Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008951.1 Hibiscus syriacus cultivar Beakdansim tig00112277_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: 153195
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2284 original size:40 final size:40
Alignment explanation
Indices: 2236--2380 Score: 136
Period size: 40 Copynumber: 3.6 Consensus size: 40
2226 CGCGAATCTG
** *
2236 TAAA-TCGCAACACTGA-AGTCAAATTCGCAATGCGAAAGT
1 TAAATTCGCAACAC-GATAGTCAAATTCGCAACACAAAAGT
* *
2275 TAAATTCGCAACGCGATAGTCAAATTCGTAACACAAAAGT
1 TAAATTCGCAACACGATAGTCAAATTCGCAACACAAAAGT
* * * *
2315 CAAATTCGCAACGCGAATTTGT-AAA-TCGCAACACAGAAGT
1 TAAATTCGCAACACG-A-TAGTCAAATTCGCAACACAAAAGT
* *
2355 CAAATTCGTAACACGATAGTCAAATT
1 TAAATTCGCAACACGATAGTCAAATT
2381 AGCAGCGCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 10 0.11
40 68 0.77
41 4 0.05
42 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (40 bp):
TAAATTCGCAACACGATAGTCAAATTCGCAACACAAAAGT
Found at i:2316 original size:60 final size:59
Alignment explanation
Indices: 2251--2411 Score: 189
Period size: 60 Copynumber: 2.7 Consensus size: 59
2241 CGCAACACTG
*
2251 AAGTCAAATTCGCAATGCGAAAGTTAAATTCGCAACGCGATAGTCAAATTCGTAACACAA
1 AAGTCAAATTCGCAACGCGAAAGTTAAATTCGCAACGCGA-AGTCAAATTCGTAACACAA
** * *
2311 AAGTCAAATTCGCAACGCGAATTTGTAAA-TCGCAACACAGAAGTCAAATTCGTAACACGA
1 AAGTCAAATTCGCAACGCGAAAGT-TAAATTCGCAACGC-GAAGTCAAATTCGTAACACAA
* * * * * *
2371 TAGTCAAATTAGCAGCGCGATAGTCAAATTCGTAACGCGAA
1 AAGTCAAATTCGCAACGCGAAAGTTAAATTCGCAACGCGAA
2412 AGTTAAATGT
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
59 6 0.07
60 72 0.86
61 6 0.07
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.21
Consensus pattern (59 bp):
AAGTCAAATTCGCAACGCGAAAGTTAAATTCGCAACGCGAAGTCAAATTCGTAACACAA
Found at i:2419 original size:20 final size:20
Alignment explanation
Indices: 2251--2419 Score: 146
Period size: 20 Copynumber: 8.4 Consensus size: 20
2241 CGCAACACTG
*
2251 AAGTCAAATTCGCAATGCGA
1 AAGTCAAATTCGCAACGCGA
*
2271 AAGTTAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
* * * *
2291 TAGTCAAATTCGTAACACAA
1 AAGTCAAATTCGCAACGCGA
2311 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
* *
2331 ATTTGT-AAA-TCGCAACAC-A
1 A--AGTCAAATTCGCAACGCGA
* *
2350 GAAGTCAAATTCGTAACACGA
1 -AAGTCAAATTCGCAACGCGA
* * *
2371 TAGTCAAATTAGCAGCGCGA
1 AAGTCAAATTCGCAACGCGA
* *
2391 TAGTCAAATTCGTAACGCGA
1 AAGTCAAATTCGCAACGCGA
*
2411 AAGTTAAAT
1 AAGTCAAAT
2420 GTTTTTACGT
Statistics
Matches: 118, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
18 2 0.02
19 4 0.03
20 106 0.90
21 4 0.03
22 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Found at i:5074 original size:42 final size:42
Alignment explanation
Indices: 5027--5125 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
5017 GATGCATCTA
* *
5027 TCATCATTCAAGAGGCGCCTCCTA-TAGTTCAAGAGGCCACTC
1 TCATCATTCAAGAGGCCCCTCCCACT-GTTCAAGAGGCCACTC
* *
5069 TCATCA-TCAAAGAAGCCCCTCCCACTGTTCAAGAGGCCACTG
1 TCATCATTC-AAGAGGCCCCTCCCACTGTTCAAGAGGCCACTC
*
5111 TCATCGTTCAAGAGG
1 TCATCATTCAAGAGG
5126 TCCTGCCCGC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.04
42 43 0.90
43 3 0.06
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.22
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCCCTCCCACTGTTCAAGAGGCCACTC
Found at i:6543 original size:14 final size:14
Alignment explanation
Indices: 6524--6560 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6514 TTTTGATTAA
*
6524 TTGATTTGTAGAAG
1 TTGATTTGTAAAAG
6538 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
6552 TTGATTTGT
1 TTGATTTGT
6561 TTAATTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:6569 original size:14 final size:14
Alignment explanation
Indices: 6524--6575 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
6514 TTTTGATTAA
*
6524 TTGATTTGTAGAAG
1 TTGATTTGTATAAG
*
6538 TTGATTTGTAAAAG
1 TTGATTTGTATAAG
* *
6552 TTGATTTGTTTAAT
1 TTGATTTGTATAAG
*
6566 TTGATGTGTA
1 TTGATTTGTA
6576 AATAAGAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (14 bp):
TTGATTTGTATAAG
Found at i:6569 original size:28 final size:28
Alignment explanation
Indices: 6524--6577 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6514 TTTTGATTAA
*
6524 TTGATTTGTAGAAGTTGATTTGTAAAAG
1 TTGATTTGTAGAAGTTGATGTGTAAAAG
** *
6552 TTGATTTGTTTAATTTGATGTGTAAA
1 TTGATTTGTAGAAGTTGATGTGTAAA
6578 TAAGAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (28 bp):
TTGATTTGTAGAAGTTGATGTGTAAAAG
Found at i:6697 original size:20 final size:20
Alignment explanation
Indices: 6672--6709 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6662 GTTGAAGGTA
6672 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
6692 CAAATTCGCAACGCGAAA
1 CAAATTCGCAACGCGAAA
6710 TAAGCGTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.26, G:0.18, T:0.13
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:7002 original size:39 final size:39
Alignment explanation
Indices: 6948--7034 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
6938 TCAAGTTATA
6948 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
6987 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
7026 GATTTTGAT
1 GATTTTGAT
7035 GAGCATCGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:7369 original size:18 final size:18
Alignment explanation
Indices: 7346--7384 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
7336 CGAAATTTAT
7346 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
7364 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
7382 ATT
1 ATT
7385 CCAATTACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:7848 original size:20 final size:20
Alignment explanation
Indices: 7803--7851 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
7793 CAAATAATGT
*
7803 ACAACGCGAAAGTTAAATTC
1 ACAACGCGAAAGTCAAATTC
**
7823 GTAACGCGAAAGTCAAATTC
1 ACAACGCGAAAGTCAAATTC
7843 ACAACGCGA
1 ACAACGCGA
7852 TTTTCGGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.16
Consensus pattern (20 bp):
ACAACGCGAAAGTCAAATTC
Found at i:8245 original size:18 final size:18
Alignment explanation
Indices: 8222--8262 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
8212 AAGCTGGTTG
* *
8222 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTAATTT
8240 TGATTGCGATTTTAATTT
1 TGATTGCGATTTTAATTT
8258 TGATT
1 TGATT
8263 TCCTTTTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTAATTT
Found at i:10594 original size:24 final size:24
Alignment explanation
Indices: 10527--10586 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
10517 CCATCACATC
10527 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* * *
10551 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
10575 ATCAAATTTCGA
1 ATCAAAATTCGA
10587 ATACTGACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:11316 original size:14 final size:15
Alignment explanation
Indices: 11280--11317 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
11270 GAAATTATTG
11280 AAAAATTATATAGAA
1 AAAAATTATATAGAA
*
11295 ATAAAATTATGTA-AA
1 A-AAAATTATATAGAA
11310 AAAAATTA
1 AAAAATTA
11318 GAGATGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAAATTATATAGAA
Found at i:11558 original size:20 final size:20
Alignment explanation
Indices: 11533--11579 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
11523 TGACTTCTGT
11533 GTTGCGATATACAAATTCGC
1 GTTGCGATATACAAATTCGC
* *
11553 GTTGCGATTTACAAATTTGC
1 GTTGCGATATACAAATTCGC
11573 GTTGCGA
1 GTTGCGA
11580 ATTTGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (20 bp):
GTTGCGATATACAAATTCGC
Found at i:12356 original size:3 final size:3
Alignment explanation
Indices: 12348--12391 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
12338 AAAACACGTA
*
12348 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12392 ACAAAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:12491 original size:20 final size:19
Alignment explanation
Indices: 12447--12494 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
12437 AAATATTAAT
12447 AGAATAAAAAAATAAAAAA
1 AGAATAAAAAAATAAAAAA
*
12466 AG-ATAAAAGAAATTAAAAA
1 AGAATAAAA-AAATAAAAAA
*
12485 GGAATAAAAA
1 AGAATAAAAA
12495 TAATGTGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.12
Consensus pattern (19 bp):
AGAATAAAAAAATAAAAAA
Found at i:12830 original size:2 final size:2
Alignment explanation
Indices: 12752--12812 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
12742 TTAATACATC
12752 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12793 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
12813 ATGATATAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:12891 original size:24 final size:22
Alignment explanation
Indices: 12833--12894 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
12823 ATTATATAAT
12833 AAAAATAGTATAATATAAATAAAA
1 AAAAATA-TAT-ATATAAATAAAA
**
12857 AAAAGGA-ATATACTAAATAAATA
1 AAAAATATATATA-TAAATAAA-A
12880 AAAAATATATATATA
1 AAAAATATATATATA
12895 TAGGGGACGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 3 0.10
22 10 0.32
23 8 0.26
24 10 0.32
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAATATATATATAAATAAAA
Found at i:14524 original size:5 final size:5
Alignment explanation
Indices: 14511--14542 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
14501 GTGATAATTG
