Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009085.1 Hibiscus syriacus cultivar Beakdansim tig00112529_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: 220511
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2170 original size:35 final size:35
Alignment explanation
Indices: 2130--2232 Score: 100
Period size: 35 Copynumber: 3.2 Consensus size: 35
2120 TAATGACTAG
2130 TAATGATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATTAGTAATAATGAAATTATTATTAATTTT
* * * *
2165 TAATGATT--TGAT-A-GTAATGA-T-TT-A---G
1 TAATGATTAGTAATAATGAAATTATTATTAATTTT
2190 TAATGATTAGTAATAATGAAATTATTATTAATTTT
1 TAATGATTAGTAATAATGAAATTATTATTAATTTT
2225 TAATGATT
1 TAATGATT
2233 TGATAGTAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 20
0.64 0.10 0.26
Matches are distributed among these distances:
25 8 0.16
27 3 0.06
28 2 0.04
29 7 0.14
30 2 0.04
31 7 0.14
32 2 0.04
33 3 0.06
35 16 0.32
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.48
Consensus pattern (35 bp):
TAATGATTAGTAATAATGAAATTATTATTAATTTT
Found at i:2220 original size:60 final size:59
Alignment explanation
Indices: 2067--2252 Score: 345
Period size: 59 Copynumber: 3.1 Consensus size: 59
2057 ATTATAAGAT
*
2067 TTAGTAATGATTAGTAATGATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
*
2126 CTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
2185 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
2245 TTAGTAAT
1 TTAGTAAT
2253 AATAATTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
59 65 0.53
60 58 0.47
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.46
Consensus pattern (59 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
Found at i:2293 original size:49 final size:49
Alignment explanation
Indices: 2187--2281 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 49
2177 AGTAATGATT
*
2187 TAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
*
2236 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT
2282 TTGGTTCAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 24 0.55
49 20 0.45
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGA
Found at i:2300 original size:7 final size:7
Alignment explanation
Indices: 2288--2314 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2278 ATTTTTGGTT
2288 CAATGAA
1 CAATGAA
2295 CAATGAA
1 CAATGAA
2302 CAATGAA
1 CAATGAA
2309 CAATGA
1 CAATGA
2315 TTTAGTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (7 bp):
CAATGAA
Found at i:2349 original size:26 final size:26
Alignment explanation
Indices: 2310--2447 Score: 103
Period size: 26 Copynumber: 5.5 Consensus size: 26
2300 AACAATGAAC
*
2310 AATGATTTAGTAATAATCATTATAAA
1 AATGATTTAATAATAATCATTATAAA
*
2336 AATGA-TT--TAATAATGATT-T--A
1 AATGATTTAATAATAATCATTATAAA
* * * **
2356 AAT-ATTTAATGATTTGATGATT-TAGT
1 AATGATTTAAT-A-ATAATCATTATAAA
* **
2382 AATGATTTGATAATAATCATTATAGT
1 AATGATTTAATAATAATCATTATAAA
*
2408 AATGATTTAGTAATAATCATTATAAA
1 AATGATTTAATAATAATCATTATAAA
2434 AATGATTTAATAAT
1 AATGATTTAATAAT
2448 GATTTAATAT
Statistics
Matches: 90, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
19 1 0.01
20 6 0.07
22 2 0.02
23 11 0.12
24 8 0.09
25 8 0.09
26 48 0.53
27 6 0.07
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (26 bp):
AATGATTTAATAATAATCATTATAAA
Found at i:2352 original size:11 final size:11
Alignment explanation
Indices: 2320--2456 Score: 64
Period size: 11 Copynumber: 11.5 Consensus size: 11
2310 AATGATTTAG
*
2320 TAATAATCATT
1 TAATAATGATT
*
2331 ATAAAAATGATT
1 -TAATAATGATT
2343 TAATAATGATT
1 TAATAATGATT
2354 T-A-AAT-ATT
1 TAATAATGATT
2362 TAATGATTTGATGATT
1 TAAT-A----ATGATT
*
2378 TAGTAATGATTT
1 TAATAATGA-TT
*
2390 GATAATAATCATT
1 --TAATAATGATT
*
2403 ATAGTAATGATTT
1 -TAATAATGA-TT
*
2416 AGTAATAATCATT
1 --TAATAATGATT
*
2429 ATAAAAATGATT
1 -TAATAATGATT
2441 TAATAATGATT
1 TAATAATGATT
2452 TAATA
1 TAATA
2457 TTTAATGATT
Statistics
Matches: 97, Mismatches: 15, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
8 4 0.04
9 4 0.04
10 1 0.01
11 31 0.32
12 28 0.29
13 6 0.06
14 14 0.14
15 3 0.03
16 6 0.06
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (11 bp):
TAATAATGATT
Found at i:2467 original size:8 final size:8
Alignment explanation
Indices: 2444--2476 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
2434 AATGATTTAA
2444 TAATGATT
1 TAATGATT
2452 TAAT-ATT
1 TAATGATT
2459 TAATGATT
1 TAATGATT
*
2467 TGATGATT
1 TAATGATT
2475 TA
1 TA
2477 GTAATGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TAATGATT
Found at i:2499 original size:97 final size:98
Alignment explanation
Indices: 2310--2527 Score: 395
Period size: 97 Copynumber: 2.2 Consensus size: 98
2300 AACAATGAAC
2310 AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
1 AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
*
2375 ATTTAGTAATGATTTGATAATAATCATTATAGT
66 ATTTAGTAATGATTTGATAATAATCATTATAAT
2408 AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTT-AATATTTAATGATTTGATG
1 AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
2472 ATTTAGTAATGATTTGATAATAATCATTATAAT
66 ATTTAGTAATGATTTGATAATAATCATTATAAT
*
2505 AATGATTTTA-TAATAATTATTAT
1 AATGA-TTTAGTAATAATCATTAT
2528 GTTATTATTT
Statistics
Matches: 117, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
97 68 0.58
98 49 0.42
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (98 bp):
AATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATG
ATTTAGTAATGATTTGATAATAATCATTATAAT
Found at i:2507 original size:26 final size:26
Alignment explanation
Indices: 2381--2527 Score: 121
Period size: 26 Copynumber: 5.9 Consensus size: 26
2371 GATGATTTAG
*
2381 TAATGATTTGATAATAATCATTATAG
1 TAATGATTTGATAATAATCATTATAA
2407 TAATGATTT-AGTAATAATCATTATAA
1 TAATGATTTGA-TAATAATCATTATAA
* *
2433 AAATGA-TT--TAATAATGATT-TAA
1 TAATGATTTGATAATAATCATTATAA
* * * * * * *
2455 TATTTA-ATGAT-TTGATGATT-TAG
1 TAATGATTTGATAATAATCATTATAA
2478 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTGATAATAATCATTATAA
* *
2504 TAATGATTTTATAATAATTATTAT
1 TAATGATTTGATAATAATCATTAT
2528 GTTATTATTT
Statistics
Matches: 96, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
22 7 0.07
23 23 0.24
24 5 0.05
25 9 0.09
26 52 0.54
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.46
Consensus pattern (26 bp):
TAATGATTTGATAATAATCATTATAA
Found at i:2571 original size:26 final size:26
Alignment explanation
Indices: 2478--2568 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
2468 GATGATTTAG
* * *
2478 TAATGATTTGATAATAATCATTATAA
1 TAATGATTTAATAATAATTATTATAT
* *
2504 TAATGATTTTATAATAATTATTATGT
1 TAATGATTTAATAATAATTATTATAT
* * *
2530 T-ATTATTTAGTAATTA-T-TTATAT
1 TAATGATTTAATAATAATTATTATAT
2553 TAATGATTTAATAATA
1 TAATGATTTAATAATA
2569 TTACTAATAA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 6 0.12
24 12 0.23
25 11 0.21
26 23 0.44
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.51
Consensus pattern (26 bp):
TAATGATTTAATAATAATTATTATAT
Found at i:2579 original size:23 final size:23
Alignment explanation
Indices: 2392--2579 Score: 71
Period size: 26 Copynumber: 7.8 Consensus size: 23
2382 AATGATTTGA
* *
2392 TAATAATCATTATAGTAATGATTT
1 TAATAATAATTATAATAATGA-TT
* *
2416 AGTAATAATCATTATAAAAATGATT
1 --TAATAATAATTATAATAATGATT
* *
2441 TAATAATGATTTAATATTTAATGA-T
1 TAATAAT-AATT-ATA-ATAATGATT
* * *
2466 T--TGATGATT-TAGTAATGATTT
1 TAATAATAATTATAATAATGA-TT
*
2487 GATAATAATCATTATAATAATGATT
1 --TAATAATAATTATAATAATGATT
* * * *
2512 TTATAATAATTATTATGTTATTATT
1 TAATAATAATTA-TA-ATAATGATT
* * *
2537 TAGTAATTATTTATATTAATGATT
1 TAATAA-TAATTATAATAATGATT
2561 TAATAAT-ATTACTAATAAT
1 TAATAATAATTA-TAATAAT
2580 TATAGAATAC
Statistics
Matches: 121, Mismatches: 27, Indels: 31
0.68 0.15 0.17
Matches are distributed among these distances:
19 6 0.05
20 2 0.02
21 1 0.01
22 5 0.04
23 28 0.23
24 15 0.12
25 27 0.22
26 37 0.31
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (23 bp):
TAATAATAATTATAATAATGATT
Found at i:2685 original size:14 final size:13
Alignment explanation
Indices: 2666--2743 Score: 51
Period size: 14 Copynumber: 6.2 Consensus size: 13
2656 TTTAAATATT
2666 TAATGATTTGATAC
1 TAATGA-TTGATAC
2680 TAATGATT--TAC
1 TAATGATTGATAC
2691 TAAT-A-T--TAC
1 TAATGATTGATAC
*
2700 TAATGATTAATAC
1 TAATGATTGATAC
* *
2713 TAATTATTTGATAG
1 TAATGA-TTGATAC
*
2727 TAATTATTTGATAC
1 TAATGA-TTGATAC
2741 TAA
1 TAA
2744 ACATCATTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
9 8 0.15
10 2 0.04
11 8 0.15
13 10 0.18
14 27 0.49
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (13 bp):
TAATGATTGATAC
Found at i:5176 original size:39 final size:38
Alignment explanation
Indices: 5061--5182 Score: 117
Period size: 39 Copynumber: 3.1 Consensus size: 38
5051 ACAATATAAC
* *
5061 TTAACTATTTAACTACCAAAA-AACTAATTAAATAATTTT
1 TTAACTATATAACTATCAAAACAACTAATTAAAT-A-TTT
*
5100 TTTA-TATACTAACTATTAACAAAACAAACTAA-T-AATATTT
1 TTAACTATA-TAACTA-T--CAAAAC-AACTAATTAAATATTT
5140 TTAACTATATAACTATCAAAACATACTAATTAAATATTT
1 TTAACTATATAACTATCAAAACA-ACTAATTAAATATTT
5179 TTAA
1 TTAA
5183 TTTATGTATA
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
36 1 0.01
37 11 0.16
38 4 0.06
39 21 0.30
40 12 0.17
41 5 0.07
42 8 0.12
43 1 0.01
44 6 0.09
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (38 bp):
TTAACTATATAACTATCAAAACAACTAATTAAATATTT
Found at i:5334 original size:12 final size:12
Alignment explanation
Indices: 5309--5353 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
5299 TACTTACTTT
5309 CCTTTC-TT-TC
1 CCTTTCTTTCTC
5319 CCTTTCTTTCTC
1 CCTTTCTTTCTC
5331 CCTTTCTTTCTC
1 CCTTTCTTTCTC
5343 CCTTTCTTTCT
1 CCTTTCTTTCT
5354 TTCTCGGCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
10 6 0.18
11 2 0.06
12 25 0.76
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
CCTTTCTTTCTC
Found at i:5574 original size:48 final size:48
Alignment explanation
Indices: 5522--5615 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
5512 GCATGCTGTT
5522 GGCATGCAGCGGGGAGCAGGAGCACGTGAACTTA-TTGGCATGCATGCA
1 GGCATGCAGCGGGGAGCAGGAGCACGTGAACTTATTTGGC-TGCATGCA
*
5570 GGCATGCAGCGGGGAGCAGGAGCACGTGAAGTTATTTGGCTGCATG
1 GGCATGCAGCGGGGAGCAGGAGCACGTGAACTTATTTGGCTGCATG
5616 TGCATGCATG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 39 0.89
49 5 0.11
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.18
Consensus pattern (48 bp):
GGCATGCAGCGGGGAGCAGGAGCACGTGAACTTATTTGGCTGCATGCA
Found at i:5693 original size:28 final size:28
Alignment explanation
Indices: 5661--5752 Score: 141
Period size: 28 Copynumber: 3.3 Consensus size: 28
5651 TGGACGCTGG
