Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002867.1 Hibiscus syriacus cultivar Beakdansim tig00005913_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: 126005
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:813 original size:196 final size:194
Alignment explanation
Indices: 465--867 Score: 494
Period size: 196 Copynumber: 2.1 Consensus size: 194
455 GGTTTCAAAT
*
465 CATTTTGAACTCGATTTTTACACCGCTTAGAATGTCTTGTAGTTGCGATACTAGTCTCATTTGAA
1 CATTTTGAACTCGATTTTTACACCGCTTAGAATGTCTCGTAG-TGCGATACTAGTCTCATTTGAA
* * * * * * * * *
530 ACATATACCAATACTATGCCTTTAATCTTATAAATTATGTAAATTTTCATATTAACTTTCTGAAA
65 ACAAATACCAATACTAAGCCTCTAATCTTACAAATTATGAAAAATTTCACATTAACTATCCGAAA
* * *
595 ATACTCTTCAACATGTCTATCAAGCCATTCTAGTTTCTTCTTCATGCA-AAAAACCAAGCTTTGG
130 ATACTCTTCAACATGCCTATCAAACCATTCTAGCTT-TTCTTCATGCACAAAAA-CAAGC-TTGG
659 AAC
192 AAC
* * *
662 CGTTTTGAACGT-GATTTTTACACTGCTTAGAATGTCTCGTA-TGATGATACTAGTCTCATTTG-
1 CATTTTGAAC-TCGATTTTTACACCGCTTAGAATGTCTCGTAGTG-CGATACTAGTCTCATTTGA
*
724 AACAAAGTACTAATACTAAGCCTCTAATCTTACAAATTATGAAAAATTTCACATTAACTATCCGA
64 AACAAA-TACCAATACTAAGCCTCTAATCTTACAAATTATGAAAAATTTCACATTAACTATCCGA
* * *
789 AAA-A-TCTGTCGAATATGCCTATCAAACCATTTTAGCTTTTCTTCATGCACAAAAATAAGCTTG
128 AAATACTCT-TC-AACATGCCTATCAAACCATTCTAGCTTTTCTTCATGCACAAAAACAAGCTTG
852 GAAC
191 GAAC
*
856 CATTTTTAACTC
1 CATTTTGAACTC
868 ACTTACAATA
Statistics
Matches: 177, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
193 1 0.01
194 18 0.10
195 25 0.14
196 96 0.54
197 36 0.20
198 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (194 bp):
CATTTTGAACTCGATTTTTACACCGCTTAGAATGTCTCGTAGTGCGATACTAGTCTCATTTGAAA
CAAATACCAATACTAAGCCTCTAATCTTACAAATTATGAAAAATTTCACATTAACTATCCGAAAA
TACTCTTCAACATGCCTATCAAACCATTCTAGCTTTTCTTCATGCACAAAAACAAGCTTGGAAC
Found at i:4448 original size:26 final size:28
Alignment explanation
Indices: 4386--4439 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
4376 GTTTGGGGTT
4386 AGGTTAGGGTTTGAGGATTATGTTTATTA
1 AGGTTAGGGTTTGAGGATTA-GTTTATTA
4415 AGGTTAGGGTTTGA-GATTA-TTTATT
1 AGGTTAGGGTTTGAGGATTAGTTTATT
4440 GTAGTTAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.24
28 5 0.20
29 14 0.56
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (28 bp):
AGGTTAGGGTTTGAGGATTAGTTTATTA
Found at i:5025 original size:15 final size:13
Alignment explanation
Indices: 5005--5036 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4995 CGGATTCTCC
5005 TGTTGTT-TTTCG
1 TGTTGTTGTTTCG
5017 TGTTGTTGTTTCG
1 TGTTGTTGTTTCG
5030 TGTTGTT
1 TGTTGTT
5037 AGTTGGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.00, C:0.06, G:0.28, T:0.66
Consensus pattern (13 bp):
TGTTGTTGTTTCG
Found at i:15051 original size:30 final size:29
Alignment explanation
Indices: 15003--15169 Score: 187
Period size: 30 Copynumber: 5.7 Consensus size: 29
14993 ATTAATTTTA
*
15003 TATCTTAACATTAAAAATATATTTTATTTT
1 TATCTTAAC-TTAAAAATATATTTTATTCT
* *
15033 TATTTTAACTTATTAAATATA-TTTATTCT
1 TATCTTAACTTA-AAAATATATTTTATTCT
* *
15062 TATTTTAACCTTAAAAATATAGTTTATTCT
1 TATCTTAA-CTTAAAAATATATTTTATTCT
* * *
15092 TATCTTAACAT-AAAATATATTCTAGTCTT
1 TATCTTAACTTAAAAATATATTTTATTC-T
*
15121 TATCTTAACTTAAAAAATATAATTTATTCT
1 TATCTTAACTT-AAAAATATATTTTATTCT
15151 TATCTTAACTT-AAAATATA
1 TATCTTAACTTAAAAATATA
15170 GTTCGGACCA
Statistics
Matches: 118, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
28 21 0.18
29 38 0.32
30 46 0.39
31 13 0.11
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.50
Consensus pattern (29 bp):
TATCTTAACTTAAAAATATATTTTATTCT
Found at i:15076 original size:59 final size:60
Alignment explanation
Indices: 15003--15169 Score: 209
Period size: 59 Copynumber: 2.8 Consensus size: 60
14993 ATTAATTTTA
* * * * *
15003 TATCTTAACATTAAAAATATATTTTATTTTTATTTTAACTTATTAAATATATT-TATTC-T
1 TATCTTAACCTTAAAAATATAATTTATTCTTATCTTAACTTA-TAAATATATTCTAGTCTT
* * *
15062 TATTTTAACCTTAAAAATATAGTTTATTCTTATCTTAACATA-AAATATATTCTAGTCTT
1 TATCTTAACCTTAAAAATATAATTTATTCTTATCTTAACTTATAAATATATTCTAGTCTT
15121 TATCTTAA-CTTAAAAAATATAATTTATTCTTATCTTAACTTA-AAATATA
1 TATCTTAACCTT-AAAAATATAATTTATTCTTATCTTAACTTATAAATATA
15170 GTTCGGACCA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
57 9 0.09
58 7 0.07
59 79 0.83
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.50
Consensus pattern (60 bp):
TATCTTAACCTTAAAAATATAATTTATTCTTATCTTAACTTATAAATATATTCTAGTCTT
Found at i:17067 original size:159 final size:158
Alignment explanation
Indices: 16851--17235 Score: 494
Period size: 159 Copynumber: 2.4 Consensus size: 158
16841 GTGTTATATA
* * * * * * * *
16851 AGCATGTGGTTCAAATTTGGTAAAAACGTGACTT---ATAAATCACAAATTGAAGGAATAAGGAG
1 AGCATGTAGCTCAAATTTAGTAAAAAAGGGACTTAAAATAAATGAAAAATTGAAGAAATAAGGAG
* *
16913 ATTATGAAAAATTGAAGGACTATATTGAAAAATAAAAAATTTGTTATCAAAAAGAGGAATTGAAA
66 ATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGAGAAATTGAAA
**
16978 GTTCACATGTATTCTACTAT-GTTTAGG
131 GAACACATGTATTCTACTATGGTTTAGG
*
17005 AGCATGT-GACTCAAATTTGGTAAAAAAAAGGGACTTAAAATAAATGAAAAATTGAAGAAATAAG
1 AGCATGTAG-CTCAAATTTAGT--AAAAAAGGGACTTAAAATAAATGAAAAATTGAAGAAATAAG
* * *
17069 GAGATTGTGAAAAATTGAAGGACTAAATTGAAAAATAAATAATTTGTTATCAAAAATAGAAATTG
63 GAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGAGAAATTG
17134 AAAGAACACATGTATTCTACTATGGTTTAGG
128 AAAGAACACATGTATTCTACTATGGTTTAGG
* * ** *
17165 AGCATGTAGTTCAAATTTAGTAAAAAATGGACTTAAAATGAAA-GAGGAATTGAAGAAATAATGA
1 AGCATGTAGCTCAAATTTAGTAAAAAAGGGACTTAAAAT-AAATGAAAAATTGAAGAAATAAGGA
*
17229 AATTATG
65 GATTATG
17236 TACTAAATCG
Statistics
Matches: 201, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
153 1 0.00
154 18 0.09
156 11 0.05
158 40 0.20
159 106 0.53
160 24 0.12
161 1 0.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (158 bp):
AGCATGTAGCTCAAATTTAGTAAAAAAGGGACTTAAAATAAATGAAAAATTGAAGAAATAAGGAG
ATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTTGTTATCAAAAAGAGAAATTGAAA
