 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
61704 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
61727 AT
1 AT
61729 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:62182 original size:23 final size:24
Alignment explanation
Indices: 62156--62218 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
62146 ATATAACCAC
62156 TACCTATTACATTATATAAA-CGA
1 TACCTATTACATTATATAAAGCGA
* *
62179 TACCTATTACATTATA-AAAGGGC
1 TACCTATTACATTATATAAAGCGA
*
62202 TACCTATTACATCATAT
1 TACCTATTACATTATAT
62219 GTTTACCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 3 0.09
23 32 0.91
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TACCTATTACATTATATAAAGCGA
Found at i:62676 original size:39 final size:39
Alignment explanation
Indices: 62622--62708 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
62612 TCAAGTTGTA
*
62622 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
62661 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
62700 GATTTTGAT
1 GATTTTGAT
62709 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:62987 original size:24 final size:25
Alignment explanation
Indices: 62960--63023 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
62950 AGTGGAGCCG
62960 AAATATATATTGAAATTCAAAC-TC
1 AAATATATATTGAAATTCAAACTTC
* *
62984 AAAT-TGAAATTTAAATTCAAACTTC
1 AAATAT-ATATTGAAATTCAAACTTC
* *
63009 AATTACATA-TGAAAT
1 AAATATATATTGAAAT
63024 GAATTTGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
23 1 0.03
24 23 0.74
25 7 0.23
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (25 bp):
AAATATATATTGAAATTCAAACTTC
Found at i:62991 original size:18 final size:18
Alignment explanation
Indices: 62968--63004 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62958 CGAAATATAT
62968 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
62986 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
63004 A
1 A
63005 CTTCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:63427 original size:25 final size:25
Alignment explanation
Indices: 63393--63443 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
63383 TTTTTCCAAA
*
63393 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
63418 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
63443 T
1 T
63444 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:64215 original size:183 final size:183
Alignment explanation
Indices: 63899--64427 Score: 916
Period size: 183 Copynumber: 2.9 Consensus size: 183
63889 TTAAAATTAC
* *
63899 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
* *
63964 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
64029 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
*
64082 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
64147 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCAGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
64212 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
*
64265 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTAGCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
64330 ATTAAAAAGTGACGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * * **
64395 ATATTGCAAATTTACCTATTTTATTAT-AATATG
131 ATATTACAAAATTATCTATTACATTATAAATATG
64428 TTGAAAGTGT
Statistics
Matches: 328, Mismatches: 18, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
182 5 0.02
183 323 0.98
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGT
Found at i:65901 original size:3 final size:3
Alignment explanation
Indices: 65893--65937 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
65883 ACTTGTTTGG
* *
65893 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
65938 GCCAGCTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.29, C:0.33, G:0.02, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:65946 original size:12 final size:12
Alignment explanation
Indices: 65931--65985 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
65921 TCGTCATCAT
*
65931 CTTCATCGCCAG
1 CTTCATCGTCAG
*
65943 CTTCATCGTCAT
1 CTTCATCGTCAG
* *
65955 CGTCATCGTCAT
1 CTTCATCGTCAG
65967 CTTCATCGTCAG
1 CTTCATCGTCAG
65979 CTTCATC
1 CTTCATC
65986 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.16, C:0.36, G:0.13, T:0.35
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:65948 original size:18 final size:18
Alignment explanation
Indices: 65927--65988 Score: 88
Period size: 18 Copynumber: 3.4 Consensus size: 18
65917 ATCATCGTCA
*
65927 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * *
65945 TCATCGTCATCGTCATCG
1 TCATCTTCATCGTCAGCT
65963 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
65981 TCATCTTC
1 TCATCTTC
65989 TGCGACCGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.16, C:0.35, G:0.11, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:65954 original size:6 final size:6
Alignment explanation
Indices: 65894--65977 Score: 66
Period size: 6 Copynumber: 14.5 Consensus size: 6
65884 CTTGTTTGGA
* * * * *
65894 TCATCA TCATCA TCATCA TCATCA TCATCG TCA--- TCATCT TCATCG
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG
* * * *
65939 CCAGCT TCATCG TCATCG TCATCG TCATCT TCATCG TCA
1 TCATCG TCATCG TCATCG TCATCG TCATCG TCATCG TCA
65978 GCTTCATCTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
3 3 0.05
6 62 0.95
ACGTcount: A:0.23, C:0.35, G:0.08, T:0.35
Consensus pattern (6 bp):
TCATCG
Found at i:68380 original size:199 final size:199
Alignment explanation
Indices: 67449--68618 Score: 2229
Period size: 198 Copynumber: 5.9 Consensus size: 199
67439 TTTAAATTAG
67449 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
67514 ATTGTACCGGTTATATTGAAAAATTACATATTACATTATACTTGTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
67579 CGACACTTTTTATATATGGATCAACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
67643 TAAA
196 TAAA
67647 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
67712 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
67777 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
67842 -AAA
196 TAAA
67845 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
67910 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
67975 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
68040 -AAA
196 TAAA
68043 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
68108 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