*
5661 GGCGACCTACAAGGTCGCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGACTACAT
5689 GGCGACCTACAAGGTCGCCGGACTACAT
1 GGCGACCTACAAGGTCGCCGGACTACAT
* *
5717 GGCGACCTACAAGGTCGCCCAGACTGC-T
1 GGCGACCTACAAGGTCG-CCGGACTACAT
5745 GGCGACCT
1 GGCGACCT
5753 CTCTATTGGC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 53 0.88
29 7 0.12
ACGTcount: A:0.23, C:0.33, G:0.30, T:0.14
Consensus pattern (28 bp):
GGCGACCTACAAGGTCGCCGGACTACAT
Found at i:5785 original size:32 final size:32
Alignment explanation
Indices: 5740--5810 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
5730 GTCGCCCAGA
*
5740 CTGC-TGGCGACCTCTCTATTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
* *
5771 TTGCATGGCGACCTCTCCGTTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
5803 CTGCATGG
1 CTGCATGG
5811 TGAGTATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 3 0.09
32 32 0.91
ACGTcount: A:0.07, C:0.31, G:0.31, T:0.31
Consensus pattern (32 bp):
CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
Found at i:5875 original size:24 final size:19
Alignment explanation
Indices: 5825--5862 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5815 TATATGGCTT
5825 GTATGGCTCGTCTGCATGG
1 GTATGGCTCGTCTGCATGG
5844 GTATGGCTCGTCTGCATGG
1 GTATGGCTCGTCTGCATGG
5863 TGAGTATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.37, T:0.32
Consensus pattern (19 bp):
GTATGGCTCGTCTGCATGG
Found at i:6811 original size:24 final size:24
Alignment explanation
Indices: 6779--6827 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6769 AAAAGTCGGT
6779 GTCGGATCTTTTTAGACAGCGAAA
1 GTCGGATCTTTTTAGACAGCGAAA
6803 GTCGGATCTTTTTAGACAGCGAAA
1 GTCGGATCTTTTTAGACAGCGAAA
6827 G
1 G
6828 GCCGTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (24 bp):
GTCGGATCTTTTTAGACAGCGAAA
Found at i:12962 original size:22 final size:22
Alignment explanation
Indices: 12927--12999 Score: 83
Period size: 22 Copynumber: 3.1 Consensus size: 22
12917 AAAAATATAT
12927 TATATTTTGAAAATTATTAATTAA
1 TATATTTT--AAATTATTAATTAA
*
12951 TATATTTTAAATTATTTATTAA
1 TATATTTTAAATTATTAATTAA
* *
12973 AATATTATTATATTATTATATTAA
1 TATATT-TTAAATTATTA-ATTAA
12997 TAT
1 TAT
13000 TAAATATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 18 0.43
23 9 0.21
24 15 0.36
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (22 bp):
TATATTTTAAATTATTAATTAA
Found at i:12985 original size:8 final size:8
Alignment explanation
Indices: 12939--12995 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
12929 TATTTTGAAA
12939 ATTATTA-
1 ATTATTAT
*
12946 ATTAATAT
1 ATTATTAT
*
12954 ATT-TTAA
1 ATTATTAT
12961 ATTATT-T
1 ATTATTAT
**
12968 ATTAAAAT
1 ATTATTAT
12976 ATTATTAT
1 ATTATTAT
12984 ATTATTAT
1 ATTATTAT
12992 ATTA
1 ATTA
12996 ATATTAAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
7 15 0.38
8 24 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATTATTAT
Found at i:13153 original size:22 final size:23
Alignment explanation
Indices: 13113--13166 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
13103 AATATTAAAA
13113 AATATTATTAAAATATTAATAA-T
1 AATATT-TTAAAATATTAATAACT
* * *
13136 TATATTTTAATATTTTAATAACT
1 AATATTTTAAAATATTAATAACT
13159 AATATTTT
1 AATATTTT
13167 GATTAAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTTTAAAATATTAATAACT
Found at i:13860 original size:43 final size:43
Alignment explanation
Indices: 13773--14045 Score: 236
Period size: 43 Copynumber: 6.3 Consensus size: 43
13763 GGGCTTAAAC
* * * *
13773 TATAAAAATAAAAAGT-ATGATTGGAAAAAAATAGGAACCACAAT
1 TATAAAGATAAAAAGTGA-GATT-GAAAAAATTAGGAGCCTCAAT
* * *
13817 TATAAAGGTAAAAAGTGATATTGAAAAAATTAGGGGCCTCAAT
1 TATAAAGATAAAAAGTGAGATTGAAAAAATTAGGAGCCTCAAT
* * *
13860 TATAAAGATAAAAGGTGAGATTGAAAAAATCATGAG-CTCAAT
1 TATAAAGATAAAAAGTGAGATTGAAAAAATTAGGAGCCTCAAT
* * * * * *
13902 TATAAAGATACAAAGCGGGATTGAAAAACTTAGGATCATCAAT
1 TATAAAGATAAAAAGTGAGATTGAAAAAATTAGGAGCCTCAAT
* * *
13945 TATAAATG-TAAAAAATTG-GATTGAAAAAAAATTAAGTGCCTCAAT
1 TATAAA-GAT-AAAAAGTGAGATTG--AAAAAATTAGGAGCCTCAAT
* *
13990 TATAAAGATAAAAAAAT-AGGATT-TAAAAATTAGGA-CCTCAAT
1 TATAAAGAT-AAAAAGTGA-GATTGAAAAAATTAGGAGCCTCAAT
14032 TATAAAGATAAAAA
1 TATAAAGATAAAAA
14046 ACTAAAATTA
Statistics
Matches: 186, Mismatches: 34, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
41 5 0.03
42 50 0.27
43 73 0.39
44 24 0.13
45 30 0.16
46 4 0.02
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.25
Consensus pattern (43 bp):
TATAAAGATAAAAAGTGAGATTGAAAAAATTAGGAGCCTCAAT
Found at i:13975 original size:46 final size:46
Alignment explanation
Indices: 13938--14046 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 46
13928 AACTTAGGAT
*
13938 CATCAATTATAAATG-T-AAAAAATTGGATTGAAAAAAAATTAAGTG
1 CATCAATTATAAA-GATAAAAAAATAGGATTGAAAAAAAATTAAGTG
* *
13983 CCTCAATTATAAAGATAAAAAAATAGGATT---TAAAAATT-AG-G
1 CATCAATTATAAAGATAAAAAAATAGGATTGAAAAAAAATTAAGTG
*
14024 ACCTCAATTATAAAGATAAAAAA
1 -CATCAATTATAAAGATAAAAAA
14047 CTAAAATTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 7 0.12
44 1 0.02
45 13 0.22
46 12 0.21
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.27
Consensus pattern (46 bp):
CATCAATTATAAAGATAAAAAAATAGGATTGAAAAAAAATTAAGTG
Found at i:14315 original size:46 final size:46
Alignment explanation
Indices: 14248--14367 Score: 186
Period size: 46 Copynumber: 2.6 Consensus size: 46
14238 GCAACAAAAT
* * *
14248 TAAAATGTAACGTTAAGTATAATAATTCTCATATATTTTTCTAGAA
1 TAAAATATAACGTTAAGTATAATAATTCTAAGATATTTTTCTAGAA
* * *
14294 TAAAATATAACGTTAAATATAATAATTCTAAGATTTTTTTCTAGAT
1 TAAAATATAACGTTAAGTATAATAATTCTAAGATATTTTTCTAGAA
14340 TAAAATATAACGTTAAGTATAATAATTC
1 TAAAATATAACGTTAAGTATAATAATTC
14368 CCACCGATAG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (46 bp):
TAAAATATAACGTTAAGTATAATAATTCTAAGATATTTTTCTAGAA
Found at i:16532 original size:30 final size:30
Alignment explanation
Indices: 16496--16554 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
16486 TTTCCAACTC
16496 CTATCTAATTAGAGACCAAGCTACTTTCTA
1 CTATCTAATTAGAGACCAAGCTACTTTCTA
* *
16526 CTATCTAATTAGAGATCGAGCTACTTTCT
1 CTATCTAATTAGAGACCAAGCTACTTTCT
16555 TCTACTACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (30 bp):
CTATCTAATTAGAGACCAAGCTACTTTCTA
Found at i:16874 original size:3 final size:3
Alignment explanation
Indices: 16866--16892 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16856 CAGTGAGACG
16866 AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC
16893 GAAGCTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:20799 original size:20 final size:20
Alignment explanation
Indices: 20762--20801 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20752 ATAATTTATT
*
20762 GTATTTATGTACATTATGAA
1 GTATTTATGTACAATATGAA
* *
20782 GTATTTATTTCCAATATGAA
1 GTATTTATGTACAATATGAA
20802 TTTGAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (20 bp):
GTATTTATGTACAATATGAA
Found at i:26753 original size:94 final size:95
Alignment explanation
Indices: 26645--26875 Score: 358
Period size: 95 Copynumber: 2.4 Consensus size: 95
26635 TAACCGTTAA
*
26645 TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAACGGTCAAATAATTTCGG-TCAATTAAT
1 TCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAAT
* * ***
26709 GT-TAAAGAAAAAAAATTTGGTTAATTTGGT
66 GTGCAAAG-AAAAAAATTCGGTTAATTCAAT
* *
26739 TCGGTAAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAAT
1 TCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAAT
26804 GTGCAAAGAAAAAAATTCGGTTAATTCAAT
66 GTGCAAAGAAAAAAATTCGGTTAATTCAAT
*
26834 TTGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGT
1 TCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGT
26876 TAAGGAAAAA
Statistics
Matches: 125, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
94 53 0.42
95 68 0.54
96 4 0.03
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (95 bp):
TCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAAT
GTGCAAAGAAAAAAATTCGGTTAATTCAAT
Found at i:26862 original size:69 final size:71
Alignment explanation
Indices: 26780--26953 Score: 194
Period size: 74 Copynumber: 2.5 Consensus size: 71
26770 CGATTAACGG
* *
26780 TCAAAT-AATTTCGGTTCGATTAAT-GTGCAAAGAAAAA-AATTCGGTTAATTC-AATTTGGTTA
1 TCAAATAAATTTCGGTTCGATTAATGGT-CAAAGAAAAATAATTCAGTTAATTCGAATTCGGTTA
26841 ATAATTT
65 ATAATTT
* * * * * *
26848 TCAAATAAATTTCGGTTCGATTAACGGTTAAGGAAAAATAATTTATTTTATTCGGTTAATTCGGT
1 TCAAATAAATTTCGGTTCGATTAATGGTCAAAGAAAAATAATTCAGTTAATTC-G--AATTCGGT
*
26913 TAATACTTT
63 TAATAATTT
*
26922 TCAAATAAATTTCGATTCGATTAATGGTCAAA
1 TCAAATAAATTTCGGTTCGATTAATGGTCAAA
26954 TAATTTCGGT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
68 6 0.07
69 25 0.29
70 12 0.14
74 43 0.50
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (71 bp):
TCAAATAAATTTCGGTTCGATTAATGGTCAAAGAAAAATAATTCAGTTAATTCGAATTCGGTTAA
TAATTT
Found at i:26966 original size:26 final size:27
Alignment explanation
Indices: 26922--26975 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
26912 TTAATACTTT
26922 TCAAATAAATTTCGATTCGATTAATGG
1 TCAAATAAATTTCGATTCGATTAATGG
*
26949 TCAAAT-AATTTCGGTTCGATTAATGG
1 TCAAATAAATTTCGATTCGATTAATGG
26975 T
1 T
26976 TAAAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (27 bp):
TCAAATAAATTTCGATTCGATTAATGG
Found at i:27030 original size:68 final size:71
Alignment explanation
Indices: 26949--27116 Score: 211
Period size: 74 Copynumber: 2.4 Consensus size: 71
26939 CGATTAATGG
* * *
26949 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAAA-AA-TCGGTTGATTTGG-TTCGGTTAA
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTCAGTTGATTCGGATTCGGTTAA
27010 TAATTT
66 TAATTT
* * *
27016 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATTCGGT
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTCAGTTGATTCGG---ATTCGGT
27081 TAATAATTT
63 TAATAATTT
*
27090 TCAAATAAATTTGGGTTCGA-TAACGGT
1 TCAAATAAATTTCGGTTCGATTAACGGT
27117 CAAATAATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
67 6 0.07
68 30 0.34
69 2 0.02
70 8 0.09
73 7 0.08
74 34 0.39
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.39
Consensus pattern (71 bp):
TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTCAGTTGATTCGGATTCGGTTAA
TAATTT
Found at i:27069 original size:168 final size:169
Alignment explanation
Indices: 26738--27403 Score: 778
Period size: 168 Copynumber: 3.9 Consensus size: 169
26728 GTTAATTTGG
*
26738 TTCGGTAAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
* *** *
26803 TGTGCAAAGAAAAAAATTCGGTTAATTCAATTTGGTTAATAATTTTCAAATAAATTTCGGTTCGA
66 TGT-TAAAGAAAAAAATTCGGTTAATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCGA
*
26868 TTAACGGTT-AAGGAAAAATAATTTATTTTATTCGGTTAA
130 TTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAA
* * *
26907 TTCGGTTAATACTTTTCAAATAAATTTCGATTCGATTAATGGTCAAATAATTTCGGTTCGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
*
26972 TGGTTAAAGAAAAAAA-TCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCGA
66 T-GTTAAAGAAAAAAATTCGGTTAATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCGA
27036 TTAACGGTTAAAG-AAAAATAATTTATTTTATTCGGTTAA
130 TTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAA
* * *
27075 TTCGGTTAATAATTTTCAAATAAATTTGGGTTCGA-TAACGGTCAAATAATTTTGGTTAGATTAA
1 TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
27139 TGGTTAAAGAAAAAAA-TC---------GG--C---TAATAATTTTCAAATAAATTTCGGTTCGA
66 T-GTTAAAGAAAAAAATTCGGTTAATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCGA
*** * **** *
27189 TTAAC-GTTCACATAATTTCGGTTCAATTAATGTTAAAGAAAAATCGGTTAA
130 TTAACGGTT---A-AA-----GAAAAAATAAT-TT--ATTTTATTCGGTTAA
* *
27240 TTTGGTTCGATTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCG
1 -----TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCG
27305 ATTAATGTTAAAGAAAAAAAATTCGGTTAATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGG
61 ATTAATGTTAAAG-AAAAAAATTCGGTTAATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGG
27370 TTCGATTAACGGTTAAAGAAAAAATAATTTATTT
125 TTCGATTAACGGTTAAAGAAAAAATAATTTATTT
27404 AAACAAATAA
Statistics
Matches: 424, Mismatches: 35, Indels: 70
0.80 0.07 0.13
Matches are distributed among these distances:
152 3 0.01
153 34 0.08
155 1 0.00
156 3 0.01
158 2 0.00
161 1 0.00
162 6 0.01
163 2 0.00
165 10 0.02
167 44 0.10
168 110 0.26
169 76 0.18
170 42 0.10
171 35 0.08
172 2 0.00
175 1 0.00
177 2 0.00
178 7 0.02
181 2 0.00
183 3 0.01
184 1 0.00
186 34 0.08
187 3 0.01
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (169 bp):
TTCGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAA
TGTTAAAGAAAAAAATTCGGTTAATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCGAT
TAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAA
Found at i:27175 original size:79 final size:79
Alignment explanation
Indices: 27076--27231 Score: 235
Period size: 79 Copynumber: 2.0 Consensus size: 79
27066 TTCGGTTAAT
* * *
27076 TCGGTTAATAATTTTCAAATAAATTTGGGTTCGA-TAACGGTCAAATAATTTTGGTT-AGATTAA
1 TCGGCTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCA-ATTAA
27139 TGGTTAAAGAAAAAAA
65 T-GTTAAAGAAAAAAA
* *
27155 TCGGCTAATAATTTTCAAATAAATTTCGGTTCGATTAACGTTCACATAATTTCGGTTCAATTAAT
1 TCGGCTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAAT
27220 GTTAAAGAAAAA
66 GTTAAAGAAAAA
27232 TCGGTTAATT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
79 44 0.63
80 25 0.36
81 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (79 bp):
TCGGCTAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAAT
GTTAAAGAAAAAAA
Found at i:27315 original size:91 final size:93
Alignment explanation
Indices: 27160--27382 Score: 369
Period size: 91 Copynumber: 2.4 Consensus size: 93
27150 AAAAATCGGC
* *
27160 TAATAATTTTCAAATAAATTTCGGTTCGATTAACGTTCACATAATTTCGGTTCAATTAATGTTAA
1 TAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGTTAA
27225 AG-AAAAA-TCGGTTAATTTGGTTCGAT
66 AGAAAAAATTCGGTTAATTTGGTTCGAT
* *
27251 TAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCGATTAATGTTAA
1 TAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGTTAA
*
27316 AGAAAAAAAATTCGGTTAATTTGGTTCGGT
66 AG--AAAAAATTCGGTTAATTTGGTTCGAT
27346 TAATAATTTTCAAATAAATTTCGGTTCGATTAACGGT
1 TAATAATTTTCAAATAAATTTCGGTTCGATTAACGGT
27383 TAAAGAAAAA
Statistics
Matches: 122, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
91 63 0.52
94 5 0.04
95 54 0.44
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.39
Consensus pattern (93 bp):
TAATAATTTTCAAATAAATTTCGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGTTAA
AGAAAAAATTCGGTTAATTTGGTTCGAT
Found at i:27422 original size:16 final size:17
Alignment explanation
Indices: 27391--27422 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27381 GTTAAAGAAA
27391 AAATAATTTATTTAAAC
1 AAATAATTTATTTAAAC
27408 AAATAATTT-TTTAAA
1 AAATAATTTATTTAAA
27423 TTTTTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATAATTTATTTAAAC
Found at i:28000 original size:2 final size:2
Alignment explanation
Indices: 27995--28024 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27985 TTCTCTTTAA
27995 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
28025 TCTAAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28123 original size:19 final size:19
Alignment explanation
Indices: 28078--28123 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
28068 TCAAAATTTT
28078 AAATTACATAATTAAAAAAA
1 AAATTA-ATAATTAAAAAAA
*
28098 AATTTAATAA-TAAAATAAA
1 AAATTAATAATTAAAA-AAA
28117 AAATTAA
1 AAATTAA
28124 ATTAAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (19 bp):
AAATTAATAATTAAAAAAA
Found at i:28282 original size:38 final size:38
Alignment explanation
Indices: 28170--28273 Score: 117
Period size: 38 Copynumber: 2.7 Consensus size: 38
28160 TTTAAAAAAT
*
28170 AATTTAAAATGTTA-ATGTGAAATAATTTAAGAAATTAAA
1 AATTTAGAATGTTAGA-GTGAAAT-ATTTAAGAAATTAAA
*
28209 AATTTAGAAT-TTATG-GTAGTAAA-ATTTAAGAAATTAGA
1 AATTTAGAATGTTA-GAGT-G-AAATATTTAAGAAATTAAA
28247 AATTTAGAATGTTAGAGTGAAATATTT
1 AATTTAGAATGTTAGAGTGAAATATTT
28274 TGAAAATTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
37 3 0.05
38 35 0.62
39 15 0.27
40 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (38 bp):
AATTTAGAATGTTAGAGTGAAATATTTAAGAAATTAAA
Found at i:29110 original size:4 final size:4
Alignment explanation
Indices: 29101--29125 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
29091 ATTGTGTTCG
29101 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
29126 TTAAGATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:30873 original size:23 final size:24
Alignment explanation
Indices: 30847--30893 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
30837 TCCTTTTTAA
* *
30847 TTTTTATT-ATTTTTATTTTTCTT
1 TTTTTATTAACTTTTATTTATCTT
30870 TTTTTATTAACTTTTATTTATCTT
1 TTTTTATTAACTTTTATTTATCTT
30894 GGTTATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTTTATTAACTTTTATTTATCTT
Found at i:30884 original size:24 final size:23
Alignment explanation
Indices: 30847--30922 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
30837 TCCTTTTTAA
* *
30847 TTTTTATTATTTTTATTTTTCTT
1 TTTTTATTACTTTTATTTATCTT
30870 TTTTTATTAACTTTTATTTATC-T
1 TTTTTATT-ACTTTTATTTATCTT
**
30893 TGGTTATCTA-TTTTATTTAT-TT
1 TTTTTAT-TACTTTTATTTATCTT
*
30915 TATTTATT
1 TTTTTATT
30923 TTACTATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
21 1 0.02
22 16 0.36
23 15 0.34
24 12 0.27
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (23 bp):
TTTTTATTACTTTTATTTATCTT
Found at i:33073 original size:19 final size:19
Alignment explanation
Indices: 33051--33095 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33041 TTTTTATTTA
* *
33051 AAAATATATATTTTATGAT
1 AAAATATATAATTTAAGAT
*
33070 AAAATATTTAATTTAAGAT
1 AAAATATATAATTTAAGAT
33089 AAGAATA
1 AA-AATA
33096 AAATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (19 bp):
AAAATATATAATTTAAGAT
Found at i:33114 original size:30 final size:29
Alignment explanation
Indices: 33078--33154 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 29
33068 ATAAAATATT
**
33078 TAATTTAAGATAAGAATAAAATTTATTTAA
1 TAATTTAAGATAA-AATAAAATAAATTTAA
* *
33108 TAATTTAA-AGTAATAATATAATAAATTTAG
1 TAATTTAAGA-TAA-AATAAAATAAATTTAA
*
33138 TAAATTAAGATAAAATA
1 TAATTTAAGATAAAATA
33155 TATACTATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 5 0.13
30 33 0.85
31 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (29 bp):
TAATTTAAGATAAAATAAAATAAATTTAA
Found at i:33285 original size:25 final size:26
Alignment explanation
Indices: 33232--33293 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
33222 ATTTTAAAAA
* *
33232 TAAAATATTTTTAAATGAATTAATAT
1 TAAAATATATTTAAATCAATTAATAT
*
33258 TAAAATATATTT-AATCAGTTAATAT
1 TAAAATATATTTAAATCAATTAATAT
33283 TAAAA-ATATTT
1 TAAAATATATTT
33294 CTTAAAGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 6 0.18
25 16 0.48
26 11 0.33
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (26 bp):
TAAAATATATTTAAATCAATTAATAT
Found at i:33288 original size:26 final size:24
Alignment explanation
Indices: 33232--33307 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 24
33222 ATTTTAAAAA
*
33232 TAAAATATTTTTAAATGAATTAATAT
1 TAAAATATTTTT-AAT-AGTTAATAT
*
33258 TAAAATATATTTAATCAGTTAATAT
1 TAAAATATTTTTAAT-AGTTAATAT
33283 TAAAAATATTTCTTAA-AGTTAATAT
1 T-AAAATATTT-TTAATAGTTAATAT
33308 ATATAAGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
25 21 0.48
26 19 0.43
27 4 0.09
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (24 bp):
TAAAATATTTTTAATAGTTAATAT
Found at i:33302 original size:25 final size:23
Alignment explanation
Indices: 33232--33307 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 23
33222 ATTTTAAAAA
33232 TAAAATATTTTTAAATGAATTAATAT
1 TAAAATATTTTTAAA-G--TTAATAT
*
33258 TAAAATATATTTAATCAGTTAATAT
1 TAAAATATTTTTAA--AGTTAATAT
33283 TAAAAATATTTCTTAAAGTTAATAT
1 T-AAAATATTT-TTAAAGTTAATAT
33308 ATATAAGATA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
25 17 0.39
26 21 0.48
27 5 0.11
28 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (23 bp):
TAAAATATTTTTAAAGTTAATAT
Found at i:33938 original size:11 final size:11
Alignment explanation
Indices: 33922--33946 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33912 TTAGAATAAA
33922 ATAATATATAT
1 ATAATATATAT
33933 ATAATATATAT
1 ATAATATATAT
33944 ATA
1 ATA
33947 TACAAACGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATATATAT
Found at i:40459 original size:27 final size:28
Alignment explanation
Indices: 40420--40477 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
40410 TCTAATTTTA
*
40420 TAAAAATTAATTTAATAACTTT-TCATTT
1 TAAAAACTAATTTAA-AACTTTATCATTT
* *
40448 TAAAAACT-ATTTTAAACTTTATTATTT
1 TAAAAACTAATTTAAAACTTTATCATTT
40475 TAA
1 TAA
40478 TATTTTTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 6 0.23
27 13 0.50
28 7 0.27
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (28 bp):
TAAAAACTAATTTAAAACTTTATCATTT
Found at i:53334 original size:39 final size:40
Alignment explanation
Indices: 53290--53373 Score: 136
Period size: 39 Copynumber: 2.1 Consensus size: 40
53280 TGTAGTCAAA
53290 TGTGTTGTTGGGTTAGGGTTAGATGA-CAAA-GTCATGGAC
1 TGTGTTGTTGGGTTAGGGTTAGATGATCAAAGGT-ATGGAC
53329 TGTGTTGTTGGGTTAGGGTTAGATGATCAAAGGTATGGAC
1 TGTGTTGTTGGGTTAGGGTTAGATGATCAAAGGTATGGAC
*
53369 AGTGT
1 TGTGT
53374 CGGATATGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 26 0.62
40 14 0.33
41 2 0.05
ACGTcount: A:0.23, C:0.06, G:0.37, T:0.35
Consensus pattern (40 bp):
TGTGTTGTTGGGTTAGGGTTAGATGATCAAAGGTATGGAC
Found at i:54781 original size:36 final size:36
Alignment explanation
Indices: 54700--54844 Score: 213
Period size: 36 Copynumber: 4.1 Consensus size: 36
54690 AGATGAACAA
* * *
54700 TTGAATCGAAAGTGCGGATGCTTCATTCCGTTC-AC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
*
54735 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
54771 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATT-
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTC-TTC
* *
54807 TTGAATCGAAAGTGCTGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
54843 TT
1 TT
54845 ATTCACCTTC
Statistics
Matches: 100, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
35 32 0.32
36 66 0.66
37 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (36 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCTTC
Found at i:54839 original size:72 final size:71
Alignment explanation
Indices: 54700--54844 Score: 245
Period size: 72 Copynumber: 2.0 Consensus size: 71
54690 AGATGAACAA
*
54700 TTGAATCGAAAGTGCGGATGCTTCATTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCG
1 TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCG
54765 TTCTTC
66 TTCTTC
* * *
54771 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATTTTGAATCGAAAGTGCTGATGCTTCCTTTC
1 TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCA-CTTGAATCGAAAGTGCCGATGCTTCCTTTC
54836 GTTCTTC
65 GTTCTTC
54843 TT
1 TT
54845 ATTCACCTTC
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
71 32 0.46
72 37 0.54
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (71 bp):
TTGAATCGAAAGTGCCGATGCTTCATTCCGTTCACTTGAATCGAAAGTGCCGATGCTTCCTTTCG
TTCTTC
Found at i:58339 original size:17 final size:18
Alignment explanation
Indices: 58298--58336 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
58288 ATTATATTAT
58298 TAAAATA-TTAAATAAAG
1 TAAAATACTTAAATAAAG
*
58315 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAG
58333 TAAA
1 TAAA
58337 TACATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAATACTTAAATAAAG
Found at i:59072 original size:2 final size:2
Alignment explanation
Indices: 59067--59105 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
59057 TTTTTATTAT
59067 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 T
59106 GCGTATTCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:77642 original size:179 final size:179
Alignment explanation
Indices: 77342--77702 Score: 704
Period size: 179 Copynumber: 2.0 Consensus size: 179
77332 CAGTTTTTAT
77342 TTTTCAATGTTGATTTGGTATTATCTTATAGTGTCATGTCAACATCGGTATTAATTTTTAATGCA
1 TTTTCAATGTTGATTTGGTATTATCTTATAGTGTCATGTCAACATCGGTATTAATTTTTAATGCA
77407 TATGATCAAAACATAATCAAAACGTAATATTATATATATTTTAAATAATAATAATAATTGAATGA
66 TATGATCAAAACATAATCAAAACGTAATATTATATATATTTTAAATAATAATAATAATTGAATGA
*
77472 CCAAAATAGAAATTAAATAATAAGCTAATGACCAAAAAGTAGTTTGCCC
131 CCAAAATAAAAATTAAATAATAAGCTAATGACCAAAAAGTAGTTTGCCC
77521 TTTTCAATGTTGATTTGGTATTATCTTATAGTGTCATGTCAACATCGGTATTAATTTTTAATGCA
1 TTTTCAATGTTGATTTGGTATTATCTTATAGTGTCATGTCAACATCGGTATTAATTTTTAATGCA
*
77586 TATGATCAAAACATAATCAAAACGTAATATTATATATTTTTTAAATAATAATAATAATTGAATGA
66 TATGATCAAAACATAATCAAAACGTAATATTATATATATTTTAAATAATAATAATAATTGAATGA
77651 CCAAAATAAAAATTAAATAATAAGCTAATGACCAAAAAGTAGTTTGCCC
131 CCAAAATAAAAATTAAATAATAAGCTAATGACCAAAAAGTAGTTTGCCC
77700 TTT
1 TTT
77703 ATTATTCTGA
Statistics
Matches: 180, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
179 180 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (179 bp):
TTTTCAATGTTGATTTGGTATTATCTTATAGTGTCATGTCAACATCGGTATTAATTTTTAATGCA
TATGATCAAAACATAATCAAAACGTAATATTATATATATTTTAAATAATAATAATAATTGAATGA
CCAAAATAAAAATTAAATAATAAGCTAATGACCAAAAAGTAGTTTGCCC
Found at i:78406 original size:43 final size:42
Alignment explanation
Indices: 78279--78449 Score: 141
Period size: 42 Copynumber: 4.0 Consensus size: 42
78269 TAATCCTAAA
* * *
78279 TTTTCAATCCCACTTTGTACCTTTATAGTTAAGCTCCTC-ATT
1 TTTTCAATCTCACTTTTTACCTTTATAATTAAGCTCC-CAATT
* * * *
78321 TTTTCAATATAACTTTTTACCATTATAATTAATG-TCCTAATT
1 TTTTCAATCTCACTTTTTACCTTTATAATTAA-GCTCCCAATT
* * *
78363 TTTTTAATCTCACTTTTTACTTTTAGAATTAAGCTCCACAATT
1 TTTTCAATCTCACTTTTTACCTTTATAATTAAGCTCC-CAATT
** * * *
78406 TTTTCAATCAGACTCTTTACTTTTATAGTTTAAGC-CCCTAATT
1 TTTTCAATCTCACTTTTTACCTTTATA-ATTAAGCTCCC-AATT
78449 T
1 T
78450 AATCATTTTT
Statistics
Matches: 103, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 62 0.60
43 34 0.33
44 6 0.06
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (42 bp):
TTTTCAATCTCACTTTTTACCTTTATAATTAAGCTCCCAATT
Found at i:81530 original size:133 final size:133
Alignment explanation
Indices: 81292--81557 Score: 415
Period size: 133 Copynumber: 2.0 Consensus size: 133
81282 TGAAATTGGA
*
81292 GATCATTGCTGACGAATTAAAAAAAAAGACAAATGAACTTCACATAGTTACTATCAATTGAGGGC
1 GATCATTGCTGACGAATTAAAAAAAAAGACAAATGAACTTCACATAGTTACTATCAATTAAGGGC
* * *
81357 TCCAATGACGTATTCGTTGGGAACATGCTCAACAAAAGATAAATGCCCGAGATGCAGTCATTCGA
66 TCCAATAACGTATTCATTGGGAACATGCTCAAAAAAAGATAAATGCCCGAGATGCAGTCATTCGA
81422 GAC
131 GAC
* * ** * * *
81425 GATCATTGCTGACGAATTCAAGAAGTAGACAAATGAACTTTACATAGTTCCTATCAGTTAAGGGC
1 GATCATTGCTGACGAATTAAAAAAAAAGACAAATGAACTTCACATAGTTACTATCAATTAAGGGC
**
81490 TTTAATAACGTATTCATTGGGAACATGCTCAAAAAAAGATAAATGCCCGAGATGCAGTCATTCGA
66 TCCAATAACGTATTCATTGGGAACATGCTCAAAAAAAGATAAATGCCCGAGATGCAGTCATTCGA
81555 GAC
131 GAC
81558 TCCTTGGACC
Statistics
Matches: 120, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 120 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (133 bp):
GATCATTGCTGACGAATTAAAAAAAAAGACAAATGAACTTCACATAGTTACTATCAATTAAGGGC
TCCAATAACGTATTCATTGGGAACATGCTCAAAAAAAGATAAATGCCCGAGATGCAGTCATTCGA
GAC
Found at i:82295 original size:21 final size:21
Alignment explanation
Indices: 82269--82313 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
82259 GATTTCTGGG
* *
82269 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
82290 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
82311 CAA
1 CAA
82314 ACGACAGAAT
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:82861 original size:23 final size:24
Alignment explanation
Indices: 82818--82864 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
82808 TGACTACATG
*
82818 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
82842 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
82865 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:83177 original size:31 final size:31
Alignment explanation
Indices: 83139--83294 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
83129 AGGGTCGAGG
83139 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
83170 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
83201 GTTTACCTATGTCCTTCGGGACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
83232 GTTTACCTATGTCCTTCGAGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
83263 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
83294 G
1 G
83295 GTCCTTCGGG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:86614 original size:21 final size:21
Alignment explanation
Indices: 86588--86632 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
86578 GATTTCTGGG
* *
86588 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
86609 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
86630 CAA
1 CAA
86633 ACGACAGAAT
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:87180 original size:23 final size:24
Alignment explanation
Indices: 87137--87183 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
87127 TGACTACATG
*
87137 TGATATGAAAGTGTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
87161 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
87184 ACAGTATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:87191 original size:24 final size:24
Alignment explanation
Indices: 87139--87191 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
87129 ACTACATGTG
* **
87139 ATATGAAAGTGTATATGTGAAATG
1 ATATGAAAGTATATATGTGAAAAC
87163 ATATGAAA-TATATATGTGAAAAC
1 ATATGAAAGTATATATGTGAAAAC
87186 AGTATG
1 A-TATG
87192 TTATGAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.32
Consensus pattern (24 bp):
ATATGAAAGTATATATGTGAAAAC
Found at i:87492 original size:31 final size:31
Alignment explanation
Indices: 87454--87609 Score: 224
Period size: 31 Copynumber: 5.0 Consensus size: 31
87444 AGGGTAGAGG
87454 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
87485 GTTTACCTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
87516 GTTTACCTATGTCCTTCGGGACATACGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
87547 GTTTACCTATGTCCTTCGGGACATATAGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
87578 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
87609 G
1 G
87610 GTCCTTCGGG
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:92233 original size:37 final size:38
Alignment explanation
Indices: 92181--92257 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 38
92171 TAAAAAGAAG
* *
92181 ATTTTATCTCGCTTGAGATAATTTCCCTTGAAACA-AA
1 ATTTTATCTCCCTTGAGACAATTTCCCTTGAAACATAA
* *
92218 ATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACATAA
1 ATTTTATCTCCCTTGAGACAATTTCCCTTGAAACATAA
92256 AT
1 AT
92258 ATTGAAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
37 31 0.89
38 4 0.11
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.39
Consensus pattern (38 bp):
ATTTTATCTCCCTTGAGACAATTTCCCTTGAAACATAA
Found at i:92335 original size:37 final size:37
Alignment explanation
Indices: 92268--92354 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
92258 ATTGAAAACA
** * *
92268 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
92304 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
**
92341 TTTATCTTGAAACA
1 TTTCCCTTGAAACA
92355 TAAACATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.27
37 32 0.73
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:92357 original size:102 final size:102
Alignment explanation
Indices: 92181--92631 Score: 505
Period size: 102 Copynumber: 4.4 Consensus size: 102
92171 TAAAAAGAAG
* * *
92181 ATTTTATCTCGCTTGAGATAATTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
1 ATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
**
92246 TGAAACATAAATATTGAAAACATTTCCCTTGAAATGA
66 TGAAACATAAATATTGAAAACATTTCCCTTGAAACAA
* * * *
92283 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTATCT
1 ATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
* * *
92348 TGAAACATAAACATTGAAACCATTTCCCTTGAAATAA
66 TGAAACATAAATATTGAAAACATTTCCCTTGAAACAA
* * * *
92385 ATTTTGTATCTCTTGAGACAATTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
1 ATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
* * * *
92449 TGAAACA-AAATCTTTG-AATCTGTTTTCCTTGAAACAA
66 TGAAACATAAAT-ATTGAAAAC-ATTTCCCTTGAAACAA
* * * *
92486 ATTTCGTCTCCCTTGAGACAATTT-CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCT
1 ATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
* * * * * *
92550 TAAAACATATTTTATATCTCTTAAGACATTTTCTCTTAAAACAA
66 TGAAACATA----A-ATAT-TGAAAACA-TTTCCCTTGAAACAA
* *
92594 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAA
1 ATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAA
92632 ACTTTGAAAT
Statistics
Matches: 296, Mismatches: 40, Indels: 19
0.83 0.11 0.05
Matches are distributed among these distances:
100 15 0.05
101 104 0.35
102 126 0.43
106 2 0.01
107 3 0.01
108 35 0.12
109 11 0.04
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.39
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
TGAAACATAAATATTGAAAACATTTCCCTTGAAACAA
Found at i:92416 original size:36 final size:36
Alignment explanation
Indices: 92369--92457 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
92359 CATTGAAACC
*
92369 ATTTCCCTTGAAATAAATTTTGTATCTCTTGAGACA
1 ATTTCCCTTGAAACAAATTTTGTATCTCTTGAGACA
*
92405 ATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 ATTTCCCTTGAAACAAATTTTGTATCTCTTGAGACA
*
92441 GTTTCCCTTGAAACAAA
1 ATTTCCCTTGAAACAAA
92458 ATCTTTGAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.38
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTTGTATCTCTTGAGACA
Found at i:92488 original size:101 final size:101
Alignment explanation
Indices: 92181--92961 Score: 565
Period size: 101 Copynumber: 7.6 Consensus size: 101
92171 TAAAAAGAAG
* * * * * * *
92181 ATTTTATCTCGCTTGAGATAATTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
* * * **
92246 TGAAACATAAAT-ATTGAAAAC-ATTTCCCTTGAAATGA
65 TGAAACA-AAATCTTTG-AAACTGTTTTCCTTGAAACAA
* * * **
92283 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTATCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCT
* ** * *
92348 TGAAACATAAA-CATTGAAACCATTTCCCTTGAAATAA
65 TGAAACA-AAATCTTTGAAACTGTTTTCCTTGAAACAA
* * *
92385 ATTTTGTATCTCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
*
92450 GAAACAAAATCTTTGAATCTGTTTTCCTTGAAACAA
66 GAAACAAAATCTTTGAAACTGTTTTCCTTGAAACAA
* * * *
92486 ATTTCGTCTCCCTTGAGACAATTT-CCTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCT
* * *
92550 TAAAACATATTTTATATCTCTT-AAGAC-ATTTTCTCTTAAAACAA
65 TGAAACA-A----A-ATCT-TTGAA-ACTGTTTTC-CTTGAAACAA
* * * * * *
92594 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAAAAAAACTTTGAAATTATTTTCCTTGAAACAA
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTG--AAACAAATTTTG----T-CTCT-CTTGAGAC--
* * * * *
92659 AG-TT---TTG--TC--TATC-TTGAGACAGTTTCT-CTTAAAACAA
56 AGTTTCCCTTGAAACAAAATCTTTGAAACTGTTT-TCCTTGAAACAA
* * *
92696 ATTTTGTCT-CCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCGT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
* * *
92760 GAAAAAAAATCTTTGAATCTGTTTTCCTTAAAACAA
66 GAAACAAAATCTTTGAAACTGTTTTCCTTGAAACAA
** * **** * *
92796 ATTTCATGTCCCTTGAGACAGTTAATTTTAAAACAAATTTTGTCTCTCTTGAGA-ATTTTTCCCT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA-GTTTCCCT
* * * *
92860 TGCAACGAAATCTTT-AAATTTGTTTTCCTTGAAATAA
65 TGAAACAAAATCTTTGAAA-CTGTTTTCCTTGAAACAA
* ** * *
92897 ATTTCGTCTCCCTTGAGACAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCCCTT
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
92962 AAAATTTTGT
Statistics
Matches: 563, Mismatches: 75, Indels: 83
0.78 0.10 0.12
Matches are distributed among these distances:
91 2 0.00
92 2 0.00
93 7 0.01
94 2 0.00
95 3 0.01
99 14 0.02
100 43 0.08
101 260 0.46
102 146 0.26
103 4 0.01
104 4 0.01
106 1 0.00
107 11 0.02
108 33 0.06
109 5 0.01
110 4 0.01
111 6 0.01
112 1 0.00
114 3 0.01
115 2 0.00
116 7 0.01
117 2 0.00
118 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (101 bp):
ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
GAAACAAAATCTTTGAAACTGTTTTCCTTGAAACAA
Found at i:92562 original size:137 final size:130
Alignment explanation
Indices: 92282--93107 Score: 436
Period size: 137 Copynumber: 6.1 Consensus size: 130
92272 CCTTGAAATG
* **
92282 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGA-CAGTTTAT
1 AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA-----TCT---TTGA-ATCAGTTTCC
* * * * * *
92346 CTTGAAACATAAA-CATTGA-AACCATTTCCCTTGAAATAAATTTTGTATCTCTTGAGACAATTT
57 CTTGAAA-AAAAATCTTTGAGATCAATTT-CCTTGAAACAAATTTTGTCTCTCTTGAGACAATTT
* *
92409 CCCTTGAAACA
120 CTCTTAAAACA
* *
92420 AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTGAAACA
1 AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCAGTTTCCCTTGAAA-A
**
92485 AATTTCGTCTCCCTTGAGA-CAATTTCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCTC
65 AA---AATCT---TTGAGATCAATTTCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAATTTCTC
92549 TTAAAACA
123 TTAAAACA
* * * * * * * *
92557 TATTTTATATCTCTTAAGACATTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-CAGTTTCCC
1 AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA------ATCT-TTGA-ATCAGTTTCCC
* * * * * *
92621 TTGAAAAAAAAACTTTGAAATTATTTTCCTTGAAACAAAGTTTTGTCTATCTTGAGACAGTTTCT
58 TTGAAAAAAAATCTTTGAGATCAATTTCCTTGAAACAAA-TTTTGTCTCTCTTGAGACAATTTCT
92686 CTTAAAACA
122 CTTAAAACA
* * *
92695 AATTTTGTCTC-CTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGA-CAGTTTCCC
1 AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA------ATCT-TTGA-ATCAGTTTCCC
* ** * * *
92758 GTGAAAAAAAATCTTTGA-ATCTGTTTTCCTTAAAACAAATTTCATGTC-C-CTTGAGACAGTTA
58 TTGAAAAAAAATCTTTGAGATC-AATTTCCTTGAAACAAATTT--TGTCTCTCTTGAGACAATTT
* *
92820 ATTTTAAAACA
120 CTCTTAAAACA
* * * * ** *
92831 AATTTTGTCTCTCTTGAGA-ATTTTTCCCTTGCAACGAAATCTTTAAATTTGTTTTCCTTGAAAT
1 AATTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAAATCTTTGAATCAGTTTCCCTTGAAA-
** * * * * *
92895 AAATTTCGTCTCCCTTGAGA-CAGTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCC
64 AAA---AATCT---TTGAGATCAATTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCT
92959 CTT---A-A
122 CTTAAAACA
* * * **
92964 AATTTTGTCTCTCTGGAGACAATTTCCCTTGAAACAAAAATCTTTGAATCAATTTCCCTTGAAGC
1 AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAAATCTTTGAATCAGTTTCCCTTGAAAA
* * * ** * **
93029 AAAATCTTTTA-ATCTATTTTCCTT-AAA-AAA-ATCATCTCTCTCGAGACAATTTCTCTT-GGA
65 AAAATCTTTGAGATC-AATTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTAAAA
93089 -A
129 CA
*
93090 AATTTTGTCTCCCTTGAG
1 AATTTTGTCTCTCTTGAG
93108 GTATTTTCTT
Statistics
Matches: 556, Mismatches: 90, Indels: 96
0.75 0.12 0.13
Matches are distributed among these distances:
124 21 0.04
125 3 0.01
126 22 0.04
127 6 0.01
128 5 0.01
129 2 0.00
130 36 0.06
131 6 0.01
133 36 0.06
134 27 0.05
135 4 0.01
136 54 0.10
137 207 0.37
138 101 0.18
140 2 0.00
143 6 0.01
144 17 0.03
145 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (130 bp):
AATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCAGTTTCCCTTGAAAAA
AAATCTTTGAGATCAATTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTAAAACA
Found at i:92594 original size:173 final size:173
Alignment explanation
Indices: 92369--92757 Score: 550
Period size: 173 Copynumber: 2.2 Consensus size: 173
92359 CATTGAAACC
* * * *
92369 ATTTCCCTTGAAATAAATTTTGTATCTCTTGAGACAATTTCCCTTGAAACAAATTTTGTCTCTCT
1 ATTTCTCTTAAAACAAATTTTGTATCTCTTGAGACAATTTCCCTTAAAACAAATTTTGTCTCTCT
* * * *
92434 TGAGACAGTTTCCCTTGAAACAAAATCTTTG-AATCTGTTTTCCTTGAAACAAA-TTTCGTCTCC
66 TGAGACAGTTTCCCTTGAAAAAAAAACTTTGAAAT-TATTTTCCTTGAAACAAAGTTTCGTCTAC
*
92497 CTTGAGACAATTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACA
130 CTTGAGACAATTTCTCTTAAAACAAA-TTTTGTCTC-CTTGAGACA
* * * * *
92542 ATTTCTCTTAAAACATATTTTATATCTCTTAAGACATTTTCTCTTAAAACAAATTTTGTCTCTCT
1 ATTTCTCTTAAAACAAATTTTGTATCTCTTGAGACAATTTCCCTTAAAACAAATTTTGTCTCTCT
* *
92607 TGAGACAGTTTCCCTTGAAAAAAAAACTTTGAAATTATTTTCCTTGAAACAAAGTTTTGTCTATC
66 TGAGACAGTTTCCCTTGAAAAAAAAACTTTGAAATTATTTTCCTTGAAACAAAGTTTCGTCTACC
*
92672 TTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCCTTGAGACA
131 TTGAGACAATTTCTCTTAAAACAAATTTTGTCTCCTTGAGACA
* * *
92715 GTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAGTTTCCC
1 ATTTCTCTTAAAACAAATTTTGTATCTCTTGAGACAATTTCCC
92758 GTGAAAAAAA
Statistics
Matches: 189, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
173 147 0.78
174 32 0.17
175 10 0.05
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (173 bp):
ATTTCTCTTAAAACAAATTTTGTATCTCTTGAGACAATTTCCCTTAAAACAAATTTTGTCTCTCT
TGAGACAGTTTCCCTTGAAAAAAAAACTTTGAAATTATTTTCCTTGAAACAAAGTTTCGTCTACC
TTGAGACAATTTCTCTTAAAACAAATTTTGTCTCCTTGAGACA
Found at i:92598 original size:36 final size:36
Alignment explanation
Indices: 92472--92627 Score: 172
Period size: 36 Copynumber: 4.3 Consensus size: 36
92462 TTGAATCTGT
* * * *
92472 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAA
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
* *
92507 TTTC-CTTGAAACAAAGTTTTGTCTCTCTTGAGACAA
1 TTTCTCTTAAAACAAA-TTTTGTCTCTCTTGAGACAG
* * * * *
92543 TTTCTCTTAAAACATATTTTATATCTCTTAAGACAT
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
92579 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
*
92615 TTTCCCTTGAAAA
1 TTTCTCTT-AAAA
92628 AAAAACTTTG
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
35 15 0.14
36 76 0.73
37 13 0.12
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:92703 original size:36 final size:35
Alignment explanation
Indices: 92653--92755 Score: 170
Period size: 35 Copynumber: 2.9 Consensus size: 35
92643 ATTTTCCTTG
92653 AAACAAAGTTTTGTCTATCTTGAGACAGTTTCTCTTA
1 AAACAAA-TTTTGTCT-TCTTGAGACAGTTTCTCTTA
*
92690 AAACAAATTTTGTCTCCTTGAGACAGTTTCTCTTA
1 AAACAAATTTTGTCTTCTTGAGACAGTTTCTCTTA
92725 AAACAAATTTTGTCTCTCTTGAGACAGTTTC
1 AAACAAATTTTGTCT-TCTTGAGACAGTTTC
92756 CCGTGAAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 34 0.54
36 22 0.35
37 7 0.11
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (35 bp):
AAACAAATTTTGTCTTCTTGAGACAGTTTCTCTTA
Found at i:92964 original size:36 final size:36
Alignment explanation
Indices: 92882--93001 Score: 124
Period size: 36 Copynumber: 3.5 Consensus size: 36