GAACACATGTATTCTACTATGGTTTAGG
Found at i:19042 original size:11 final size:11
Alignment explanation
Indices: 19028--19052 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19018 CAAAACACGT
19028 AAAAAATAATA
1 AAAAAATAATA
19039 AAAAAATAATA
1 AAAAAATAATA
19050 AAA
1 AAA
19053 TAAACAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:19067 original size:18 final size:16
Alignment explanation
Indices: 19035--19071 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
19025 CGTAAAAAAT
19035 AATAAAAAAATAATAA
1 AATAAAAAAATAATAA
19051 AATAAACAAAATGAATAA
1 AATAAA-AAAAT-AATAA
19069 AAT
1 AAT
19072 GTTAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 8 0.42
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (16 bp):
AATAAAAAAATAATAA
Found at i:19314 original size:29 final size:28
Alignment explanation
Indices: 19261--19321 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
19251 AAGAAAAAAC
** *
19261 AATAGAAAAAATAAATAAAGTAAAATAT
1 AATAGAAAAAATAAATAAAAAAAAATAG
*
19289 AATAGATATAAATAAATAAAAAAAAATAG
1 AATAGA-AAAAATAAATAAAAAAAAATAG
19318 AATA
1 AATA
19322 TTAAGAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (28 bp):
AATAGAAAAAATAAATAAAAAAAAATAG
Found at i:19322 original size:25 final size:25
Alignment explanation
Indices: 19271--19318 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
19261 AATAGAAAAA
* *
19271 ATAAATAAAGTAAAATATAATAGAT
1 ATAAATAAAGTAAAAAAAAATAGAT
19296 ATAAATAAA-TAAAAAAAAATAGA
1 ATAAATAAAGTAAAAAAAAATAGA
19319 ATATTAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (25 bp):
ATAAATAAAGTAAAAAAAAATAGAT
Found at i:19452 original size:22 final size:23
Alignment explanation
Indices: 19415--19458 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
19405 ATACATATAT
*
19415 ATATATATATATAATGATATAAG
1 ATATATATATAAAATGATATAAG
19438 ATATATATA-AAAATGATATAA
1 ATATATATATAAAATGATATAA
19459 TATAAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (23 bp):
ATATATATATAAAATGATATAAG
Found at i:19511 original size:2 final size:2
Alignment explanation
Indices: 19497--19532 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
19487 TAAATAAAAA
*
19497 AT AT A- AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19533 GGGGACGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:19798 original size:3 final size:3
Alignment explanation
Indices: 19770--19818 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
19760 TTCAGTTTGC
*
19770 TAT TAT TTT TAT T-T T-T TAT T-T TAT TAT TATT TATT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT
19814 TAT TA
1 TAT TA
19819 AATAATATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 6 0.15
3 28 0.68
4 7 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:31358 original size:19 final size:22
Alignment explanation
Indices: 31334--31381 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
31324 ACATTCTTCG
31334 AAGATGATAGA-T-T-TTTTCA
1 AAGATGATAGATTCTCTTTTCA
31353 AAGATGATAGATTCTCTTTTCA
1 AAGATGATAGATTCTCTTTTCA
31375 AAGATGA
1 AAGATGA
31382 AAGCTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.42
20 1 0.04
21 1 0.04
22 13 0.50
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AAGATGATAGATTCTCTTTTCA
Found at i:32109 original size:46 final size:46
Alignment explanation
Indices: 32042--32952 Score: 1362
Period size: 46 Copynumber: 20.0 Consensus size: 46
32032 CTATTTCCAA
32042 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
*
32088 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
*
32133 CATCTGTAAGTCCTTCAGTGCATGATGTTATTAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* * * * *
32179 CATCTGTAAGCCCTTCAGTGTATGATGTTTTTC-AAAACGTTCGGGC
1 CATCTGTAAGTCCTTCAGTGCATGATG-TTATCAAAAACCTTCGGGT
* *
32225 CATCTATAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* *
32271 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* *
32316 CATCTGAAAGTCCTTCAATGCATGATGTTATCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
32362 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
*
32408 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAACC-TCTGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTC-GGGT
32453 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
32499 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* *
32545 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACC-TCTGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTC-GGGT
*
32590 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* *
32636 TATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCAGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* * * *
32682 CATCTGTAAGCCCTTTAGTGAATGATGTTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATG-TTATCAAAAACCTTCGGGT
32728 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* * **
32774 CATCTGTAAGCCCTTTAGTGCATGATGTT-TTTAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* * *
32819 CATTTGTAAG-CGCTTCAGTGCATGATGTTTTC-AGAACCTTCGGGT
1 CATCTGTAAGTC-CTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* * *
32864 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
* **
32909 CATCTGTAAGCCCTTCAGTGCATGATGTT-TTTAAAACCTTCGGG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGG
32953 AGCTTTTTGA
Statistics
Matches: 792, Mismatches: 57, Indels: 33
0.90 0.06 0.04
Matches are distributed among these distances:
44 6 0.01
45 303 0.38
46 473 0.60
47 10 0.01
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (46 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
Found at i:32307 original size:137 final size:137
Alignment explanation
Indices: 32042--32952 Score: 1433
Period size: 137 Copynumber: 6.7 Consensus size: 137
32032 CTATTTCCAA
32042 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
* *
32107 GCATGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATTAAAAAC
66 GCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTT-TTCAAAAC
32171 CTTCGGGT
130 CTTCGGGT
* * * * * *
32179 CATCTGTAAGCCCTTCAGTGTATGATGTTTTTC-AAAACGTTCGGGCCATCTATAAGTCCTTCAG
1 CATCTGTAAGTCCTTCAGTGCATGATG-TTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
*
32243 TGCATGATGTTATCAAAAACCTTCGGGCCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAC
65 TGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAC
*
32308 CTTTGGGT
130 CTTCGGGT
* *
32316 CATCTGAAAGTCCTTCAATGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
32381 GCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACC
66 GCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACC
32446 -TCTGGGT
131 TTC-GGGT
32453 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
32518 GCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACC
66 GCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACC
32583 -TCTGGGT
131 TTC-GGGT
* *
32590 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTTGGGTTATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
* * * *
32655 GCATGATGTTATCAAAAACCTTCAGGTCATCTGTAAGCCCTTTAGTGAATGATGTTTTTCAAAAC
66 GCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATG-TTTTCAAAAC
32720 CTTCGGGT
130 CTTCGGGT
* *
32728 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGCCCTTTAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
** * *
32793 GCATGATGTT-TTTAAAACCTTCGGGTCATTTGTAAG-CGCTTCAGTGCATGATGTTTTCAGAAC
66 GCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTC-CTTCAGTGCATGATGTTTTCAAAAC
32856 CTTCGGGT
130 CTTCGGGT
* * * *
32864 CATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTTGGGTCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
**
32928 GCATGATGTT-TTTAAAACCTTCGGG
66 GCATGATGTTATCAAAAACCTTCGGG
32953 AGCTTTTTGA
Statistics
Matches: 724, Mismatches: 43, Indels: 16
0.92 0.05 0.02
Matches are distributed among these distances:
135 55 0.08
136 53 0.07
137 483 0.67
138 131 0.18
139 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (137 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
GCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACC
TTCGGGT
Found at i:32356 original size:183 final size:182
Alignment explanation
Indices: 32042--32952 Score: 1395
Period size: 183 Copynumber: 5.0 Consensus size: 182
32032 CTATTTCCAA
32042 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
32107 GCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATTAAAAACC
66 GCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACC
* * *
32172 TTCGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTTCAAAACGTTCGGGC
131 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG-TTTTCAAAACCTTCGGGT
* *
32225 CATCTATAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGCCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
* * *
32290 GCATGATGTTTTCAAAACCTTTGGGTCATCTGAAAGTCCTTCAATGCATGATGTTATCAAAAACC
66 GCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACC
* *
32355 TTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
131 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
*
32408 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAACC-TCTGGGTCATCTGTAAGTCCTTCAG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTC-GGGTCATCTGTAAGTCCTTCAG
*
32471 TGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAA
65 TGCATGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAA
32536 CCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACC-TCTGGGT
129 CCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC-GGGT
* *
32590 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTTGGGTTATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
* * * * * *
32655 GCATGATGTTATCAAAAACCTTCAGGTCATCTGTAAGCCCTTTAGTGAATGATGTTTTTC-AAAA
66 GCATGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATG-TTATCAAAAA
* *
32719 CCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGT
129 CCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGT
* * ** *
32774 CATCTGTAAGCCCTTTAGTGCATGATGTT-TTTAAAACCTTCGGGTCATTTGTAAG-CGCTTCAG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTC-CTTCAG
* * *
32837 TGCATGATGTTTTCAGAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAAC
65 TGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAAC
* *
32901 CTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTTAAAACCTTCGGG
130 CTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGG
32953 AGCTTTTTGA
Statistics
Matches: 672, Mismatches: 46, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
180 12 0.02
181 50 0.07
182 122 0.18
183 444 0.66
184 42 0.06
185 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (182 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
GCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAAACC
TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGT
Found at i:33186 original size:3 final size:3
Alignment explanation
Indices: 33178--33260 Score: 130
Period size: 3 Copynumber: 27.0 Consensus size: 3
33168 ATTTTTTAGT
* *
33178 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TACA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
33227 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
33261 AATAAATATT
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
3 69 0.93
4 5 0.07
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:37736 original size:67 final size:65
Alignment explanation
Indices: 37605--37924 Score: 234
Period size: 65 Copynumber: 4.8 Consensus size: 65
37595 AAGATATCTG
* * * * * **
37605 TTGTTTCATGAAAAACGGTCTCAAGGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAGGAAAATAAATTCAAAGA-
37670 TT
64 TT
* *
37672 TGTGTTTCAATAGAAACTGTCACAAGGGAGACAAAATTTGTTTT-AGGAAAAATAAATTCAAAGA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGG-AAAATAAATTCAAAGA
37736 TT
64 TT
* * * * *