*
14511 TTATA TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
14543 TAATTCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:16023 original size:20 final size:20
Alignment explanation
Indices: 16000--16051 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
15990 AACGCGATCC
16000 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
16020 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
16040 CCAAAATCGCAA
1 CCAGAATCGCAA
16052 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:16132 original size:20 final size:20
Alignment explanation
Indices: 16107--16300 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
16097 GATTTTCCAT
* *
16107 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
16127 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
16147 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
16167 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
16187 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
16207 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
16227 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
16247 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
16268 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
16288 AATCGCAACGCGA
1 AATCGCAACGCGA
16301 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:16152 original size:40 final size:39
Alignment explanation
Indices: 16103--16300 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
16093 TTGCGATTTT
* ** *
16103 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
16141 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
16182 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
16222 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
16261 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
16301 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:16190 original size:60 final size:60
Alignment explanation
Indices: 16107--16299 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
16097 GATTTTCCAT
* ** * *
16107 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
16167 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
16227 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
16288 AATCGCAACGCG
1 AATCGCAACGCG
16300 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:16469 original size:21 final size:22
Alignment explanation
Indices: 16443--16496 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
16433 CTCTCTACGG
16443 CGAAGAAATCCGT-CCCATCTC
1 CGAAGAAATCCGTCCCCATCTC
**
16464 CGAAGATTTCCGTCCCCATCTC
1 CGAAGAAATCCGTCCCCATCTC
**
16486 CGGCGAAATCC
1 CGAAGAAATCC
16497 CTCACAACCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (22 bp):
CGAAGAAATCCGTCCCCATCTC
Found at i:16720 original size:33 final size:32
Alignment explanation
Indices: 16676--16745 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
16666 TTCACTTAGA
*
16676 TTTCATTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTCGCGTTACGATTCTCTCGTTGCGAT
* *
16708 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCA-TTCGCGTTACGATTCTCTCGTTGCGAT
16741 TTTCA
1 TTTCA
16746 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 5 0.15
33 29 0.85
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (32 bp):
TTTCATTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:16885 original size:14 final size:14
Alignment explanation
Indices: 16866--16920 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
16856 AGAATGACTG
16866 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
16880 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
16899 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
16913 TCGCAACG
1 TCGCAACG
16921 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:16903 original size:33 final size:33
Alignment explanation
Indices: 16866--16936 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
16856 AGAATGACTG
**
16866 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
16899 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
16932 TCGCA
1 TCGCA
16937 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:16954 original size:19 final size:19
Alignment explanation
Indices: 16932--17029 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
16922 GAAACCAAAA
*
16932 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
16951 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
16965 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
16984 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
16998 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
17017 TCGCGTTGCGATT
1 TCGCGTTGCGATT
17030 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:16973 original size:14 final size:14
Alignment explanation
Indices: 16954--17043 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
16944 TTTCATTTCG
16954 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
16968 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
16987 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
17001 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
17018 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
17034 CGTTGCGATT
1 CGTTGCGATT
17044 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:16979 original size:33 final size:33
Alignment explanation
Indices: 16937--17051 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
16927 CAAAATCGCA
16937 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
16970 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
17003 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
17036 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
17052 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:18875 original size:85 final size:84
Alignment explanation
Indices: 18727--18883 Score: 230
Period size: 85 Copynumber: 1.9 Consensus size: 84
18717 TAGATTGCTT
* *
18727 AGTAAATTTATTCAGTTGCTGCCAATGCTAAACTGTGTATTCTTTAACACTGTGAATAGTATTTG
1 AGTAAATTTATTCAGGTGCTGCCAATGCTAAACTGTATATTCTTTAACACTGTGAATAGTATTTG
18792 T-TTTGTCTTTTGGTTGAA
66 TCTTTGTCTTTTGGTTGAA
*
18810 AGTAAATTTGTTC-GGTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTATTCAGGTGCTGCCAA---TGCTAAACTGTATATTCTTTAACACTGTG-AATAGTA
18873 TTTGTCTTTGT
62 TTTGTCTTTGT
18884 TTTGTCTTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
82 10 0.15
83 12 0.18
85 35 0.53
86 9 0.14
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.44
Consensus pattern (84 bp):
AGTAAATTTATTCAGGTGCTGCCAATGCTAAACTGTATATTCTTTAACACTGTGAATAGTATTTG
TCTTTGTCTTTTGGTTGAA
Found at i:18929 original size:60 final size:61
Alignment explanation
Indices: 18842--18964 Score: 214
Period size: 60 Copynumber: 2.0 Consensus size: 61
18832 AATTCTGCTA
*
18842 AACTGTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTC-TTTGGTTGAAAGT
1 AACTGTATATTCTTTAACACTGGGAAATATATTTGTCTTTG-TTTGTCTTTTGGTTGAAAGT
18903 AACTGTATATTC-TTAACACTGGGAAATATATTTGTCTTTGTTTGTCTTTTGGTTGAAAGT
1 AACTGTATATTCTTTAACACTGGGAAATATATTTGTCTTTGTTTGTCTTTTGGTTGAAAGT
18963 AA
1 AA
18965 ATTGTTCGGT
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
59 6 0.10
60 42 0.70
61 12 0.20
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.47
Consensus pattern (61 bp):
AACTGTATATTCTTTAACACTGGGAAATATATTTGTCTTTGTTTGTCTTTTGGTTGAAAGT
Found at i:19092 original size:92 final size:92
Alignment explanation
Indices: 18903--19242 Score: 602
Period size: 91 Copynumber: 3.7 Consensus size: 92
18893 GGTTGAAAGT
* *
18903 AACTGTATATTC-TTAACACTGGGAAATATATTTGTCTTTG-TTTGTCTTTTGGTTGAAAGTAAA
1 AACTGTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAA
18966 -TTGTTCGGTTGCTGCCAATTCTGCTA
66 TTTGTTCGGTTGCTGCCAATTCTGCTA
18992 AACTGTGTATTCTTTAACACTGTGAAATAGTATTTGTC-TTGTTTTGTCTTTTGGTTGAAAGTAA
1 AACTGTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
19056 ATTTGTTCGGTTGCTGCCAATTCTGCTA
65 ATTTGTTCGGTTGCTGCCAATTCTGCTA
19084 AACTGTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGG-TGAAAGTAAA
1 AACTGTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAA
19148 TTTGTTCGGTTGCTGCCAATTCTGCTA
66 TTTGTTCGGTTGCTGCCAATTCTGCTA
19175 AACTG-GTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
1 AACTGTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
19239 ATTT
65 ATTT
19243 ATCCATTCAA
Statistics
Matches: 242, Mismatches: 2, Indels: 11
0.95 0.01 0.04
Matches are distributed among these distances:
89 11 0.05
90 41 0.17
91 106 0.44
92 84 0.35
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (92 bp):
AACTGTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAA
TTTGTTCGGTTGCTGCCAATTCTGCTA
Found at i:19326 original size:19 final size:19
Alignment explanation
Indices: 19286--19415 Score: 118
Period size: 19 Copynumber: 7.3 Consensus size: 19
19276 TAGTTTACTT
* *
19286 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
19306 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
19325 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
19344 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
19358 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
19377 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
19391 TCGCAACGCGAAACCAAAAA
1 TCGCAACGCGAAACC-AAAA
19411 TCGCA
1 TCGCA
19416 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 22