92872 TTTAAATTTG
* * *
92882 TTTT-CCTTGAAATAAATTTCGTCTCCCTTGAGACA
1 TTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* ** *
92917 GTTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACA
1 TTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
92953 TTTTCCCTT---A-AAATTTTGTCTCTCTGGAGACA
1 TTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
92985 ATTTCCCTTGAAACAAA
1 TTTTCCCTTGAAACAAA
93002 AATCTTTGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
32 29 0.43
33 1 0.01
35 4 0.06
36 34 0.50
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.41
Consensus pattern (36 bp):
TTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:92972 original size:32 final size:32
Alignment explanation
Indices: 92931--92993 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
92921 CTTTTAAAAC
* *
92931 AAATTTTGTCTCTCTTGAGACATTTTCCCTTA
1 AAATTTTGTCTCTCTGGAGACAATTTCCCTTA
92963 AAATTTTGTCTCTCTGGAGACAATTTCCCTT
1 AAATTTTGTCTCTCTGGAGACAATTTCCCTT
92994 GAAACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (32 bp):
AAATTTTGTCTCTCTGGAGACAATTTCCCTTA
Found at i:93042 original size:29 final size:30
Alignment explanation
Indices: 92983--93059 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 30
92973 TCTCTGGAGA
92983 CAATTTCCCTTGAAACAAAAATCTTTGAAT
1 CAATTTCCCTTGAAACAAAAATCTTTGAAT
* *
93013 CAATTTCCCTTGAAGC-AAAATCTTTTAAT
1 CAATTTCCCTTGAAACAAAAATCTTTGAAT
* *
93042 CTATTTTCCTT-AAA-AAAA
1 CAATTTCCCTTGAAACAAAA
93060 TCATCTCTCT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.12
29 21 0.51
30 15 0.37
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.36
Consensus pattern (30 bp):
CAATTTCCCTTGAAACAAAAATCTTTGAAT
Found at i:93051 original size:163 final size:161
Alignment explanation
Indices: 92853--93164 Score: 344
Period size: 163 Copynumber: 1.9 Consensus size: 161
92843 CTTGAGAATT
* * * * * * *
92853 TTTCCCTTGCAACGAAATCTTTAAATTTGTTTTCCTTGAAATAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGCAACAAAATCTTTAAATCTATTTTCCTT-AAA-AAA-ATCATCTCCCTCGAGACAA
* * *
92918 TTTCTTTTAAAACAAATTTTGTCTCTCTTGAGACATTTTCCCTT-AA-AA-TTTTGTCTCTCTGG
63 TTTCTCTT-AAA-AAATTTTGTCTCCCTTGAGACATTTTCCCTTAAACAAGTTTCGTCTCTCTGG
*
92980 AGACAATTTCCCTTGAAACAAAAATCTTTGAATCAA
126 AGACAATTTCCCTTAAAACAAAAATCTTTGAATCAA
* *
93016 TTTCCCTTG-AAGCAAAATCTTTTAATCTATTTTCCTTAAAAAAATCATCTCTCTCGAGACAATT
1 TTTCCCTTGCAA-CAAAATCTTTAAATCTATTTTCCTTAAAAAAATCATCTCCCTCGAGACAATT
** ** ** *
93080 TCTCTTGGAAAATTTTGTCTCCCTTGAGGTATTTTCTTTTGAAACTAAGTTTCGTCTCTCTTGAG
65 TCTCTTAAAAAATTTTGTCTCCCTTGAGACATTTTCCCTT-AAAC-AAGTTTCGTCTCTCTGGAG
93145 ACAATTTCCCTTAAAACAAA
128 ACAATTTCCCTTAAAACAAA
93165 GTTTTGTAAT
Statistics
Matches: 123, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
158 26 0.21
159 1 0.01
160 23 0.19
161 3 0.02
162 7 0.06
163 63 0.51
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (161 bp):
TTTCCCTTGCAACAAAATCTTTAAATCTATTTTCCTTAAAAAAATCATCTCCCTCGAGACAATTT
CTCTTAAAAAATTTTGTCTCCCTTGAGACATTTTCCCTTAAACAAGTTTCGTCTCTCTGGAGACA
ATTTCCCTTAAAACAAAAATCTTTGAATCAA
Found at i:95728 original size:50 final size:50
Alignment explanation
Indices: 95667--95768 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
95657 AAAATTATTG
95667 AATACAAAACAAGATATCCCAATAATCAATTTTAAAATAAATACATACTA
1 AATACAAAACAAGATATCCCAATAATCAATTTTAAAATAAATACATACTA
95717 AATACAAAACAAGATATCCCAATAATCAATTTTAAAATAAATACATACTA
1 AATACAAAACAAGATATCCCAATAATCAATTTTAAAATAAATACATACTA
95767 AA
1 AA
95769 ATAGGATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (50 bp):
AATACAAAACAAGATATCCCAATAATCAATTTTAAAATAAATACATACTA
Found at i:95981 original size:30 final size:30
Alignment explanation
Indices: 95945--96010 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
95935 CGGCATGACA
95945 CCCAGACCACCTGGCGACCTTCATTGGTCG
1 CCCAGACCACCTGGCGACCTTCATTGGTCG
*
95975 CCCAGACCACCTGGCGACCTTTATTGGTCG
1 CCCAGACCACCTGGCGACCTTCATTGGTCG
96005 CCCAGA
1 CCCAGA
96011 TCACTTGGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.18, C:0.39, G:0.23, T:0.20
Consensus pattern (30 bp):
CCCAGACCACCTGGCGACCTTCATTGGTCG
Found at i:106198 original size:3 final size:3
Alignment explanation
Indices: 106192--106264 Score: 78
Period size: 3 Copynumber: 24.3 Consensus size: 3
106182 ATAATATATT
* *
106192 TAA TAA TAA T-A TAA T-A TATA TATA TAA TAA TAA TAT TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA
**
106237 TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
106265 TTAAGTAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 4 0.07
3 48 0.81
4 7 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:106200 original size:15 final size:15
Alignment explanation
Indices: 106180--106268 Score: 59
Period size: 12 Copynumber: 6.0 Consensus size: 15
106170 TTGGGCCTTG
106180 TAATAATATATTTAA
1 TAATAATATATTTAA
106195 TAATAATATAATATATATATA
1 TAAT-A-AT-ATAT-T-TA-A
106216 TAATAATAATATTT-A
1 TAATAAT-ATATTTAA
106231 TAATAATA-A--TAA
1 TAATAATATATTTAA
106243 TAAT-A-AT-TTTAA
1 TAATAATATATTTAA
106255 TAATAATA-ATTTAA
1 TAATAATATATTTAA
106269 GTAAAATGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 27
0.69 0.00 0.31
Matches are distributed among these distances:
10 1 0.02
11 2 0.03
12 12 0.20
13 2 0.03
14 7 0.11
15 12 0.20
16 1 0.02
17 3 0.05
18 5 0.08
19 8 0.13
20 3 0.05
21 5 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATATATTTAA
Found at i:107442 original size:76 final size:76
Alignment explanation
Indices: 106440--107415 Score: 1798
Period size: 76 Copynumber: 12.9 Consensus size: 76
106430 ATTGAAGGGT
* *
106440 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGCAGGACTTACAGA
1 TTTGAAAACATCAAAAAGATCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGA
* *
106505 TGACCCGAAGAC
65 TGACCCTAAGGC
* *
106517 -TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGCAGGACTTACAGA
1 TTTGAAAACATCAAAAAGATCCCGAAGGC-TTTTTGGAAACATCATGCACTGAAGGACTTACAGA
106581 TGACCCTAAGGC
65 TGACCCTAAGGC
106593 TTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
106657 GACCCTAAGGC
66 GACCCTAAGGC
*
106668 TTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACAGCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
106732 GACCCTAAGGC
66 GACCCTAAGGC
106743 TTT-AAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
*
106807 GACCCTAAGGT
66 GACCCTAAGGC
106818 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
106883 GACCCTAAGGC
66 GACCCTAAGGC
*
106894 TTTGAAAACATCAAAAAGATCCCAAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
106959 GACCCTAAGGC
66 GACCCTAAGGC
*
106970 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTAGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
*
107035 GACCCTAAGGA
66 GACCCTAAGGC
107046 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
107111 GACCCTAAGGC
66 GACCCTAAGGC
*
107122 TTTGAAAACATCAAAAAAATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
107187 GACCCTAAGGC
66 GACCCTAAGGC
107198 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
107263 GACCCTAAGGC
66 GACCCTAAGGC
107274 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
107339 GACCCTAAGGC
66 GACCCTAAGGC
107350 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
107415 G
66 G
107416 TGGGAAATAG
Statistics
Matches: 881, Mismatches: 16, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
75 196 0.22
76 683 0.78
77 2 0.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGATCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGAT
GACCCTAAGGC
Found at i:109691 original size:35 final size:34
Alignment explanation
Indices: 109652--109724 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
109642 CATTACTTCT
109652 TATTGAGATGAACCTTCAAAATGCCCAAATATTC
1 TATTGAGATGAACCTTCAAAATGCCCAAATATTC
** * *
109686 ATATTGTTATGAGCCTTCAAAATGCCCCAATATTC
1 -TATTGAGATGAACCTTCAAAATGCCCAAATATTC
109721 TATT
1 TATT
109725 TCTGGTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (34 bp):
TATTGAGATGAACCTTCAAAATGCCCAAATATTC
Found at i:110779 original size:114 final size:114
Alignment explanation
Indices: 110579--110791 Score: 381
Period size: 114 Copynumber: 1.9 Consensus size: 114
110569 GATCATGCAG
* * *
110579 TTCATCTTTTAATTCTAATGATTGGTTTTAGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
110644 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTATGAGCAAA
* *
110693 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCTAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
110758 ACACTTCCAGAAGATGCTATTGGATCTCCTTATT
66 ACACTTCCAGAAGATGCTATTGGATCTCCTTATT
110792 CCTACTACGA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 94 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCTAATGATTGGTTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGATCTCCTTATTTATACTATGAGCAAA
Found at i:119374 original size:3 final size:3
Alignment explanation
Indices: 119368--119443 Score: 84
Period size: 3 Copynumber: 25.3 Consensus size: 3
119358 ATAATATATT
* *
119368 TAA TAA TAA T-A TAA TATA TATA TAA T-A TAA TAA TAA TAT TTA TAA
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
**
119413 TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
119444 TTAAGTAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
2 4 0.06
3 51 0.82
4 7 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:119376 original size:15 final size:15
Alignment explanation
Indices: 119356--119420 Score: 75
Period size: 15 Copynumber: 4.5 Consensus size: 15
119346 TTGGGCCTTG
*
119356 TAATAATATATTTAA
1 TAATAATATATATAA
119371 TAATAATATA-AT-A
1 TAATAATATATATAA
119384 T-AT-ATATAATATAA
1 TAATAATAT-ATATAA
*
119398 TAATAATATTTATAA
1 TAATAATATATATAA
119413 TAATAATA
1 TAATAATA
119421 ATAATAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
11 4 0.09
12 3 0.07
13 4 0.09
14 3 0.07
15 25 0.58
16 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATAATATATATAA
Found at i:119384 original size:18 final size:20
Alignment explanation
Indices: 119356--119443 Score: 108
Period size: 21 Copynumber: 4.2 Consensus size: 20
119346 TTGGGCCTTG
119356 TAATAATATATTTAATAATAA
1 TAATAATAT-TTTAATAATAA
119377 T-ATAATATATATATAAT-ATAA
1 TAATAATAT-T-T-TAATAATAA
119398 TAATAATATTTATAATAATAA
1 TAATAATATTT-TAATAATAA
119419 TAATAATAATTTTAATAATAA
1 TAATAAT-ATTTTAATAATAA
119440 TAAT
1 TAAT
119444 TTAAGTAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
20 15 0.24
21 32 0.52
22 15 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATAATATTTTAATAATAA
Found at i:119427 original size:24 final size:24
Alignment explanation
Indices: 119368--119443 Score: 106
Period size: 24 Copynumber: 3.3 Consensus size: 24
119358 ATAATATATT
*
119368 TAATAATAAT-ATAATATATAT-A
1 TAATAATAATAATAATATTTATAA
119390 TAAT-ATAATAATAATATTTATAA
1 TAATAATAATAATAATATTTATAA
119413 TAATAATAATAATAAT-TTTAATAA
1 TAATAATAATAATAATATTT-ATAA
119437 TAATAAT
1 TAATAAT
119444 TTAAGTAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
21 5 0.10
22 14 0.29
23 8 0.16
24 22 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TAATAATAATAATAATATTTATAA
Found at i:120764 original size:21 final size:21
Alignment explanation
Indices: 120746--120788 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
120736 ACATTTAAAT
120746 CTCAAATC-TAAACCCTTAAC
1 CTCAAATCATAAACCCTTAAC
* *
120766 CTCAAATCATAAACTCTAAAC
1 CTCAAATCATAAACCCTTAAC
120787 CT
1 CT
120789 TAAAACTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.26
Consensus pattern (21 bp):
CTCAAATCATAAACCCTTAAC
Found at i:120800 original size:28 final size:27
Alignment explanation
Indices: 120740--120808 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
120730 CCCGAAACAT
*
120740 TTAAATCTCAAA-TCTAAACCCTTAACC
1 TTAAATCT-AAACTCTAAACCCTTAAAC
*
120767 TCAAATCATAAACTCTAAA-CCTTAAAAC
1 TTAAATC-TAAACTCTAAACCCTT-AAAC
120795 TTAAATCTTAAACT
1 TTAAATC-TAAACT
120809 TAGCCCTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (27 bp):
TTAAATCTAAACTCTAAACCCTTAAAC
Found at i:125320 original size:35 final size:36
Alignment explanation
Indices: 125274--125353 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 36
125264 AACAAAGACA
125274 TCAATTACATTCTAAACC-CTAAATTCC-AAAATACT
1 TCAATTACATTCTAAACCTC-AAATTCCAAAAATACT
*
125309 TCAATTACATTCTAAATCTCAAATTCCAAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCCAAAAATACT
*
125345 TTAA-TACAT
1 TCAATTACAT
125354 GCCCAACCCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 29 0.71
36 12 0.29
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.34
Consensus pattern (36 bp):
TCAATTACATTCTAAACCTCAAATTCCAAAAATACT
Found at i:125367 original size:35 final size:35
Alignment explanation
Indices: 125274--125369 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
125264 AACAAAGACA
* * *
125274 TCAATTACATTCTAAACCCTAAATTCCAAAATACT
1 TCAATTACATGCCAAACCCCAAATTCCAAAATACT
* * * *
125309 TCAATTACATTCTAAATCTCAAATTCCAAAAATACT
1 TCAATTACATGCCAAACCCCAAATTCC-AAAATACT
* *
125345 TTAA-TACATGCCCAACCCCAAATTC
1 TCAATTACATGCCAAACCCCAAATTC
125370 ATAATCCATT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 40 0.78
36 11 0.22
ACGTcount: A:0.42, C:0.27, G:0.01, T:0.30
Consensus pattern (35 bp):
TCAATTACATGCCAAACCCCAAATTCCAAAATACT
Found at i:125629 original size:14 final size:14
Alignment explanation
Indices: 125610--125649 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
125600 TTTCGACTTG
125610 AATTGATTCAAAAA
1 AATTGATTCAAAAA
125624 AATTGATTCAAAAA
1 AATTGATTCAAAAA
*
125638 AATTGATACAAA
1 AATTGATTCAAA
125650 TTGATTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (14 bp):
AATTGATTCAAAAA
Found at i:126402 original size:34 final size:35
Alignment explanation
Indices: 126326--126403 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 35
126316 GGGTTGGGCG
* *
126326 TGTAATTGAAGTATTTTGGAATTTGAGGTTTATAA
1 TGTAATTGAAGCATTTTGGAATTTGAGGTTTAGAA
* *
126361 TGTAATTGAAGCATTTTGGATTTTG-GTTTTAGAA
1 TGTAATTGAAGCATTTTGGAATTTGAGGTTTAGAA
126395 TGTAATTGA
1 TGTAATTGA
126404 TGAATGTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 16 0.41
35 23 0.59
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.46
Consensus pattern (35 bp):
TGTAATTGAAGCATTTTGGAATTTGAGGTTTAGAA
Found at i:131520 original size:35 final size:35
Alignment explanation
Indices: 131481--131557 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
131471 ATTTGTTTCT
*
131481 TGCAATATAAGGAACTA-TCTTAACTTGAAACGCTA
1 TGCAATAGAAGGAACTACT-TTAACTTGAAACGCTA
131516 TGCAATAGAAGGAACTACTTTAACTTGAAACGCTA
1 TGCAATAGAAGGAACTACTTTAACTTGAAACGCTA
131551 TGCAATA
1 TGCAATA
131558 AACTTGGGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (35 bp):
TGCAATAGAAGGAACTACTTTAACTTGAAACGCTA
Found at i:140723 original size:16 final size:18
Alignment explanation
Indices: 140681--140723 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
140671 TTATGAGGTG
140681 AAAAATGAT-ATTATTGT
1 AAAAATGATAATTATTGT
140698 AAAAAT-ATAATTATT-T
1 AAAAATGATAATTATTGT
140714 -AAAATGATAA
1 AAAAATGATAA
140724 CTAACTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.21
16 7 0.29
17 12 0.50
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (18 bp):
AAAAATGATAATTATTGT
Found at i:141006 original size:9 final size:9
Alignment explanation
Indices: 140985--141014 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
140975 ATAAAAAAAT
140985 TAATTTG-G
1 TAATTTGCG
140993 TAATTTGCG
1 TAATTTGCG
141002 TAATTTGCG
1 TAATTTGCG
141011 TAAT
1 TAAT
141015 CTTATATACC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (9 bp):
TAATTTGCG
Found at i:142622 original size:75 final size:75
Alignment explanation
Indices: 142529--142674 Score: 274
Period size: 75 Copynumber: 1.9 Consensus size: 75
142519 TACTAGCTAA
*
142529 TCTCAATCATCCGAGCCAAGAATTAGATTCGGTAAACATTTCACCAAAACATTGAATTTTGCTCG
1 TCTCAATAATCCGAGCCAAGAATTAGATTCGGTAAACATTTCACCAAAACATTGAATTTTGCTCG
142594 CTTACTATTG
66 CTTACTATTG
*
142604 TCTCAATAATTCGAGCCAAGAATTAGATTCGGTAAACATTTCACCAAAACATTGAATTTTGCTCG
1 TCTCAATAATCCGAGCCAAGAATTAGATTCGGTAAACATTTCACCAAAACATTGAATTTTGCTCG
142669 CTTACT
66 CTTACT
142675 GTTTTTATTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (75 bp):
TCTCAATAATCCGAGCCAAGAATTAGATTCGGTAAACATTTCACCAAAACATTGAATTTTGCTCG
CTTACTATTG
Found at i:144421 original size:59 final size:60
Alignment explanation
Indices: 144343--144458 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
144333 ATTTGACACG
* * * *
144343 ATGCCTTCAACTTCTAGGGG-AGACATTCAACTGCTAGCTTATTCGACCTCAATGTCGAT
1 ATGCCTTCAACTTCAAGGGGAAGACATTCAACTACCAGCTTATTCGACCTAAATGTCGAT
* * * *
144402 ATGCCTTCAAGTTCAAGGGGAAGGCATTCAACTACCGGCTTGTTCGACCTAAATGTC
1 ATGCCTTCAACTTCAAGGGGAAGACATTCAACTACCAGCTTATTCGACCTAAATGTC
144459 AACATCGTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
59 18 0.38
60 30 0.62
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (60 bp):
ATGCCTTCAACTTCAAGGGGAAGACATTCAACTACCAGCTTATTCGACCTAAATGTCGAT
Found at i:148135 original size:29 final size:29
Alignment explanation
Indices: 148103--148180 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
148093 ACCCATTTCG
*
148103 AATTAATTACCAGAATAGCACCAAAACCA
1 AATTATTTACCAGAATAGCACCAAAACCA
*
148132 AATTATTTACCAGAATAGCACCAAAACCG
1 AATTATTTACCAGAATAGCACCAAAACCA
148161 AATTATTTACCAGAATAGCA
1 AATTATTTACCAGAATAGCA
148181 GTGGTCAACG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.47, C:0.22, G:0.09, T:0.22
Consensus pattern (29 bp):
AATTATTTACCAGAATAGCACCAAAACCA
Found at i:149159 original size:19 final size:19
Alignment explanation
Indices: 149121--149159 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
149111 ACAAACAAAA
* *
149121 TAAATAAAAAGTTCATAAT
1 TAAATAAAAACTTCACAAT
*
149140 TAAATAAAAACTTTACAAT
1 TAAATAAAAACTTCACAAT
149159 T
1 T
149160 GCTGGTAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (19 bp):
TAAATAAAAACTTCACAAT
Found at i:151426 original size:16 final size:16
Alignment explanation
Indices: 151407--151453 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
151397 CACAAAAAAT
*
151407 AATAAAAAATTAGTAC
1 AATAAAAAATTAGTAA
* *
151423 AAT-AAAATTTAATAA
1 AATAAAAAATTAGTAA
*
151438 AATAATAAATTAGTAA
1 AATAAAAAATTAGTAA
151454 TTAATATAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (16 bp):
AATAAAAAATTAGTAA
Found at i:155822 original size:4 final size:4
Alignment explanation
Indices: 155807--155840 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
155797 GAAAAGGCAC
*
155807 TCAT TTAT TCAT TCAT TCAT TCAT TCAT TCAT TC
1 TCAT TCAT TCAT TCAT TCAT TCAT TCAT TCAT TC
155841 TAGTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (4 bp):
TCAT
Found at i:160302 original size:16 final size:17
Alignment explanation
Indices: 160268--160307 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
160258 TGAAGGATAT
*
160268 TTTTTTTATTAATTTTAA
1 TTTTTTTATTAA-TATAA
160286 TTTTTTTATTAA-ATAA
1 TTTTTTTATTAATATAA
160302 TTTTTT
1 TTTTTT
160308 ATACAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.43
18 12 0.57
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTTTATTAATATAA
Found at i:161109 original size:75 final size:70
Alignment explanation
Indices: 161020--161182 Score: 208
Period size: 69 Copynumber: 2.3 Consensus size: 70
161010 AAATATAAAA
*
161020 ATATTATT-AAATTTAATTT-TTTATATTTTAAAATATAAAAAAATCTTCAAGATTGTTAAATTT
1 ATATT-TTAAAATTTAATTTACTTATATTTTAAAATAT--AAAAA--TT-AAGATT-TTAAATTT
161083 AATAATATTTTT
59 AATAATATTTTT
*
161095 ATATTTTAAAATTT-ATTTACTTATATTTTAAAATATAAAAATTAATATTTTAAATTTAATAATA
1 ATATTTTAAAATTTAATTTACTTATATTTTAAAATATAAAAATTAAGATTTTAAATTTAATAATA
161159 TTTTT
66 TTTTT
*
161164 ATATCTTAAAATTT-ATTTA
1 ATATTTTAAAATTTAATTTA
161183 TTGATAATTT
Statistics
Matches: 83, Mismatches: 3, Indels: 10
0.86 0.03 0.10
Matches are distributed among these distances:
69 38 0.46
70 5 0.06
71 2 0.02
73 5 0.06
74 6 0.07
75 27 0.33
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (70 bp):
ATATTTTAAAATTTAATTTACTTATATTTTAAAATATAAAAATTAAGATTTTAAATTTAATAATA
TTTTT
Found at i:161174 original size:69 final size:73
Alignment explanation
Indices: 161040--161182 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 73
161030 ATTTAATTTT
*
161040 TTATATTTTAAAATATAAAAAAATCTTCAAGATTGTTAAATTTAATAATATTTTTATATTTTAAA
1 TTATATTTTAAAATAT-AAAAAA-CTTCAAGATTGTTAAATTTAATAATATTTTTATATCTTAAA
161105 ATTTATTTAC
64 ATTTATTTAC
*
161115 TTATATTTTAAAATAT-AAAAA-TT-AATATT-TTAAATTTAATAATATTTTTATATCTTAAAAT
1 TTATATTTTAAAATATAAAAAACTTCAAGATTGTTAAATTTAATAATATTTTTATATCTTAAAAT
161176 TTATTTA
66 TTATTTA
161183 TTGATAATTT
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
69 38 0.58
70 5 0.08
71 2 0.03
73 5 0.08
75 16 0.24
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (73 bp):
TTATATTTTAAAATATAAAAAACTTCAAGATTGTTAAATTTAATAATATTTTTATATCTTAAAAT
TTATTTAC
Found at i:165542 original size:37 final size:37
Alignment explanation
Indices: 165492--165562 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
165482 CACGTTTTGG
165492 GAACCTTTATGTCCAACTGAGCTGCAATCCAACTCAC
1 GAACCTTTATGTCCAACTGAGCTGCAATCCAACTCAC
*
165529 GAACCTTTATGTCCAGCTGAGCTGCAATCCAACT
1 GAACCTTTATGTCCAACTGAGCTGCAATCCAACT
165563 TGCATATTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.25
Consensus pattern (37 bp):
GAACCTTTATGTCCAACTGAGCTGCAATCCAACTCAC
Found at i:173377 original size:15 final size:15
Alignment explanation
Indices: 173318--173377 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
173308 CTATGAGTAC
* *
173318 ATGTTATATGTGAAG
1 ATGTTCTATGTGAAT
173333 ATGTTCTATGTGAAT
1 ATGTTCTATGTGAAT
* *
173348 ATGTGCTAAGTGAAT
1 ATGTTCTATGTGAAT
*
173363 ATGTTCTATGCGAAT
1 ATGTTCTATGTGAAT
173378 GTAAATTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (15 bp):
ATGTTCTATGTGAAT
Found at i:173527 original size:24 final size:24
Alignment explanation
Indices: 173495--173545 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
173485 AGAGTCGAGG
*
173495 ATTCTACGCGGTCCTTCGGGACAA
1 ATTCTACGCGATCCTTCGGGACAA
*
173519 ATTCTACGCGATCTTTCGGGACAA
1 ATTCTACGCGATCCTTCGGGACAA
173543 ATT
1 ATT
173546 TATGTGGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (24 bp):
ATTCTACGCGATCCTTCGGGACAA
Found at i:173601 original size:24 final size:24
Alignment explanation
Indices: 173540--173602 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
173530 TCTTTCGGGA
*
173540 CAAATT-TATGTGGCACTTCGGTG
1 CAAATTCTATGTGGCACTTCAGTG
* *
173563 CATATTCTATATGGCACTTCAGTG
1 CAAATTCTATGTGGCACTTCAGTG
*
173587 CAAATTCTGTGTGGCA
1 CAAATTCTATGTGGCA
173603 GTGGTGACTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 5 0.15
24 28 0.85
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (24 bp):
CAAATTCTATGTGGCACTTCAGTG
Found at i:173936 original size:9 final size:9
Alignment explanation
Indices: 173922--173948 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
173912 AGGTTCAGAG
173922 GAGTAAGCA
1 GAGTAAGCA
173931 GAGTAAGCA
1 GAGTAAGCA
173940 GAGTAAGCA
1 GAGTAAGCA
173949 AGGGAAAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.33, T:0.11
Consensus pattern (9 bp):
GAGTAAGCA
Found at i:199448 original size:31 final size:31
Alignment explanation
Indices: 199412--199500 Score: 124
Period size: 31 Copynumber: 2.8 Consensus size: 31
199402 AGATTTTTTT
* *
199412 TAATTTAATTACTTAACTTCCAAATTACTCC
1 TAATTTAATCACTTAACTTTCAAATTACTCC
* *
199443 TAATTTAATCACTTAACTTTTAAATTACTCT
1 TAATTTAATCACTTAACTTTCAAATTACTCC
*
199474 TAATTTAATCATTCTAACTTTCAAATT
1 TAATTTAATCACT-TAACTTTCAAATT
199501 TATTTTTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 39 0.76
32 12 0.24
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (31 bp):
TAATTTAATCACTTAACTTTCAAATTACTCC
Found at i:202290 original size:2 final size:2
Alignment explanation
Indices: 202283--202314 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
202273 ATCTAAAGAC
202283 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
202315 TAGTGATGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:202809 original size:23 final size:24
Alignment explanation
Indices: 202783--202840 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 24
202773 ATTTAATTTA
*
202783 TAAAAATTTAAATTCTAAA-TAAC
1 TAAAAATTTAAATTATAAATTAAC
* * *
202806 TAAACATAT-AATTATAAATTAAT
1 TAAAAATTTAAATTATAAATTAAC
*
202829 TAAAATTTTAAA
1 TAAAAATTTAAA
202841 ATTAATTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
22 8 0.31
23 16 0.62
24 2 0.08
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAAAATTTAAATTATAAATTAAC
Found at i:205233 original size:454 final size:454
Alignment explanation
Indices: 204386--205824 Score: 2824
Period size: 454 Copynumber: 3.2 Consensus size: 454
204376 TATATATTTT
204386 TCTTAATGATAACTGTTGTTAACCGTTCACTTCTTTTAATTTAAAACGTGAAATATGATTAATGA
1 TCTTAATGATAACTGTTGTTAACCGTTCACTTCTTTTAATTTAAAACGTGAAATATGATTAATGA
204451 TCATACAAATGCATGAAAAGAGATGAGTGTATCGAACAAGATGATAAACAATAATCTTAGAATGA
66 TCATACAAATGCATGAAAAGAGATGAGTGTATCGAACAAGATGATAAACAATAATCTTAGAATGA
204516 GAGAGAGAGCTCTTCTTCAACTTTATTTGACAGTTTATACAAGTACTCCTAATATTAGTGTCAAG
131 GAGAGAGAGCTCTTCTTCAACTTTATTTGACAGTTTATACAAGTACTCCTAATATTAGTGTCAAG
204581 TTTAAAGGCGATGGTGATTATTTGTAGGTGACAAGACGTGTAGATTTAATCGTATTAAATAGATT
196 TTTAAAGGCGATGGTGATTATTTGTAGGTGACAAGACGTGTAGATTTAATCGTATTAAATAGATT
204646 GTAACAGTTATAAAAATGTATAAATTTGATAGTTATAACGTGCCAATGACAATCATTAAAAGTAT
261 GTAACAGTTATAAAAATGTATAAATTTGATAGTTATAACGTGCCAATGACAATCATTAAAAGTAT
204711 GATTTTATGAAGAAAATATAAAAGAGATGTACATATACGTGTGAGCGTGTGTGAAACGTTAATTG
326 GATTTTATGAAGAAAATATAAAAGAGATGTACATATACGTGTGAGCGTGTGTGAAACGTTAATTG
204776 ATCTTAGCAGCATACATGAAAAGGGAAGTCTCTTAGGACATAAAATCAAGCAGGAATATAATAC
391 ATCTTAGCAGCATACATGAAAAGGGAAGTCTCTTAGGACATAAAATCAAGCAGGAATATAATAC
*
204840 TCTTAATGATAACTGTTGTTAACTGTTCACTTCTTTTAATTTAAAACGTGAAATATGATTAATGA
1 TCTTAATGATAACTGTTGTTAACCGTTCACTTCTTTTAATTTAAAACGTGAAATATGATTAATGA
204905 TCATACAAATGCATGAAAAGAGATGAGTGTATCGAACAAGATGATAAACAATAATCTTAGAATGA
66 TCATACAAATGCATGAAAAGAGATGAGTGTATCGAACAAGATGATAAACAATAATCTTAGAATGA
204970 GAGAGAGAGCTCTTCTTCAACTTTATTTGACAGTTTATACAAGTACTCCTAATATTAGTGTCAAG
131 GAGAGAGAGCTCTTCTTCAACTTTATTTGACAGTTTATACAAGTACTCCTAATATTAGTGTCAAG
205035 TTTAAAGGCGATGGTGATTATTTGTAGGTGACAAGACGTGTAGATTTAATCGTATTAAATAGATT
196 TTTAAAGGCGATGGTGATTATTTGTAGGTGACAAGACGTGTAGATTTAATCGTATTAAATAGATT
205100 GTAACAGTTATAAAAATGTATAAATTTGATAGTTATAACGTGCCAATGACAATCATTAAAAGTAT
261 GTAACAGTTATAAAAATGTATAAATTTGATAGTTATAACGTGCCAATGACAATCATTAAAAGTAT
205165 GATTTTATGAAGAAAATATAAAAGAGATGTACATATACGTGTGAGCGTGTGTGAAACGTTAATTG
326 GATTTTATGAAGAAAATATAAAAGAGATGTACATATACGTGTGAGCGTGTGTGAAACGTTAATTG
205230 ATCTTAGCAGCATACATGAAAAGGGAAGTCTCTTAGGACATAAAATCAAGCAGGAATATAATAC
391 ATCTTAGCAGCATACATGAAAAGGGAAGTCTCTTAGGACATAAAATCAAGCAGGAATATAATAC
* *
205294 TCTTAATGATAACTGTTGTTAACTGTTCACTTCTTTTAATTTAAAATGTGAAATATGATTAATGA
1 TCTTAATGATAACTGTTGTTAACCGTTCACTTCTTTTAATTTAAAACGTGAAATATGATTAATGA
*
205359 TCATACAAATGCATGAAAAGAGATGAGTGTATCGAACAAGATGGTAAACAATAATCTTAGAATGA
66 TCATACAAATGCATGAAAAGAGATGAGTGTATCGAACAAGATGATAAACAATAATCTTAGAATGA
205424 GAGAGAGAGCTCTTCTTCAACTTTATTTGACAGTTTATACAAGTACTCCTAATATTAGTGTCAAG
131 GAGAGAGAGCTCTTCTTCAACTTTATTTGACAGTTTATACAAGTACTCCTAATATTAGTGTCAAG
205489 TTTAAAGGCGATGGTGATTATTTGTAGGTGACAAGACGTGTAGATTTAATCGTATTAAATAGATT
196 TTTAAAGGCGATGGTGATTATTTGTAGGTGACAAGACGTGTAGATTTAATCGTATTAAATAGATT
205554 GTAACAGTTATAAAAATGTATAAATTTGATAGTTATAACGTGCCAATGACAATCATTAAAAGTAT
261 GTAACAGTTATAAAAATGTATAAATTTGATAGTTATAACGTGCCAATGACAATCATTAAAAGTAT
205619 GATTTTATGAAGAAAATATAAAAGAGATGTACATATACGTGTGAGCGTGTGTGAAACGTTAATTG
326 GATTTTATGAAGAAAATATAAAAGAGATGTACATATACGTGTGAGCGTGTGTGAAACGTTAATTG
205684 ATCTTAGCAGCATACATGAAAAGGGAAGTCTCTTAGGACATAAAATCAAGCAGGAATATAATAC
391 ATCTTAGCAGCATACATGAAAAGGGAAGTCTCTTAGGACATAAAATCAAGCAGGAATATAATAC
* *
205748 TCTTAATGATAACTGTTGTTAACCGTTCACTTCTTTTAATTTAAAATGAGAAATATGATTAATGA
1 TCTTAATGATAACTGTTGTTAACCGTTCACTTCTTTTAATTTAAAACGTGAAATATGATTAATGA
205813 TCATACAAATGC
66 TCATACAAATGC
205825 TCCGAATATT
Statistics
Matches: 980, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
454 980 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (454 bp):
TCTTAATGATAACTGTTGTTAACCGTTCACTTCTTTTAATTTAAAACGTGAAATATGATTAATGA
TCATACAAATGCATGAAAAGAGATGAGTGTATCGAACAAGATGATAAACAATAATCTTAGAATGA
GAGAGAGAGCTCTTCTTCAACTTTATTTGACAGTTTATACAAGTACTCCTAATATTAGTGTCAAG
TTTAAAGGCGATGGTGATTATTTGTAGGTGACAAGACGTGTAGATTTAATCGTATTAAATAGATT
GTAACAGTTATAAAAATGTATAAATTTGATAGTTATAACGTGCCAATGACAATCATTAAAAGTAT
GATTTTATGAAGAAAATATAAAAGAGATGTACATATACGTGTGAGCGTGTGTGAAACGTTAATTG
ATCTTAGCAGCATACATGAAAAGGGAAGTCTCTTAGGACATAAAATCAAGCAGGAATATAATAC
Found at i:213197 original size:2 final size:2
Alignment explanation
Indices: 213184--213215 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
213174 AAAACCAATA
*
213184 AT AT AC 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
213216 GTAACTGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:217186 original size:19 final size:20
Alignment explanation
Indices: 217147--217198 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
217137 TTGTAGAAGA
217147 GGTTTCGAAACCACCATGGTT
1 GGTTTCGAAACCA-CATGGTT
*
217168 GGTTTTGAAACCA-ATGGTT
1 GGTTTCGAAACCACATGGTT
217187 GGTTTCGAAACC
1 GGTTTCGAAACC
217199 TTTGTCCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
21 12 0.41
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (20 bp):
GGTTTCGAAACCACATGGTT
Found at i:217251 original size:21 final size:21
Alignment explanation
Indices: 217225--217279 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
217215 TTTCAGGAAA
217225 AGGCTTCGAAACCATTATAGT
1 AGGCTTCGAAACCATTATAGT
*
217246 AGGCTTCGAAACCTTTATAGT
1 AGGCTTCGAAACCATTATAGT
*
217267 AGGTTTCGAAACC
1 AGGCTTCGAAACC
217280 CCCTCCTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (21 bp):
AGGCTTCGAAACCATTATAGT
Found at i:219317 original size:15 final size:15
Alignment explanation
Indices: 219294--219476 Score: 312
Period size: 15 Copynumber: 12.2 Consensus size: 15
219284 CGTAGGACTC
219294 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
219309 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
219324 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
219339 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
219354 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
219369 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
219384 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
*
219399 CTACATCCTGAAGGA
1 CTACATCCCGAAGGA
*
219414 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
219429 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
*
219444 CTACGTCCCGAAGGA
1 CTACATCCCGAAGGA
219459 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
219474 CTA
1 CTA
219477 TAATACCCTC
Statistics
Matches: 156, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 156 1.00
ACGTcount: A:0.31, C:0.33, G:0.22, T:0.14
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:220243 original size:64 final size:64
Alignment explanation
Indices: 220169--220327 Score: 200
Period size: 64 Copynumber: 2.5 Consensus size: 64
220159 CATTAATAAC
* *
220169 GGGATGCATCGATGCACTACTTATGCATCGATGCACGAATTACAT-TCGATGTTTT-TATTTAAT
1 GGGATGCATCGATGCACTACTTATGCATCGATGCA-GAAAT-CATATCGATGTTTTCTATTTAAA
*
220232 G
64 A
* *
220233 GGGATGCATCGATGCACT-CTTTATGCATCGATGCATAAATCCTATCGATGTTTTCTATTTAAAA
1 GGGATGCATCGATGCACTAC-TTATGCATCGATGCAGAAATCATATCGATGTTTTCTATTTAAAA
* *
220297 GAG-TGCATCGATGCACTACCTATGCATCGAT
1 GGGATGCATCGATGCACTACTTATGCATCGAT
220328 ACACCTTCAA
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
62 2 0.02
63 39 0.46
64 43 0.51
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (64 bp):
GGGATGCATCGATGCACTACTTATGCATCGATGCAGAAATCATATCGATGTTTTCTATTTAAAA
Done.