37738 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAG-GAAA----AT--A-A-AT
* *
37803 ACAAA-ACT
57 TCAAAGATT
* * * * * * * *
37811 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTG-TTTAA-AAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGAAAATAAATTCAAAGATT
* * * *
37874 TTGTTTCAAGGGAAACTGTTTCAAGAGAGACAAAATTTGTTTCAAGTGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAG-GAAA
37925 CTGTCTCAAG
Statistics
Matches: 196, Mismatches: 41, Indels: 33
0.73 0.15 0.12
Matches are distributed among these distances:
62 5 0.03
63 34 0.17
64 5 0.03
65 37 0.19
66 14 0.07
67 23 0.12
68 28 0.14
70 4 0.02
72 5 0.03
73 36 0.18
74 5 0.03
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGAAAATAAATTCAAAGATT
Found at i:37789 original size:36 final size:36
Alignment explanation
Indices: 37737--38062 Score: 240
Period size: 36 Copynumber: 9.4 Consensus size: 36
37727 ATTCAAAGAT
37737 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
37773 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * *
37809 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
** * * *
37846 TTTGTTT-AA-AAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
*
37873 TTTGTTTCAAGGGAAACTGTTTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
37909 TTTGTTTCAAGTGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
37945 TTTATTTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
* * *
37973 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
38010 TTTTGTTTAAAGGGAAACTATCTCAAGAGAGACAAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
**
38047 TTCATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
38063 TGTTTTCAAT
Statistics
Matches: 226, Mismatches: 40, Indels: 48
0.72 0.13 0.15
Matches are distributed among these distances:
27 8 0.04
28 7 0.03
29 22 0.10
30 3 0.01
32 1 0.00
33 1 0.00
34 9 0.04
35 8 0.04
36 105 0.46
37 60 0.27
38 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:37834 original size:37 final size:36
Alignment explanation
Indices: 37749--37847 Score: 144
Period size: 37 Copynumber: 2.7 Consensus size: 36
37739 TGTTTCAAGG
* * *
37749 GAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
37785 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
* *
37822 GAAACTGTCTCAAGGGAGACGAAATT
1 GAAACTGTCTCAAGAGAGACAAAATT
37848 TGTTTAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 26 0.46
37 31 0.54
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.21
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Found at i:37888 original size:136 final size:138
Alignment explanation
Indices: 37683--37940 Score: 430
Period size: 136 Copynumber: 1.9 Consensus size: 138
37673 GTGTTTCAAT
* *
37683 AGAAACTGTCACAAGGGAGACAAAATTTGTTTTAGGAAAAATAAATTCAAAGATTTTGTTTCAAG
1 AGAAACTGTCACAAGGGAGACAAAATTTGTTTTAGAAAAAACAAATTCAAAGATTTTGTTTCAAG
37748 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
37813 GTTCCAAA
131 GTTCCAAA
* * * *
37821 AGAAACTGTCTCAAGGGAGACGAAATTTG-TTTA-AAAAAACATATTCAAATATTTTGTTTCAAG
1 AGAAACTGTCACAAGGGAGACAAAATTTGTTTTAGAAAAAACAAATTCAAAGATTTTGTTTCAAG
* *
37884 GGAAACTGTTTCAAGAGAGACAAAATTTGTTTCAAGTGAAACTGTCTCAAGAGAGAC
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
37941 GAAATTTATT
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
136 81 0.72
137 4 0.04
138 27 0.24
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (138 bp):
AGAAACTGTCACAAGGGAGACAAAATTTGTTTTAGAAAAAACAAATTCAAAGATTTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA
GTTCCAAA
Found at i:38027 original size:37 final size:37
Alignment explanation
Indices: 37976--38048 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
37966 TCAATGTTTA
* * * *
37976 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTT
1 TGTTTAAAGAGAAACTATCTCAAGAGAGACAAAATTT
*
38013 TGTTTAAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTAAAGAGAAACTATCTCAAGAGAGACAAAATT
38049 CATTTCAAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (37 bp):
TGTTTAAAGAGAAACTATCTCAAGAGAGACAAAATTT
Found at i:38054 original size:102 final size:102
Alignment explanation
Indices: 37775--38216 Score: 518
Period size: 102 Copynumber: 4.4 Consensus size: 102
37765 AGACAAAATT
* * * * * * *
37775 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAA-AGAAACTGTCTCAAGGGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT-TAAAGGGAAACTATCTCAAGAGA
* ** ** ** * *
37839 GACGAAATTTGTTT-AA-AAAAACATATTCAAATATTT-
65 GACAAAATTCATTTCAAGGGAAATGTTTTC-AATGTTTA
* * * * * *
37875 TGTTTCAAGGGAAACTGTTTCAAGAGAGACAAAA-TTTGTTTCAAGTGAAACTGTCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTAAAGGGAAACTATCTCAAGAGAG
* *
37939 ACGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
37976 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTTGTTTAAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTAAAGGGAAACTATCTCAAGAGAG
38041 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * * **
38078 TGTTTCAATAGAAACTGTCTCAAGGGAGATAAAATTTTGTTTCAAGGGAAACTATCTCAATCGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTAAAGGGAAACTATCTCAAGAGAG
* * *
38143 ATAAAATTCATTTTAAGGGAAATGTTTTTAATGTTTA
66 ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
38180 TGTTTCAAGAGAAACTGTCTTAAGGGAGAC-AAATTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
38217 AGTTCCAAAA
Statistics
Matches: 302, Mismatches: 35, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
98 2 0.01
99 34 0.11
100 40 0.13
101 44 0.15
102 182 0.60
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (102 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTAAAGGGAAACTATCTCAAGAGAG
ACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:38129 original size:37 final size:37
Alignment explanation
Indices: 38078--38150 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
38068 TCAATGTTTA
* * *
38078 TGTTTCAATAGAAACTGTCTCAAGGGAGATAAAATTT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGATAAAATTT
* *
38115 TGTTTCAAGGGAAACTATCTCAATCGAGATAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGCGAGATAAAATT
38151 CATTTTAAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTATCTCAAGCGAGATAAAATTT
Found at i:38178 original size:204 final size:201
Alignment explanation
Indices: 37775--38297 Score: 579
Period size: 204 Copynumber: 2.6 Consensus size: 201
37765 AGACAAAATT
* * * * *
37775 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAAAGAAACTATCTCAAGAGAG
* ** * *
37840 ACGAAATTTGTTTAAAAAAACATATTCAAATATTTTGTTTCAAGGGAAACTGTTTCAAGAGAGAC
66 ACAAAATTCATTTAAAAAAACATATTCAAATATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
* * * *
37905 AAAATTTGTTTCAAGTGAAACTGTCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAA
131 AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAA
37970 TGTTTA
196 TGTTTA
* * *
37976 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTTGTT-TAAAGGGAAACTATCTCAAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAA-AGAAACTATCTCAAGAGA
** ** * * * *
38040 GACAAAATTCATTTCAAGGGAAATGTTTTC-AATGTTTATGTTTCAATAGAAACTGTCTCAAGGG
65 GACAAAATTCATTT-AA-AAAAACATATTCAAATATTT-TGTTTCAAGAGAAACTGTCTCAAGAG
* ** * *
38104 AGATAAAATTTTGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTTAAGGGAAATGTT
127 AGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTT
*
38169 TTTAATGTTTA
191 TTCAATGTTTA
* * *
38180 TGTTTCAAGAGAAACTGTCTTAAGGGAGAC-AAATTTTAGTTCCAAAAGAAAGTATCTCAAGGGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT-GTTCCAAAAGAAACTATCTCAAGAGA
* * * *
38244 GA-ATAAATT-AGTTTCAATGAAAACAGATTCAAATATTTTATTTCAAGGGAAACT
65 GACA-AAATTCA-TTT-AA-AAAAACATATTCAAATATTTTGTTTCAAGAGAAACT
38298 TGGAAACTGT
Statistics
Matches: 265, Mismatches: 47, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
200 3 0.01
201 63 0.24
202 8 0.03
203 45 0.17
204 137 0.52
205 9 0.03
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (201 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAAAGAAACTATCTCAAGAGAG
ACAAAATTCATTTAAAAAAACATATTCAAATATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
AAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAA
TGTTTA
Found at i:38630 original size:106 final size:106
Alignment explanation
Indices: 38445--38767 Score: 459
Period size: 106 Copynumber: 3.0 Consensus size: 106
38435 TGTATCGTTC
* ** * * ** ** *
38445 CGAGTCCAATATCCTCCGCCATGAAGTTAAAATTGGCTCTGGAGCTAAGAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* * * * *
38510 GCAAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCT
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
38551 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
38616 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTCTCT
66 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
38657 TGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
38722 ACCAGCCGTCCCTTCGTTGT-AGAGTTGAACTTGTGTTGTCT
66 ACCAGTCGTCCCTTCGTTGTGA-AGTTGAACTTGTGTTGTCT
38763 CGAGT
1 CGAGT
38768 GGCACGATAT
Statistics
Matches: 195, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
105 1 0.01
106 194 0.99
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:39318 original size:32 final size:32
Alignment explanation
Indices: 39277--39386 Score: 114
Period size: 32 Copynumber: 3.4 Consensus size: 32
39267 TTTGCATCAG
* * *
39277 GATGTTGAAT-TCCCAAAGATGCCCCAATATTC
1 GATGTTGAATCT-CAAAAAATGCCCCAACATTC
*
39309 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTCAAAAAATGCCCCAACATTC
* * * *
39341 GATGTTAAATCTAAAAAAAATACCCCCAACATTT
1 GATGTTGAATCT-CAAAAAAT-GCCCCAACATTC
39375 GATGTTGAATCT
1 GATGTTGAATCT
39387 TCAAGATGCC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
32 37 0.55
33 8 0.12
34 22 0.33
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (32 bp):
GATGTTGAATCTCAAAAAATGCCCCAACATTC
Found at i:39368 original size:34 final size:32
Alignment explanation
Indices: 39298--39386 Score: 115
Period size: 34 Copynumber: 2.7 Consensus size: 32
39288 CCCAAAGATG
* * * *
39298 CCCCAATATTCGATGTTGAATCTCAAAAAATG
1 CCCCAACATTTGATGTTGAATCTAAAAAAATC
*
39330 CCCCAACATTTGATGTTAAATCTAAAAAAAATAC
1 CCCCAACATTTGATGTTGAATCT-AAAAAAAT-C
39364 CCCCAACATTTGATGTTGAATCT
1 CCCCAACATTTGATGTTGAATCT
39387 TCAAGATGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
32 20 0.41
33 7 0.14
34 22 0.45
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (32 bp):
CCCCAACATTTGATGTTGAATCTAAAAAAATC
Found at i:40424 original size:69 final size:69
Alignment explanation
Indices: 40308--40445 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 69
40298 TGTCTCTCTC
40308 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
40373 TCAT
66 TCAT
40377 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTC-GAAAATGATTGTGCTTGATCAAT
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAG-AAATGATTGTGCTTGATCAAT
40441 CTCAT
65 CTCAT
40446 AGTTTGAATC
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 1 0.01
69 67 0.99
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
TCAT
Found at i:40531 original size:21 final size:22
Alignment explanation
Indices: 40507--40555 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
40497 CTTGTCTTCT
40507 TTTTTCTTCAATTTTC-CTTTG-
1 TTTTT-TTCAATTTTCTCTTTGC
**
40528 TTTTTTTTTATTTTCTCTTTGC
1 TTTTTTTCAATTTTCTCTTTGC
40550 TTTTTT
1 TTTTTT
40556 CTTTTTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.33
21 10 0.42
22 6 0.25
ACGTcount: A:0.06, C:0.14, G:0.04, T:0.76
Consensus pattern (22 bp):
TTTTTTTCAATTTTCTCTTTGC
Found at i:40561 original size:20 final size:20
Alignment explanation
Indices: 40517--40561 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
40507 TTTTTCTTCA
* *
40517 ATTTTCCTTTGTTTTTTTTT
1 ATTTTCCTTTGCTTTTTTCT
40537 ATTTTCTCTTTGCTTTTTTCT
1 ATTTTC-CTTTGCTTTTTTCT
40558 -TTTT
1 ATTTT
40562 GTTCTGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.78
Consensus pattern (20 bp):
ATTTTCCTTTGCTTTTTTCT
Found at i:41214 original size:27 final size:27
Alignment explanation
Indices: 41176--41237 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
41166 TGACCATGAG
*
41176 TTATTTTGGGTAAAGAATCAAGGTATT
1 TTATTTTGGGTAAAGAAACAAGGTATT
41203 TTATTTTGGGTAAAGAAACAAGGTATT
1 TTATTTTGGGTAAAGAAACAAGGTATT
41230 TTATTTTG
1 TTATTTTG
41238 AGGTTTGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (27 bp):
TTATTTTGGGTAAAGAAACAAGGTATT
Found at i:42558 original size:13 final size:13
Alignment explanation
Indices: 42540--42569 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
42530 GTCACAACCC
42540 GACCCGACCCATT
1 GACCCGACCCATT
*
42553 GACCCGACCCGTT
1 GACCCGACCCATT
42566 GACC
1 GACC
42570 GTTGACCCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.13
Consensus pattern (13 bp):
GACCCGACCCATT
Found at i:43900 original size:18 final size:18
Alignment explanation
Indices: 43874--43908 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43864 TCGAAATGAC
*
43874 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
43892 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
43909 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:45046 original size:24 final size:24
Alignment explanation
Indices: 45015--45092 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
45005 ATTTTCGATT
*
45015 TGATTTCTGATCTGATACTTGACA
1 TGATTTCTGATATGATACTTGACA
* *
45039 TGGA-TTCTGATATGTTACTTGACC
1 T-GATTTCTGATATGATACTTGACA
*
45063 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATATGATACTTGACA
45087 TGATTT
1 TGATTT
45093 ATGTTTTGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.04
24 44 0.92
25 2 0.04
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (24 bp):
TGATTTCTGATATGATACTTGACA
Found at i:48098 original size:16 final size:17
Alignment explanation
Indices: 48064--48123 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 17
48054 TGATATTAAG
48064 AAAA-AAAATAATAGAA
1 AAAATAAAATAATAGAA
*
48080 AAAATAAAATAA-AGTA
1 AAAATAAAATAATAGAA
* *
48096 AAAATATAATATATATAA
1 AAAATAAAATA-ATAGAA
48114 ATAAATAAAA
1 A-AAATAAAA
48124 ACAAAAATAG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 17 0.49
17 8 0.23
18 3 0.09
19 7 0.20
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAATAAAATAATAGAA
Found at i:48188 original size:34 final size:31
Alignment explanation
Indices: 48095--48188 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 31
48085 AAAATAAAGT
*
48095 AAAAATATAATA-T-ATATAAATAAATAAAAAC
1 AAAAATATAATATTAAGATAAAT--ATAAAAAC
*
48126 AAAAATAGAATATTAAGAATATATATATAAAAAC
1 AAAAATATAATATTAAG-ATA-A-ATATAAAAAC
48160 GTATAAAATATAATATTAAGATAAATATA
1 --A-AAAATATAATATTAAGATAAATATA
48189 CATAGTAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
31 11 0.21
32 1 0.02
33 1 0.02
34 16 0.31
35 2 0.04
36 6 0.12
37 15 0.29
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (31 bp):
AAAAATATAATATTAAGATAAATATAAAAAC
Found at i:50512 original size:87 final size:87
Alignment explanation
Indices: 50366--50539 Score: 348
Period size: 87 Copynumber: 2.0 Consensus size: 87
50356 GATTATTTAG
50366 GCTTCTAATGACATAAAAGGAATTGTAAGGAAAACCAAAAATGGAATTGTGGAAGTAAATTTTGT
1 GCTTCTAATGACATAAAAGGAATTGTAAGGAAAACCAAAAATGGAATTGTGGAAGTAAATTTTGT
50431 CCTTATAAACTATATAAACCGA
66 CCTTATAAACTATATAAACCGA
50453 GCTTCTAATGACATAAAAGGAATTGTAAGGAAAACCAAAAATGGAATTGTGGAAGTAAATTTTGT
1 GCTTCTAATGACATAAAAGGAATTGTAAGGAAAACCAAAAATGGAATTGTGGAAGTAAATTTTGT
50518 CCTTATAAACTATATAAACCGA
66 CCTTATAAACTATATAAACCGA
50540 CCAATGACAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (87 bp):
GCTTCTAATGACATAAAAGGAATTGTAAGGAAAACCAAAAATGGAATTGTGGAAGTAAATTTTGT
CCTTATAAACTATATAAACCGA
Found at i:51739 original size:27 final size:27
Alignment explanation
Indices: 51681--51741 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
51671 ATAAAAAATG
*
51681 GTTTAAATTATAATTTTTTCATTTAGAT
1 GTTTAAATTAT-ATTTTGTCATTTAGAT
*
51709 GTTTAAATTAT-TTTTGTCAATTTATAT
1 GTTTAAATTATATTTTGTC-ATTTAGAT
51736 GTTTAA
1 GTTTAA
51742 TGTTATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 6 0.20
27 13 0.43
28 11 0.37
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.57
Consensus pattern (27 bp):
GTTTAAATTATATTTTGTCATTTAGAT
Found at i:68143 original size:16 final size:16
Alignment explanation
Indices: 68122--68157 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
68112 TGAATAATTC
68122 GAATCCGAAAAT-ATCT
1 GAATCC-AAAATGATCT
68138 GAATCCAAAATGATCT
1 GAATCCAAAATGATCT
68154 GAAT
1 GAAT
68158 TGCATCTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (16 bp):
GAATCCAAAATGATCT
Found at i:70135 original size:103 final size:103
Alignment explanation
Indices: 69701--70167 Score: 301
Period size: 103 Copynumber: 4.5 Consensus size: 103
69691 AATCTAACGT
* * * * *
69701 TCACTCGAGTTTAACCATCTGATATATAGTTAGATATTTGTATAAATGCAAGACAAATTTCA-AA
1 TCACCCGAGTTCAACCATCTGATATATAGTTATATATGTGTATAAATACAAGAC----TT-AGAA
* * * *
69765 AAATTTGAGCATACTATGTAGG--ACATGTTCAAATCCGACAC
61 ATATTTGAGCATACCATGTAGGACACATATCCAAATCCGACAC
* * * * * *
69806 TCGCTCGAGTTTAACCATATGATATATAATT-TAGATGTGTATAAAATACAAGACAAATATAGAA
1 TCACCCGAGTTCAACCATCTGATATATAGTTATATATGTGTAT-AAATACAAGAC---T-TAG--
* * * ** * * ** * * *
69870 AAAAAATTAAGCATATTATATAGGATACACGTCTAAATCTGACAT
59 AAATATTTGAGCATACCATGTAGGACACATATCCAAATCCGACAC
** * * * *
69915 TCATTCGAGTTCAACCATATGATATATAGTTAGATGTGTGTAT--A-ACAA-ACATCCAG-AA-A
1 TCACCCGAGTTCAACCATCTGATATATAGTTATATATGTGTATAAATACAAGAC-T-TAGAAATA
* * ** * * *
69974 TTAG-GCATTCCATGTAGGATTCATGTCTAAATTCGACAC
64 TTTGAGCATACCATGTAGGACACATATCCAAATCCGACAC
* *
70013 TCACTCGAGTTCAACCATCTGATATTTAGTT-TGATATGTGTATAAATACAAGACTTAGAAATAT
1 TCACCCGAGTTCAACCATCTGATATATAGTTAT-ATATGTGTATAAATACAAGACTTAGAAATAT
70077 TTGAGCATACCATGTAGGACACATATCCAAATCCGACAC
65 TTGAGCATACCATGTAGGACACATATCCAAATCCGACAC
* ** *
70116 TCACCCGAGTTTATTCATCTTATATATAGTTATATATGTGTATAAATACAAG
1 TCACCCGAGTTCAACCATCTGATATATAGTTATATATGTGTATAAATACAAG
70168 GCAAACTTTG
Statistics
Matches: 288, Mismatches: 57, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
98 63 0.22
99 2 0.01
100 5 0.02
101 7 0.02
102 6 0.02
103 77 0.27
104 13 0.05
105 41 0.14
106 4 0.01
107 21 0.07
109 41 0.14
110 8 0.03
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (103 bp):
TCACCCGAGTTCAACCATCTGATATATAGTTATATATGTGTATAAATACAAGACTTAGAAATATT
TGAGCATACCATGTAGGACACATATCCAAATCCGACAC
Found at i:74626 original size:156 final size:151
Alignment explanation
Indices: 74359--74754 Score: 542
Period size: 156 Copynumber: 2.6 Consensus size: 151
74349 CCAGACTAGT
* * * *
74359 GACAGAAGAATCATCTAAAACCTTTTCTTGCAATGCCTGTGCAAGGGCTTCTGAGGC-GTCACCT
1 GACAAAAGAAACATCTAAAACCTTTTCTTGCAATGCCTGTGCAAGGGCTTCTGAGGCATTAACC-
**
74423 TTAGTCTCAGCAGTATTTAAATCCAGCATGCCCCTCTACAAAATATGATGGATATAAATAGAAAT
65 TTAGTCTCAGCAGTATTTAAATCCAGCAAACCCCTCTACAAAATATGATGGATATAAATAGAAAT
*
74488 GTATAAATTACCAGAAACCAGACCACA
130 ATATAAATTACCAGAAACC--A--A-A
* * * *
74515 GAGAAAAGAAACGTCTAAAACCTTTTCTTGCAATGCCTTTGCAAGGGCTTCTGAGGCATTAAGCT
1 GACAAAAGAAACATCTAAAACCTTTTCTTGCAATGCCTGTGCAAGGGCTTCTGAGGCATTAACCT
* * *
74580 TAGTCTCAGCAGTATTTGAATCGAGCAAATCCCTCTACAAAATATGATGGATATAAATAGAAATA
66 TAGTCTCAGCAGTATTTAAATCCAGCAAACCCCTCTACAAAATATGATGGATATAAATAGAAATA
74645 TATAAATTACCAGAAACCAAA
131 TATAAATTACCAGAAACCAAA
* * * * * *
74666 GACAGAATAAACATCTGAAACCTTTTCTTGCAATGCCTGTGAAAGGGCTTCTGAGGCATCACCCT
1 GACAAAAGAAACATCTAAAACCTTTTCTTGCAATGCCTGTGCAAGGGCTTCTGAGGCATTAACCT
*
74731 TATTCTCAGCAGTATTTAAATCCA
66 TAGTCTCAGCAGTATTTAAATCCA
74755 CCCCCTAAAA
Statistics
Matches: 212, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
151 77 0.36
152 1 0.00
154 1 0.00
156 130 0.61
157 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (151 bp):
GACAAAAGAAACATCTAAAACCTTTTCTTGCAATGCCTGTGCAAGGGCTTCTGAGGCATTAACCT
TAGTCTCAGCAGTATTTAAATCCAGCAAACCCCTCTACAAAATATGATGGATATAAATAGAAATA
TATAAATTACCAGAAACCAAA
Found at i:75447 original size:102 final size:102
Alignment explanation
Indices: 75322--75528 Score: 299
Period size: 102 Copynumber: 2.0 Consensus size: 102
75312 CCAACTTGGA
*
75322 TTCAGCATCAGTACTTATATGTACAACTACACGCCCATCTTCATCTGGTTTGAGAAAAC-ATTGC
1 TTCAGCATCAGTACTTATATGTACAACTACACGCCCATCTTCATCTGGCTTGAGAAAACTA-TGC
* * *
75386 ACATGATGCCCTCTTGGATTAAATTGTCTAATTTTTTC
65 ACATGATGCCCTCTTGGATCAAATTGCCTAATTTTCTC
* * * *
75424 TTCAGCATCAGTACTTGTATGTACATCTACACGCTCATCTTCATCTGGCTTGAGAACACTATGCA
1 TTCAGCATCAGTACTTATATGTACAACTACACGCCCATCTTCATCTGGCTTGAGAAAACTATGCA
** *
75489 CATTTTGCCCTCTTGGATCAACTTGCCTAATTTTCTC
66 CATGATGCCCTCTTGGATCAAATTGCCTAATTTTCTC
75526 TTC
1 TTC
75529 TACTGCATCA
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 92 0.99
103 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (102 bp):
TTCAGCATCAGTACTTATATGTACAACTACACGCCCATCTTCATCTGGCTTGAGAAAACTATGCA
CATGATGCCCTCTTGGATCAAATTGCCTAATTTTCTC
Found at i:75720 original size:26 final size:27
Alignment explanation
Indices: 75690--75741 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
75680 AGGACTTAAT
75690 CATAGAAAAGAAAC-AAAAAGGAAAAC
1 CATAGAAAAGAAACTAAAAAGGAAAAC
* *
75716 CATAGAAATGAAACTAAAAGGGAAAA
1 CATAGAAAAGAAACTAAAAAGGAAAA
75742 AATTTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.65, C:0.10, G:0.17, T:0.08
Consensus pattern (27 bp):
CATAGAAAAGAAACTAAAAAGGAAAAC
Found at i:85539 original size:14 final size:14
Alignment explanation
Indices: 85520--85546 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85510 ATGCAATTGG
85520 TGCATCGATGCATA
1 TGCATCGATGCATA
85534 TGCATCGATGCAT
1 TGCATCGATGCAT
85547 CCCAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (14 bp):
TGCATCGATGCATA
Found at i:86580 original size:103 final size:103
Alignment explanation
Indices: 86396--86610 Score: 358
Period size: 103 Copynumber: 2.1 Consensus size: 103
86386 GTCAAGGGTC
* * *
86396 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACATATAC
1 TATGTGGTCATTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
86461 TTGATCATTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCACTAGCATATGTATATGATTCTTAAGGAATGA
86499 TATGTGGTCATTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCATTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
86564 TTGATCCCTAGTATATGTATATGATTTTTAAGGAATGA
66 TTGATCACTAGCATATGTATATGATTCTTAAGGAATGA
86602 TATGTGGTC
1 TATGTGGTC
86611 CTTATGGACA
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (103 bp):
TATGTGGTCATTCGAGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCACTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:86696 original size:23 final size:23
Alignment explanation
Indices: 86620--86697 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
86610 CCTTATGGAC
*
86620 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
86644 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
86667 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
86690 ATTATATG
1 ATTATATG
86698 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 42 0.93
24 3 0.07
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:87615 original size:29 final size:28
Alignment explanation
Indices: 87571--87768 Score: 162
Period size: 29 Copynumber: 6.7 Consensus size: 28
87561 ACCCGACCCA
*
87571 GTGACATTCTGAGAATTTTTGTGAAAAAG
1 GTGACATTCTGGGAATTTTT-TGAAAAAG
*
87600 GTGACATTCTGGGAATTTTTGTGAAAAAT
1 GTGACATTCTGGGAATTTTT-TGAAAAAG
* * *
87629 GTGATATTCTGGGAAATATTTTGAAAAAT
1 GTGACATTCTGGG-AATTTTTTGAAAAAG
* * ***
87658 GTGACATTCTGAGAAATATTTTGAAATTCTTT
1 GTGACATTCTG-GGAATTTTTTGAAA---AAG
*
87690 TTGACATTCTGGGAATTATTTTGAAAAAG
1 GTGACATTCTGGGAATT-TTTTGAAAAAG
* **
87719 GTGATATGATGGGAATTATTTTGAAAAAAG
1 GTGACATTCTGGGAATT-TTTTG-AAAAAG
* *
87749 GTGACATTTTGAGAATTTTT
1 GTGACATTCTGGGAATTTTT
87769 GAATGTGGAC
Statistics
Matches: 140, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
29 91 0.65
30 26 0.19
31 4 0.03
32 19 0.14
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.39
Consensus pattern (28 bp):
GTGACATTCTGGGAATTTTTTGAAAAAG
Found at i:87723 original size:90 final size:89
Alignment explanation
Indices: 87601--87771 Score: 247
Period size: 90 Copynumber: 1.9 Consensus size: 89
87591 GTGAAAAAGG
* ** *
87601 TGACATTCTGGGAATTTTTGTGAAAAATGTGATATTCTGGGAAATATTTTG-AAAAATGTGACAT
1 TGACATTCTGGGAATTTTTGTGAAAAAGGTGATATGATGGGAAATATTTTGAAAAAAGGTGACAT
87665 TCTGAGAAATATTTTGAAATTCTTTT
66 TCTGAG-AAT-TTTTGAAATTCTTTT
*
87691 TGACATTCTGGGAATTATTT-TGAAAAAGGTGATATGATGGGAATTATTTTGAAAAAAGGTGACA
1 TGACATTCTGGGAATT-TTTGTGAAAAAGGTGATATGATGGGAAATATTTTGAAAAAAGGTGACA
*
87755 TTTTGAGAATTTTTGAA
65 TTCTGAGAATTTTTGAA
87772 TGTGGACTAT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
89 7 0.10
90 46 0.63
91 20 0.27
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (89 bp):
TGACATTCTGGGAATTTTTGTGAAAAAGGTGATATGATGGGAAATATTTTGAAAAAAGGTGACAT
TCTGAGAATTTTTGAAATTCTTTT
Found at i:93752 original size:18 final size:17
Alignment explanation
Indices: 93702--93746 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
93692 AAACCGGTCT
*
93702 GACCCGAACCGTTGACC
1 GACCCGACCCGTTGACC
93719 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
93736 AGACCCGACCC
1 -GACCCGACCC
93747 AGTGACATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.22, C:0.47, G:0.22, T:0.09
Consensus pattern (17 bp):
GACCCGACCCGTTGACC
Found at i:93798 original size:29 final size:29
Alignment explanation
Indices: 93748--93886 Score: 201
Period size: 29 Copynumber: 4.9 Consensus size: 29
93738 ACCCGACCCA
* *
93748 GTGACATTCTGGGAATTTTTTTGAAAAAG
1 GTGACATTCTGGGAAATATTTTGAAAAAG
*
93777 GTGACATTCTGAGAAATATTTTGAAAAAG
1 GTGACATTCTGGGAAATATTTTGAAAAAG
*
93806 GTGACATTCTGGGAAATATTTTGAAAAAT
1 GTGACATTCTGGGAAATATTTTGAAAAAG
*
93835 GTGACATTCTTGGAAATATTTTGAAAAAG
1 GTGACATTCTGGGAAATATTTTGAAAAAG
* *
93864 GTGATATTTTGGG-AAT-TTTTGAA
1 GTGACATTCTGGGAAATATTTTGAA
93887 TGTGGACTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 7 0.07
28 3 0.03
29 90 0.90
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (29 bp):
GTGACATTCTGGGAAATATTTTGAAAAAG
Found at i:101691 original size:28 final size:28
Alignment explanation
Indices: 101643--101721 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
101633 AAAGTCGAGG
*
101643 GTTCTACGTAGTCCTTCGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
* *
101671 GTTCTACGTGGTCTTTTGGGACATATGT
1 GTTCTACGTGGTCCTTCGGGACATATGT
* *
101699 CTTCTATGTGGTCCTTCGGGACA
1 GTTCTACGTGGTCCTTCGGGACA
101722 AATTCTACAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.38
Consensus pattern (28 bp):
GTTCTACGTGGTCCTTCGGGACATATGT
Found at i:103221 original size:63 final size:65
Alignment explanation
Indices: 103110--103274 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 65
103100 CTCAAAATAT
*
103110 ATATCTTTTAATATTC-AAATTCAAACAAGTA-ATAATATCTTTAATTTAAAATATTTAAAA-GA
1 ATATCTTTTAATATTCAAAATT-----AAGTAGATAATATCTTTAATTTAAAATATTCAAAATGA
103172 TATAA
61 TATAA
* * *
103177 ATA-CATTTTACTATTCAAATTTAAGTAGATATTAT-TTTAATTTAAAATATTCAAAATGATATA
1 ATATC-TTTTAATATTCAAAATTAAGTAGATAATATCTTTAATTTAAAATATTCAAAATGATATA
103240 A
65 A
* *
103241 TTATCTTTTAATATTCAAAATTAAATAGATAATA
1 ATATCTTTTAATATTCAAAATTAAGTAGATAATA
103275 AATACTTTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
63 25 0.30
64 40 0.48
65 1 0.01
66 1 0.01
67 13 0.15
68 4 0.05
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (65 bp):
ATATCTTTTAATATTCAAAATTAAGTAGATAATATCTTTAATTTAAAATATTCAAAATGATATAA
Found at i:103622 original size:2 final size:2
Alignment explanation
Indices: 103615--103645 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
103605 ATTAATTAAT
103615 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
103646 GATGTTACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:109673 original size:18 final size:18
Alignment explanation
Indices: 109658--109692 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
109648 TTTTTTTAGT
109658 AAATTTTTAATTTTTATG
1 AAATTTTTAATTTTTATG
*
109676 ATATTTTTAATTTTTAT
1 AAATTTTTAATTTTTAT
109693 ATTATTTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
AAATTTTTAATTTTTATG
Found at i:110808 original size:23 final size:23
Alignment explanation
Indices: 110782--110830 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
110772 TATAATAAAA
110782 TTATATAAGTTCA-TTAATATTAT
1 TTATATAAGTTCATTTAATATT-T
* * *
110805 TTATTTATGTTTATTTAATATTT
1 TTATATAAGTTCATTTAATATTT
110828 TTA
1 TTA
110831 AATTAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (23 bp):
TTATATAAGTTCATTTAATATTT
Found at i:113967 original size:27 final size:27
Alignment explanation
Indices: 113925--113992 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
113915 GTGTAGGAAT
113925 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
*
113950 TATAGAGATATGATTTGTTCCCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
113977 TATAGAGATATGATTT
1 TATAGAGATATGATTT
113993 TGTAAATAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 7 0.17
27 33 0.82
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Found at i:117729 original size:27 final size:27
Alignment explanation
Indices: 117687--117754 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
117677 GTGTAGGAAT
117687 TATAGAG--ATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
117712 TATAGAGATATGATTTGTTACCATTCC
1 TATAGAGATATGATTTGTTACCATTCC
117739 TATAGAGATATGATTT
1 TATAGAGATATGATTT
117755 TGTAAATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 7 0.17
27 34 0.83
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (27 bp):
TATAGAGATATGATTTGTTACCATTCC
Done.