0.74 0.07 0.18
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 38 0.42
20 21 0.23
ACGTcount: A:0.46, C:0.28, G:0.17, T:0.08
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:19365 original size:33 final size:32
Alignment explanation
Indices: 19322--19415 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 32
19312 CGCGAAACCA
**
19322 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
19354 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
19387 AAGATCGCAACGCGAAACCAAAAATCGCA
1 AA-ATCGCAACGCGAAACC-AAAATCGCA
19416 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
32 2 0.04
33 46 0.81
34 9 0.16
ACGTcount: A:0.47, C:0.28, G:0.18, T:0.07
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:19438 original size:19 final size:19
Alignment explanation
Indices: 19411--19545 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
19401 AAACCAAAAA
*
19411 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
19430 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
19446 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
19463 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
19479 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
19496 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
19515 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
19535 TCGTGTTGCGA
1 TCGCGTTGCGA
19546 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:19452 original size:14 final size:14
Alignment explanation
Indices: 19433--19489 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
19423 TTTCATTTCG
19433 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
19447 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
19464 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
19480 CGTTGCGATT
1 CGTTGCGATT
19490 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:19458 original size:33 final size:33
Alignment explanation
Indices: 19416--19508 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
19406 AAAAATCGCA
*
19416 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
19449 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
19482 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
19509 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:21395 original size:15 final size:15
Alignment explanation
Indices: 21377--21407 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21367 TTGATTCAAT
21377 AGTAGATGATCGGAA
1 AGTAGATGATCGGAA
21392 AGTAGATGATCGGAA
1 AGTAGATGATCGGAA
21407 A
1 A
21408 TAAGAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.19
Consensus pattern (15 bp):
AGTAGATGATCGGAA
Found at i:21460 original size:14 final size:14
Alignment explanation
Indices: 21441--21476 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
21431 ATTGTTTAAT
21441 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
21455 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
21469 TGATTTGT
1 TGATTTGT
21477 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:21640 original size:19 final size:19
Alignment explanation
Indices: 21579--21871 Score: 376
Period size: 19 Copynumber: 16.5 Consensus size: 19
21569 GGCAAAAATT
21579 ATTGCGA-TTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
21597 ATTGCGA--TTC-TTTCG-
1 ATTGCGATTTTCATTTCGC
*
21612 -TTGTGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
21630 ATTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
21649 ATTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
21668 ATTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
21687 ATTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
21706 ATTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
*
21725 ATTGCGATTTTAATTTCGC
1 ATTGCGATTTTCATTTCGC
*
21744 ATTGCGA--TTC-TGTCG-
1 ATTGCGATTTTCATTTCGC
21759 -TTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
21777 ATTGCGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
*
21796 ATTGCGA--TTC-TCTCG-
1 ATTGCGATTTTCATTTCGC
21811 -TTGCGATTTTCATTTCCGC
1 ATTGCGATTTTCATTT-CGC
21830 ATTGCGATTTTCA--T-G-
1 ATTGCGATTTTCATTTCGC
*
21845 -TTGGGATTTTCATTTCGC
1 ATTGCGATTTTCATTTCGC
*
21863 GTTGCGATT
1 ATTGCGATT
21872 GTATTTTCCG
Statistics
Matches: 244, Mismatches: 10, Indels: 41
0.83 0.03 0.14
Matches are distributed among these distances:
14 28 0.11
16 24 0.10
17 20 0.08
18 10 0.04
19 150 0.61
20 12 0.05
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
ATTGCGATTTTCATTTCGC
Found at i:24166 original size:12 final size:12
Alignment explanation
Indices: 24149--24173 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24139 TCTTCGGGGA
24149 CTTTTTCTTCTT
1 CTTTTTCTTCTT
24161 CTTTTTCTTCTT
1 CTTTTTCTTCTT
24173 C
1 C
24174 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:24382 original size:24 final size:24
Alignment explanation
Indices: 24348--24394 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
24338 CTGAAACATC
24348 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
24372 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
24395 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:25101 original size:20 final size:20
Alignment explanation
Indices: 25073--25441 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
25063 AAATTTAAGT
* * * *
25073 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
25093 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
25113 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
25133 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
25153 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
25173 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
25193 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
25213 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
25233 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
25253 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
25273 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
25293 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
25313 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
25333 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
25353 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
25373 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
25393 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
25413 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
25433 GTTGCGATT
1 GTTGCGATT
25442 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.02
20 297 0.96
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:26154 original size:20 final size:18
Alignment explanation
Indices: 26103--26156 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
26093 AACCAATAAT
26103 AATAAACATAAAATAATTG
1 AATAAA-ATAAAATAATTG
* *
26122 GATGAAAAAAAAATGAAATTG
1 AAT-AAAATAAAAT--AATTG
26143 AATAAAATAAAATA
1 AATAAAATAAAATA
26157 TATATACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
18 1 0.04
19 8 0.29
20 12 0.43
21 7 0.25
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (18 bp):
AATAAAATAAAATAATTG
Found at i:26260 original size:22 final size:19
Alignment explanation
Indices: 26228--26347 Score: 72
Period size: 18 Copynumber: 6.3 Consensus size: 19
26218 GTAAAGAAAC
*
26228 TAAAAATATAATGAAAATAAA
1 TAAATATATAAT-AAAAT-AA
26249 TAAATAGTATAAATAAAATAA
1 TAAATA-TAT-AATAAAATAA
*
26270 TAAATATAT-AT-ATATATA
1 TAAATATATAATAAAATA-A
**
26288 TAAATATA-AA-AATGT-A
1 TAAATATATAATAAAATAA
** *
26304 TGTATATATAATAAAATAC
1 TAAATATATAATAAAATAA
*
26323 TAAATA-GTAATAATAATAA
1 TAAATATATAATAA-AATAA
26342 TAAATA
1 TAAATA
26348 AATGAAAATA
Statistics
Matches: 78, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
16 7 0.09
17 6 0.08
18 24 0.31
19 14 0.18
20 3 0.04
21 13 0.17
22 8 0.10
23 3 0.04
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAATATATAATAAAATAA
Found at i:26296 original size:6 final size:6
Alignment explanation
Indices: 26256--26297 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
26246 AAATAAATAG
* *
26256 TATAAA TA-AAA TAATAAA TATATA TATATA TATAAA TATAAA
1 TATAAA TATAAA T-ATAAA TATAAA TATAAA TATAAA TATAAA
26298 AATGTATGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.12
6 24 0.75
7 4 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:26485 original size:2 final size:2
Alignment explanation
Indices: 26475--26508 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
26465 AGATAAAAAA
26475 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26509 ATAATAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:27103 original size:37 final size:37
Alignment explanation
Indices: 27018--27113 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 37
27008 GGATCTTATC
* ** * **
27018 TTTAGGAGTTTAAATAATAGTAGAACTCTATCTTATT
1 TTTAGGAGTTTGAATCCTAGTAAAACTCTATCCCATT
*
27055 TTTAGGAGTTTGAATCCTAGTAAAATTCTATCCCATT
1 TTTAGGAGTTTGAATCCTAGTAAAACTCTATCCCATT
27092 TTTAGGAGTTTGAATCCTAGTA
1 TTTAGGAGTTTGAATCCTAGTA
27114 GGACGAAAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (37 bp):
TTTAGGAGTTTGAATCCTAGTAAAACTCTATCCCATT
Found at i:28048 original size:106 final size:106
Alignment explanation
Indices: 27864--29033 Score: 1894
Period size: 106 Copynumber: 11.0 Consensus size: 106
27854 GCATTGTTCC
* * * *
27864 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * *
27928 ACCAGTC-GTCCCTTCGTTGTGAATTTGAACTTGTGTTGTCTC
65 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
27970 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
28035 CCAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
28076 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
28141 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
28182 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
28247 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
28288 GAGTCCAATATCTTTCGCTGTAAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
28353 CCAGCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
28394 GAGTCCAATATTCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
28459 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
28500 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
28565 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
28606 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
28671 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
28712 GAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
28777 CCAGCGGTCCCTTCGTCTTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
28818 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
28883 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
28924 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAATTTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
28989 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
29030 GAGT
1 GAGT
29034 GACACGATAT
Statistics
Matches: 999, Mismatches: 63, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
105 1 0.00
106 997 1.00
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:30020 original size:22 final size:22
Alignment explanation
Indices: 29994--30047 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
29984 TTATGTTTGG
*
29994 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
30016 TCAAAGGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
30038 TCAAAGGTTT
1 TCAAAGGTTT
30048 AATGGGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:30679 original size:18 final size:19
Alignment explanation
Indices: 30658--30696 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
30648 TCCCTTTTTC
*
30658 TTTTTGATTTTTG-TTCTT
1 TTTTTCATTTTTGCTTCTT
*
30676 TTTTTCTTTTTTGCTTCTT
1 TTTTTCATTTTTGCTTCTT
30695 TT
1 TT
30697 CTTTTTTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.03, C:0.10, G:0.08, T:0.79
Consensus pattern (19 bp):
TTTTTCATTTTTGCTTCTT
Found at i:30679 original size:24 final size:24
Alignment explanation
Indices: 30652--30703 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
30642 TTTTTGTCCC
*
30652 TTTTTC-TTTTTGATTTTTGTTCTT
1 TTTTTCTTTTTTGATTCTT-TTCTT
*
30676 TTTTTCTTTTTTGCTTCTTTTCTT
1 TTTTTCTTTTTTGATTCTTTTCTT
30700 TTTT
1 TTTT
30704 GTTTTTGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.81
Consensus pattern (24 bp):
TTTTTCTTTTTTGATTCTTTTCTT
Found at i:30686 original size:8 final size:8
Alignment explanation
Indices: 30652--30703 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
30642 TTTTTGTCCC
30652 TTTTTCTT
1 TTTTTCTT
*
30660 TTTGAT-TT
1 TTT-TTCTT
*
30668 TTGTTCTT
1 TTTTTCTT
30676 TTTTTCTT
1 TTTTTCTT
*
30684 TTTTGCTT
1 TTTTTCTT
*
30692 CTTTTCTT
1 TTTTTCTT
30700 TTTT
1 TTTT
30704 GTTTTTGCCC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
7 1 0.03
8 32 0.94
9 1 0.03
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.81
Consensus pattern (8 bp):
TTTTTCTT
Found at i:35476 original size:22 final size:22
Alignment explanation
Indices: 35446--35517 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
35436 GCAAAGAAAC
35446 TAAA-AATATAATGAAAATAA-A
1 TAAATAATATAAT-AAAATAATA
35467 TAAATAATATAAATAAAATAATA
1 TAAATAATAT-AATAAAATAATA
* *
35490 TATAT-ATAT-ATATATATATATA
1 TAAATAATATAATA-AAATA-ATA
35512 TAAATA
1 TAAATA
35518 TAAAAATGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
20 3 0.07
21 8 0.19
22 23 0.55
23 8 0.19
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (22 bp):
TAAATAATATAATAAAATAATA
Found at i:35487 original size:14 final size:13
Alignment explanation
Indices: 35462--35521 Score: 57
Period size: 14 Copynumber: 4.4 Consensus size: 13
35452 TATAATGAAA
35462 ATAAATAAATAAT
1 ATAAATAAATAAT
35475 ATAAATAAAATAAT
1 ATAAAT-AAATAAT
* *
35489 ATATATATATATAT
1 ATAAATAAATA-AT
* *
35503 ATATATATATAAAT
1 ATAAATAAAT-AAT
35517 ATAAA
1 ATAAA
35522 AATGTATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
13 10 0.24
14 30 0.73
15 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAATAAATAAT
Found at i:35487 original size:18 final size:19
Alignment explanation
Indices: 35460--35517 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 19
35450 AATATAATGA
35460 AAATAAATAA-ATA-ATAT
1 AAATAAATAATATATATAT
35477 AAATAAAATAATATATATAT
1 AAAT-AAATAATATATATAT
*
35497 --ATATAT-ATATATATAT
1 AAATAAATAATATATATAT
35513 AAATA
1 AAATA
35518 TAAAAATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 10 0.29
17 7 0.20
18 11 0.31
19 3 0.09
20 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATAAATAATATATATAT
Found at i:35494 original size:2 final size:2
Alignment explanation
Indices: 35487--35519 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
35477 AAATAAAATA
*
35487 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35520 AAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:35520 original size:6 final size:6
Alignment explanation
Indices: 35462--35642 Score: 51
Period size: 6 Copynumber: 29.8 Consensus size: 6
35452 TATAATGAAA
* * * * *
35462 ATAAAT AAATAAT ATAAAT A-AAAT AATATAT ATATAT ATATAT ATATAT
1 ATAAAT ATA-AAT ATAAAT ATAAAT -ATAAAT ATAAAT ATAAAT ATAAAT
* ** *
35511 ATAAAT ATAAAA ATGTAT GTATAAT AT-AAT A-AAAT ACTAAAT AGT-AAT
1 ATAAAT ATAAAT ATAAAT ATA-AAT ATAAAT ATAAAT A-TAAAT A-TAAAT
* * *
35559 A-ATAAT AATAAAT ACATGAAAA ATAAAT ATACAT AT-AAT ATTAAT -TAAA-
1 ATA-AAT -ATAAAT --AT-AAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
*
35608 A-AAAT AGTAATCAT AGAAAT ATAAA- ATAAA- ATAAA
1 ATAAAT A-TAA--AT ATAAAT ATAAAT ATAAAT ATAAA
35643 GTAAGAATAT
Statistics
Matches: 134, Mismatches: 21, Indels: 41
0.68 0.11 0.21
Matches are distributed among these distances:
4 3 0.02
5 30 0.22
6 65 0.49
7 25 0.19
8 5 0.04
9 6 0.04
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (6 bp):
ATAAAT
Found at i:35797 original size:25 final size:24
Alignment explanation
Indices: 35747--35815 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 24
35737 TATATATAAT
*
35747 AGAAAAATAAAATAATATAACGCAA
1 AGAAAAATAAAAAAATATAAC-CAA
35772 AGAAAAATGAAAAAAATTATAA-C-A
1 AGAAAAAT-AAAAAAA-TATAACCAA
*
35796 A-ATAAATAAATAAAATATAA
1 AGAAAAATAAA-AAAATATAA
35816 TTAAATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 8 0.21
23 9 0.23
24 2 0.05
25 9 0.23
26 6 0.15
27 5 0.13
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (24 bp):
AGAAAAATAAAAAAATATAACCAA
Found at i:36289 original size:37 final size:37
Alignment explanation
Indices: 36243--36336 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 37
36233 CTTGTGGATC
* * *
36243 CTATCTTTAGGAGTTTAAATAATAGTAGAACTCTA-T
1 CTATTTTTAGGAGTTTAAATAATAGCAAAACTCTATT
* ** * *
36279 CATATTTTTAGGAGTTTGAATCCTAGCAAAATTTTATT
1 C-TATTTTTAGGAGTTTAAATAATAGCAAAACTCTATT
36317 CTATTTTTAGGAGTTTAAAT
1 CTATTTTTAGGAGTTTAAAT
36337 CCTAGTAGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 1 0.02
37 44 0.94
38 2 0.04
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.44
Consensus pattern (37 bp):
CTATTTTTAGGAGTTTAAATAATAGCAAAACTCTATT
Found at i:39891 original size:41 final size:41
Alignment explanation
Indices: 39846--39923 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
39836 TTTTAGTCTT
*
39846 TTTTCAACCATGTCCAAAGATGGAAAAGAATTTTTTTTTTG
1 TTTTCAACCATGTCCAAAGATGGAAAAGAATATTTTTTTTG
39887 TTTTCAACCATGTCCAAAGATGGAAAAGAATATTTTT
1 TTTTCAACCATGTCCAAAGATGGAAAAGAATATTTTT
39924 GGGTCATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (41 bp):
TTTTCAACCATGTCCAAAGATGGAAAAGAATATTTTTTTTG
Found at i:43493 original size:33 final size:33
Alignment explanation
Indices: 43438--43517 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
43428 GCAGGATGAT
* * * *
43438 TAGTAGGGATGATGATCGTTTAAATCGGACATG
1 TAGTAGGGATGATGATCCTTTAAACCGAACAAG
*
43471 TAGTAGGGATGAT-ACTCCTTTAAGCCGAACAAG
1 TAGTAGGGATGATGA-TCCTTTAAACCGAACAAG
*
43504 TAGTAGGGGTGATG
1 TAGTAGGGATGATG
43518 CCTCTATGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
32 1 0.03
33 38 0.97
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (33 bp):
TAGTAGGGATGATGATCCTTTAAACCGAACAAG
Found at i:43772 original size:33 final size:33
Alignment explanation
Indices: 43712--43805 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 33
43702 AAGCACTTGG
* * **
43712 GATGATGCTTCAATAAGCAGGCCAAGTAGCAGTA
1 GATGATGCTCCTATAAGCAGGTTAAGTAGCAG-A
*
43746 -ATGATGCTCCTATAAGCAGGTTAAGTATCAGA
1 GATGATGCTCCTATAAGCAGGTTAAGTAGCAGA
* * * *
43778 GATAATGCCCCTGTAAGCTGGTTAAGTA
1 GATGATGCTCCTATAAGCAGGTTAAGTA
43806 TTGGGGAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
32 1 0.02
33 49 0.98
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (33 bp):
GATGATGCTCCTATAAGCAGGTTAAGTAGCAGA
Found at i:43801 original size:168 final size:168
Alignment explanation
Indices: 43518--44021 Score: 857
Period size: 168 Copynumber: 3.0 Consensus size: 168
43508 AGGGGTGATG
* * * *
43518 CCTCTATGAGCAGCTCAAGCACATGGGATGATGCTCCAATAAGCAGGCCAAGTAGCAGTAATGAT
1 CCTCCATGAGCAGTTCAAGCACTTGGGATGATGCTTCAATAAGCAGGCCAAGTAGCAGTAATGAT
* * **
43583 GC-CTCTATAAGCAGGTTAAGTGTTAGAGATGGTGCCCCTGTAAGCTGGTTAAGTATTGGGGAAA
66 GCTC-CTATAAGCAGGTTAAGTATCAGAGATAATGCCCCTGTAAGCTGGTTAAGTATTGGGGAAA
43647 ATGCCCCTGTAAGTGGACCAACTGCTGGGGAAGATTCCC
130 ATGCCCCTGTAAGTGGACCAACTGCTGGGGAAGATTCCC
*
43686 CCTTCATGAGCAGTTCAAGCACTTGGGATGATGCTTCAATAAGCAGGCCAAGTAGCAGTAATGAT
1 CCTCCATGAGCAGTTCAAGCACTTGGGATGATGCTTCAATAAGCAGGCCAAGTAGCAGTAATGAT
43751 GCTCCTATAAGCAGGTTAAGTATCAGAGATAATGCCCCTGTAAGCTGGTTAAGTATTGGGGAAAA
66 GCTCCTATAAGCAGGTTAAGTATCAGAGATAATGCCCCTGTAAGCTGGTTAAGTATTGGGGAAAA
*
43816 TGCCCCTGTAAGTGGACCAGCTGCTGGGGAAGATTCCC
131 TGCCCCTGTAAGTGGACCAACTGCTGGGGAAGATTCCC
43854 CCTCCATGAGCAGTTCAAGCACTTGGGATGATGCTTCAATAAGCAGGCCAAGTAGCAGTAATGAT
1 CCTCCATGAGCAGTTCAAGCACTTGGGATGATGCTTCAATAAGCAGGCCAAGTAGCAGTAATGAT
* * *
43919 GCTCCTATAAGCAGGTTATGTATCCGAAATAATGCCCCTGTAAGCTGGTTAAGTATTGGGGAAAA
66 GCTCCTATAAGCAGGTTAAGTATCAGAGATAATGCCCCTGTAAGCTGGTTAAGTATTGGGGAAAA
* *
43984 GGCCCCTGTAAGTGGACCAACTGCTGGGGAATATTCCC
131 TGCCCCTGTAAGTGGACCAACTGCTGGGGAAGATTCCC
44022 TCACTAGCAA
Statistics
Matches: 318, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
168 317 1.00
169 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (168 bp):
CCTCCATGAGCAGTTCAAGCACTTGGGATGATGCTTCAATAAGCAGGCCAAGTAGCAGTAATGAT
GCTCCTATAAGCAGGTTAAGTATCAGAGATAATGCCCCTGTAAGCTGGTTAAGTATTGGGGAAAA
TGCCCCTGTAAGTGGACCAACTGCTGGGGAAGATTCCC
Found at i:43806 original size:33 final size:33
Alignment explanation
Indices: 43749--43827 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
43739 AGCAGTAATG
* * *
43749 ATGCTCCTATAAGCAGGTTAAGTATCAGAGATA
1 ATGCCCCTGTAAGCAGGTTAAGTATCAGAGAAA
* ** *
43782 ATGCCCCTGTAAGCTGGTTAAGTATTGGGGAAA
1 ATGCCCCTGTAAGCAGGTTAAGTATCAGAGAAA
43815 ATGCCCCTGTAAG
1 ATGCCCCTGTAAG
43828 TGGACCAGCT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (33 bp):
ATGCCCCTGTAAGCAGGTTAAGTATCAGAGAAA
Found at i:44814 original size:201 final size:200
Alignment explanation
Indices: 44450--45595 Score: 1004
Period size: 201 Copynumber: 5.7 Consensus size: 200
44440 GAAACTCATA
* * * * * **
44450 AATGTTGTGAGGGGTGGATTGGATATAAGAAACATGACTAGTTCAGTGACCCCTACATCAAGTTG
1 AATGTTGTGAGGGATGAACTGGATATGAGAAACATGACTAGTCCAGTGACCATTACATCAAGTTG
** * * * *
44515 CTCTGAAGCAATAAGTTCAACGCCAAATGTTTCGGATTATT-TAGGTGCCAAAGAAATAGATGGT
66 CTCTGAAGCCTTAAGTTCAACACCAAATGTTTCGGATTATTCT-GGTGTCAAAGAAATGGATGTT
* * * *
44579 AGGAACTCTATTCCCTCTAGTGTTAAAGAAATGGATACTAGGTACTGCATTTCCTCATCTCCAGA
130 AGGAACTCCATTCCCTCTGGTGTTAAAGAAATGGATA-TAGGAACTCCATTTCCTCATCTCCAGA
*
44644 ACACATG
194 ACCCATG
* * * **
44651 AATGTTATGAGGGATGAACTGGATATGAGAACCATGACTAGTCCAGTGGCCATTATTTCAAGTTG
1 AATGTTGTGAGGGATGAACTGGATATGAGAAACATGACTAGTCCAGTGACCATTACATCAAGTTG
* * * * *
44716 TTCTGAAGCCTTAAGCTCAAGACCAAATGTTTCGGATTATTCTGGTGTCGAAGAATTGGATGTTA
66 CTCTGAAGCCTTAAGTTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAATGGATGTTA
* * ** * *
44781 GGAACTCCATTCCCTCTGGTGTTAAAGAAATGGATGTTAGGAAATCTGTTT-CTGTATCTCCAAA
131 GGAACTCCATTCCCTCTGGTGTTAAAGAAATGGAT-ATAGGAACTCCATTTCCT-CATCTCCAGA
* * *
44845 ACGCTTA
194 ACCCATG
*** * * * * * * * * *
44852 AATGTCACGAGGGATGAACTGGTTATGAGAAACACGGCCAGTCCTGTGACCAGTGCATCAAATTT
1 AATGTTGTGAGGGATGAACTGGATATGAGAAACATGACTAGTCCAGTGACCATTACATCAAGTTG
* * * *
44917 CTCTGGAGCTTTAAGTTCAACACCAAATGTCTCGGATT-TCTCTGGTGTC--A-AAATGGATGAT
66 CTCTGAAGCCTTAAGTTCAACACCAAATGTTTCGGATTAT-TCTGGTGTCAAAGAAATGGATGTT
* * * * * * *
44978 ATGAACACCGTCCCCTCTGGTGTTAAAGAAATGGACATTGTGAACTCCATTTCTTCATCTCCAGA
130 AGGAACTCCATTCCCTCTGGTGTTAAAGAAATGGATATAG-GAACTCCATTTCCTCATCTCCAGA
45043 ACCCATG
194 ACCCATG
* ** * ** *
45050 AAAGTTGTGAGGTG-TGAACTGGATATGAGAAATTTGACTAGACCAGTGACTGTTATATCAAGTT
1 AATGTTGTGAGG-GATGAACTGGATATGAGAAACATGACTAGTCCAGTGACCATTACATCAAGTT
* * ***
45114 TCTCTGAAG-CTTCAAGTTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGACAA
65 GCTCTGAAGCCTT-AAGTTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAATGGATGT
* * * * * *
45178 TAGGAACTCCGTTCCCTCTGGTATTCAACAAATGGATATTGTGAACTACATTTCCTCATCTCCAG
129 TAGGAACTCCATTCCCTCTGGTGTTAAAGAAATGGATATAG-GAACTCCATTTCCTCATCTCCAG
*
45243 AACCCTTG
193 AACCCATG
* * * * * * *
45251 AATGTTGCGAGGTATGAATTGGAAATGAGAAACATGACTAGTCCAGTGACCCTTGCATCAAATTG
1 AATGTTGTGAGGGATGAACTGGATATGAGAAACATGACTAGTCCAGTGACCATTACATCAAGTTG
* ** * * *
45316 CTCCGAAG-CTTCAAGTTCAACACCAAACATTTCAGATTATTCTGGTCTGAAAGAAATGGATGTT
66 CTCTGAAGCCTT-AAGTTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAATGGATGTT
* * * * * *
45380 AGGAAC-CCAATGCCCTCCGTTGTTAAAGAAA-GGAATACTGGGAACACCATTTCCTCGTCGT-C
130 AGGAACTCC-ATTCCCTCTGGTGTTAAAGAAATGG-ATA-TAGGAACTCCATTTCCTCATC-TCC
*
45442 AAAACCCATTG
191 AGAACCCA-TG
* * ** * * * * * *
45453 -ATGTTGTGAGAGATGAATTCAATATGAGAACCACGACTAGTCCAGTGACCGTTGCAACAAGCTG
1 AATGTTGTGAGGGATGAACTGGATATGAGAAACATGACTAGTCCAGTGACCATTACATCAAGTTG
* * * * * * **
45517 CTCTGAAGCTTTAAGTTCAACACCAAACGTTTCAGATAATCCTGGTGTTAAAGAAGCGGATGTTA
66 CTCTGAAGCCTTAAGTTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAATGGATGTTA
45582 GGAACTCCACTTCC
131 GGAACTCCA-TTCC
45596 TCATCTCTAA
Statistics
Matches: 756, Mismatches: 168, Indels: 41
0.78 0.17 0.04
Matches are distributed among these distances:
197 4 0.01
198 146 0.19
199 4 0.01
200 8 0.01
201 581 0.77
202 13 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (200 bp):
AATGTTGTGAGGGATGAACTGGATATGAGAAACATGACTAGTCCAGTGACCATTACATCAAGTTG
CTCTGAAGCCTTAAGTTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAATGGATGTTA
GGAACTCCATTCCCTCTGGTGTTAAAGAAATGGATATAGGAACTCCATTTCCTCATCTCCAGAAC
CCATG
Found at i:45195 original size:399 final size:399
Alignment explanation
Indices: 44591--45342 Score: 933
Period size: 399 Copynumber: 1.9 Consensus size: 399
44581 GAACTCTATT
* * * *
44591 CCCTCTAGTGTTAAAGAAATGGATACTAGGTACTGCATTTCCTCATCTCCAGAACACATGAATGT
1 CCCTCTAGTGTTAAAGAAATGGACACTAGGAACTCCATTTCCTCATCTCCAGAACACATGAAAGT
* * * *
44656 TATGAGGGATGAACTGGATATGAGAACCATGACTAGTCCAGTGGCCATTATTTCAAGTTGTTCTG
66 TATGAGGGATGAACTGGATATGAGAAACATGACTAGACCAGTGACCATTATATCAAGTTGTTCTG
* * * ***
44721 AAGCCTTAAGCTCAAGACCAAATGTTTCGGATTATTCTGGTGTCGAAGAATTGGATGTTAGGAAC
131 AAGCCTTAAGCTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGACAATAGGAAC
* * * * * *
44786 TCCATTCCCTCTGGTGTTAAAGAAATGGATGTTAG-GAAAT-C-TGTTTCTGTATCTCCAAAACG
196 TCCATTCCCTCTGGTATTAAACAAATGGATATT-GTGAAATACAT-TTCCT-CATCTCCAAAACC
** * *
44848 CTTAAATGTCACGAGGGATGAACTGGTTATGAGAAACACGGCCAGTCCTGTGACCAGTGCATCAA
258 CTTAAATGTCACGAGGGATGAACTGGAAATGAGAAACACGACCAGTCCAGTGACCAGTGCATCAA
* * * *
44913 ATTTCTCTGGAGCTTTAAGTTCAACACCAAATGTCTCGGATTTCTCTGGTGTCAAAATGGATGAT
323 ATTGCTCCGAAGCTTCAAGTTCAACACCAAATGTCTCGGATTTCTCTGGTGTCAAAATGGATGAT
44978 ATGAACACCGTC
388 ATGAACACCGTC
* * * *
44990 CCCTCTGGTGTTAAAGAAATGGACA-TTGTGAACTCCATTTCTTCATCTCCAGAACCCATGAAAG
1 CCCTCTAGTGTTAAAGAAATGGACACTAG-GAACTCCATTTCCTCATCTCCAGAACACATGAAAG
* ** **
45054 TTGTGAGGTG-TGAACTGGATATGAGAAATTTGACTAGACCAGTGACTGTTATATCAAGTT-TCT
65 TTATGAGG-GATGAACTGGATATGAGAAACATGACTAGACCAGTGACCATTATATCAAGTTGT-T
*
45117 CTGAAG-CTTCAAGTTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGACAATAG
128 CTGAAGCCTT-AAGCTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGACAATAG
* * * *
45181 GAACTCCGTTCCCTCTGGTATTCAACAAATGGATATTGTGAACTACATTTCCTCATCTCCAGAAC
192 GAACTCCATTCCCTCTGGTATTAAACAAATGGATATTGTGAAATACATTTCCTCATCTCCAAAAC
* ** * * * * **
45246 CCTTGAATGTTGCGAGGTATGAATTGGAAATGAGAAACATGACTAGTCCAGTGACCCTTGCATCA
257 CCTTAAATGTCACGAGGGATGAACTGGAAATGAGAAACACGACCAGTCCAGTGACCAGTGCATCA
45311 AATTGCTCCGAAGCTTCAAGTTCAACACCAAA
322 AATTGCTCCGAAGCTTCAAGTTCAACACCAAA
45343 CATTTCAGAT
Statistics
Matches: 295, Mismatches: 51, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
398 7 0.02
399 281 0.95
400 6 0.02
401 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (399 bp):
CCCTCTAGTGTTAAAGAAATGGACACTAGGAACTCCATTTCCTCATCTCCAGAACACATGAAAGT
TATGAGGGATGAACTGGATATGAGAAACATGACTAGACCAGTGACCATTATATCAAGTTGTTCTG
AAGCCTTAAGCTCAACACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGACAATAGGAAC
TCCATTCCCTCTGGTATTAAACAAATGGATATTGTGAAATACATTTCCTCATCTCCAAAACCCTT
AAATGTCACGAGGGATGAACTGGAAATGAGAAACACGACCAGTCCAGTGACCAGTGCATCAAATT
GCTCCGAAGCTTCAAGTTCAACACCAAATGTCTCGGATTTCTCTGGTGTCAAAATGGATGATATG
AACACCGTC
Found at i:46731 original size:5 final size:5
Alignment explanation
Indices: 46721--46847 Score: 254
Period size: 5 Copynumber: 25.4 Consensus size: 5
46711 TGTGGCACTT
46721 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
46771 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
46821 TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TA
46848 GGGTAAATTA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 122 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:47268 original size:2 final size:2
Alignment explanation
Indices: 47261--47286 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47251 TTTAAAAAGA
47261 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
47287 TTACTTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50262 original size:2 final size:2
Alignment explanation
Indices: 50255--50286 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50245 GTATCATTTA
50255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50287 TAAGAATATT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51056 original size:2 final size:2
Alignment explanation
Indices: 51000--51045 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
50990 TGAGTGTTGT
*
51000 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51042 TA TA
1 TA TA
51046 ATTTTTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:53244 original size:70 final size:70
Alignment explanation
Indices: 53151--53290 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 70
53141 CATTAAATTT
* *
53151 TATATGTTATCCTCAAATCAATCATCACCAGTCAATCTTTTCATTGTC-AGACTCTCACTAATTG
1 TATATGTTATCCTCAAATAAATCATCACCAGTCAATATTTTCATTGTCTA-ACTCTCACTAATTG
53215 GTCGTC
65 GTCGTC
* *
53221 TATATGTTATCGTCAATTAAATCATCACCAGTCAATATTTTCATTGTCTAACTCTCACTAATTGG
1 TATATGTTATCCTCAAATAAATCATCACCAGTCAATATTTTCATTGTCTAACTCTCACTAATTGG
53286 TCGTC
66 TCGTC
53291 ACTTTATTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
70 64 0.98
71 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.39
Consensus pattern (70 bp):
TATATGTTATCCTCAAATAAATCATCACCAGTCAATATTTTCATTGTCTAACTCTCACTAATTGG
TCGTC
Found at i:53551 original size:3 final size:3
Alignment explanation
Indices: 53543--53639 Score: 113
Period size: 3 Copynumber: 31.7 Consensus size: 3
53533 TTCATTTAAA
* *
53543 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
53591 AAT TAC TAA TAT TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT
53638 TA
1 TA
53640 CAAACGGGCC
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
3 74 0.93
4 6 0.08
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:57281 original size:14 final size:14
Alignment explanation
Indices: 57243--57295 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
57233 ATTTTAAATA
*
57243 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
57257 TTTTACATTTGCAT
1 ATTTACATTTGCAT
*
57271 ATTTACTTTTGGCAT
1 ATTTACATTT-GCAT
* *
57286 CTTTGCATTT
1 ATTTACATTT
57296 TTTATGTCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.55
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:60185 original size:2 final size:2
Alignment explanation
Indices: 60178--60229 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
60168 TTATCCTTTA
60178 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60220 AT AT AT AT AT
1 AT AT AT AT AT
60230 TCTTTGTTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63013 original size:115 final size:115
Alignment explanation
Indices: 62811--63110 Score: 591
Period size: 115 Copynumber: 2.6 Consensus size: 115
62801 AAGTGCCATG
62811 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
62876 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
62926 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
62991 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
*
63041 TGCTCATAGTAGAAATAATAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
63106 TGGTT
66 TGGTT
63111 GGACAGAACC
Statistics
Matches: 184, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 184 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (115 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
Found at i:65409 original size:40 final size:40
Alignment explanation
Indices: 65364--65439 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
65354 TGAGCAGAGT
*
65364 CCACAGCAAAGGATGAATGCGTTGTCAAATGTTTTATGTC
1 CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTATGTC
* *
65404 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTA
1 CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTA
65440 CATCTAAGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (40 bp):
CCACAGAAAAGGATGAATGCGTTGTCAAATGTTTTATGTC
Found at i:65859 original size:22 final size:22
Alignment explanation
Indices: 65830--65884 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
65820 ATCTACACTC
*
65830 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
* *
65852 TTTAAAGATGACATATTCTCTT
1 TTCAAAGATGACAGATTCTCTT
65874 TTCAAAGATGA
1 TTCAAAGATGA
65885 AAACTTTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCTCTT
Found at i:66484 original size:113 final size:113
Alignment explanation
Indices: 66286--66608 Score: 429
Period size: 113 Copynumber: 2.9 Consensus size: 113
66276 AGCAAAGATA
* * ****
66286 TGAATTCATCATTCGATGATTCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
**
66351 GAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCACT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-ACT
66399 TGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
* * *
66464 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
66 GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACT
** * * * *
66512 CAAATCCATC-TCTTGATGGA-TCAGCT-TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 TGAATTCATCAT-TCGAT-GATTCAG-TATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT
66574 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
63 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
66609 CATCTGAAGA
Statistics
Matches: 187, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
112 1 0.01
113 178 0.95
114 8 0.04
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (113 bp):
TGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAA
GAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACT
Found at i:66603 original size:40 final size:39
Alignment explanation
Indices: 66548--66647 Score: 173
Period size: 40 Copynumber: 2.5 Consensus size: 39
66538 TTTCTAGAGA
* *
66548 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-AAAAAAG
66588 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAAAG
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAAAG
66627 AAGTTCATAATGAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
66648 TGTTCAACTT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
39 26 0.45
40 32 0.55
ACGTcount: A:0.50, C:0.10, G:0.21, T:0.19
Consensus pattern (39 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAAAG
Found at i:66712 original size:152 final size:153
Alignment explanation
Indices: 66430--66758 Score: 452
Period size: 152 Copynumber: 2.2 Consensus size: 153
66420 CAGTATTTCC
* * * *
66430 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAAAGAAATTCATAATGAGAAGAAC
* *
66495 TTGTTCAACCTTTTGCTCAAATCCATCTCTTGATGGATCAGCTTTTCTAGAGAAAGTTCATAATG
66 TTGTTCAACCTTTTGCTCAAATCCATCTCTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATG
66560 AGAAGAACTCATCTGAAGAAGGA
131 AGAAGAACTCATCTGAAGAAGGA
*
66583 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAA-AAAAAAGAAGTTCATAATGAGAAGAAC
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAAAGAAATTCATAATGAGAAGAAC
** * ****
66647 TTGTTCAA-CTTTTCGCTTGAATTCATCAT-TCGAT-GATTCAG-TATTTCCAGTTCGAGTTCAT
66 TTGTTCAACCTTTT-GCTCAAATCCATC-TCTCGATGGA-TCAGCT-TTTCCAGAGAAAGTTCAT
66708 AATGAGAAGAACTCATCTGAAGAAGGA
127 AATGAGAAGAACTCATCTGAAGAAGGA
*
66735 AGAAGAAATTCATAATGAGAAGAA
1 AGAAGAAGTTCATAATGAGAAGAA
66759 TTTGTTCAAC
Statistics
Matches: 157, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
151 8 0.05
152 112 0.71
153 37 0.24
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (153 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAAAGAAATTCATAATGAGAAGAAC
TTGTTCAACCTTTTGCTCAAATCCATCTCTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATG
AGAAGAACTCATCTGAAGAAGGA
Found at i:66797 original size:265 final size:266
Alignment explanation
Indices: 66323--66871 Score: 1010
Period size: 265 Copynumber: 2.1 Consensus size: 266
66313 TACCAGTTCG
66323 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
66388 AACTTTTCACTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGA
66 AACTTTTCACTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGA
66453 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
131 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
* * *
66518 CATCTCTTGATGGATCAGCTTTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
196 CATCTCTTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
66583 AGAAGA
261 AGAAGA
66589 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAA-AAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* ****
66653 AACTTTTCGCTTGAATTCATCATTCGATGATTCAGTATTTCCAGTTCGAGTTCATAATGAGAAGA
66 AACTTTTCACTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGA
66718 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
131 ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
66783 CATCTCTTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
196 CATCTCTTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
66848 AGAATA
261 AGAAGA
66854 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
66872 TTTGTTCAAC
Statistics
Matches: 274, Mismatches: 9, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
265 239 0.87
266 35 0.13
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (266 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCACTTGAATTCATCATTCGATGATTCAGTATTTCCAGAAAAAGTTCATAATGAGAAGA
ACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
CATCTCTTGATGGATCAGCTTTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGA
Found at i:66934 original size:226 final size:227
Alignment explanation
Indices: 66588--67003 Score: 597
Period size: 226 Copynumber: 1.8 Consensus size: 227
66578 AAGGAAGAAG
66588 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAAAGAAGTTCATAATGAGAAGAACTTGTTC
* ** * ***
66653 AACTTTTCGCTTGAATTCATCATTCGATGATTCAGTATTTCCAGTTCGAGTTCATAATGAGAAGA
66 AACTTTTCGCTTAAATTCATCATTCGATGATTCAACATTGCCAGGAAGAGTTCATAATGAGAAGA
** * *
66718 A-C-TCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAA
131 ACCGTCATCTGAAGAAAAAAGAAGAAATTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAA
66781 TCCATCTCTTGATGGATCAGCTTTTCCAAAAA
196 TCCATCTCTTGATGGATCAGCTTTTCCAAAAA
* * * *
66813 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-AAAAAAGAAGTTCATAATGAGAAGAACTTGTT
* *
66878 CAACCTTTT-GTTTAAATTCATCATTTGATGGA-TCAACATTGCCAGGAAGAGTTCATAATGAGA
65 CAA-CTTTTCGCTTAAATTCATCATTCGAT-GATTCAACATTGCCAGGAAGAGTTCATAATGAGA
* *
66941 AGAACTCGTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTTTG
128 AGAAC-CGTCATCTGAAGAAAAAAGAAGAAATTCATAATGAGAAGAACTTATTCAACCTTTTG
67004 AATGACTCTA
Statistics
Matches: 166, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
225 32 0.19
226 77 0.46
227 7 0.04
228 1 0.01
229 49 0.30
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (227 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCGCTTAAATTCATCATTCGATGATTCAACATTGCCAGGAAGAGTTCATAATGAGAAGA
ACCGTCATCTGAAGAAAAAAGAAGAAATTCATAATGAGAAGAACTTATTCAACCTTTTGCTCAAA
TCCATCTCTTGATGGATCAGCTTTTCCAAAAA
Found at i:67000 original size:116 final size:113
Alignment explanation
Indices: 66584--67003 Score: 524
Period size: 113 Copynumber: 3.7 Consensus size: 113
66574 GAAGAAGGAA
66584 GAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAA-AAGAAGTTCATAATGAGAAGAACT
1 GAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACT
* * *
66648 TGTTCAA-CTTTTCGCTTGAATTCATCATTCGAT-GATTCAGTATTTCCAG
65 TGTTCAACCTTTT-GCTTAAATTCATCATTTGATGGA-TCAGCATTTCCAG
*** ** * *
66697 TTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTT
* * * *
66762 GTTCAACCTTTTGCTCAAATCCATC-TCTTGATGGATCAGCTTTTCCAA
66 GTTCAACCTTTTGCTTAAATTCATCAT-TTGATGGATCAGCATTTCCAG
* * ** * *
66810 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTT
1 GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTT
* * *
66875 GTTCAACCTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAG
66 GTTCAACCTTTTGCTTAAATTCATCATTTGATGGATCAGCATTTCCAG
*
66923 GAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAG
1 GAAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAA
*
66988 CTTATTCAACCTTTTG
63 CTTGTTCAACCTTTTG
67004 AATGACTCTA
Statistics
Matches: 264, Mismatches: 35, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
112 34 0.13
113 172 0.65
114 8 0.03
115 1 0.00
116 49 0.19
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (113 bp):
GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAAAAGAAGAAGTTCATAATGAGAAGAACTT
GTTCAACCTTTTGCTTAAATTCATCATTTGATGGATCAGCATTTCCAG
Found at i:67234 original size:3 final size:3
Alignment explanation
Indices: 67226--67313 Score: 95
Period size: 3 Copynumber: 28.7 Consensus size: 3
67216 TTCATTTAAA
* * * * *
67226 TAT TAT TAT TAT TAT TAT TAT AAT TAT TAT TAT AAT TAT AAT TAC TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
67274 TAT TAT TATT TAT TAC TAA TAT TAT TAT TAAT TAT TAT TA
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA
67314 CAAACGGGCC
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
3 65 0.92
4 6 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:73511 original size:21 final size:21
Alignment explanation
Indices: 73479--73528 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
73469 ACTCACTCTT
* *
73479 TCAA-AAAAATATTG-AGAAC
1 TCAACAAAAATATCGAAAAAC
73498 TCAACAAATAATATCGAAAAAC
1 TCAACAAA-AATATCGAAAAAC
73520 TCAACAAAA
1 TCAACAAAA
73529 CACCATTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 3 0.12
21 7 0.27
22 12 0.46
ACGTcount: A:0.60, C:0.16, G:0.06, T:0.18
Consensus pattern (21 bp):
TCAACAAAAATATCGAAAAAC
Found at i:79901 original size:38 final size:38
Alignment explanation
Indices: 79859--79940 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
79849 AACAAGTTTG
* *
79859 TTTATTGACTCGCTCATTTATGTTCATGAACAATCTCA
1 TTTATTGACTCGCTCATTTATGTTCATCAACAAACTCA
* * * * *
79897 TTTATCGAGTCGTTCATTTATGTTCGTCAACAAACTCG
1 TTTATTGACTCGCTCATTTATGTTCATCAACAAACTCA
79935 TTTATT
1 TTTATT
79941 TTATTTATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (38 bp):
TTTATTGACTCGCTCATTTATGTTCATCAACAAACTCA
Found at i:83394 original size:26 final size:26
Alignment explanation
Indices: 83364--83413 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
83354 TCAAACATCA
*
83364 AATGCATTTTATGCATCGATGCACTC
1 AATGCATTTGATGCATCGATGCACTC
83390 AATGCATTTGATGCATCGATGCAC
1 AATGCATTTGATGCATCGATGCAC
83414 AAGACCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (26 bp):
AATGCATTTGATGCATCGATGCACTC
Found at i:89310 original size:24 final size:24
Alignment explanation
Indices: 89283--89363 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
89273 ACACTTAACA
89283 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
89307 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCCT-TTGAAT
*
89329 -TGCACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
89351 GTGCATCGATGCA
1 GTGCATCGATGCA
89364 CATGGTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.31
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:89349 original size:44 final size:44
Alignment explanation
Indices: 89284--89386 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 44
89274 CACTTAACAG
* * *
89284 TGCATCGATGCATCCCTTTGAATGTGCATCGATTCATCATGTTGA
1 TGCATCGATGCATCCCTTTGAATGTGCATCGATGCA-CATGGTCA
*
89329 TGCACCGATGCA-CGCC-TTGAATGTGCATCGATGCACATGGTCA
1 TGCATCGATGCATC-CCTTTGAATGTGCATCGATGCACATGGTCA
89372 TGCATCGATGCATCC
1 TGCATCGATGCATCC
89387 GTCGGGTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
43 18 0.35
44 20 0.39
45 13 0.25
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.29
Consensus pattern (44 bp):
TGCATCGATGCATCCCTTTGAATGTGCATCGATGCACATGGTCA
Found at i:90953 original size:21 final size:21
Alignment explanation
Indices: 90911--90954 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
90901 ACCCCGGGAG
* *
90911 CTAGTTCTTCACGAGCTGCTC
1 CTAGATCTTCACGAGCTCCTC
* *
90932 CTAGATCTTCTCGTGCTCCTC
1 CTAGATCTTCACGAGCTCCTC
90953 CT
1 CT
90955 CCTCCTCCGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.11, C:0.36, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGATCTTCACGAGCTCCTC
Found at i:91998 original size:20 final size:20
Alignment explanation
Indices: 91973--92030 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
91963 TTTCAAGGTG
91973 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
91993 ATGCACCGATGCATCAATCC
1 ATGCACCGATGCACCAATCC
* * *
92013 ATCCATCGATACACCAAT
1 ATGCACCGATGCACCAAT
92031 TAATTTTTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.36, G:0.12, T:0.19
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:95671 original size:18 final size:18
Alignment explanation
Indices: 95636--95671 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
95626 CTTCTTCTTC
**
95636 TTTTCAATTTTCCTTTTT
1 TTTTCAATTTTCAGTTTT
95654 TTTTCAATTTTCAGTTTT
1 TTTTCAATTTTCAGTTTT
95672 AACAATATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTCAATTTTCAGTTTT
Found at i:98017 original size:21 final size:21
Alignment explanation
Indices: 97967--98063 Score: 90
Period size: 21 Copynumber: 4.6 Consensus size: 21
97957 TGATATATAT
*
97967 AGTATCGATACTAC-AAGAAC
1 AGTATCGATACTACAAAAAAC
*
97987 AATAAT-GATACTACAAAAAAC
1 AGT-ATCGATACTACAAAAAAC
* *
98008 AGTATCGATACTCCAAAAAAAT
1 AGTATCGATACTAC-AAAAAAC
* * * *
98030 AATATCGATGCTACAAAGAAT
1 AGTATCGATACTACAAAAAAC
98051 AGTATCGATACTA
1 AGTATCGATACTA
98064 TAAGATCAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.19
21 33 0.53
22 17 0.27
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.23
Consensus pattern (21 bp):
AGTATCGATACTACAAAAAAC
Found at i:98055 original size:43 final size:41
Alignment explanation
Indices: 97965--98068 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 41
97955 TATGATATAT
*
97965 ATAGTATCGATACTACAAGAACAATAATGATACTACAAAAA
1 ATAGTATCGATACTACAAGAAAAATAATGATACTACAAAAA
* * * *
98006 ACAGTATCGATACTCCAA-AAAAATAATATCGATGCTACAAAGA
1 ATAGTATCGATACTACAAGAAAAAT-A-AT-GATACTACAAAAA
*
98049 ATAGTATCGATACTATAAGA
1 ATAGTATCGATACTACAAGA
98069 TCAATATCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 5 0.10
41 17 0.33
42 2 0.04
43 26 0.51
44 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (41 bp):
ATAGTATCGATACTACAAGAAAAATAATGATACTACAAAAA
Found at i:98076 original size:20 final size:20
Alignment explanation
Indices: 98053--98103 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
98043 CAAAGAATAG
* *
98053 TATCGATACTATAAGATCAA
1 TATCAATACTATAAGAACAA
98073 TATCAATACTATAAGAACAA
1 TATCAATACTATAAGAACAA
*
98093 TATTAATACTA
1 TATCAATACTA
98104 CAACTCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (20 bp):
TATCAATACTATAAGAACAA
Found at i:104607 original size:106 final size:106
Alignment explanation
Indices: 104230--105326 Score: 1725
Period size: 106 Copynumber: 10.4 Consensus size: 106
104220 AAATAAACAT
* *
104230 TTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
104295 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AAACAAC
*
104337 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
104402 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAC-AC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * *
104442 TTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGATTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
104507 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* *
104548 TTCTCAATTTCTGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
104613 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
*
104654 TTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
104719 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
*
104760 TTTTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
* *
104825 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAAT
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* *
104866 TTCCCAATTTCAGAGCCGATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
104931 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* *
104972 TTCTCAAATTCAGAGCCAATTTCAACTTCTCAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
*
105037 CAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAAC
66 CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * * * * *
105078 TTCCCAATTTCAGAGCCAATTTCGACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACACAAGC
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCC-AGACAACGCAAGT
* * *
105142 TCAACTTCACGACGAAGGGGCGGCTGATTGTCAAC-AA-AA-
65 TCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
* * * * *
105181 TT-TC-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAGCACAAGTT
1 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
* * * *
105243 CAACTTCACAAATGAAGGGA-CGATTGGTTGTCAACAAAC--T
66 CAACTTCAC-GACGAAGGGACCG-CTGGTTGTCAACAAACAAC
* *
105283 TTC-CAGTTTC-GAAGGCAATTTCAACTTCACAGCGAAGGATATTG
1 TTCTCAATTTCAG-AGCCAATTTCAACTTCACAGCGAAGGATATTG
105327 ACATCGAAAC
Statistics
Matches: 929, Mismatches: 49, Indels: 27
0.92 0.05 0.03
Matches are distributed among these distances:
100 57 0.06
101 19 0.02
102 6 0.01
103 3 0.00
104 35 0.04
105 107 0.12
106 604 0.65
107 98 0.11
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
TTCTCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTT
CAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAC
Found at i:108072 original size:32 final size:32
Alignment explanation
Indices: 108008--108080 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 32
107998 CATGGGTCGG
*
108008 CCCAAACCTGACCTGAAAAATTTACATCCTTCA
1 CCCAATCC-GACCTGAAAAATTTACATCCTTCA
*
108041 CCCGATCCGACCTGAAAAATATATAC-T-CTTCA
1 CCCAATCCGACCTGAAAAAT-T-TACATCCTTCA
108073 CCCAATCC
1 CCCAATCC
108081 AAACTTGACC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 24 0.69
33 8 0.23
34 3 0.09
ACGTcount: A:0.34, C:0.36, G:0.07, T:0.23
Consensus pattern (32 bp):
CCCAATCCGACCTGAAAAATTTACATCCTTCA
Found at i:116511 original size:16 final size:15
Alignment explanation
Indices: 116486--116516 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
116476 TAATTAACTA
116486 AAATTATTAAATATG
1 AAATTATTAAATATG
116501 AAATGTATTAAATATG
1 AAAT-TATTAAATATG
116517 TTAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (15 bp):
AAATTATTAAATATG
Found at i:119970 original size:20 final size:21
Alignment explanation
Indices: 119942--119982 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
119932 CATTTAATTG
119942 TAAATTTTAATTTT-AAATTTA
1 TAAATTTT-ATTTTAAAATTTA
119963 TAAA-TTTATTTTAAAATTTA
1 TAAATTTTATTTTAAAATTTA
119983 AATAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 10 0.53
21 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAAATTTTATTTTAAAATTTA
Found at i:119989 original size:21 final size:19
Alignment explanation
Indices: 119951--120009 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
119941 GTAAATTTTA
*
119951 ATTTTAAATTTATAAATTT
1 ATTTTAAATTTAAAAATTT
119970 ATTTTAAAATTTAAATAATTT
1 ATTTT-AAATTTAAA-AATTT
*
119991 ATTATCAACATTTAAAAAT
1 ATT-TTAA-ATTTAAAAAT
120010 CTAAAAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 5 0.15
20 8 0.24
21 13 0.38
22 8 0.24
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTAAATTTAAAAATTT
Found at i:120003 original size:22 final size:21
Alignment explanation
Indices: 119956--120006 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
119946 TTTTAATTTT
* *
119956 AAATTTATA-AATTTATTTTA
1 AAATTTAAATAATTTATTTCA
119976 AAATTTAAATAATTTATTATCA
1 AAATTTAAATAATTTATT-TCA
*
119998 ACATTTAAA
1 AAATTTAAA
120007 AATCTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
22 10 0.38
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
AAATTTAAATAATTTATTTCA
Found at i:127863 original size:2 final size:2
Alignment explanation
Indices: 127856--127896 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
127846 ATTATAAGTT
127856 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127897 ACTACCTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:131328 original size:16 final size:16
Alignment explanation
Indices: 131307--131340 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
131297 TTACTATTCA
*
131307 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
131323 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
131339 CG
1 CG
131341 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:132111 original size:15 final size:16
Alignment explanation
Indices: 132091--132122 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
132081 TGGCAGATCC
132091 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
132106 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
132122 A
1 A
132123 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:136630 original size:4 final size:4
Alignment explanation
Indices: 136623--136653 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
136613 TATATGTATA
136623 TAGT TAGT TAGT TAGT TAGT TAGT TAGT TAG
1 TAGT TAGT TAGT TAGT TAGT TAGT TAGT TAG
136654 GATCTACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
TAGT
Found at i:137394 original size:21 final size:22
Alignment explanation
Indices: 137358--137410 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
137348 TTTTCCAGAA
*
137358 TGCTACAGGGGTATCGATACCC-
1 TGCTACA-GTGTATCGATACCCT
137380 TGCTACAGTGTATCGATACCCT
1 TGCTACAGTGTATCGATACCCT
137402 TGCTACAGT
1 TGCTACAGT
137411 AATTTCGGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (22 bp):
TGCTACAGTGTATCGATACCCT
Found at i:139459 original size:3 final size:3
Alignment explanation
Indices: 139451--139496 Score: 74
Period size: 3 Copynumber: 14.7 Consensus size: 3
139441 GGGGACACAG
139451 GAA GAA GAAA GCAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA G-AA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
139497 GAGTTTGTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
3 35 0.85
4 6 0.15
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:141171 original size:20 final size:20
Alignment explanation
Indices: 141148--141201 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
141138 AACGCGATTT
* *
141148 AGAAAATCACAACGTTAAAA
1 AGAAAATCGCAACGGTAAAA
*
141168 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTAAAA
141188 AGAAAATCGCAACG
1 AGAAAATCGCAACG
141202 CGAGCTTCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.54, C:0.19, G:0.17, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGGTAAAA
Found at i:141261 original size:20 final size:20
Alignment explanation
Indices: 141236--141446 Score: 269
Period size: 20 Copynumber: 10.4 Consensus size: 20
141226 TTTAGAAGAA
*
141236 AATCGCAATGCGATTGATAG
1 AATCGCAATGCGATTGAGAG
* *
141256 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
141276 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
141296 AGTCGCAACGCGATCTAGAAGAA
1 AATCGCAATGCGAT-T-G-AGAG
*
141319 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
*
141339 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
*
141359 AATCGCAATGCGACTGAGAG
1 AATCGCAATGCGATTGAGAG
* *
141379 AATCGCAATGCGATTTATAG
1 AATCGCAATGCGATTGAGAG
141399 AATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAG
* * *
141419 AATCGCAACGCGATTTAGAA
1 AATCGCAATGCGATTGAGAG
141439 AATCGCAA
1 AATCGCAA
141447 CGTTAAAAAG
Statistics
Matches: 170, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
20 152 0.89
21 2 0.01
22 2 0.01
23 14 0.08
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (20 bp):
AATCGCAATGCGATTGAGAG
Found at i:141322 original size:83 final size:83
Alignment explanation
Indices: 141215--141446 Score: 335
Period size: 83 Copynumber: 2.8 Consensus size: 83
141205 GCTTCCAAGT
* *
141215 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
* *
141280 GCAATGCGATTGAGAGAG
66 GCAATGCGACTGAGAGAA
* * * *
141298 TCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
141363 GCAATGCGACTGAGAGAA
66 GCAATGCGACTGAGAGAA
* * * *
141381 TCGCAATGCGATTTA-TAG--AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
141443 GCAA
66 GCAA
141447 CGTTAAAAAG
Statistics
Matches: 133, