Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008930.1 Hibiscus syriacus cultivar Beakdansim tig00112236_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: 792381
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:12072 original size:25 final size:26
Alignment explanation
Indices: 12038--12086 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
12028 GTAGCAGACC
12038 CTGTTTACAATGC-TTTTCTCTCCAT
1 CTGTTTACAATGCATTTTCTCTCCAT
12063 CTGTTTACAATGCATTTTCTCTCC
1 CTGTTTACAATGCATTTTCTCTCC
12087 TCTCTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.16, C:0.29, G:0.08, T:0.47
Consensus pattern (26 bp):
CTGTTTACAATGCATTTTCTCTCCAT
Found at i:12605 original size:25 final size:25
Alignment explanation
Indices: 12577--12624 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
12567 AAAATACACA
*
12577 AAAATAAA-AAGATAATGAATAATTC
1 AAAATAAATAAAATAAT-AATAATTC
12602 AAAATAAATAAAATAATAATAAT
1 AAAATAAATAAAATAATAATAAT
12625 AGGAATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAATAAATAAAATAATAATAATTC
Found at i:14395 original size:92 final size:95
Alignment explanation
Indices: 14218--14404 Score: 227
Period size: 92 Copynumber: 2.0 Consensus size: 95
14208 TGTAAGAATC
* * * * ** * *
14218 AAACAAGGGTTTAGGGATGAACATAGATGAATATGGGTTGATGATTTGGGTGTTTGATCCAAAAA
1 AAACAAAGGTTAAGGGATGAACACAAATGAATAAAGGTTGAGGATTTGGGAGTTTGATCCAAAAA
*
14283 AACAAGTTGGGTTTTGGGTTTGGGTATTTG
66 AACAAGTTGGATTTTGGGTTTGGGTATTTG
* * *
14313 AAACAAAGGTTAAGGGATGAACACAAATG-ATAAAGGTTGAGGGTTTGGGAGTTTG-TTC-ATAA
1 AAACAAAGGTTAAGGGATGAACACAAATGAATAAAGGTTGAGGATTTGGGAGTTTGATCCAAAAA
* *
14375 AACAAGTTGGATTTTGGGTTTTGGTGTTTG
66 AACAAGTTGGATTTTGGGTTTGGGTATTTG
14405 TAAAGATTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
92 30 0.38
93 2 0.03
94 21 0.27
95 25 0.32
ACGTcount: A:0.30, C:0.05, G:0.31, T:0.33
Consensus pattern (95 bp):
AAACAAAGGTTAAGGGATGAACACAAATGAATAAAGGTTGAGGATTTGGGAGTTTGATCCAAAAA
AACAAGTTGGATTTTGGGTTTGGGTATTTG
Found at i:14847 original size:11 final size:11
Alignment explanation
Indices: 14833--15118 Score: 86
Period size: 11 Copynumber: 26.1 Consensus size: 11
14823 ATTAATAAAC
14833 TATAGTTTATA
1 TATAGTTTATA
14844 TATA-TTAATATA
1 TATAGTT--TATA
*
14856 GTTTAGTTTATA
1 -TATAGTTTATA
14868 TATAGTTTATA
1 TATAGTTTATA
*
14879 TA-A-TTTACA
1 TATAGTTTATA
* *
14888 TATAATTGAT-
1 TATAGTTTATA
**
14898 TA-A-TAAACTA
1 TATAGTTTA-TA
14908 TATAGTTTTTATA
1 TATAG--TTTATA
*
14921 TATAGTTTTTA
1 TATAGTTTATA
**
14932 TATA--CAATA
1 TATAGTTTATA
*
14941 TATA-TATATA
1 TATAGTTTATA
*
14951 TATA-TATATA
1 TATAGTTTATA
14961 TATAGTTTGTATA
1 TATAG-TT-TATA
*
14974 TATAAATTATATAA
1 TAT-AGTT-TAT-A
*
14988 TATAAAGTATATA
1 TAT--AGTTTATA
*
15001 AATAGTTTATA
1 TATAGTTTATA
* *
15012 CATAGTATATA
1 TATAGTTTATA
* **
15023 AATA-TAAACTA
1 TATAGTTTA-TA
15034 TATAGTTTATA
1 TATAGTTTATA
*
15045 TATA-ATT-TA
1 TATAGTTTATA
*
15054 TATAGTTTTTA
1 TATAGTTTATA
*
15065 TATAGTTCATA
1 TATAGTTTATA
*
15076 TATAG-TTACA
1 TATAGTTTATA
15086 TATA----ACTA
1 TATAGTTTA-TA
15094 TATAGTTTATTAA
1 TATAGTTTA-T-A
15107 TATAGTTTATA
1 TATAGTTTATA
15118 T
1 T
15119 TAATAAACTA
Statistics
Matches: 209, Mismatches: 37, Indels: 58
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.00
8 7 0.03
9 21 0.10
10 39 0.19
11 77 0.37
12 14 0.07
13 35 0.17
14 12 0.06
15 3 0.01
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (11 bp):
TATAGTTTATA
Found at i:14849 original size:24 final size:24
Alignment explanation
Indices: 14822--14871 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
14812 AACTATAACT
14822 TATTAATAAACTATAGTTTATATA
1 TATTAATAAACTATAGTTTATATA
* * *
14846 TATTAATATAGTTTAGTTTATATA
1 TATTAATAAACTATAGTTTATATA
14870 TA
1 TA
14872 GTTTATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (24 bp):
TATTAATAAACTATAGTTTATATA
Found at i:14924 original size:13 final size:13
Alignment explanation
Indices: 14906--15011 Score: 70
Period size: 13 Copynumber: 8.0 Consensus size: 13
14896 ATTAATAAAC
*
14906 TATATAGTTTTTA
1 TATATAGTTTATA
*
14919 TATATAGTTTTTA
1 TATATAGTTTATA
* *
14932 TATACAATATATATA
1 TATATAGT-T-TATA
*
14947 TATATA-TATATA
1 TATATAGTTTATA
*
14959 TATATAGTTTGTA
1 TATATAGTTTATA
**
14972 TATATAAATTATA
1 TATATAGTTTATA
***
14985 TAATATAAAGTATA
1 T-ATATAGTTTATA
*
14999 TAAATAGTTTATA
1 TATATAGTTTATA
15012 CATAGTATAT
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
12 10 0.14
13 42 0.57
14 14 0.19
15 8 0.11
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:14953 original size:10 final size:10
Alignment explanation
Indices: 14938--15550 Score: 186
Period size: 8 Copynumber: 66.5 Consensus size: 10
14928 TTTATATACA
14938 ATATATATAT
1 ATATATATAT
14948 ATATATATAT
1 ATATATATAT
*
14958 ATATATAGTTT
1 ATATATA-TAT
* *
14969 GTATATATAA
1 ATATATATAT
14979 AT-TATATA-
1 ATATATATAT
*
14987 ATATAAAGTAT
1 ATATATA-TAT
* *
14998 ATAAATAGTTT
1 ATATATA-TAT
*
15009 ATACATAGTAT
1 ATATATA-TAT
* *
15020 ATAAATATAA
1 ATATATATAT
*
15030 ACTATATAGTTT
1 A-TATATA-TAT
15042 ATATATA-AT
1 ATATATATAT
* *
15051 TTATATAGTTT
1 ATATATA-TAT
*
15062 TTATATAGT-T
1 ATATATA-TAT
15072 CATATATAGT-T
1 -ATATATA-TAT
*
15083 ACATATA-ACT
1 ATATATATA-T
*
15093 ATATAGTTTAT
1 ATATA-TATAT
15104 -TA-ATATAGT
1 ATATATATA-T
*
15113 TTATAT-TA-
1 ATATATATAT
*
15121 ATAAACTATAT
1 ATATA-TATAT
* * *
15132 -TGTTTATAC
1 ATATATATAT
*
15141 ATGTATATAT
1 ATATATATAT
* *
15151 A-ATTTATAC
1 ATATATATAT
15160 ATA-ATATAT
1 ATATATATAT
*
15169 ATGT-TCATAT
1 ATATAT-ATAT
*
15179 AGTTTATATAT
1 A-TATATATAT
*
15190 -TGTATATA-
1 ATATATATAT
*
15198 ATATAAAT-T
1 ATATATATAT
* *
15207 ACATAGTTTAT
1 ATATA-TATAT
15218 ATAT-TATAGT
1 ATATATATA-T
* **
15228 -TTTCCATAT
1 ATATATATAT
*
15237 AGTTTATA-AT
1 A-TATATATAT
*
15247 ATATAGTTTAT
1 ATATA-TATAT
*
15258 ATATGTAGT-T
1 ATATATA-TAT
15268 ATAT-TATAT
1 ATATATATAT
15277 -TAT-TATAT
1 ATATATATAT
15285 -TATAT-TAT
1 ATATATATAT
15293 AT-TATATAT
1 ATATATATAT
15302 -TATAT-TAT
1 ATATATATAT
15310 AT-TATATAT
1 ATATATATAT
15319 ATATAT-TAT
1 ATATATATAT
15328 AT-TATAT-T
1 ATATATATAT
15336 AT-TATAT-T
1 ATATATATAT
15344 ATAT-TATAT
1 ATATATATAT
15353 ATAT-TATAT
1 ATATATATAT
15362 -TATAT-TAT
1 ATATATATAT
15370 AT-TATAT-T
1 ATATATATAT
15378 ATAT-TATAT
1 ATATATATAT
15387 -TATAT-TAT
1 ATATATATAT
15395 AT-TATAT-T
1 ATATATATAT
*
15403 ATAT-TATTT
1 ATATATATAT
15412 AT-TAT-TAT
1 ATATATATAT
15420 AT-TATAT-T
1 ATATATATAT
15428 ATAT-TATAT
1 ATATATATAT
15437 -TATATGATAT
1 ATATAT-ATAT
15447 -TATAT-TAT
1 ATATATATAT
15455 AT-TATAT-T
1 ATATATATAT
15463 ATAT-TATAT
1 ATATATATAT
15472 -TATAT-TAT
1 ATATATATAT
15480 AT-TATAT-T
1 ATATATATAT
15488 ATAT-TATAT
1 ATATATATAT
15497 -TATAT-TAT
1 ATATATATAT
15505 AT-TATAT-T
1 ATATATATAT
15513 ATAT-TATAT
1 ATATATATAT
15522 -TATAT-TAT
1 ATATATATAT
15530 AT-TATAT-T
1 ATATATATAT
15538 ATAT-TATAT
1 ATATATATAT
15547 -TATA
1 ATATA
15551 ATTTTTTCTC
Statistics
Matches: 464, Mismatches: 56, Indels: 167
0.68 0.08 0.24
Matches are distributed among these distances:
8 157 0.34
9 131 0.28
10 86 0.19
11 86 0.19
12 4 0.01
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (10 bp):
ATATATATAT
Found at i:14967 original size:40 final size:40
Alignment explanation
Indices: 14917--15008 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
14907 ATATAGTTTT
*
14917 TATATATAGTTT-T-TATATACAATATATATATATATATA-TA
1 TATATATAGTTTGTATATATA-AAT-TATATA-ATATAAAGTA
14957 TATATATAGTTTGTATATATAAATTATATAATATAAAGTA
1 TATATATAGTTTGTATATATAAATTATATAATATAAAGTA
*
14997 TATAAATAGTTT
1 TATATATAGTTT
15009 ATACATAGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
39 6 0.13
40 31 0.66
41 4 0.09
42 6 0.13
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.48
Consensus pattern (40 bp):
TATATATAGTTTGTATATATAAATTATATAATATAAAGTA
Found at i:15017 original size:51 final size:49
Alignment explanation
Indices: 14932--15037 Score: 113
Period size: 51 Copynumber: 2.1 Consensus size: 49
14922 ATAGTTTTTA
* * * * * * * *
14932 TATACAATATATATATATATATATATATATATAGTTTGTATATATAAAT
1 TATATAATATAAATATATAAATATATATACATAGTATATAAATATAAAC
*
14981 TATATAATATAAAGTATATAAATAGTTTATACATAGTATATAAATATAAAC
1 TATATAATATAAA-TATATAAATA-TATATACATAGTATATAAATATAAAC
15032 TATATA
1 TATATA
15038 GTTTATATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
49 11 0.24
50 9 0.20
51 26 0.57
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (49 bp):
TATATAATATAAATATATAAATATATATACATAGTATATAAATATAAAC
Found at i:15049 original size:20 final size:20
Alignment explanation
Indices: 15024--15103 Score: 74
Period size: 20 Copynumber: 4.0 Consensus size: 20
15014 TAGTATATAA
15024 ATATAAACTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
** *
15044 ATATAATTTATATAGTTTTT
1 ATATAAACTATATAGTTTAT
** *
15064 ATATAGTTCATATATAG-TTAC
1 ATATA-AAC-TATATAGTTTAT
15085 ATAT-AACTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
15104 TAATATAGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
18 7 0.15
19 4 0.09
20 22 0.47
21 7 0.15
22 7 0.15
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (20 bp):
ATATAAACTATATAGTTTAT
Found at i:15266 original size:13 final size:13
Alignment explanation
Indices: 15209--15356 Score: 85
Period size: 13 Copynumber: 12.2 Consensus size: 13
15199 TATAAATTAC
15209 ATAGTTTATATATT
1 ATAGTTTATATA-T
**
15223 ATAGTTT-TCCAT
1 ATAGTTTATATAT
15235 ATAGTTTATAATAT
1 ATAGTTTAT-ATAT
15249 ATAGTTTATATAT
1 ATAGTTTATATAT
*
15262 GTAG-TTATAT-T
1 ATAGTTTATATAT
*
15273 ATATTATTATAT-T
1 ATAGT-TTATATAT
15286 ATA--TTATAT-T
1 ATAGTTTATATAT
15296 ATA-TATTATAT-T
1 ATAGT-TTATATAT
15308 ATA--TTATATAT
1 ATAGTTTATATAT
15319 ATA-TATTATAT-T
1 ATAGT-TTATATAT
*
15331 ATATTATTATAT-T
1 ATAGT-TTATATAT
15344 ATA--TTATATAT
1 ATAGTTTATATAT
15355 AT
1 AT
15357 TATATTATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 25
0.78 0.05 0.17
Matches are distributed among these distances:
10 22 0.19
11 10 0.09
12 28 0.24
13 38 0.33
14 18 0.16
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:15276 original size:5 final size:5
Alignment explanation
Indices: 15266--15550 Score: 478
Period size: 5 Copynumber: 58.0 Consensus size: 5
15256 ATATATGTAG
15266 TTATA TTATA -T-TA TTATA TTATA TTATA TTATATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA -T-TATA TTATA TTATA TTATA
15316 -TATA -TATA TTATA TTATA -T-TA TTATA TTATA TTATA -TATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
15361 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTAT-
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
*
15410 TTATTA TTATA TTATA TTATA TTATA TTATA TGATA TTATA TTATA TTATA
1 TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
15461 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
15511 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
15551 ATTTTTTCTC
Statistics
Matches: 268, Mismatches: 2, Indels: 20
0.92 0.01 0.07
Matches are distributed among these distances:
3 4 0.01
4 19 0.07
5 236 0.88
6 5 0.02
7 4 0.01
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:16689 original size:41 final size:41
Alignment explanation
Indices: 16589--16682 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
16579 TTTATTTAGA
16589 TACCTCATAAAGAATACGTCATTGCATGGATAGTTTATAGG
1 TACCTCATAAAGAATACGTCATTGCATGGATAGTTTATAGG
* *
16630 TATCACATAAAGAATACGTCATTGCATGGATAGTTTATAGG
1 TACCTCATAAAGAATACGTCATTGCATGGATAGTTTATAGG
16671 TACCTCATAAAG
1 TACCTCATAAAG
16683 GGTACGTATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (41 bp):
TACCTCATAAAGAATACGTCATTGCATGGATAGTTTATAGG
Found at i:23274 original size:22 final size:22
Alignment explanation
Indices: 23246--23327 Score: 137
Period size: 22 Copynumber: 3.7 Consensus size: 22
23236 TCATATGAAA
* *
23246 TATGTCCCGAATGACCTGCGAG
1 TATGTCCCGAAGGACCTGTGAG
23268 TATGTCCCGAAGGACCTGTGAG
1 TATGTCCCGAAGGACCTGTGAG
*
23290 TATGTCCCGAAGGACCTATGAG
1 TATGTCCCGAAGGACCTGTGAG
23312 TATGTCCCGAAGGACC
1 TATGTCCCGAAGGACC
23328 GCGTAGACCC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (22 bp):
TATGTCCCGAAGGACCTGTGAG
Found at i:24104 original size:22 final size:22
Alignment explanation
Indices: 24069--24114 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
24059 CTTAATTCAA
24069 TTTCATATAACTCC-TATGATCT
1 TTTCATATAACTCCAT-TGATCT
**
24091 TTTCATATGGCTCCATTGATCT
1 TTTCATATAACTCCATTGATCT
24113 TT
1 TT
24115 ACCATATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.48
Consensus pattern (22 bp):
TTTCATATAACTCCATTGATCT
Found at i:25483 original size:3 final size:3
Alignment explanation
Indices: 25469--25507 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
25459 GGCTTCACGC
25469 AAG AATG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
25508 AACTCTGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:29421 original size:19 final size:20
Alignment explanation
Indices: 29373--29422 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
29363 TTTTAGATAA
29373 TTTAATTTAAT--TCAAACT
1 TTTAATTTAATCATCAAACT
*
29391 TTT-ATTTAAATCAT-AAATT
1 TTTAATTT-AATCATCAAACT
29410 TTTAATTTAATCA
1 TTTAATTTAATCA
29423 AAGTATATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 4 0.15
18 6 0.22
19 12 0.44
20 5 0.19
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTAATTTAATCATCAAACT
Found at i:34324 original size:17 final size:18
Alignment explanation
Indices: 34304--34345 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
34294 TTATAAATCT
34304 ATTTAAAGTAAT-ATTAA
1 ATTTAAAGTAATGATTAA
* *
34321 ATTTTAATTAATGATTAA
1 ATTTAAAGTAATGATTAA
*
34339 TTTTAAA
1 ATTTAAA
34346 CAAATCTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (18 bp):
ATTTAAAGTAATGATTAA
Found at i:36583 original size:17 final size:17
Alignment explanation
Indices: 36549--36600 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
36539 ACCGAATAAA
* *
36549 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
36566 TTTATTAATTTACCGAG
1 TTTATTAATTTACAGAG
*
36583 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
36598 TTT
1 TTT
36601 CTACTGCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:37470 original size:17 final size:17
Alignment explanation
Indices: 37450--37486 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
37440 CGTCGATCGT
*
37450 GAAGTTTTCTTATGTAA
1 GAAGTTTTCTCATGTAA
*
37467 GAAGTTTTCTCGTGTAA
1 GAAGTTTTCTCATGTAA
37484 GAA
1 GAA
37487 TAAATCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.41
Consensus pattern (17 bp):
GAAGTTTTCTCATGTAA
Found at i:38415 original size:18 final size:18
Alignment explanation
Indices: 38382--38417 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38372 ATATTTCAAG
**
38382 TTATTTGATTTTAATTTA
1 TTATTTGATTCAAATTTA
38400 TTATTTGATTCAAATTTA
1 TTATTTGATTCAAATTTA
38418 ATTTTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (18 bp):
TTATTTGATTCAAATTTA
Found at i:43344 original size:33 final size:32
Alignment explanation
Indices: 43268--43367 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 32
43258 AAACATGAAA
*
43268 AATAAGTTGGCCACCTA-CAA-A-AGATTTTTCC
1 AATAAGTTGGCCACCAACCAAGATA-ATTTTT-C
*
43299 AATGAGTTGGCCACCAACCAAGATTAATTTTTC
1 AATAAGTTGGCCACCAACCAAGA-TAATTTTTC
*
43332 AATAAGTTGGCCACCAACCAAGATGAAATTTTC
1 AATAAGTTGGCCACCAACCAAGAT-AATTTTTC
43365 AAT
1 AAT
43368 CTTGCCAAAC
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
31 15 0.25
32 4 0.07
33 34 0.57
34 6 0.10
35 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (32 bp):
AATAAGTTGGCCACCAACCAAGATAATTTTTC
Found at i:48082 original size:33 final size:33
Alignment explanation
Indices: 48006--48105 Score: 125
Period size: 33 Copynumber: 3.1 Consensus size: 33
47996 AAACATGAAA
* *
48006 AATAAGTTGGCCACCTACCAAAGA-T--TTTTCC
1 AATAAGTTGGCCACCAACC-AAGATTAATTTTTC
*
48037 AATGAGTTGGCCACCAACCAAGATTAATTTTTC
1 AATAAGTTGGCCACCAACCAAGATTAATTTTTC
* *
48070 AATAAGTTGGCCACCAACCAAGATGAAATTTTC
1 AATAAGTTGGCCACCAACCAAGATTAATTTTTC
48103 AAT
1 AAT
48106 CTTGCCAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
30 4 0.07
31 18 0.30
33 38 0.63
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (33 bp):
AATAAGTTGGCCACCAACCAAGATTAATTTTTC
Found at i:53961 original size:2 final size:2
Alignment explanation
Indices: 53954--53994 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
53944 AAGGGAACTT
53954 TA TA TA TA TA 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 TA TA TA TA TA T
53995 TAAACAACCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:54148 original size:16 final size:16
Alignment explanation
Indices: 54115--54148 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54105 AATATTTTAC
**
54115 TTTTATTTTTTTCTTA
1 TTTTATTTTTTTAGTA
54131 TTTTATTTTTTTAGTA
1 TTTTATTTTTTTAGTA
54147 TT
1 TT
54149 GTTAAATTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTTTAGTA
Found at i:54216 original size:15 final size:15
Alignment explanation
Indices: 54196--54225 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
54186 TTTAAAACAT
54196 AAAATATAAATTAAA
1 AAAATATAAATTAAA
*
54211 AAAATATAATTTAAA
1 AAAATATAAATTAAA
54226 TTTTTTTATC
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATATAAATTAAA
Found at i:54294 original size:22 final size:23
Alignment explanation
Indices: 54250--54310 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
54240 ATTATAACTT
* *
54250 AAAATTATAAAAAATTAATTATA
1 AAAATAATAAAAAATTAAATATA
*
54273 AAAATAATAAATAA-TAAATATA
1 AAAATAATAAAAAATTAAATATA
*
54295 AATATAATATAAAAAT
1 AAAATAATA-AAAAAT
54311 ATGAAATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATAAAAAATTAAATATA
Found at i:55167 original size:9 final size:9
Alignment explanation
Indices: 55155--55206 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
55145 TAATATTTTG
55155 TATTTAATT
1 TATTTAATT
*
55164 TATTTAA-A
1 TATTTAATT
55172 TATTTAATT
1 TATTTAATT
55181 TATTTAA--
1 TATTTAATT
* *
55188 TATTTTACT
1 TATTTAATT
55197 TATTTAATT
1 TATTTAATT
55206 T
1 T
55207 TTTTGCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:55177 original size:17 final size:17
Alignment explanation
Indices: 55155--55203 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
55145 TAATATTTTG
55155 TATTTAATTTATTTAAA
1 TATTTAATTTATTTAAA
55172 TATTTAATTTATTT-AA
1 TATTTAATTTATTTAAA
* *
55188 TATTTTACTTATTTAA
1 TATTTAATTTATTTAA
55204 TTTTTTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TATTTAATTTATTTAAA
Found at i:55191 original size:16 final size:16
Alignment explanation
Indices: 55155--55204 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
55145 TAATATTTTG
55155 TATTTAATTTATTTAAA
1 TATTTAATTTATTT-AA
55172 TATTTAATTTATTTAA
1 TATTTAATTTATTTAA
* *
55188 TATTTTACTTATTTAA
1 TATTTAATTTATTTAA
55204 T
1 T
55205 TTTTTTGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTAATTTATTTAA
Found at i:57265 original size:18 final size:18
Alignment explanation
Indices: 57238--57272 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57228 CTCAGGACGA
*
57238 CGACGCCGACGACGATGC
1 CGACGCCGACAACGATGC
*
57256 CGACGTCGACAACGATG
1 CGACGCCGACAACGATG
57273 ATGATGGTGA
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:0.26, C:0.34, G:0.31, T:0.09
Consensus pattern (18 bp):
CGACGCCGACAACGATGC
Found at i:57551 original size:35 final size:33
Alignment explanation
Indices: 57512--57596 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
57502 GTATTTCAGT
*
57512 TAATTTTGTT-TATTATCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
57547 TAATTTGGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
57582 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
57597 TAAAATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 2 0.05
38 12 0.29
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:67329 original size:13 final size:13
Alignment explanation
Indices: 67311--67351 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
67301 ATTTGAACCT
67311 AAAATAAGAA-AA
1 AAAATAAGAATAA
67323 GAAAATAAGAATAA
1 -AAAATAAGAATAA
*
67337 AAAATAAAAATAA
1 AAAATAAGAATAA
67350 AA
1 AA
67352 TAAATAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 24 0.92
14 2 0.08
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (13 bp):
AAAATAAGAATAA
Found at i:67346 original size:19 final size:19
Alignment explanation
Indices: 67324--67361 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
67314 ATAAGAAAAG
67324 AAAATAAGAATAAA-AAATA
1 AAAATAA-AATAAATAAATA
67343 AAAATAAAATAAATAAATA
1 AAAATAAAATAAATAAATA
67362 TGATGTAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAATAAAATAAATAAATA
Found at i:67431 original size:34 final size:33
Alignment explanation
Indices: 67381--67502 Score: 113
Period size: 37 Copynumber: 3.5 Consensus size: 33
67371 CATAATAATG
* * *
67381 AAAACTATATAATATATTTTCAAAACTATGTTTTC
1 AAAAATATATATTATATTTTCAAAA-TAT-TTTTA
67416 AAAAAT-TATATTATATGTTT-AAAATCATTTTTA
1 AAAAATATATATTATAT-TTTCAAAAT-ATTTTTA
*
67449 AAAAATATATATTATACGTTTTCTAAAGTATTTTTTA
1 AAAAATATATATTATA--TTTTC-AAAATA-TTTTTA
*
67486 AAAACTATATATTATAT
1 AAAAATATATATTATAT
67503 AAGTTTTCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
33 11 0.15
34 24 0.32
35 12 0.16
36 2 0.03
37 25 0.34
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (33 bp):
AAAAATATATATTATATTTTCAAAATATTTTTA
Found at i:67540 original size:41 final size:40
Alignment explanation
Indices: 67443--67596 Score: 199
Period size: 41 Copynumber: 3.9 Consensus size: 40
67433 TTTAAAATCA
* *
67443 TTTTTAAAAAATATATA-T-TATACGTTTTCTAAAGTA-T
1 TTTTTAAAAACTATATATTATATACGTTTTCAAAAGTATT
*
67480 TTTTTAAAAACTATATATTATATAAGTTTTCCAAAAGTATT
1 TTTTTAAAAACTATATATTATATACGTTTT-CAAAAGTATT
*
67521 TTTTTAAAAACTATGTATTATATACGTTTTCTAAAATGT-TT
1 TTTTTAAAAACTATATATTATATACGTTTTC-AAAA-GTATT
* *
67562 TTTTAAAAAACTATATATTAAATACGTTTTCAAAA
1 TTTTTAAAAACTATATATTATATACGTTTTCAAAA
67597 CTATATATTA
Statistics
Matches: 103, Mismatches: 8, Indels: 9
0.86 0.07 0.08
Matches are distributed among these distances:
37 16 0.16
38 1 0.01
39 9 0.09
40 12 0.12
41 63 0.61
42 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (40 bp):
TTTTTAAAAACTATATATTATATACGTTTTCAAAAGTATT
Found at i:67591 original size:27 final size:26
Alignment explanation
Indices: 67561--67616 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
67551 CTAAAATGTT
67561 TTTTTAAAAAACTATATATTAAATACG
1 TTTTT-AAAAACTATATATTAAATACG
* * *
67588 -TTTTCAAAACTATATATTATATATG
1 TTTTTAAAAACTATATATTAAATACG
67613 TTTT
1 TTTT
67617 CGAAAATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (26 bp):
TTTTTAAAAACTATATATTAAATACG
Found at i:67602 original size:25 final size:26
Alignment explanation
Indices: 67568--67622 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
67558 GTTTTTTTAA
67568 AAAACTATATATTAAATACGTTTTC-
1 AAAACTATATATTAAATACGTTTTCG
* *
67593 AAAACTATATATTATATATGTTTTCG
1 AAAACTATATATTAAATACGTTTTCG
67619 AAAA
1 AAAA
67623 TGTTTTCGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.40
Consensus pattern (26 bp):
AAAACTATATATTAAATACGTTTTCG
Found at i:67627 original size:12 final size:12
Alignment explanation
Indices: 67610--67635 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
67600 TATATTATAT
67610 ATGTTTTCGAAA
1 ATGTTTTCGAAA
67622 ATGTTTTCGAAA
1 ATGTTTTCGAAA
67634 AT
1 AT
67636 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGTTTTCGAAA
Found at i:67639 original size:37 final size:38
Alignment explanation
Indices: 67587--67684 Score: 148
Period size: 37 Copynumber: 2.6 Consensus size: 38
67577 TATTAAATAC
*
67587 GTTTTCAAAACTATATATTATATATGTTTTC-GAAAAT
1 GTTTTCAAAACTATATATTATATATGTTTTCAAAAAAT
67624 GTTTTCGAAAA-TATATATTATATATGTTTTCAAAAAAT
1 GTTTTC-AAAACTATATATTATATATGTTTTCAAAAAAT
*
67662 ATTTT-AAAACTATATATTATATA
1 GTTTTCAAAACTATATATTATATA
67685 CGTTATATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 4 0.07
37 39 0.70
38 13 0.23
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (38 bp):
GTTTTCAAAACTATATATTATATATGTTTTCAAAAAAT
Found at i:74738 original size:10 final size:10
Alignment explanation
Indices: 74723--74749 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
74713 GAGAGTGGAC
74723 GAATGATTCT
1 GAATGATTCT
74733 GAATGATTCT
1 GAATGATTCT
74743 GAATGAT
1 GAATGAT
74750 ACAAATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.37
Consensus pattern (10 bp):
GAATGATTCT
Found at i:76161 original size:21 final size:21
Alignment explanation
Indices: 76132--76184 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
76122 ATTCTGACTA
76132 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
76153 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
76174 TCGCAATGCGA
1 TCGCATTGCGA
76185 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:76204 original size:41 final size:42
Alignment explanation
Indices: 76159--76260 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 42
76149 AAATTCGCGT
* * *
76159 TGCGATTTTCCTAATTCGCAATGCGAA-TACGTAAATCGCAA
1 TGCGATTTACCTAAATCGCAATGCGAATTACGAAAATCGCAA
* * *
76200 TGCGA-TTACGTAAATCGCAATGCGAATTAGGAAAATCGCAT
1 TGCGATTTACCTAAATCGCAATGCGAATTACGAAAATCGCAA
*
76241 TGCGATTTACGT-AATCGCAA
1 TGCGATTTACCTAAATCGCAA
76261 CAAGATTCTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 18 0.34
41 29 0.55
42 6 0.11
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
TGCGATTTACCTAAATCGCAATGCGAATTACGAAAATCGCAA
Found at i:76235 original size:21 final size:21
Alignment explanation
Indices: 76174--76260 Score: 117
Period size: 20 Copynumber: 4.3 Consensus size: 21
76164 TTTTCCTAAT
76174 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGTAAA
76194 TCGCAATGCG-ATTACGTAAA
1 TCGCAATGCGAATTACGTAAA
* *
76214 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGTAAA
* *
76235 TCGCATTGCGATTTACGT-AA
1 TCGCAATGCGAATTACGTAAA
76255 TCGCAA
1 TCGCAA
76261 CAAGATTCTG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.02
20 35 0.60
21 22 0.38
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAATTACGTAAA
Found at i:77148 original size:24 final size:24
Alignment explanation
Indices: 77121--77174 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
77111 GTATTCGAAA
77121 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
77145 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
77169 TTTGAT
1 TTTGAT
77175 GATTTTCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:79695 original size:20 final size:19
Alignment explanation
Indices: 79667--79721 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
79657 CAATCATCTT
*
79667 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
79687 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
79706 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
79722 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:79736 original size:33 final size:33
Alignment explanation
Indices: 79694--79819 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
79684 GGAAATGACT
79694 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
79727 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
79760 ATCACAATGCGAAATGAAAATCGCAACG-GGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
79792 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
79820 CGAATTTAGT
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 29 0.33
33 60 0.67
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:79750 original size:19 final size:19
Alignment explanation
Indices: 79674--79785 Score: 91
Period size: 19 Copynumber: 6.4 Consensus size: 19
79664 CTTAATGTCT
* **
79674 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
79694 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
79713 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
79727 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
79746 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
79760 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
79779 ATCGCAA
1 ATCGCAA
79786 CGGGGAATCG
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
14 19 0.26
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 33 0.45
20 9 0.12
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:79815 original size:19 final size:19
Alignment explanation
Indices: 79674--79823 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
79664 CTTAATGTCT
* **
79674 ATCGCAACGCGGAAATGACT
1 ATCGCAAAGC-GAAATGAAA
*
79694 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
79713 ATCGC-AA-CG--A-GAGA
1 ATCGCAAAGCGAAATGAAA
*
79727 ATCGCAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
79746 ATCGC-AA-CG--A-GAGA
1 ATCGCAAAGCGAAATGAAA
* *
79760 ATCACAATGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
**
79779 ATCGC-AA-CG----GGGA
1 ATCGCAAAGCGAAATGAAA
79792 ATCGCAAAGCGAAATGAAA
1 ATCGCAAAGCGAAATGAAA
*
79811 ATCGCAACGCGAA
1 ATCGCAAAGCGAA
79824 TTTAGTTTCG
Statistics
Matches: 95, Mismatches: 19, Indels: 33
0.65 0.13 0.22
Matches are distributed among these distances:
13 7 0.07
14 17 0.18
15 6 0.06
16 4 0.04
17 6 0.06
18 5 0.05
19 41 0.43
20 9 0.09
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
ATCGCAAAGCGAAATGAAA
Found at i:79875 original size:33 final size:33
Alignment explanation
Indices: 79829--79908 Score: 115
Period size: 33 Copynumber: 2.4 Consensus size: 33
79819 GCGAATTTAG
* *
79829 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
* *
79862 TTTTGCGTTGCGATTCTCTCGTTGTGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
79895 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
79909 AGTCATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.49
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:80036 original size:14 final size:14
Alignment explanation
Indices: 80015--80051 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
80005 CATCAATTAA
80015 ACAAATCAACTTTT
1 ACAAATCAACTTTT
* *
80029 ATAAATCATCTTTT
1 ACAAATCAACTTTT
80043 ACAAATCAA
1 ACAAATCAA
80052 TTAAACAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:81485 original size:42 final size:42
Alignment explanation
Indices: 81439--81518 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
81429 CGATGACAGT
* * *
81439 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
81481 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
81519 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:81959 original size:19 final size:19
Alignment explanation
Indices: 81919--82009 Score: 110
Period size: 19 Copynumber: 4.6 Consensus size: 19
81909 TCTGGAACTT
*
81919 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
81940 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
81959 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGCGA-AATG
*
81979 AAAATCGCAACGCGAAACG
1 AAAATCGCAACGCGAAATG
81998 AAAATCGCAACG
1 AAAATCGCAACG
82010 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 32 0.52
20 18 0.30
21 11 0.18
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:81988 original size:39 final size:39
Alignment explanation
Indices: 81919--82016 Score: 142
Period size: 39 Copynumber: 2.5 Consensus size: 39
81909 TCTGGAACTT
* * ** *
81919 AAAATCGCAACGTGAAAAATGACTATCGCAACGCGAAATG
1 AAAATCGCAACGAG-AGAATGAAAATCGCAACGCGAAACG
81959 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACG
1 AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACG
81998 AAAATCGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
82017 CGCAACGCGA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 40 0.75
40 13 0.25
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.11
Consensus pattern (39 bp):
AAAATCGCAACGAGAGAATGAAAATCGCAACGCGAAACG
Found at i:82154 original size:20 final size:19
Alignment explanation
Indices: 82033--82166 Score: 170
Period size: 19 Copynumber: 7.2 Consensus size: 19
82023 GCGATTATAG
**
82033 TTTCGCGTTGCGATTTTTGG
1 TTTCGCGTTGCGA-TTTTCA
82053 TTTCGCGTTGCGA-TTT--
1 TTTCGCGTTGCGATTTTCA
*
82069 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
82086 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
82105 TTTCGCGTTGCGATTTTCG
1 TTTCGCGTTGCGATTTTCA
82124 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
82143 TTCTCTCGTTGCGATTTTCA
1 TT-TCGCGTTGCGATTTTCA
82163 TTTC
1 TTTC
82167 AACCAAAAGA
Statistics
Matches: 103, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
14 8 0.08
15 3 0.03
16 2 0.02
17 2 0.02
18 3 0.03
19 54 0.52
20 31 0.30
ACGTcount: A:0.08, C:0.20, G:0.22, T:0.49
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:82608 original size:93 final size:93
Alignment explanation
Indices: 82257--82725 Score: 795
Period size: 94 Copynumber: 5.1 Consensus size: 93
82247 ATGTATTGCA
* * *
82257 TTACTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
* *
82322 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAATAAAT
*
82350 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
82415 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
82444 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
82509 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
82538 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
82603 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAATAAAT
82631 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATA-AAT----AG
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAA-AGAATACACAG
*
82691 TTTAGCAGTATTGGCAGCAACCGAATAAAT
64 TTTAGCAGAATTGGCAGCAACCGAATAAAT
82721 TTACT
1 TTACT
82726 AAGCAATCTA
Statistics
Matches: 367, Mismatches: 6, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
90 36 0.10
93 116 0.32
94 214 0.58
95 1 0.00
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAATAAAT
Found at i:82625 original size:187 final size:186
Alignment explanation
Indices: 82257--82725 Score: 795
Period size: 187 Copynumber: 2.5 Consensus size: 186
82247 ATGTATTGCA
* * *
82257 TTACTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
* * *
82322 TAGCAGAATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGATAAAACAAAGACAAATACT
66 TAGCAGAATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAGACAAATACT
82387 AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
130 AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
82444 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
82509 TTAGCAGAATTGGCAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAACAAAGACAAATACT
65 TTAGCAGAATTGGCAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAACAAAGACAAATACT
*
82574 AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAATAAAT
130 AACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
82631 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAATA-AAT----AG
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAA-AGAATACACAG
*
82691 TTTAGCAGTATTGGCAGCAACCGAATAAATTTACT
64 TTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
82726 AAGCAATCTA
Statistics
Matches: 271, Mismatches: 8, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
183 36 0.13
186 19 0.07
187 127 0.47
188 89 0.33
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAATAAATTTACTTCAACCAAAAGACAAAACAAAGACAAATACTA
ACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:84445 original size:20 final size:20
Alignment explanation
Indices: 84420--84515 Score: 84
Period size: 20 Copynumber: 5.2 Consensus size: 20
84410 TTTTGGTTGA
84420 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
84440 AATGAAAATCGCAACGCG-G
1 AATGAAAATCGCAACGAGAG
*
84459 AAAT-AACTATCGCAAC--GAG
1 -AATGAA-AATCGCAACGAGAG
*
84478 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
84493 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
84513 AAT
1 AAT
84516 CACAACGCGA
Statistics
Matches: 61, Mismatches: 4, Indels: 22
0.70 0.05 0.25
Matches are distributed among these distances:
14 8 0.13
16 3 0.05
17 2 0.03
18 1 0.02
19 16 0.26
20 31 0.51
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:84504 original size:33 final size:33
Alignment explanation
Indices: 84418--84539 Score: 147
Period size: 33 Copynumber: 3.5 Consensus size: 33
84408 TCTTTTGGTT
84418 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
*
84457 GGAAAT-AACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAA-AATCGCAACGAGAGAATCGCAACGC
*
84491 GAAATGAAAATCGCAACGAGAGAATCACAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
84524 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
84540 TGCGATTTTG
Statistics
Matches: 77, Mismatches: 3, Indels: 11
0.85 0.03 0.12
Matches are distributed among these distances:
33 44 0.57
34 13 0.17
36 1 0.01
37 1 0.01
38 3 0.04
39 2 0.03
40 13 0.17
ACGTcount: A:0.48, C:0.20, G:0.22, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:84588 original size:33 final size:33
Alignment explanation
Indices: 84540--84631 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
84530 AAAATCGCAA
**
84540 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
84573 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
84606 TGCGACTTTCATTTCGCGTTGCGATT
1 TGCGATTTTCATTTCGCGTTGCGATT
84632 TTCATTCTCG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.10, C:0.22, G:0.24, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:84594 original size:19 final size:19
Alignment explanation
Indices: 84570--84637 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
84560 GCGATTATCT
84570 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
84589 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
84603 CGTTGCGACTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
84622 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
84638 CTCGAAACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
14 10 0.24
16 3 0.07
17 3 0.07
19 25 0.61
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:85226 original size:20 final size:20
Alignment explanation
Indices: 85203--85255 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
85193 CGATAGTCAG
85203 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
85223 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
85243 ATTCGCATTGCGA
1 ATTCGCATTGCGA
85256 ATTATGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:85288 original size:20 final size:21
Alignment explanation
Indices: 85245--85338 Score: 118
Period size: 21 Copynumber: 4.5 Consensus size: 21
85235 ATTTACGTAT
* *
85245 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
85266 TCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTAGGAAAA
85286 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
85307 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
85328 TCGCAATGCGA
1 TCGCAATGCGA
85339 TAGTCAGAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.29
21 45 0.71
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:94355 original size:20 final size:19
Alignment explanation
Indices: 94313--94359 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
94303 TTTAACTTGT
*
94313 TAATATTTTAAATTAAATT
1 TAATATTTTAAATTAAATA
* *
94332 TAATATTTTTAATTAGATAA
1 TAATATTTTAAATTAAAT-A
94352 TAATATTT
1 TAATATTT
94360 ATATTGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TAATATTTTAAATTAAATA
Found at i:95302 original size:37 final size:36
Alignment explanation
Indices: 95174--95504 Score: 239
Period size: 38 Copynumber: 9.3 Consensus size: 36
95164 TGATTTTAAA
*
95174 AAAAACATTTTGAAAA-TGTATATAATATATAGTTTTT
1 AAAACCATTTTGAAAACT-TATATAATATATAG-TTTT
*
95211 AAAA-AATGCCTTTGAAAAC-TATATAATATATAGTTTTT
1 AAAACCAT---TTTGAAAACTTATATAATATATAG-TTTT
** *
95249 AAAACGTTTTTAGAAAACATATATAATATATAGATTTT
1 AAAACCATTTT-GAAAACTTATATAATATATAG-TTTT
95287 AAAACCATTTTGAAAACTTATATAATATATAGTTTT
1 AAAACCATTTTGAAAACTTATATAATATATAGTTTT
* *
95323 AAAATCATTTTG-AAATTTATATAATATATAGTTTT
1 AAAACCATTTTGAAAACTTATATAATATATAGTTTT
**
95358 AAAAAAATATTTTTGAAAAC--ATATAATATA-A-TTTT
1 --AAAACCA-TTTTGAAAACTTATATAATATATAGTTTT
*** * *
95393 AAAATGTTTTTGAAAAC---TATAACATATAGTTTG
1 AAAACCATTTTGAAAACTTATATAATATATAGTTTT
* *
95426 AAAA-CATTTTTAAAA-TTATATAATA-ATGGTTTT
1 AAAACCATTTTGAAAACTTATATAATATATAGTTTT
* * *
95459 GAAAA-TATCTTTG-AAA-TATATATTATATAAAGTTTT
1 -AAAACCAT-TTTGAAAACT-TATATAATATATAGTTTT
95495 AAAA-CATTTT
1 AAAACCATTTT
95505 TTCTCTATAT
Statistics
Matches: 245, Mismatches: 29, Indels: 43
0.77 0.09 0.14
Matches are distributed among these distances:
31 8 0.03
32 19 0.08
33 17 0.07
34 19 0.08
35 43 0.18
36 27 0.11
37 45 0.18
38 55 0.22
39 12 0.05
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (36 bp):
AAAACCATTTTGAAAACTTATATAATATATAGTTTT
Found at i:95550 original size:7 final size:7
Alignment explanation
Indices: 95527--95572 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
95517 CATATAGTAT
*
95527 TTTATTC
1 TTTATTA
*
95534 TTTTTTA
1 TTTATTA
95541 TTTATTA
1 TTTATTA
95548 TTTATT-
1 TTTATTA
*
95554 TTTGTT-
1 TTTATTA
95560 TTTATTA
1 TTTATTA
95567 TTTATT
1 TTTATT
95573 TAATCTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
6 10 0.30
7 23 0.70
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (7 bp):
TTTATTA
Found at i:95556 original size:19 final size:19
Alignment explanation
Indices: 95527--95573 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
95517 CATATAGTAT
*
95527 TTTATTCTTTTTTATTTATTA
1 TTTATT-TTTGTT-TTTATTA
95548 TTTATTTTTGTTTTTATTA
1 TTTATTTTTGTTTTTATTA
95567 TTTATTT
1 TTTATTT
95574 AATCTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 14 0.56
20 5 0.20
21 6 0.24
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTATTTTTGTTTTTATTA
Found at i:95584 original size:23 final size:22
Alignment explanation
Indices: 95534--95585 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
95524 TATTTTATTC
*
95534 TTTTTTATTTATTATTTATTTT
1 TTTTTTATTTATTATTTATCTT
95556 TGTTTTTA-TTATTTATTTAATCTT
1 T-TTTTTATTTA-TTATTT-ATCTT
95580 TTTTTT
1 TTTTTT
95586 TCAGTGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 4 0.15
23 17 0.65
24 5 0.19
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTTATTTATTATTTATCTT
Found at i:100464 original size:92 final size:95
Alignment explanation
Indices: 100301--100481 Score: 244
Period size: 92 Copynumber: 1.9 Consensus size: 95
100291 AGATTATAAT
* * * *
100301 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCATGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGCTAT-CCTCTAAAGCAATTGGTTAAACGCCACGGCTTTA
* * *
100366 TGGATAATATTCAGCTAGCCTGATAAAGGTA
65 TGGATAAGATTCAACTAACCTGATAAAGGTA
*
100397 ATTATAT-TATACAATAAAGCTTGAGCTAT-C-CTAAAGCAATTGGTTAAATGCTC-CGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGCTATCCTCTAAAGCAATTGGTTAAACGC-CACGGCTTTA
100458 TGGATAAGATTCAACTAACCTGAT
65 TGGATAAGATTCAACTAACCTGAT
100482 GAATTTTATA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 47 0.62
93 2 0.03
95 20 0.26
96 7 0.09
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (95 bp):
ATTATATATATACAATAAAGCTTGAGCTATCCTCTAAAGCAATTGGTTAAACGCCACGGCTTTAT
GGATAAGATTCAACTAACCTGATAAAGGTA
Found at i:101895 original size:165 final size:165
Alignment explanation
Indices: 101623--102542 Score: 947
Period size: 165 Copynumber: 5.6 Consensus size: 165
101613 TAAAGAAACT
* * * *
101623 ATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCTGCCAAAGACGCTCGAGTTTGACTACGCTCA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCA
* **
101688 GCTTCGAGGGCACATCATTTACAGTATAACTCAATACTAGAAGGGTTATCTGTCACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
* *
101753 TTTGAGTTTGACTACGCTCAGCTCCAAGGCACATC
131 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
* * * * * *
101788 ATTTGCAGCATAGCTTAAGTCGTGAAGGGCCATCTGCCGAAGACCCTCGAGTTTGATTACACTCA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCA
* * * * *
101853 GCTTTGAGGGTACATCTTTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
101918 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
131 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
* * * * *
101953 ATTTGCAACATATCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCA
* * * * * * * ** *
102018 GC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCTACC-ACAGAC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAAGAC
*
102081 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
130 CTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
* * * ** * *
102117 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTACCAAAGACCCTTAAGTTCGATTACACTTA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCA
* * * * *
102182 GCTTTGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGAGTTATCTGTAACCAAAATACC
66 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
102247 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
131 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
** * * **
102282 ATTTGCAGCATAACTTAAGTTAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCTCGAGTTCGACTACA
* * * * * * * *
102347 CTCAGC-TCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CC-AAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAA
* * * ** * * * *
102407 GACCCTCGAGTTCGATTATACTCAGCTTCGAGGGCACAAC
127 GACCTTCGAGTTTGACTACGCTCAGC-TCCAAGGCATATC
* * * * * * * * *
102447 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---CC-AAAGACCCTCGAGTTCGACTACA
* * *
102512 CTCAGC-TCCAAGGCACATCATTTGCAGCATA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATA
102543 GCTTAAGTCG
Statistics
Matches: 636, Mismatches: 110, Indels: 18
0.83 0.14 0.02
Matches are distributed among these distances:
164 164 0.26
165 410 0.64
168 38 0.06
169 24 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (165 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGACTACACTCA
GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
Found at i:102222 original size:329 final size:328
Alignment explanation
Indices: 101623--102752 Score: 1176
Period size: 329 Copynumber: 3.4 Consensus size: 328
101613 TAAAGAAACT
* * *
101623 ATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCTG-CCAAAGACGC-TCGAGTTTGACTACGCT
1 ATTTGCAACATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGAC-CTTCGAGTTCGACTACGCT
* * * * * **
101686 CAGCTTCGAGGGCACATCATTTACAGTATAACTCAA-TACTAGAAGGGTTATCTGTCACCAAAAG
65 CAGC-TCCAAGGCACATCATTTACAGCATAACTTAAGT-CGAGAAGGGTTATCTACCACC--AAG
* * *
101750 ACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGTGAAG
126 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
** * * * * * * *
101815 GGCCATCTGCCGAAGACCCTCGAGTTTGATTACACTCAGCTTTGAGGGTACATCTTTTACAGTAT
191 GGTTATCTACCAAAGACCCTTGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCAT
101880 AACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAA
256 AACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAA
101945 GGCATATC
321 GGCATATC
* *
101953 ATTTGCAACATATCTTAAGTCGAGAAGGGTTATCTG-CCAAAGACCTTCGAGTTCGACTACGCTC
1 ATTTGCAACATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTC
* *
102017 AGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCTACCACAGACC
66 AGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTACC-ACCA-AGACC
*
102082 TTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGT
129 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGT
* * *
102147 TATCTACCAAAGACCCTTAAGTTCGATTACACTTAGCTTTGAGGGCACATCATTTACAACATAAC
194 TATCTACCAAAGACCCTTGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAAC
* * *
102212 TCAAGGCTAGAAGAGTTATCTGTAACCAAAATACCTTCGAGTTTGACTACGCTCAGCTCCAAGGC
259 TCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGC
102277 ATATC
324 ATATC
* *
102282 ATTTGCAGCATAACTTAAGT-TAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAT
1 ATTTGCAACATAACTTAAGTCT-AGAAGGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTAC
* * * * *
102346 GCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCA--AAGA
62 GCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTACCACCAAGA
* * ** * * * * * * * * *
102409 CCCTCGAGTTCGATTATACTCAGCTTCGAGGGCACAACATTTACAACATAACTCAAGGCTAGAAG
127 CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
* * * ** * *
102474 GGTTATCTGTCACCAAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCA
191 GGTTATC--T-ACC-AAAGACCCTTGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACA
* * * ** * * * *
102538 GCATAGCTTAAGTCGT-GAAGGGCCATC--TG-CC-GAAGACCCTCGA-TTTCGATTACACTCAG
252 GCATAACTCAAGGC-TAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTT-GACTACGCTCAG
** * *
102597 CTTTGAGGGCACATC
315 C-TCCAAGGCATATC
* * * *
102612 ATTTACAACATAACTCAA-TGCTAGAAGGGTTATATGTCACCAAAGACCTTCGATTTCGACTACG
1 ATTTGCAACATAACTTAAGT-CTAGAAGGGTTATCTG--ACCAAAGACCTTCGAGTTCGACTACG
* * * * * *
102676 CTCAGCTCCAAAGCACATCATTTAAAGTATAGCTTAAATCGAGAAGAGTTATCTACCAACCGAAG
63 CTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTACC-ACC-AAG
102741 ACC-TCAGAGTTC
126 ACCTTC-GAGTTC
102753 AATTCCATTC
Statistics
Matches: 677, Mismatches: 99, Indels: 45
0.82 0.12 0.05
Matches are distributed among these distances:
328 4 0.01
329 375 0.55
330 142 0.21
331 2 0.00
332 4 0.01
333 125 0.18
334 25 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (328 bp):
ATTTGCAACATAACTTAAGTCTAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTC
AGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTACCACCAAGACCTT
CGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTA
TCTACCAAAGACCCTTGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTACAGCATAACTC
AAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCAT
ATC
Found at i:102276 original size:249 final size:246
Alignment explanation
Indices: 101623--102699 Score: 1119
Period size: 249 Copynumber: 4.3 Consensus size: 246
101613 TAAAGAAACT
* * * * *
101623 ATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCTGCCAAAGACGCTCGAGTTTGACTACGCTCA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGACTACACTCA
** **
101688 GCTTCGAGGGCACATCATTTACAGTATAACTCAATACTAGAAGGGTTATCTGTCACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
* * * * *
101753 TTTGAGTTTGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGTGAAGGGC
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
* * * * * * * ** * *
101818 CATCTGC-CGAAGACCCTCGAGTTTGATTACACTCAGCTTTGAGGGTACATC
196 TATCTCCACCAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * * * * *
101869 TTTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC--T-ACC-AAAGACCCTCGAGTTCGACTACA
* * * * * * * *
101934 CTCAGC-TCCAAGGCATATCATTTGCAACATATCTTAAGTCGAGAAGGGTTATCTG---CC-AAA
62 CTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAA
*
101994 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAA
127 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
*
102059 GGGTTATCTACCTACCACAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
192 GGGTTATCT-CC-ACCA-AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * ** * *
102117 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTACCAAAGACCCTTAAGTTCGATTACACTTA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGACTACACTCA
* * * *
102182 GCTTTGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGAGTTATCTGTAACCAAAATACC
66 GCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
* * **
102247 TTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTTAAGAAGGGT
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
* *
102312 TATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGCTCTAAGGCACATC
196 TATCT-CC-ACC-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
102366 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTATACTCA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGACTACACTCA
*
102431 GCTTCGAGGGCACAACATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
66 GCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
* * * *
102496 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGTGAAGGGC
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
* * * * * * * ** *
102561 CATCTGC-CGAAGACCCTCGATTTCGATTACACTCAGCTTTGAGGGCACATC
196 TATCTCCACCAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * * * *
102612 ATTTACAACATAACTCAA-TGCTAGAAGGGTTATATGTCACCAAAGACCTTCGATTTCGACTACG
1 ATTTGCAGCATAACTTAAGT-CGAGAAGGG--CTATCT-ACCAAAGACCCTCGAGTTCGACTACA
* **
102676 CTCAGC-TCCAAAGCACATCATTTA
62 CTCAGCTTCGAGGGCACATCATTTA
102700 AAGTATAGCT
Statistics
Matches: 694, Mismatches: 118, Indels: 36
0.82 0.14 0.04
Matches are distributed among these distances:
244 22 0.03
245 136 0.20
246 65 0.09
248 59 0.09
249 384 0.55
250 28 0.04
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (246 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTACCAAAGACCCTCGAGTTCGACTACACTCA
GCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACC
TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
TATCTCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:102568 original size:165 final size:164
Alignment explanation
Indices: 101623--102721 Score: 877
Period size: 165 Copynumber: 6.7 Consensus size: 164
101613 TAAAGAAACT
* * * *
101623 ATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCTG---CCAAAGACGC-TCGAGTTTGACTACG
1 ATTTGCAACATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGAC-CTTCGAGTTCGACTACG
* * * * * * * *
101684 CTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAA-TACTAGAAGGGTTATCTGTCACCAAA
65 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGT-CGAGAAGGGCTATCTG---CCAAA
* * * *
101748 AGACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCACATC
125 AGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* * * ** * * * * *
101788 ATTTGCAGCATAGCTTAAGTCGT-GAAGGGCCATCTG---CCGAAGACCCTCGAGTTTGATTACA
1 ATTTGCAACATAACTTAAGGC-TAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
** * * * * * * * * * *
101849 CTCAGCTTTGAGGGTACATCTTTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAA
65 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAA
* * * *
101914 GACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
126 GACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* * *
101953 ATTTGCAACATATCTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCTTCGAGTTCGACTACGC
1 ATTTGCAACATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* * * * *
102015 TCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCTACCACAGA
66 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A--AAAGA
* * *
102080 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
128 CCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* * * * * * *
102117 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC--T-ACCAAAGACCCTT-AAGTTCGATTACA
1 ATTTGCAACATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGA-CCTTCGAGTTCGACTACG
* ** * * * * * * * * *
102178 CTTAGCTTTGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGAGTTATCTGTAACCAAAA
65 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAA
* * * * *
102243 TACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATC
126 GACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATC
* * * *
102282 ATTTGCAGCATAACTTAA-GTTAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAT
1 ATTTGCAACATAACTTAAGGCT-AGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
*
102346 GCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-AAAGAC
64 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGAC
* * * * *
102410 CCTCGAGTTCGATTATACTCAGCTTCGAGGGCACAAC
129 CCTCGAGTTCGACTACACTCAGC-TCCAAGGCACATC
* * *
102447 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAACATAACTTAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACG
* * *
102512 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGTGAAGGGCCATCTGCC-GAAGACC
65 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGACC
* * ** *
102576 CTCGATTTCGATTACACTCAGCTTTGAGGGCACATC
130 CTCGAGTTCGACTACACTCAGC-TCCAAGGCACATC
* * * * *
102612 ATTTACAACATAACTCAATGCTAGAAGGGTTATATGTCACCAAAGACCTTCGATTTCGACTACGC
1 ATTTGCAACATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
* ** * *
102677 TCAGCTCCAAAGCACATCATTTAAAGTATAGCTTAAATCGAGAAG
66 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
102722 AGTTATCTAC
Statistics
Matches: 798, Mismatches: 111, Indels: 51
0.83 0.12 0.05
Matches are distributed among these distances:
161 2 0.00
162 2 0.00
164 218 0.27
165 504 0.63
166 3 0.00
167 3 0.00
168 44 0.06
169 22 0.03
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (164 bp):
ATTTGCAACATAACTTAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAGACCC
TCGAGTTCGACTACACTCAGCTCCAAGGCACATC
Found at i:102742 original size:84 final size:82
Alignment explanation
Indices: 101623--102752 Score: 857
Period size: 84 Copynumber: 13.7 Consensus size: 82
101613 TAAAGAAACT
* * * *
101623 ATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCTGCCA--AAGACGC-TCGAGTTTGACTACGC
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAGAC-CTTCGAGTTCGACTACGC
* *
101685 TCAGCTTCGAGGGCACATC
65 TCAGC-TCCAAGGCACATC
* * * * * *
101704 ATTT-ACAGTATAACTCAA-TACTAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTTGACTA
1 ATTTGA-AGCATAACTTAAGT-CGAGAAGGGTTATCTGCCACC--AAGACCTTCGAGTTCGACTA
101767 CGCTCAGCTCCAAGGCACATC
62 CGCTCAGCTCCAAGGCACATC
* * * ** * * * * *
101788 ATTTGCAGCATAGCTTAAGTCGTGAAGGGCCATCTG-C-CGAAGACCCTCGAGTTTGATTACACT
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAGACCTTCGAGTTCGACTACGCT
** * *
101851 CAGCTTTGAGGGTACATC
66 CAGC-TCCAAGGCACATC
* * * * * ** *
101869 -TTTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTTGACTAC
1 ATTTGA-AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACC--AAGACCTTCGAGTTCGACTAC
*
101933 GCTCAGCTCCAAGGCATATC
63 GCTCAGCTCCAAGGCACATC
*
101953 ATTTGCAA-CATATCTTAAGTCGAGAAGGGTTATCTGCCA--AAGACCTTCGAGTTCGACTACGC
1 ATTTG-AAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAGACCTTCGAGTTCGACTACGC
*
102015 TCAGCTCCAAGGCATATC
65 TCAGCTCCAAGGCACATC
* *
102033 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCTACCACAGACCTTCGAGTTCGACTACG
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCA-AGACCTTCGAGTTCGACTACG
*
102098 CTCAGCTCCAAGGCATATC
64 CTCAGCTCCAAGGCACATC
* * * * * *
102117 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTACCA--AAGACCCTT-AAGTTCGATTACAC
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAGA-CCTTCGAGTTCGACTACGC
* ** *
102179 TTAGCTTTGAGGGCACATC
65 TCAGC-TCCAAGGCACATC
* * * * * ** * *
102198 ATTT-ACAACATAACTCAAGGCTAGAAGAGTTATCTGTAACCAAAATACCTTCGAGTTTGACTAC
1 ATTTGA-AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACC--AAGACCTTCGAGTTCGACTAC
*
102262 GCTCAGCTCCAAGGCATATC
63 GCTCAGCTCCAAGGCACATC
* ** *
102282 ATTTGCAGCATAACTTAAGTTAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATG
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACC-AAGACCTTCGAGTTCGACTACG
*
102347 CTCAGCTCTAAGGCACATC
64 CTCAGCTCCAAGGCACATC
* * * * * **
102366 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCA--AAGACCCTCGAGTTCGATTATACT
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAGACCTTCGAGTTCGACTACGCT
* * *
102429 CAGCTTCGAGGGCACAAC
66 CAGC-TCCAAGGCACATC
* * * * * *
102447 ATTT-ACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTTGAGTTCGACTAC
1 ATTTGA-AGCATAACTTAAGTCGAGAAGGGTTATCTGCCACC--AAGACCTTCGAGTTCGACTAC
102511 GCTCAGCTCCAAGGCACATC
63 GCTCAGCTCCAAGGCACATC
* * * ** * * * * *
102531 ATTTGCAGCATAGCTTAAGTCGTGAAGGGCCATCTG-C-CGAAGACCCTCGATTTCGATTACACT
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAGACCTTCGAGTTCGACTACGCT
** *
102594 CAGCTTTGAGGGCACATC
66 CAGC-TCCAAGGCACATC
* * * * * *
102612 ATTT-ACAACATAACTCAA-TGCTAGAAGGGTTATATGTCACCAAAGACCTTCGATTTCGACTAC
1 ATTTGA-AGCATAACTTAAGT-CGAGAAGGGTTATCTGCCACC-AAGACCTTCGAGTTCGACTAC
*
102675 GCTCAGCTCCAAAGCACATC
63 GCTCAGCTCCAAGGCACATC
* * * * * *
102695 ATTTAAAGTATAGCTTAAATCGAGAAGAGTTATCTACCAACCGAAGACC-TCAGAGTTC
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACC-AAGACCTTC-GAGTTC
102753 AATTCCATTC
Statistics
Matches: 828, Mismatches: 172, Indels: 95
0.76 0.16 0.09
Matches are distributed among these distances:
79 1 0.00
80 168 0.20
81 179 0.22
82 3 0.00
83 43 0.05
84 335 0.40
85 98 0.12
86 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (82 bp):
ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACATC
Found at i:102943 original size:21 final size:21
Alignment explanation
Indices: 102927--102973 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
102917 GATTGTTTCC
102927 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAAATTTTGTCTCT
*
102948 CTTTAAACAAATTTTGTCTCT
1 CTTGAAACAAATTTTGTCTCT
102969 CTTGA
1 CTTGA
102974 GACAGTTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (21 bp):
CTTGAAACAAATTTTGTCTCT
Found at i:102996 original size:36 final size:36
Alignment explanation
Indices: 102952--103389 Score: 624
Period size: 36 Copynumber: 12.1 Consensus size: 36
102942 GTCTCTCTTT
*
102952 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * * *
102988 AAACAAATTTCGTCTCCCTTGAGAAAGTTTCCATTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
** *
103024 AAACAAATTTTGTCAATCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
103060 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
** * * *
103096 AAACAAATTTCATCTCCCTTGAGAAAGTTTCCATTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
103132 AAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
103168 AAACATATTTTGTCTCTCTTGAGATAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* * *
103204 AAACAAATTTCGTCTCCCTTGAGACGGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
103240 AAACAAATTTCGTCTCTCTTGAGACGGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
*
103276 AAACACATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
103312 AAACAAATTTTGTCTCTCTTGAGGCAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
103348 AAACAAATTTTTGTCTCTCTTCAGACAGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTG
103385 AAACA
1 AAACA
103390 CCAATCTTTG
Statistics
Matches: 359, Mismatches: 42, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
36 327 0.91
37 32 0.09
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.38
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
Found at i:103494 original size:33 final size:34
Alignment explanation
Indices: 103451--103521 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
103441 AGTTTCTCTT
* * *
103451 AAAAAGCCTTT-GAAATTGTTTCTCTTGAAATAA
1 AAAAAACCTTTGGAAAATGTTTCTCTTGAAACAA
103484 AAAAAACCTTTGGAAAATGTTTCTCTTGAAACAA
1 AAAAAACCTTTGGAAAATGTTTCTCTTGAAACAA
103518 AAAA
1 AAAA
103522 CCTTCGAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 10 0.29
34 24 0.71
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (34 bp):
AAAAAACCTTTGGAAAATGTTTCTCTTGAAACAA
Found at i:103915 original size:2 final size:2
Alignment explanation
Indices: 103903--103945 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
103893 CTTTTCTTTT
* * *
103903 TA TA CA TA TA TA TA TA TA TA TA TC TA TA CA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
103944 TA
1 TA
103946 GTTCACAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:104070 original size:37 final size:35
Alignment explanation
Indices: 103994--104319 Score: 249
Period size: 37 Copynumber: 9.1 Consensus size: 35
103984 TTATTTAAAA
* *
103994 AAAAACATTTTGAAAATGTATATAATATATAGTTTTTTT
1 AAAAATATTTTGAAAA-CTATATAATATATAG---TTTT
*
104033 AAAAATACCTTTGAAAACTATATAATATATAGTTTTT
1 AAAAATA-TTTTGAAAACTATATAATATATAG-TTTT
*
104070 AAAACGT-TTTTAGAAAACATATATAATATATAGATTTT
1 AAAA-ATATTTT-GAAAAC-TATATAATATATAG-TTTT
**
104108 AAAACCATTTTGAAAACTTATATAATATATAGTTTT
1 AAAAATATTTTGAAAAC-TATATAATATATAGTTTT
* **
104144 AAAATTATTTTGAAATTTATATAATATATAGTTTT
1 AAAAATATTTTGAAAACTATATAATATATAGTTTT
* *
104179 AAAAAAACATTTTTAAAAGC-ATATAATATA-A-TTTT
1 --AAAAATATTTTGAAAA-CTATATAATATATAGTTTT
* * *
104214 -AAAATGTTTTTGAAAAC--TATAACATATAGTTTG
1 AAAAAT-ATTTTGAAAACTATATAATATATAGTTTT
* *
104247 AAAACAT-TTTT-AAAATTATATAATATATGGTTTT
1 AAAA-ATATTTTGAAAACTATATAATATATAGTTTT
* * *
104281 GAAAATATCTTTGAAATA-TATATTATATAAAGTTTT
1 AAAAATAT-TTTGAAA-ACTATATAATATATAGTTTT
104317 AAA
1 AAA
104320 GCATTTTTTC
Statistics
Matches: 236, Mismatches: 32, Indels: 41
0.76 0.10 0.13
Matches are distributed among these distances:
31 8 0.03
32 10 0.04
33 17 0.07
34 20 0.08
35 27 0.11
36 41 0.17
37 58 0.25
38 27 0.11
39 20 0.08
40 8 0.03
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (35 bp):
AAAAATATTTTGAAAACTATATAATATATAGTTTT
Found at i:104224 original size:32 final size:31
Alignment explanation
Indices: 104182--104273 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 31
104172 TAGTTTTAAA
*
104182 AAAACATTTTTAAAAGCATATAATATAATTTT
1 AAAACATTTTTAAAA-CATATAATATAATTTG
** *
104214 AAAATGTTTTTGAAAAC-TATAACATATAGTTTG
1 AAAACATTTTT-AAAACATAT-A-ATATAATTTG
*
104247 AAAACATTTTTAAAATTATATAATATA
1 AAAACATTTTTAAAA-CATATAATATA
104274 TGGTTTTGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
31 3 0.06
32 20 0.42
33 22 0.46
34 3 0.06
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (31 bp):
AAAACATTTTTAAAACATATAATATAATTTG
Found at i:104327 original size:70 final size:70
Alignment explanation
Indices: 104001--104327 Score: 281
Period size: 70 Copynumber: 4.6 Consensus size: 70
103991 AAAAAAAACA
* * * * *
104001 TTTTGAAAATGTATATAATATATAGTTTTTTTAAAAATACCTTTGAAAACTATATAATATATAGT
1 TTTTG-AAATATATATAATATATAG---TTTTAAAAACA-TTTTTAAAATTATATAATATATAG-
**
104066 TTTTAAAACGT
60 TTTTAAAATAT
* * *
104077 TTTTAGAAAACATATATAATATATAGATTTTAAAACCATTTTGAAAACTTATATAATATATAGTT
1 TTTT-G-AAATATATATAATATATAG-TTTTAAAAACATTTTTAAAA-TTATATAATATATAGTT
104142 TTAAAAT-T
62 TTAAAATAT
* **
104150 ATTTTGAAATTTATATAATATATAGTTTTAAAAAAACATTTTTAAAAGCATATAATATA-A-TTT
1 -TTTTGAAATATATATAATATATAGTTTT--AAAAACATTTTTAAAATTATATAATATATAGTTT
*
104213 TAAAATGT
63 TAAAATAT
* * * *
104221 TTTTGAAA-A-CTATAACATATAG-TTTGAAAACATTTTTAAAATTATATAATATATGGTTTTGA
1 TTTTGAAATATATATAATATATAGTTTTAAAAACATTTTTAAAATTATATAATATATAGTTTT-A
104283 AAATAT
65 AAATAT
* * * *
104289 CTTTGAAATATATATTATATAAAGTTTT-AAAGCATTTTT
1 TTTTGAAATATATATAATATATAGTTTTAAAAACATTTTT
104328 TCTCTATATA
Statistics
Matches: 211, Mismatches: 28, Indels: 30
0.78 0.10 0.11
Matches are distributed among these distances:
65 25 0.12
67 7 0.03
68 24 0.11
69 1 0.00
70 36 0.17
71 9 0.04
72 27 0.13
73 16 0.08
74 20 0.09
75 23 0.11
76 4 0.02
77 19 0.09
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (70 bp):
TTTTGAAATATATATAATATATAGTTTTAAAAACATTTTTAAAATTATATAATATATAGTTTTAA
AATAT
Found at i:104372 original size:23 final size:24
Alignment explanation
Indices: 104346--104396 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
104336 TATCATATAG
104346 TATTTTATTCTT-TTTTTATT-TAT
1 TATTTTATTCTTGTTTTTATTAT-T
*
104369 TA-TTTATTTTTGTTTTTATTATT
1 TATTTTATTCTTGTTTTTATTATT
104392 TATTT
1 TATTT
104397 AATCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 8 0.33
23 13 0.54
24 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (24 bp):
TATTTTATTCTTGTTTTTATTATT
Found at i:104407 original size:23 final size:22
Alignment explanation
Indices: 104356--104408 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
104346 TATTTTATTC
**
104356 TTTTTTTATTTATTATTTATTT
1 TTTTTTTATTTATTATTTATCA
104378 TTGTTTTTA-TTATTTATTTAATCA
1 TT-TTTTTATTTA-TTATTT-ATCA
104402 TTTTTTT
1 TTTTTTT
104409 CGATGTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 17 0.65
24 4 0.15
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTTTATTTATTATTTATCA
Found at i:105501 original size:7 final size:7
Alignment explanation
Indices: 105485--105515 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
105475 AATGCATTTG
105485 TTTT-TT
1 TTTTCTT
105491 TTTTCTT
1 TTTTCTT
105498 TTTTCTT
1 TTTTCTT
105505 TTTTCTT
1 TTTTCTT
105512 TTTT
1 TTTT
105516 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTCTT
Found at i:126140 original size:2 final size:2
Alignment explanation
Indices: 126135--126160 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
126125 ATTTTTAGTG
126135 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
126161 GTAATATTTT
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:129070 original size:21 final size:21
Alignment explanation
Indices: 129044--129088 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
129034 GATTTCTGGG
* *
129044 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
129065 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
129086 CAA
1 CAA
129089 ACGAACAAGA
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:130835 original size:23 final size:22
Alignment explanation
Indices: 130776--130842 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
130766 TATGGACATC
*
130776 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
*
130798 ACTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
130820 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
130843 TTTATACGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 26 0.63
23 15 0.37
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.24
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:133922 original size:21 final size:21
Alignment explanation
Indices: 133896--133940 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
133886 GATTTCTGGG
* *
133896 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
133917 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
133938 CAA
1 CAA
133941 ACGAACAAGA
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:135664 original size:253 final size:252
Alignment explanation
Indices: 135211--135717 Score: 989
Period size: 253 Copynumber: 2.0 Consensus size: 252
135201 ACAAGATATG
135211 ATAAGTATGTTTATATGAATAAAGGTGATTGGGTGAGAAATAATAGAAATTATAGGAAAACATGA
1 ATAAGTATGTTTATATGAATAAAGGTGATTGGGTGAGAAATAATAGAAATTATAGGAAAACATGA
135276 CATATGTGACATATGAATTATATGGAATGATCTACGGGTAAGTGACTACGTGACTATGTGATCAT
66 CATATGTGACATATGAATTATATGGAATGATCTACGGGTAAGTGACTACGTGACTATGTGATCAT
135341 ATGAAAAGAAGCTATGTGATACGTGATATGTGAAAGTGAATTACAAGTTTATGTGTATATTTGAA
131 ATGAAAAGAAGCTATGTGATACGTGATATGTGAAAGTGAATTACAAGTTTATGTGTATATTTGAA
135406 ATGAAATAAATGAT-ACGCCCATGTTATGTGTCATGAGAGCTAGGGGTATAGTTGGC
196 ATGAAATAAATGATAACGCCCATGTTATGTGTCATGAGAGCTAGGGGTATAGTTGGC
135462 ATAAGTATGTTTATATGAATAAAGGTGATTGGGTGAGAAATAATAGAAATTATAGGAAAACATGA
1 ATAAGTATGTTTATATGAATAAAGGTGATTGGGTGAGAAATAATAGAAATTATAGGAAAACATGA
135527 CATATGTGACATATGAATTATATGGAAATGATCTACGGGTAAGTGAACTACGTGACTATGTGATC
66 CATATGTGACATATGAATTATATGG-AATGATCTACGGGTAAGTG-ACTACGTGACTATGTGATC
135592 ATATGAAAAGAAGCTATGTGATACGTGATATGTGAAAGTGAATTACAAGTTTATGTGTATATTTG
129 ATATGAAAAGAAGCTATGTGATACGTGATATGTGAAAGTGAATTACAAGTTTATGTGTATATTTG
135657 AAATGAAATAAATGATAACGCCCATGTTATGTGTCATGAGAGCTAGGGGTATAGTTGGC
194 AAATGAAATAAATGATAACGCCCATGTTATGTGTCATGAGAGCTAGGGGTATAGTTGGC
135716 AT
1 AT
135718 GCCAAGAGTC
Statistics
Matches: 253, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
251 90 0.36
252 19 0.08
253 100 0.40
254 44 0.17
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (252 bp):
ATAAGTATGTTTATATGAATAAAGGTGATTGGGTGAGAAATAATAGAAATTATAGGAAAACATGA
CATATGTGACATATGAATTATATGGAATGATCTACGGGTAAGTGACTACGTGACTATGTGATCAT
ATGAAAAGAAGCTATGTGATACGTGATATGTGAAAGTGAATTACAAGTTTATGTGTATATTTGAA
ATGAAATAAATGATAACGCCCATGTTATGTGTCATGAGAGCTAGGGGTATAGTTGGC
Found at i:135916 original size:23 final size:22
Alignment explanation
Indices: 135857--135923 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
135847 TATGGACATC
*
135857 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
*
135879 ACTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
135901 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
135924 TTTATACGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 26 0.63
23 15 0.37
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.24
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:137736 original size:20 final size:22
Alignment explanation
Indices: 137711--137750 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
137701 TGTTGTATAT
137711 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
137731 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
137751 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:137805 original size:21 final size:21
Alignment explanation
Indices: 137779--137820 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
137769 CTACGATATG
137779 GGGTATC-AGTACCCCTTCATA
1 GGGTATCGA-TACCCCTTCATA
*
137800 GGGTATCGATACTCCTTCATA
1 GGGTATCGATACCCCTTCATA
137821 AAATTCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (21 bp):
GGGTATCGATACCCCTTCATA
Found at i:138070 original size:29 final size:31
Alignment explanation
Indices: 138037--138096 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
138027 AAACTTTGAA
* *
138037 TAAATTCAATT-AAGTC-CAAAATCATTTTG
1 TAAATTCAATTCAAGTCTAAAAACCATTTTG
138066 TAAATTCAATTCAAGTCTAAAAACCATTTTG
1 TAAATTCAATTCAAGTCTAAAAACCATTTTG
138097 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 5 0.19
31 11 0.41
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCTAAAAACCATTTTG
Found at i:138234 original size:20 final size:20
Alignment explanation
Indices: 138206--138244 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
138196 ATGTTTAATG
138206 AAAAAGATACCAATTGTTAC
1 AAAAAGATACCAATTGTTAC
* *
138226 AAAAGGATACTAATTGTTA
1 AAAAAGATACCAATTGTTA
138245 AGAAGATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
AAAAAGATACCAATTGTTAC
Found at i:139574 original size:19 final size:19
Alignment explanation
Indices: 139550--139586 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
139540 CAAAACAACA
139550 GTGCATGGCCTTGGCATTT
1 GTGCATGGCCTTGGCATTT
139569 GTGCATGGCCTTGGCATT
1 GTGCATGGCCTTGGCATT
139587 AAGTTGAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.32, T:0.35
Consensus pattern (19 bp):
GTGCATGGCCTTGGCATTT
Found at i:140506 original size:21 final size:21
Alignment explanation
Indices: 140480--140521 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
140470 CTACGATATG
140480 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
*
140501 GGGTATCGGTACTCCTTCATA
1 GGGTATCGGTACCCCTTCATA
140522 AAATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCATA
Found at i:140736 original size:29 final size:31
Alignment explanation
Indices: 140703--140762 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
140693 AAACTTTGAA
* *
140703 TAAATTCAATT-AAGTC-CAAAATCATTTTG
1 TAAATTCAATTCAAGTCTAAAAACCATTTTG
140732 TAAATTCAATTCAAGTCTAAAAACCATTTTG
1 TAAATTCAATTCAAGTCTAAAAACCATTTTG
140763 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 5 0.19
31 11 0.41
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCTAAAAACCATTTTG
Found at i:144154 original size:40 final size:42
Alignment explanation
Indices: 144110--144190 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 42
144100 AAGTTCTTCG
*
144110 GGCCATCAAT-AGTCTTTCGAGCATGATG-CTTAAATCCTTA
1 GGCCATCAATAAGTCTTTCGAGCACGATGACTTAAATCCTTA
* *
144150 GGCCATCAGTAAGTCTTTCGAGCACGATGATTTAAATCCTT
1 GGCCATCAATAAGTCTTTCGAGCACGATGACTTAAATCCTT
144191 CGGGTAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 9 0.25
41 17 0.47
42 10 0.28
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
GGCCATCAATAAGTCTTTCGAGCACGATGACTTAAATCCTTA
Found at i:144259 original size:80 final size:79
Alignment explanation
Indices: 144152--144361 Score: 282
Period size: 76 Copynumber: 2.7 Consensus size: 79
144142 AATCCTTAGG
* * *
144152 CCATCAGTAAGTCTTTCGAGCACGATGATTTAAATCCTTCGGGTAATTTGTAATCCTTCACGGAA
1 CCATCAGTAAGTCTTTCGAGCATGATGA--TAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAA
144217 GAGTACTGAAGCAAAC
64 GAGTACTGAAGCAAAC
* *
144233 CCATCAGT-AGTTTTTCGAGCATGATG--AAATCCTTCGGGTAATTTATAAGCCTTCACCGAAGA
1 CCATCAGTAAGTCTTTCGAGCATGATGATAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAGA
* *
144295 GTAGTGAAGCAAAT
66 GTACTGAAGCAAAC
* * *
144309 CCATCAATAAGTCTTTCGAGTATGATGATGAAATCCTTCGGGTCATTTGTAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGAT-AAATCCTTCGGGTAATTTGTAAG
144362 TCTTTCGAGC
Statistics
Matches: 113, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
76 52 0.46
77 16 0.14
80 37 0.33
81 8 0.07
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (79 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAGA
GTACTGAAGCAAAC
Found at i:144924 original size:50 final size:53
Alignment explanation
Indices: 144790--144939 Score: 200
Period size: 52 Copynumber: 2.9 Consensus size: 53
144780 TTCTCGTAGG
* * *
144790 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGC-AGAGGGAGAGAACCCGTAAG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAAA
* *
144842 CAGAAGATTTTTCGAGTTCTACTCCTTGAAGCAAGA-GG-GCGAACCCATAAA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAAA
* * *
144893 TAG-AGATTGTTCGAGTTCTACTCCCTAAAGCAATAGGGAGCGAACCC
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCC
144940 GTTTTTTAGA
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
50 28 0.33
51 14 0.16
52 40 0.47
53 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCATAAA
Found at i:146976 original size:2 final size:2
Alignment explanation
Indices: 146929--146959 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
146919 TATTTTAGTG
146929 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
146960 TTTTAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:148826 original size:19 final size:20
Alignment explanation
Indices: 148785--148827 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
148775 TAGTTGTATG
*
148785 TTTAATAATTATATAATATT
1 TTTAATAATTATAAAATATT
148805 TTTAATAA-TATAAAATTATT
1 TTTAATAATTATAAAA-TATT
148825 TTT
1 TTT
148828 TTAAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAATAATTATAAAATATT
Found at i:151500 original size:163 final size:162
Alignment explanation
Indices: 151230--151556 Score: 611
Period size: 163 Copynumber: 2.0 Consensus size: 162
151220 TTGATAATTT
151230 ACGAATGCAATCAAAGCTAGTAACAGAGAAGTTTTACAAAGATTGATGAAGTGTTTGAATTTTCC
1 ACGAATGCAATC-AAGCTAGTAACAGAGAAGTTTTACAAAGATTGATGAAGTGTTTGAATTTTCC
151295 AAAAAAAAATTATTCCATCTATGCTCATCGATATTAAGTTTAGGATTAAATTTCTCTCTGTCATC
65 AAAAAAAAATTATTCCATCTATGCTCATCGATATTAAGTTTAGGATTAAATTTCTCTCTGTCATC
151360 ACTTTTACATCAATACTCGTGTTTAGCGGGAGA
130 ACTTTTACATCAATACTCGTGTTTAGCGGGAGA
151393 ACGAATGCAATC-AGCTAGTAACAGAGAAGTTTTACAAAGATTGATGAAGTGTTTGAATTTTCCA
1 ACGAATGCAATCAAGCTAGTAACAGAGAAGTTTTACAAAGATTGATGAAGTGTTTGAATTTTCC-
*
151457 AAAAAAAAAATTATTCCATCTATGCTCATCGATATTAAGTTTAGGATTAAATTTCTCTGTGTCAT
65 -AAAAAAAAATTATTCCATCTATGCTCATCGATATTAAGTTTAGGATTAAATTTCTCTCTGTCAT
151522 CACTTTTACATCAATACTCGTGTTTAGCGGGAGA
129 CACTTTTACATCAATACTCGTGTTTAGCGGGAGA
151556 A
1 A
151557 AGAAGAGGTT
Statistics
Matches: 161, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
161 51 0.32
163 110 0.68
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (162 bp):
ACGAATGCAATCAAGCTAGTAACAGAGAAGTTTTACAAAGATTGATGAAGTGTTTGAATTTTCCA
AAAAAAAATTATTCCATCTATGCTCATCGATATTAAGTTTAGGATTAAATTTCTCTCTGTCATCA
CTTTTACATCAATACTCGTGTTTAGCGGGAGA
Found at i:153058 original size:2 final size:2
Alignment explanation
Indices: 153051--153092 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
153041 ACATAAAATA
153051 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
153093 TACGTAGTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:156204 original size:3 final size:3
Alignment explanation
Indices: 156196--156227 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
156186 TATTAATTTA
156196 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
156228 ATAAATGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:156369 original size:20 final size:19
Alignment explanation
Indices: 156344--156383 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
156334 TTATGTGATT
156344 TATTTATAATATATA-AAAAA
1 TATTTA-AAT-TATACAAAAA
156364 TATTTAAATTATACAAAAA
1 TATTTAAATTATACAAAAA
156383 T
1 T
156384 TAATCATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TATTTAAATTATACAAAAA
Found at i:160263 original size:42 final size:41
Alignment explanation
Indices: 160206--160336 Score: 171
Period size: 42 Copynumber: 3.2 Consensus size: 41
160196 ACATTTTTTA
160206 ACAAACGCCGCAATAGAGTGGTAAATTAGCGGCGTTTATACC
1 ACAAACGCCGCAATAGA-TGGTAAATTAGCGGCGTTTATACC
* * *
160248 ACAAACGCCGTAATAGAT--TAACATATAGTGGCGTTT-TAAC
1 ACAAACGCCGCAATAGATGGTAA-AT-TAGCGGCGTTTATACC
160288 -CAAACGCCGCAATAGATCGGTAAATTAGCGGCGTTTATACC
1 ACAAACGCCGCAATAGAT-GGTAAATTAGCGGCGTTTATACC
160329 ACAAACGC
1 ACAAACGC
160337 TTATTCTTTG
Statistics
Matches: 76, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
39 19 0.25
40 15 0.20
41 16 0.21
42 26 0.34
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (41 bp):
ACAAACGCCGCAATAGATGGTAAATTAGCGGCGTTTATACC
Found at i:160302 original size:39 final size:38
Alignment explanation
Indices: 160201--160323 Score: 133
Period size: 39 Copynumber: 3.1 Consensus size: 38
160191 TAGCGACATT
160201 TTTTAA-CAAACGCCGCAATAGAGTGGTAAATTAGCGGCG
1 TTTTAACCAAACGCCGCAATAGA-T-GTAAATTAGCGGCG
* * *
160240 TTTATACCACAAACGCCGTAATAGAT-TAACATATAGTGGCG
1 TTT-TAAC-CAAACGCCGCAATAGATGTAA-AT-TAGCGGCG
160281 TTTTAACCAAACGCCGCAATAGATCGGTAAATTAGCGGCG
1 TTTTAACCAAACGCCGCAATAGAT--GTAAATTAGCGGCG
160321 TTT
1 TTT
160324 ATACCACAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
39 22 0.31
40 17 0.24
41 13 0.19
42 18 0.26
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (38 bp):
TTTTAACCAAACGCCGCAATAGATGTAAATTAGCGGCG
Found at i:161882 original size:39 final size:42
Alignment explanation
Indices: 161837--161927 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 42
161827 GTTTTTGACG
* *
161837 TAAACGCCGCAATTGAGTTGTTC-GTAGTGGCGTTTTT-A-A
1 TAAACGCCGCAATAGAGTTGTCCTGTAGTGGCGTTTTTAATA
* ** *
161876 TAAACGCCGCAGTAGTTTTGTCCTTTAGTGGCGTTTTTAATA
1 TAAACGCCGCAATAGAGTTGTCCTGTAGTGGCGTTTTTAATA
161918 TAAACGCCGC
1 TAAACGCCGC
161928 CATTTTCCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
39 18 0.42
40 13 0.30
41 1 0.02
42 11 0.26
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (42 bp):
TAAACGCCGCAATAGAGTTGTCCTGTAGTGGCGTTTTTAATA
Found at i:162786 original size:36 final size:36
Alignment explanation
Indices: 162745--162817 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
162735 GTTTTGGACC
162745 AGAGATAATCTCGAAAATCCTCAAAACTCTTTTTGT
1 AGAGATAATCTCGAAAATCCTCAAAACTCTTTTTGT
*
162781 AGAGATAATCTCGAAAATCCTCAACACTCTTTTTGT
1 AGAGATAATCTCGAAAATCCTCAAAACTCTTTTTGT
162817 A
1 A
162818 TTCACTATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (36 bp):
AGAGATAATCTCGAAAATCCTCAAAACTCTTTTTGT
Found at i:166508 original size:65 final size:65
Alignment explanation
Indices: 166404--166534 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
166394 AGATGGAATA
166404 GACCAAATCGAAATGATGTGTTAAGTACTGATGACTTACCTCAACATTATTTCTTTGGAAGTTAT
1 GACCAAATCGAAATGATGTGTTAAGTACTGATGACTTACCTCAACATTATTTCTTTGGAAGTTAT
166469 GACCAAATCGAAATGATGTGTTAAGTACTGATGACTTACCTCAACATTATTTCTTTGGAAGTTAT
1 GACCAAATCGAAATGATGTGTTAAGTACTGATGACTTACCTCAACATTATTTCTTTGGAAGTTAT
166534 G
1 G
166535 GTCAACCATT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (65 bp):
GACCAAATCGAAATGATGTGTTAAGTACTGATGACTTACCTCAACATTATTTCTTTGGAAGTTAT
Found at i:169225 original size:21 final size:21
Alignment explanation
Indices: 169201--169249 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
169191 GTAGAGAAAG
* *
169201 AAGCAGCGGCAGCACAGAGAA
1 AAGCAACGGCAGCACAAAGAA
*
169222 AAGCAACGGCAGCACAAAGAG
1 AAGCAACGGCAGCACAAAGAA
169243 AAGCAAC
1 AAGCAAC
169250 ATATCAGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.47, C:0.24, G:0.29, T:0.00
Consensus pattern (21 bp):
AAGCAACGGCAGCACAAAGAA
Found at i:169814 original size:86 final size:84
Alignment explanation
Indices: 169604--169840 Score: 244
Period size: 86 Copynumber: 2.8 Consensus size: 84
169594 AGACCTTTAC
* * * * * * *
169604 CGGCGTTTTTAGCAAAAACGCTGCAAAACATCAACACCTACTGCGTCGTTTGT-GAGAAAAATGC
1 CGGCGTTTTTAG-AAAAACGCCGCTAAACATCAACACCTATTGCGGCATTTGTCTA-AAAAACGC
*
169668 CGCAAACATCAACACTTACTG
64 CGCAAACATCAACACATACTG
* * *
169689 CGGCATTTTAGAGAAAAACACCGCTAAACATCATA-ACCTATTGCGGCATTTGTCTAAAAAACGC
1 CGGCGTTTT-TAGAAAAACGCCGCTAAACATCA-ACACCTATTGCGGCATTTGTCTAAAAAACGC
* *
169753 CGCTAAATATCAACACATATTG
64 CGC-AAACATCAACACATACTG
* * * * *
169775 CGGCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTGCGGCATTTTTCTGACAAACGCC
1 CGGCGTTTTTA-GAAAAACGCCGCTAAACATCAACACCTATTGCGGCATTTGTCTAAAAAACGCC
169840 G
65 G
169841 AACTTTAGCG
Statistics
Matches: 125, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
85 52 0.42
86 73 0.58
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (84 bp):
CGGCGTTTTTAGAAAAACGCCGCTAAACATCAACACCTATTGCGGCATTTGTCTAAAAAACGCCG
CAAACATCAACACATACTG
Found at i:169820 original size:43 final size:43
Alignment explanation
Indices: 169604--169840 Score: 205
Period size: 43 Copynumber: 5.5 Consensus size: 43
169594 AGACCTTTAC
* * *
169604 CGGCGTTTTTA-GCAAAAACGCTGCAAAACATCAACACCTACTG
1 CGGCGTTTTTATG-AAAAACGCCGCTAAACATCAACACCTATTG
* * * * *
169647 CGTCGTTTGTGA-GAAAAATGCCGC-AAACATCAACACTTACTG
1 CGGCGTTT-TTATGAAAAACGCCGCTAAACATCAACACCTATTG
* * *
169689 CGGC-ATTTTAGAGAAAAACACCGCTAAACATCATA-ACCTATTG
1 CGGCGTTTTTA-TGAAAAACGCCGCTAAACATCA-ACACCTATTG
* * * * * *
169732 CGGCATTTGTCTAAAAAACGCCGCTAAATATCAACACATATTG
1 CGGCGTTTTTATGAAAAACGCCGCTAAACATCAACACCTATTG
* *
169775 CGGCGTTTTTATGACAAACGCCGCTAAATATCAACACCTATTG
1 CGGCGTTTTTATGAAAAACGCCGCTAAACATCAACACCTATTG
* * *
169818 CGGCATTTTTCTGACAAACGCCG
1 CGGCGTTTTTATGAAAAACGCCG
169841 AACTTTAGCG
Statistics
Matches: 159, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 31 0.19
43 117 0.74
44 7 0.04
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
CGGCGTTTTTATGAAAAACGCCGCTAAACATCAACACCTATTG
Found at i:170567 original size:21 final size:20
Alignment explanation
Indices: 170543--170594 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
170533 GGATGAACAA
170543 TATCAATACTGAT-TGAAGTAG
1 TATCAATACTGATGTGAA-T-G
* * *
170564 TATCGATACTTATGTGGATG
1 TATCAATACTGATGTGAATG
170584 TATCAATACTG
1 TATCAATACTG
170595 TAATTGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 10 0.40
21 12 0.48
22 3 0.12
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (20 bp):
TATCAATACTGATGTGAATG
Found at i:186125 original size:16 final size:16
Alignment explanation
Indices: 186101--186180 Score: 108
Period size: 16 Copynumber: 5.0 Consensus size: 16
186091 TTAATAATAA
*
186101 ACGAACATAAA-AAAC
1 ACGAACATAAACGAAC
186116 ACGAAACATAAACGAAC
1 ACG-AACATAAACGAAC
*
186133 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
186149 AAGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
186165 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
186181 CGATAAACAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
15 3 0.05
16 48 0.84
17 6 0.11
ACGTcount: A:0.60, C:0.20, G:0.11, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:186177 original size:32 final size:33
Alignment explanation
Indices: 186101--186180 Score: 128
Period size: 32 Copynumber: 2.5 Consensus size: 33
186091 TTAATAATAA
* *
186101 ACGAACATAAA-AAACACGAAACATAAACGAAC
1 ACGAACATAAATGAACAAGAAACATAAACGAAC
186133 ACGAACATAAATGAACAAG-AACATAAACGAAC
1 ACGAACATAAATGAACAAGAAACATAAACGAAC
186165 ACGAACATAAATGAAC
1 ACGAACATAAATGAAC
186181 CGATAAACAA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 40 0.89
33 5 0.11
ACGTcount: A:0.60, C:0.20, G:0.11, T:0.09
Consensus pattern (33 bp):
ACGAACATAAATGAACAAGAAACATAAACGAAC
Found at i:186450 original size:11 final size:11
Alignment explanation
Indices: 186414--186503 Score: 51
Period size: 11 Copynumber: 8.0 Consensus size: 11
186404 AAAATTCATC
* *
186414 AGCTCGAATAA
1 AGCTCGATTGA
*
186425 AGCTCGACTCG-
1 AGCTCGA-TTGA
186436 AGCTCGATTGA
1 AGCTCGATTGA
*
186447 AGCTCAATTTTG-
1 AGCTCGA--TTGA
*
186459 AGCTCGATTCA
1 AGCTCGATTGA
*
186470 AGCTTGATATTG-
1 AGCTCG--ATTGA
*
186482 AGCTCGATTCA
1 AGCTCGATTGA
186493 AGCTCGATTGA
1 AGCTCGATTGA
186504 CCCAGTCCAG
Statistics
Matches: 59, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
10 7 0.12
11 35 0.59
12 11 0.19
13 6 0.10
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (11 bp):
AGCTCGATTGA
Found at i:186464 original size:23 final size:23
Alignment explanation
Indices: 186435--186497 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
186425 AGCTCGACTC
* *
186435 GAGCTCGATTGAAGCTCAATTTT
1 GAGCTCGATTCAAGCTCAATATT
**
186458 GAGCTCGATTCAAGCTTGATATT
1 GAGCTCGATTCAAGCTCAATATT
186481 GAGCTCGATTCAAGCTC
1 GAGCTCGATTCAAGCTC
186498 GATTGACCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
GAGCTCGATTCAAGCTCAATATT
Found at i:187698 original size:7 final size:7
Alignment explanation
Indices: 187686--187809 Score: 83
Period size: 7 Copynumber: 18.1 Consensus size: 7
187676 ATCAGATTAA
187686 GGTTTAG
1 GGTTTAG
187693 GGTTTA-
1 GGTTTAG
*
187699 GG-TTAT
1 GGTTTAG
187705 GGTTTAG
1 GGTTTAG
*
187712 GTTTTAG
1 GGTTTAG
* *
187719 GTTTTAT
1 GGTTTAG
*
187726 GGTTTAT
1 GGTTTAG
*
187733 GGTTTAT
1 GGTTTAG
*
187740 GGTTTAT
1 GGTTTAG
* *
187747 GTTTTAT
1 GGTTTAG
187754 GGTTTAG
1 GGTTTAG
*
187761 GATTTAG
1 GGTTTAG
*
187768 AGTTTAG
1 GGTTTAG
187775 GGTTTAG
1 GGTTTAG
**
187782 AATTTAG
1 GGTTTAG
*
187789 AGTTTA-
1 GGTTTAG
*
187795 GGATTAG
1 GGTTTAG
*
187802 GATTTAG
1 GGTTTAG
187809 G
1 G
187810 ATTTTTTAAT
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
5 3 0.03
6 8 0.08
7 85 0.89
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
GGTTTAG
Done.