68173 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
68238 TAAA
196 TAAA
* *
68242 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGATATATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
68307 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
68372 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
68437 TAAA
196 TAAA
68441 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
68506 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
68571 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
68619 GGTCATATTG
Statistics
Matches: 958, Mismatches: 10, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
198 584 0.61
199 313 0.33
200 21 0.02
201 40 0.04
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
TAAA
Found at i:68783 original size:19 final size:19
Alignment explanation
Indices: 68737--68785 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
68727 TTATATTCAC
*
68737 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
68756 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
68775 ATACAAAATTA
1 ATACAAAATTA
68786 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:70621 original size:32 final size:32
Alignment explanation
Indices: 70579--70639 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
70569 TTAATATCAC
*
70579 CCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCTCAACACCCCAACTTCTTTCACCACTTCA
* *
70611 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCCCAACTTCTTTCACCACT
70640 CCATCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCCCAACTTCTTTCACCACTTCA
Found at i:70713 original size:21 final size:21
Alignment explanation
Indices: 70673--70737 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
70663 CCCCTTATGC
* *
70673 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
70694 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
70715 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
70736 CT
1 CT
70738 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:72988 original size:20 final size:21
Alignment explanation
Indices: 72963--73001 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
72953 GGTATCATTT
72963 TACCGGTTTTATCA-ATTTGA
1 TACCGGTTTTATCATATTTGA
72983 TACCGGTTTTATCATATTT
1 TACCGGTTTTATCATATTT
73002 TTACCTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (21 bp):
TACCGGTTTTATCATATTTGA
Found at i:73015 original size:20 final size:19
Alignment explanation
Indices: 72960--73006 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
72950 TCCGGTATCA
72960 TTTTACCGGTTTTATCAAT
1 TTTTACCGGTTTTATCAAT
*
72979 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCA-AT
73000 TTTTACC
1 TTTTACC
73007 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 4 0.17
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (19 bp):
TTTTACCGGTTTTATCAAT
Found at i:74319 original size:16 final size:15
Alignment explanation
Indices: 74298--74327 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
74288 TCAATCCATG
74298 AATGGTGGGTTAATCA
1 AATGGTGGG-TAATCA
74314 AATGGTGGGTAATC
1 AATGGTGGGTAATC
74328 CTGGGAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (15 bp):
AATGGTGGGTAATCA
Found at i:79082 original size:30 final size:31
Alignment explanation
Indices: 79041--79105 Score: 114
Period size: 30 Copynumber: 2.1 Consensus size: 31
79031 AAAAAGTCAT
79041 AAATCGGTCACTAACGTTATCATTTGTTACA
1 AAATCGGTCACTAACGTTATCATTTGTTACA
*
79072 AAAT-GGTCACTAACGTTATCGTTTGTTACA
1 AAATCGGTCACTAACGTTATCATTTGTTACA
79102 AAAT
1 AAAT
79106 TATCACTCGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 29 0.88
31 4 0.12
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (31 bp):
AAATCGGTCACTAACGTTATCATTTGTTACA
Found at i:79112 original size:30 final size:30
Alignment explanation
Indices: 79048--79112 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
79038 CATAAATCGG
*
79048 TCACTAACGTTATCATTTGTTACAAAATGG
1 TCACTAACGTTATCATTTGTTACAAAATGA
* *
79078 TCACTAACGTTATCGTTTGTTACAAAATTA
1 TCACTAACGTTATCATTTGTTACAAAATGA
79108 TCACT
1 TCACT
79113 CGACGTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (30 bp):
TCACTAACGTTATCATTTGTTACAAAATGA
Found at i:79129 original size:31 final size:30
Alignment explanation
Indices: 79048--79135 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
79038 CATAAATCGG
*
79048 TCACTAACGTTATCA-TTTGTTACAAAATGG
1 TCACTAACGTTAT-AGTTTGTTACAAAATGA
* *
79078 TCACTAACGTTATCGTTTGTTACAAAATTA
1 TCACTAACGTTATAGTTTGTTACAAAATGA
*
79108 TCACTCGACGTTAATAG-TTGTTAACAAA
1 TCACT-AACGTT-ATAGTTTGTT-ACAAA
79136 TCATTACTAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
30 31 0.63
31 10 0.20
32 8 0.16
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (30 bp):
TCACTAACGTTATAGTTTGTTACAAAATGA
Found at i:79204 original size:26 final size:26
Alignment explanation
Indices: 79175--79230 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
79165 GGCAGGTTAA
*
79175 ACCAACTGACTTAGCATGTTTGACCG
1 ACCAACTGACTCAGCATGTTTGACCG
** *
79201 ACCATTTGACTCAGCATGTTTGATCG
1 ACCAACTGACTCAGCATGTTTGACCG
79227 ACCA
1 ACCA
79231 TTTGACTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (26 bp):
ACCAACTGACTCAGCATGTTTGACCG
Found at i:79231 original size:26 final size:26
Alignment explanation
Indices: 79181--79238 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
79171 TTAAACCAAC
*
79181 TGACTTAGCATGTTTGACCGACCATT
1 TGACTCAGCATGTTTGACCGACCATT
*
79207 TGACTCAGCATGTTTGATCGACCATT
1 TGACTCAGCATGTTTGACCGACCATT
79233 TGACTC
1 TGACTC
79239 TTCTTCTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (26 bp):
TGACTCAGCATGTTTGACCGACCATT
Found at i:79944 original size:20 final size:20
Alignment explanation
Indices: 79919--79964 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
79909 AAGGAAAACA
79919 TGAACCTGTGATTATCTGTT
1 TGAACCTGTGATTATCTGTT
79939 TGAACCTGTGATTATCTGTT
1 TGAACCTGTGATTATCTGTT
79959 TGAACC
1 TGAACC
79965 AGTAAGGACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
TGAACCTGTGATTATCTGTT
Found at i:80277 original size:10 final size:10
Alignment explanation
Indices: 80262--80290 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
80252 GGGGGCAGTA
80262 ACTCTCCTTC
1 ACTCTCCTTC
80272 ACTCTCCTTC
1 ACTCTCCTTC
80282 ACTCTCCTT
1 ACTCTCCTT
80291 GGACCTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.48, G:0.00, T:0.41
Consensus pattern (10 bp):
ACTCTCCTTC
Found at i:80539 original size:32 final size:30
Alignment explanation
Indices: 80503--80577 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 30
80493 GTTAACGTCA
* *
80503 AGTGATTATTTTATAGCAAACGAAGTAACATT
1 AGTGATCATTTTATAACAAACG-A-TAACATT
* * *
80535 AGTGACCATTTTGTAACAAGCGATAACATT
1 AGTGATCATTTTATAACAAACGATAACATT
80565 AGTGATCGATTTT
1 AGTGATC-ATTTT
80578 GGATTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
30 13 0.36
31 6 0.17
32 17 0.47
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (30 bp):
AGTGATCATTTTATAACAAACGATAACATT
Found at i:82299 original size:14 final size:15
Alignment explanation
Indices: 82280--82312 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
82270 ATTAAGTGGT
82280 TTAATTG-AAAAAAA
1 TTAATTGAAAAAAAA
82294 TTAATTGAAAAAAAA
1 TTAATTGAAAAAAAA
82309 TTAA
1 TTAA
82313 AAGATCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
TTAATTGAAAAAAAA
Found at i:82368 original size:13 final size:13
Alignment explanation
Indices: 82352--82377 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82342 TTAGTTAAGT
82352 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
82365 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
82378 ATGCTACCCA
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:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:84957 original size:2 final size:2
Alignment explanation
Indices: 84950--85001 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
84940 GCCTTGGGTG
84950 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84992 TA TA TA TA TA
1 TA TA TA TA TA
85002 CCGTATAGTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:86661 original size:25 final size:26
Alignment explanation
Indices: 86633--86696 Score: 94
Period size: 27 Copynumber: 2.5 Consensus size: 26
86623 TTAAGATAAT
*
86633 AATAATTGG-GTGAAAATATAAACTA
1 AATAATTGGTGTGAAAATAGAAACTA
86658 AATAATATGGTGTGAAAATAGAAACTA
1 AATAAT-TGGTGTGAAAATAGAAACTA
*
86685 AATAATTTGTGT
1 AATAATTGGTGT
86697 ATGACAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
25 6 0.17
26 8 0.23
27 21 0.60
ACGTcount: A:0.48, C:0.03, G:0.17, T:0.31
Consensus pattern (26 bp):
AATAATTGGTGTGAAAATAGAAACTA
Found at i:90884 original size:20 final size:20
Alignment explanation
Indices: 90859--90898 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
90849 TTGCATCTGC
90859 GGTGTCTTGTTTGTAGACGT
1 GGTGTCTTGTTTGTAGACGT
90879 GGTGTCTTGTTTGTAGACGT
1 GGTGTCTTGTTTGTAGACGT
90899 TGCGGACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.35, T:0.45
Consensus pattern (20 bp):
GGTGTCTTGTTTGTAGACGT
Found at i:95604 original size:23 final size:23
Alignment explanation
Indices: 95574--95629 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
95564 CATGGCAGTG
95574 AGTCAGTAGCTTCTAGAATATCC
1 AGTCAGTAGCTTCTAGAATATCC
95597 AGTCAGTAGCTTCTAGAATATCC
1 AGTCAGTAGCTTCTAGAATATCC
95620 AGTCAGTAGC
1 AGTCAGTAGC
95630 ATCCAGTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (23 bp):
AGTCAGTAGCTTCTAGAATATCC
Found at i:97204 original size:31 final size:29
Alignment explanation
Indices: 97127--97204 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
97117 GTGACTGAAA
* * *
97127 TGAAAATTTTAGAAGTTTGGGGACTAAAG
1 TGAAAATTTTAAAAGTTTAGGAACTAAAG
* *
97156 TGTAAAAATTTAAAAGTTTAGGAACTAAAAT
1 TG-AAAATTTTAAAAGTTTAGGAACT-AAAG
97187 TGAAAATTTTCAAAAGTT
1 TGAAAATTTT-AAAAGTT
97205 ATATTTTGGG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 2 0.05
30 26 0.65
31 12 0.30
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (29 bp):
TGAAAATTTTAAAAGTTTAGGAACTAAAG
Found at i:97432 original size:20 final size:20
Alignment explanation
Indices: 97407--97449 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
97397 TTTATTATTA
97407 GTGGAGTTTAAGTTTGATTG
1 GTGGAGTTTAAGTTTGATTG
97427 GTGGAGTTTAAGTTTGATTG
1 GTGGAGTTTAAGTTTGATTG
97447 GTG
1 GTG
97450 AAATTTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.37, T:0.44
Consensus pattern (20 bp):
GTGGAGTTTAAGTTTGATTG
Found at i:98089 original size:11 final size:11
Alignment explanation
Indices: 98052--98089 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
98042 AGGAACTTGG
98052 TTGAATTTGAT
1 TTGAATTTGAT
*
98063 TTG-ATTTGCT
1 TTGAATTTGAT
98073 TTGAATTTGAT
1 TTGAATTTGAT
*
98084 TGGAAT
1 TTGAAT
98090 GGATTAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.53
Consensus pattern (11 bp):
TTGAATTTGAT
Found at i:99311 original size:102 final size:103
Alignment explanation
Indices: 99150--99336 Score: 243
Period size: 102 Copynumber: 1.8 Consensus size: 103
99140 GTTTCGGATC
* * * *** *
99150 TGGCACCAAGATGGATCACTTGTGGTCTGACTCGGTGTACCCTAGTGGTGCACGAGGTGGAGTGA
1 TGGCACCAAGACGGATCACTCGTGCTCTGACTCAACGTACCCTAGTGATGCACGAGGTGGAGTGA
*
99215 -TCCGGTGCAATCTG-TCTGATTCTATATGTATGTTATA
66 CT-CGGTGCAATATGTTCTGATTCTATATGTATGTTATA
* * * *
99252 TGGCACCAAGACGGGTCACTCGTGCTCTGACTCAACGTATCTTAGTGATGCACGTGGTGGAGTGA
1 TGGCACCAAGACGGATCACTCGTGCTCTGACTCAACGTACCCTAGTGATGCACGAGGTGGAGTGA
99317 CTCGGTGCAATATGTTCTGA
66 CTCGGTGCAATATGTTCTGA
99337 CAGTAAATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
102 65 0.92
103 6 0.08
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (103 bp):
TGGCACCAAGACGGATCACTCGTGCTCTGACTCAACGTACCCTAGTGATGCACGAGGTGGAGTGA
CTCGGTGCAATATGTTCTGATTCTATATGTATGTTATA
Found at i:101965 original size:23 final size:23
Alignment explanation
Indices: 101938--101982 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
101928 AATAACCAAG
*
101938 ATAAACATTAATCAACCATTAAC
1 ATAAACATTAAACAACCATTAAC
**
101961 ATAAAGTTTAAACAACCATTAA
1 ATAAACATTAAACAACCATTAA
101983 ACCAACCACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.27
Consensus pattern (23 bp):
ATAAACATTAAACAACCATTAAC
Found at i:103213 original size:21 final size:22
Alignment explanation
Indices: 103189--103229 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
103179 AGGGGCATTT
*
103189 GAAAA-ACATAAGAAAAAAAAA
1 GAAAAGACAAAAGAAAAAAAAA
*
103210 GAAAAGTCAAAAGAAAAAAA
1 GAAAAGACAAAAGAAAAAAA
103230 TATTGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.78, C:0.05, G:0.12, T:0.05
Consensus pattern (22 bp):
GAAAAGACAAAAGAAAAAAAAA
Found at i:111653 original size:17 final size:17
Alignment explanation
Indices: 111633--111675 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
111623 AGGGAAGTAG
111633 TTCATTAATTAAAATAA
1 TTCATTAATTAAAATAA
* *
111650 TTCATTTATTAAATTAA
1 TTCATTAATTAAAATAA
111667 TT-ATTAATT
1 TTCATTAATT
111676 GTTTCATGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (17 bp):
TTCATTAATTAAAATAA
Found at i:113850 original size:23 final size:23
Alignment explanation
Indices: 113820--113893 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
113810 TTGGTTCAGT
113820 GTTCGTGAACATGTTCATTTAAC
1 GTTCGTGAACATGTTCATTTAAC
*
113843 GTTCGTGAACATGTTTATTTAA-
1 GTTCGTGAACATGTTCATTTAAC
***
113865 GTTCACAAACATGTTCATTTAAC
1 GTTCGTGAACATGTTCATTTAAC
113888 GTTCGT
1 GTTCGT
113894 TTATTCGAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 18 0.42
23 25 0.58
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (23 bp):
GTTCGTGAACATGTTCATTTAAC
Found at i:113875 original size:22 final size:23
Alignment explanation
Indices: 113827--113891 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 23
113817 AGTGTTCGTG
***
113827 AACATGTTCATTTAACGTTCGTG
1 AACATGTTCATTTAACGTTCACA
*
113850 AACATGTTTATTTAA-GTTCACA
1 AACATGTTCATTTAACGTTCACA
113872 AACATGTTCATTTAACGTTC
1 AACATGTTCATTTAACGTTC
113892 GTTTATTCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (23 bp):
AACATGTTCATTTAACGTTCACA
Found at i:115708 original size:30 final size:31
Alignment explanation
Indices: 115674--115734 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
115664 ACTATTAGTG
*
115674 AAATAAGTAACTAATCGA-AAAAAATTTAGA
1 AAATAAGTAACTAATCGAGAAAAAAATTAGA
115704 AAATAAGTAACTAATCGAGAAAAAAATTAGA
1 AAATAAGTAACTAATCGAGAAAAAAATTAGA
115735 TTTTAAGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 18 0.62
31 11 0.38
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (31 bp):
AAATAAGTAACTAATCGAGAAAAAAATTAGA
Found at i:125700 original size:22 final size:22
Alignment explanation
Indices: 125672--125716 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
125662 ATAGATAGTC
125672 AGTCATTCAAGACAAATCATAT
1 AGTCATTCAAGACAAATCATAT
*
125694 AGTCATTCAAGCCAAATCATAT
1 AGTCATTCAAGACAAATCATAT
125716 A
1 A
125717 TACTTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (22 bp):
AGTCATTCAAGACAAATCATAT
Found at i:127840 original size:3 final size:3
Alignment explanation
Indices: 127826--127902 Score: 145
Period size: 3 Copynumber: 25.7 Consensus size: 3
127816 AAGTCCAGCG
*
127826 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
127874 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
127903 TTTCTAGTCC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:128071 original size:2 final size:2
Alignment explanation
Indices: 128066--128091 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
128056 AAAAAATCTA
128066 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
128092 TATTTTGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:129401 original size:60 final size:59
Alignment explanation
Indices: 129337--129469 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 59
129327 ATGGATATGA
**
129337 GGATGAAATTGAAATATTCAAAAGTTT-AGGGACTAAATTAGAAAGAGGTTCATAATTTAG
1 GGATGAAATT-AAATATTCAAAAGTTTCA-GGACTAAATTAGAAAGAAATTCATAATTTAG
* * * * * *
129397 GGATGGAATTAAATTGTTCAAAAGTTTCAGGACTAATTTTGAATGAAATTCATAGTTTAG
1 GGATGAAATTAAA-TATTCAAAAGTTTCAGGACTAAATTAGAAAGAAATTCATAATTTAG
* *
129457 AGATAAAATTAAA
1 GGATGAAATTAAA
129470 ATATGTATTT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
59 3 0.05
60 56 0.93
61 1 0.02
ACGTcount: A:0.43, C:0.05, G:0.20, T:0.32
Consensus pattern (59 bp):
GGATGAAATTAAATATTCAAAAGTTTCAGGACTAAATTAGAAAGAAATTCATAATTTAG
Found at i:138973 original size:24 final size:24
Alignment explanation
Indices: 138946--139001 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
138936 CTATTATTTC
*
138946 GCTTCAATTAAGCTTAAATTTTAG
1 GCTTCAATTAAGCTCAAATTTTAG
*
138970 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTAAGCTCAAATTTTAG
138994 GCTTCAAT
1 GCTTCAAT
139002 CGAACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (24 bp):
GCTTCAATTAAGCTCAAATTTTAG
Found at i:139626 original size:2 final size:2
Alignment explanation
Indices: 139619--139658 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
139609 TTATATCATT
139619 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
139659 AAAATATGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:140130 original size:135 final size:134
Alignment explanation
Indices: 139888--140161 Score: 512
Period size: 135 Copynumber: 2.0 Consensus size: 134
139878 GATAAATAAG
*
139888 TATTTTTATATTTATATGTAATGTGATACTCAACTTTTTTTCTGATTAAACACTTAAGGTTTTAA
1 TATTTTTATATTTATATGTAATGTGATACTCAACTTTTTTTCTAATTAAACACTTAAGGTTTTAA
139953 TGATACAATTAGGTATTTATTTTTTTAGTGTAATTAGGTATTTAATTTTAATTTTTTTGATGTTA
66 TGATACAATTAGGTATTTATTTTTTTAGTGTAATTAGGTATTTAATTTTAA-TTTTTTGATGTTA
140018 TTAAT
130 TTAAT
140023 TATTTTTATATTTATATGTAATGTGATACTCAACTTTTTTTCTAATTAAACACTTAAGGTTTTAA
1 TATTTTTATATTTATATGTAATGTGATACTCAACTTTTTTTCTAATTAAACACTTAAGGTTTTAA
* *
140088 TGATACAATTAGGTATTTATTTTTTTAGTGTAATTAGGTATTTAATTTTTATTTTTTGATGTTGT
66 TGATACAATTAGGTATTTATTTTTTTAGTGTAATTAGGTATTTAATTTTAATTTTTTGATGTTAT
140153 TAAT
131 TAAT
140157 TATTT
1 TATTT
140162 GGTTGTTTTC
Statistics
Matches: 136, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
134 22 0.16
135 114 0.84
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (134 bp):
TATTTTTATATTTATATGTAATGTGATACTCAACTTTTTTTCTAATTAAACACTTAAGGTTTTAA
TGATACAATTAGGTATTTATTTTTTTAGTGTAATTAGGTATTTAATTTTAATTTTTTGATGTTAT
TAAT
Found at i:140812 original size:17 final size:17
Alignment explanation
Indices: 140787--140821 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
140777 TATGAACATG
*
140787 AAAATCATCTCTTCAAT
1 AAAACCATCTCTTCAAT
140804 AAAACCATCTCTTCAAT
1 AAAACCATCTCTTCAAT
140821 A
1 A
140822 TTTTACCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAACCATCTCTTCAAT
Found at i:141113 original size:5 final size:5
Alignment explanation
Indices: 141103--141228 Score: 243
Period size: 5 Copynumber: 25.2 Consensus size: 5
141093 AGAGTAAAGT
*
141103 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TACTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
141153 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
141203 TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA T
141229 TGAAATGTAC
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 119 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:149838 original size:3 final size:3
Alignment explanation
Indices: 149830--149862 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
149820 GCACCAGCTT
149830 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
149863 AATTCTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:154530 original size:182 final size:181
Alignment explanation
Indices: 154232--154711 Score: 705
Period size: 182 Copynumber: 2.6 Consensus size: 181
154222 TACAAATGAA
* * *
154232 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGATAAAACCGGTGTC-ATTATGATAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACCGGTATCGA-AATGATAA
* ** * *
154296 AACCGGTAAACCGCTACCGGATATATTGAAAGTGTCGATAAATTAATATAAGTATCGACACTTTT
65 AACCGGTAAAACGCTACCATATATATTGAAAGTGTCGATACATT-ATATAAGTATCGACACTTTC
*
154361 GTAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTATAT
129 GTAATTTAAAAGAGAAGAAGTAATAGCGCCTAAAAAGTGTCGATACTTTATAT
* * *
154414 AAATTTATCGATCCATAGCAATATAACAGGTAATAATATGACAAAACAGGTATCGAAATGATAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGATAAA
* * *
154479 ACCGGTAAAAAGATACCATATATATTGAAAGTGTCGATACATTAGTATAAGTATCGATACTTTCG
66 ACCGGTAAAACGCTACCATATATATTGAAAGTGTCGATACATTA-TATAAGTATCGACACTTTCG
154544 TAATTTAAAAGAGAAGAAGTAATAGCGCCTAAAAAGTGTCGATACTTTATAT
130 TAATTTAAAAGAGAAGAAGTAATAGCGCCTAAAAAGTGTCGATACTTTATAT
** * *
154596 AAATGTATCGATCCATATTAATATAACAGGTAAAAATATGACAAAACCGATATCGAAATGACAAA
1 AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGATAAA
* * *
154661 ACCGGTAAAGCGCTACCAGT-TATGTTGAAAGTGTCGGTACATTA-ATAAGTA
66 ACCGGTAAAACGCTACCA-TATATATTGAAAGTGTCGATACATTATATAAGTA
154712 CGCGTAAACA
Statistics
Matches: 268, Mismatches: 27, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
180 7 0.03
181 1 0.00
182 258 0.96
183 2 0.01
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (181 bp):
AAATGTATCGATCCATAGCAATATAACAGGTAAAAATATGACAAAACCGGTATCGAAATGATAAA
ACCGGTAAAACGCTACCATATATATTGAAAGTGTCGATACATTATATAAGTATCGACACTTTCGT
AATTTAAAAGAGAAGAAGTAATAGCGCCTAAAAAGTGTCGATACTTTATAT
Found at i:156908 original size:15 final size:15
Alignment explanation
Indices: 156885--156914 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
156875 TTGGAGGGGT
156885 GGATGACGGTCAGGG
1 GGATGACGGTCAGGG
*
156900 GGATTACGGTCAGGG
1 GGATGACGGTCAGGG
156915 AAAACAGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.13, G:0.50, T:0.17
Consensus pattern (15 bp):
GGATGACGGTCAGGG
Found at i:157293 original size:18 final size:18
Alignment explanation
Indices: 157270--157308 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
157260 GATAAAATTT
*
157270 GAAGAAGAAAAGATTGAG
1 GAAGAAGAAAAGATGGAG
157288 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
157306 GAA
1 GAA
157309 ATGAAGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:157629 original size:17 final size:17
Alignment explanation
Indices: 157607--157642 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
157597 TTTAAATATT
157607 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
157624 TCATGAAAAGATATTAA
1 TCATGAAAAGATATTAA
157641 TC
1 TC
157643 CTAATGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (17 bp):
TCATGAAAAGATATTAA
Found at i:158815 original size:19 final size:19
Alignment explanation
Indices: 158791--158840 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
158781 AAATGTAAGG
158791 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
158810 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
158829 ATAATTTTGTAT
1 TTAATTTTGTAT
158841 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:159419 original size:199 final size:198
Alignment explanation
Indices: 158983--159519 Score: 643
Period size: 199 Copynumber: 2.7 Consensus size: 198
158973 ATTCCATATC
*
158983 AAGTGTCGATCCCAAAAACATCGAAACCCGTAACTATAATGTAATAGGTCACTTTACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAAC
* * *
159048 CAGTTTAAATTTACCGGTTTTCTGAGAAAATAGGTCTACA-ATATGTATCGACACTTTATTCATT
66 CGGTTTAAATTTACCGG-TTT-T-AAAAAATAGGTCTACATA-ATGTATCGACACTTTATACATT
* * **
159112 TGTATCGATACATGTTGTCCATAATGTATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACAT
127 CGTATCGACACATGTTGTCCATAATAAATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACAT
* **
159177 TTATACC
192 TTAAAAA
* * * * *
159184 AAGTGTCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAGGTAACATAACAATGTAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAAC
* * * * * *
159249 CGGTCTAAATATACCAGTTATTAAAAAAAAGGTATACATAATGTATCGATACTTTATACATTCGT
66 CGGTTTAAATTTACCGGTT-TTAAAAAATAGGTCTACATAATGTATCGACACTTTATACATTCGT
* * * *
159314 GTCGACAC-TTTATGTCCATAATAAATTTTCCAAA-CAAGTTCACGAA-AAAGTGTTGATACATT
130 ATCGACACATGT-TGTCCATAATAAA-TTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATT
159376 TAGAAAA
193 TA-AAAA
* * *
159383 AAGTGTCGATCCTAAAAACATCAAAACCCGTAATTATAATGTAATAGGTCACTTTACAATATAAC
1 AAGTGTCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAAC
* *
159448 CGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAATGTATCGGCACGTTT-TAAATT
66 CGGTTTAAATTTACCGGTTTTA--A-AAAATAGGTCTACATAATGTATCGACAC-TTTATACATT
*
159512 TGTATCGA
127 CGTATCGA
159520 TACTTTTTAA
Statistics
Matches: 283, Mismatches: 44, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
198 22 0.08
199 137 0.48
200 13 0.05
201 108 0.38
202 3 0.01
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (198 bp):
AAGTGTCGATCCCAAAAACATCGAAACCCGTAATTATAATGTAATAGGTCACTTTACAATGTAAC
CGGTTTAAATTTACCGGTTTTAAAAAATAGGTCTACATAATGTATCGACACTTTATACATTCGTA
TCGACACATGTTGTCCATAATAAATTTCCAAACCAAGTGCACGAACAAAGTGTCGATACATTTAA
AAA
Found at i:164377 original size:198 final size:198
Alignment explanation
Indices: 163864--164386 Score: 497
Period size: 198 Copynumber: 2.6 Consensus size: 198
163854 ATTAGATTTT
* * * * ** * * *
163864 GTGTCGATACATTTATAACAAGTATCGATCC-CAAAATCAAAGAGACCGATAATTATAATGTAAT
1 GTGTCGATACATCTGTAAAAAGTATCGATCCTCGAAA-CATCGAAACCAATAATCATAATGTAAT
* * *
163928 AGGTAAATTT-TCAATGTAACCGG-TAGAAATATACCGGGTTCATGAGAGAATATGTCAACATAA
65 AGGTAAATTTAT-AATGTAACCGGTTA-AAATATACC-GGTTAATGAGAAAATAGGTCAACATAA
* * * * *
163991 AATATCAACACTTTTTAAATTTGTGTCGATACATTTTTTCAAAATGAATGGCAAACGAGGTGTAC
127 AATATCAACACTCTTTAAATATGTGTCGATACATTTTTTCAAAATGAAAGACAAACGAGGTGCAC
164056 GCATAAA
192 GCATAAA
* * *** * * *
164063 GTGTCGATATATTTGTAAAAAGTATCGATCCTCGAAACATCGAAATTGATAATTATTATGTAACA
1 GTGTCGATACATCTGTAAAAAGTATCGATCCTCGAAACATCGAAACCAATAATCATAATGTAATA
* * * * * * * **
164128 TGTAAATTTACAATGTAACCGATTAAAATATACCGGTTAATTAGCAAATAGGTCTACATTATGTA
66 GGTAAATTTATAATGTAACCGGTTAAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAATA
* * *
164193 TCGACACTCTTTAAATATGTGTCGATAC-TTTTTTCCAAAAT-AAAGCACAAACGAGTTGCATGC
131 TCAACACTCTTTAAATATGTGTCGATACATTTTTT-CAAAATGAAAG-ACAAACGAGGTGCACGC
164256 ATAAA
194 ATAAA
*
164261 GTGTCGATACA-CT-TAAAATTGTATCGATCC-CGAAAACATCGAAACCAAT-ATACATAATGTA
1 GTGTCGATACATCTGTAAAA-AGTATCGATCCTCG-AAACATCGAAACCAATAAT-CATAATGTA
* * * * * *
164322 ATAGGTCAATTTATAATGTAACCGGTTTAAATTTACCGGTTTTATGAAAAAATAGGTCAATATAA
63 ATAGGTAAATTTATAATGTAACCGGTTAAAATATACCGG-TTAATGAGAAAATAGGTCAACATAA
164387 GCGTTACCTA
Statistics
Matches: 262, Mismatches: 53, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
196 9 0.03
197 72 0.27
198 99 0.38
199 76 0.29
200 6 0.02
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (198 bp):
GTGTCGATACATCTGTAAAAAGTATCGATCCTCGAAACATCGAAACCAATAATCATAATGTAATA
GGTAAATTTATAATGTAACCGGTTAAAATATACCGGTTAATGAGAAAATAGGTCAACATAAAATA
TCAACACTCTTTAAATATGTGTCGATACATTTTTTCAAAATGAAAGACAAACGAGGTGCACGCAT
AAA
Found at i:164488 original size:87 final size:87
Alignment explanation
Indices: 164381--164543 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 87
164371 AAATAGGTCA
* *
164381 ATATAAGCGTTACCTATTACATTATATAAGCACTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTGATAATATTT
* *
164446 TCGGTTAAATGCCTATTTTATT
66 CCGATTAAATGCCTATTTTATT
* * *
164468 ATATAAGCGCTATCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTGATAATATTT
164533 CCGATTAAATG
66 CCGATTAAATG
164544 ATATAACATA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTGATAATATTT
CCGATTAAATGCCTATTTTATT
Found at i:164515 original size:23 final size:23
Alignment explanation
Indices: 164465--164509 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
164455 TGCCTATTTT
* *
164465 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
164488 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
164510 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:165618 original size:40 final size:40
Alignment explanation
Indices: 165566--165689 Score: 178
Period size: 40 Copynumber: 3.1 Consensus size: 40
165556 AATAAATATT
* * * *
165566 TTTTTTTCTAAACACATGGATCATATGCATACATATAATA
1 TTTTATTCTAAACCCATGGATCCTATGCATATATATAATA
165606 TTTTATTCTAAACCCATGGATCCTATGCATATATATAATA
1 TTTTATTCTAAACCCATGGATCCTATGCATATATATAATA
* * *
165646 TCTTATTCTAAACCCCT-GATCCTATACATATATATAATA
1 TTTTATTCTAAACCCATGGATCCTATGCATATATATAATA
165685 TTTTA
1 TTTTA
165690 ATGGGTTTCT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
39 25 0.33
40 51 0.67
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (40 bp):
TTTTATTCTAAACCCATGGATCCTATGCATATATATAATA
Found at i:169693 original size:44 final size:43
Alignment explanation
Indices: 169623--169945 Score: 220
Period size: 43 Copynumber: 7.5 Consensus size: 43
169613 ATTGGGCCTC
* *
169623 CATTTTTTCATCTTTATAATT-AGGTCTTTAATTTTTTAAATCT
1 CATTTTTT-ACCTTTATAATTGAGGTCTTTAATTTTTTCAATCT
* **
169666 TATTTTTTTACCTTTATAATTGAGGTC-TTAATATTACTCAATCT
1 CA-TTTTTTACCTTTATAATTGAGGTCTTTAAT-TTTTTCAATCT
* * *
169710 CACTTTTTATCTTTATAATTG-GAGTCTCTAATTTTTTCAA--T
1 CATTTTTTACCTTTATAATTGAG-GTCTTTAATTTTTTCAATCT
** *
169751 C-TTTTTTACCTTTATAATTGAGGTCCCTAATTTTGT-AATCT
1 CATTTTTTACCTTTATAATTGAGGTCTTTAATTTTTTCAATCT
* * *
169792 --TGCTTTTAACTTTATAATTGAGG-CTTTAAGTTTTTTTAAATCT
1 CAT-TTTTTACCTTTATAATTGAGGTCTTTAA--TTTTTTCAATCT
* * **
169835 CAGTTTCTACCTTT-TCAATTGAGACCTCTTAAGTTTTTTCAATCT
1 CATTTTTTACCTTTAT-AATTGAGGTCT-TTAA-TTTTTTCAATCT
* * ** * * *
169880 CAATTTTTACGTTTATAATTGAGACCCTTAATTTTTTTAATCC
1 CATTTTTTACCTTTATAATTGAGGTCTTTAATTTTTTCAATCT
*
169923 CACTTTTTTGA-CTTTATATTTGA
1 CA-TTTTTT-ACCTTTATAATTGA
169946 TACTCTAAGT
Statistics
Matches: 224, Mismatches: 36, Indels: 39
0.75 0.12 0.13
Matches are distributed among these distances:
39 2 0.01
40 34 0.15
41 23 0.10
42 6 0.03
43 61 0.27
44 58 0.26
45 35 0.16
46 5 0.02
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (43 bp):
CATTTTTTACCTTTATAATTGAGGTCTTTAATTTTTTCAATCT
Found at i:169810 original size:41 final size:40
Alignment explanation
Indices: 169669--169814 Score: 136
Period size: 40 Copynumber: 3.5 Consensus size: 40
169659 TAAATCTTAT
* * **
169669 TTTTTTACCTTTATAATTGAGGT-CTTAATATTACTCAATC
1 TTTTTTAACTTTATAATTGAGGTCCCTAAT-TTTGTCAATC
* * *
169709 TCACTTTTTATCTTTATAATTG-GAGTCTCTAATTTTTTCAATC
1 T---TTTTTAACTTTATAATTGAG-GTCCCTAATTTTGTCAATC
*
169752 TTTTTTACCTTTATAATTGAGGTCCCTAATTTTGT-AATC
1 TTTTTTAACTTTATAATTGAGGTCCCTAATTTTGTCAATC
169791 TTGCTTTTAACTTTATAATTGAGG
1 TT--TTTTAACTTTATAATTGAGG
169815 CTTTAAGTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
39 6 0.07
40 30 0.34
41 20 0.22
42 1 0.01
43 28 0.31
44 4 0.04
ACGTcount: A:0.25, C:0.14, G:0.10, T:0.51
Consensus pattern (40 bp):
TTTTTTAACTTTATAATTGAGGTCCCTAATTTTGTCAATC
Found at i:169828 original size:83 final size:83
Alignment explanation
Indices: 169669--169827 Score: 200
Period size: 83 Copynumber: 1.9 Consensus size: 83
169659 TAAATCTTAT
* *
169669 TTTTTTACCTTTATAATTGAGGTCTTAATATTACTCAATCTCACTTTTTATCTTTATAATTGGAG
1 TTTTTTACCTTTATAATTGAGGTCCTAATATTACTCAATCTCACTTTTTAACTTTATAATTGGAG
*
169734 TCTCTAATTTTTTCAATC
66 GCTCTAATTTTTTCAATC
** **
169752 TTTTTTACCTTTATAATTGAGGTCCCTAAT-TTTGT-AATCTTGC-TTTTAACTTTATAATT-GA
1 TTTTTTACCTTTATAATTGAGGT-CCTAATATTACTCAATCTCACTTTTTAACTTTATAATTGGA
*
169813 GGCTTTAAGTTTTTT
65 GGCTCTAA-TTTTTT
169828 TAAATCTCAG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 8 0.12
81 21 0.32
82 6 0.09
83 26 0.39
84 5 0.08
ACGTcount: A:0.24, C:0.14, G:0.09, T:0.53
Consensus pattern (83 bp):
TTTTTTACCTTTATAATTGAGGTCCTAATATTACTCAATCTCACTTTTTAACTTTATAATTGGAG
GCTCTAATTTTTTCAATC
Found at i:169870 original size:46 final size:45
Alignment explanation
Indices: 169801--169919 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 45
169791 TTGCTTTTAA
* * *
169801 CTTTATAATTGAG-GCTTTAAGTTTTTTTAAATCTCAGTTTCTAC
1 CTTTATAATTGAGACCCTTAAGTTTTTTTAAATCTCAATTTCTAC
* *
169845 CTTT-TCAATTGAGACCTCTTAAG-TTTTTTCAATCTCAATTTTTAC
1 CTTTAT-AATTGAGACC-CTTAAGTTTTTTTAAATCTCAATTTCTAC
*
169890 GTTTATAATTGAGACCCTTAA-TTTTTTTAA
1 CTTTATAATTGAGACCCTTAAGTTTTTTTAA
169920 TCCCACTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.02
44 23 0.37
45 33 0.52
46 6 0.10
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (45 bp):
CTTTATAATTGAGACCCTTAAGTTTTTTTAAATCTCAATTTCTAC
Found at i:169959 original size:44 final size:44
Alignment explanation
Indices: 169802--169964 Score: 138
Period size: 44 Copynumber: 3.7 Consensus size: 44
169792 TGCTTTTAAC
* * * * * *
169802 TTTATAATTGAG-GCTTTAAGTTTTTTTAAATCTCAGTTTCTACC
1 TTTATAATTGAGACCCTTAAGTTTTTTT-AATCCCAATTTTTACG
* *
169846 TTT-TCAATTGAGACCTCTTAAGTTTTTTCAATCTCAATTTTTACG
1 TTTAT-AATTGAGACC-CTTAAGTTTTTTTAATCCCAATTTTTACG
*
169891 TTTATAATTGAGACCCTTAA-TTTTTTTAATCCCACTTTTTTGAC-
1 TTTATAATTGAGACCCTTAAGTTTTTTTAATCCCA-ATTTTT-ACG
* * *
169935 TTTATATTTGATACTC-TAAGTTTTTTTAAT
1 TTTATAATTGAGACCCTTAAGTTTTTTTAAT
169965 TACACTTTCT
Statistics
Matches: 100, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
43 16 0.16
44 43 0.43
45 29 0.29
46 12 0.12
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.52
Consensus pattern (44 bp):
TTTATAATTGAGACCCTTAAGTTTTTTTAATCCCAATTTTTACG
Found at i:172198 original size:22 final size:22
Alignment explanation
Indices: 172157--172224 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
172147 CTCGTATAAA
172157 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
172180 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
172202 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
172224 T
1 T
172225 ATGTCCCTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 33 0.73
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:172483 original size:30 final size:30
Alignment explanation
Indices: 172438--172496 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
172428 ATCGCGTAGT
* *
172438 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
172468 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
172497 CTCATACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:173011 original size:66 final size:67
Alignment explanation
Indices: 172863--173035 Score: 215
Period size: 67 Copynumber: 2.6 Consensus size: 67
172853 TTTTTCTCAT
* * *
172863 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
172928 TGA
65 TGA
* * * * *
172931 GGAGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
172995 GA
66 GA
* *
172997 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
173036 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 6 0.07
66 18 0.20
67 57 0.62
68 11 0.12
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:179108 original size:22 final size:22
Alignment explanation
Indices: 179067--179134 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
179057 CTCGTATAAA
179067 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
179090 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
179112 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
179134 T
1 T
179135 ATGTCCCTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 33 0.73
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:179393 original size:30 final size:30
Alignment explanation
Indices: 179348--179406 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
179338 ATCGCGTAGT
* *
179348 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
179378 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
179407 CTCATACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:179890 original size:67 final size:65
Alignment explanation
Indices: 179774--179944 Score: 209
Period size: 67 Copynumber: 2.6 Consensus size: 65
179764 TTTTCTCATG
* * *
179774 GGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGAT
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCAT-TACGAT
179839 GA
64 GA
* * * *
179841 GGAGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCATTTCGTTG
1 GG-GGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATG
179906 A
65 A
* *
179907 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
179945 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
64 6 0.07
65 10 0.11
66 24 0.26
67 43 0.47
68 9 0.10
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.28
Consensus pattern (65 bp):
GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATTACGATGA
Found at i:196613 original size:23 final size:23
Alignment explanation
Indices: 196587--196630 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
196577 CACCACAGCT
* *
196587 CGTATAATTGTACCGAAGTGCAG
1 CGTAGAATTGCACCGAAGTGCAG
*
196610 CGTAGAATTGCACCGTAGTGC
1 CGTAGAATTGCACCGAAGTGC
196631 CATATAATAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCAG
Found at i:198542 original size:21 final size:21
Alignment explanation
Indices: 198518--198562 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
198508 TTTTGTTCGT
* *
198518 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
198539 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
198560 TTG
1 TTG
198563 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:201565 original size:23 final size:23
Alignment explanation
Indices: 201539--201583 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
201529 CACCACAGCT
*
201539 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
201562 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
201584 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:203353 original size:21 final size:21
Alignment explanation
Indices: 203327--203368 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
203317 TTTTTATTCG
* *
203327 TTTGAAGGGGTATCGGTTCCC
1 TTTGAAGGGGTACCGATTCCC
*
203348 TTTGAATGGGTACCGATTCCC
1 TTTGAAGGGGTACCGATTCCC
203369 CTTGCCCAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (21 bp):
TTTGAAGGGGTACCGATTCCC
Found at i:204584 original size:45 final size:45
Alignment explanation
Indices: 204535--204621 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
204525 GAACATCGAA
* * **
204535 TGCATTTTATGCATTGATACACCTACCATGCATCGATGCACTTAG
1 TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACTTAG
*
204580 TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACT
1 TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACT
204622 CTGGCTATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (45 bp):
TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACTTAG
Found at i:204668 original size:109 final size:109
Alignment explanation
Indices: 204526--204770 Score: 481
Period size: 109 Copynumber: 2.2 Consensus size: 109
204516 GAATAAATTG
*
204526 AACATCGAATGCATTTTATGCATTGATACACCTACCATGCATCGATGCACTTAGTGCATTTGATG
1 AACATCGAATGCATTTTATGCATCGATACACCTACCATGCATCGATGCACTTAGTGCATTTGATG
204591 CATCGATGCACAAACCATGCATCGATGCACTCTGGCTATTTTGA
66 CATCGATGCACAAACCATGCATCGATGCACTCTGGCTATTTTGA
204635 AACATCGAATGCATTTTATGCATCGATACACCTACCATGCATCGATGCACTTAGTGCATTTGATG
1 AACATCGAATGCATTTTATGCATCGATACACCTACCATGCATCGATGCACTTAGTGCATTTGATG
204700 CATCGATGCACAAACCATGCATCGATGCACTCTGGCTATTTTGA
66 CATCGATGCACAAACCATGCATCGATGCACTCTGGCTATTTTGA
204744 AACATCGAATGCATTTTATGCATCGAT
1 AACATCGAATGCATTTTATGCATCGAT
204771 GCACTCTTAG
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
109 135 1.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (109 bp):
AACATCGAATGCATTTTATGCATCGATACACCTACCATGCATCGATGCACTTAGTGCATTTGATG
CATCGATGCACAAACCATGCATCGATGCACTCTGGCTATTTTGA
Found at i:204693 original size:45 final size:45
Alignment explanation
Indices: 204644--204730 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
204634 AAACATCGAA
* **
204644 TGCATTTTATGCATCGATACACCTACCATGCATCGATGCACTTAG
1 TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACTTAG
*
204689 TGCATTTGATGCATCGATGCACAAACCATGCATCGATGCACT
1 TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACT
204731 CTGGCTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (45 bp):
TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACTTAG
Found at i:212181 original size:20 final size:20
Alignment explanation
Indices: 212156--212195 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
212146 ATTTCAAACT
*
212156 TGGATTGATTTTGATGTTTC
1 TGGATTGATTTGGATGTTTC
*
212176 TGGATTGCTTTGGATGTTTC
1 TGGATTGATTTGGATGTTTC
212196 AATTTGTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.07, G:0.28, T:0.53
Consensus pattern (20 bp):
TGGATTGATTTGGATGTTTC
Found at i:212515 original size:16 final size:16
Alignment explanation
Indices: 212489--212537 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
212479 TGATTTAACA
212489 AAAAGGGGGAGAAGTGT
1 AAAA-GGGGAGAAGTGT
*
212506 AAAAGGGGAGAAATGT
1 AAAAGGGGAGAAGTGT
*
212522 AAAAGGAGAGAAGTGT
1 AAAAGGGGAGAAGTGT
212538 TAGAGTAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.41, T:0.12
Consensus pattern (16 bp):
AAAAGGGGAGAAGTGT
Found at i:212577 original size:13 final size:14
Alignment explanation
Indices: 212561--212589 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
212551 AGTAATTTTG
212561 AAACTTGA-TTTCA
1 AAACTTGATTTTCA
212574 AAACTTGATTTTCA
1 AAACTTGATTTTCA
212588 AA
1 AA
212590 GAAAATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (14 bp):
AAACTTGATTTTCA
Found at i:214204 original size:24 final size:25
Alignment explanation
Indices: 214150--214196 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 25
214140 ATTTATTATG
*
214150 AGAATTATAATGGAGCTATATGAAA
1 AGAATTATAATGGAGATATATGAAA
214175 AG-ATTATAAT-GA-ATATATGAAA
1 AGAATTATAATGGAGATATATGAAA
214197 TTGAATTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 2 0.10
24 8 0.38
25 2 0.10
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.30
Consensus pattern (25 bp):
AGAATTATAATGGAGATATATGAAA
Found at i:214928 original size:103 final size:103
Alignment explanation
Indices: 214749--214961 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
214739 GGGTCTACGC
*
214749 GGTCCTTCGAGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* *
214814 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
*
214852 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
214917 CCCTAGTATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
214955 GGTCCTT
1 GGTCCTT
214962 ATGGACATTA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTTAAGGAATGATATGT
Found at i:215015 original size:23 final size:23
Alignment explanation
Indices: 214985--215045 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
214975 TATGGAACTA
214985 CGGTGCAATTCTACGCGGCACTC
1 CGGTGCAATTCTACGCGGCACTC
* *
215008 CGGTGCAATTCTACGTGGCACTT
1 CGGTGCAATTCTACGCGGCACTC
*
215031 CGGTGCAATTATACG
1 CGGTGCAATTCTACG
215046 AGCTGTGGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (23 bp):
CGGTGCAATTCTACGCGGCACTC
Found at i:215426 original size:16 final size:16
Alignment explanation
Indices: 215375--215427 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
215365 TGTATGTGAT
215375 ATATGTATATGATGTGTG
1 ATATG-ATAT-ATGTGTG
* * **
215393 ATATGATGTGTGCATG
1 ATATGATATATGTGTG
215409 ATATGATATATGTGTG
1 ATATGATATATGTGTG
215425 ATA
1 ATA
215428 GGGGTTATGG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.42
Consensus pattern (16 bp):
ATATGATATATGTGTG
Found at i:230605 original size:21 final size:21
Alignment explanation
Indices: 230581--230628 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
230571 TGTGGCGGCG
*
230581 GACGGCAGAAGTTGGACTGTA
1 GACGGCAGAAGTTGGACAGTA
* *
230602 GACGGCAGACGTTGTACAGTA
1 GACGGCAGAAGTTGGACAGTA
230623 GACGGC
1 GACGGC
230629 GAACGCGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.19, G:0.38, T:0.17
Consensus pattern (21 bp):
GACGGCAGAAGTTGGACAGTA
Found at i:232507 original size:23 final size:23
Alignment explanation
Indices: 232477--232520 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
232467 GCCGTATAAA
232477 GTCCTAATGAGTCTGGAATTAGT
1 GTCCTAATGAGTCTGGAATTAGT
* *
232500 GTCCTAATGTGTCTGTAATTA
1 GTCCTAATGAGTCTGGAATTA
232521 AGTTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (23 bp):
GTCCTAATGAGTCTGGAATTAGT
Found at i:236835 original size:7 final size:7
Alignment explanation
Indices: 236823--236974 Score: 208
Period size: 7 Copynumber: 22.1 Consensus size: 7
236813 ACACTTGCAC
236823 GTCTAGG
1 GTCTAGG
236830 GTCTAGG
1 GTCTAGG
236837 GTCTAGG
1 GTCTAGG
236844 GTCTAGG
1 GTCTAGG
236851 GTCTAGG
1 GTCTAGG
236858 GTCTAGG
1 GTCTAGG
*
236865 GGCTAGG
1 GTCTAGG
236872 G-CTAGG
1 GTCTAGG
236878 G-CTAGG
1 GTCTAGG
236884 GTCTAGG
1 GTCTAGG
236891 GTCTAGG
1 GTCTAGG
236898 GTCTAGG
1 GTCTAGG
236905 GTCTAGG
1 GTCTAGG
236912 GT-TAGGG
1 GTCTA-GG
236919 GT-TAGGG
1 GTCTA-GG
236926 GT-TAGG
1 GTCTAGG
236932 GTCTAGG
1 GTCTAGG
236939 GTCTAGG
1 GTCTAGG
236946 GTCTAGG
1 GTCTAGG
*
236953 GTTTAGGG
1 GTCTA-GG
*
236961 GTCTGGG
1 GTCTAGG
236968 GTC-AGG
1 GTCTAGG
236974 G
1 G
236975 CTCAGGGCTC
Statistics
Matches: 136, Mismatches: 5, Indels: 9
0.91 0.03 0.06
Matches are distributed among these distances:
6 21 0.15
7 110 0.81
8 5 0.04
ACGTcount: A:0.14, C:0.12, G:0.47, T:0.27
Consensus pattern (7 bp):
GTCTAGG
Done.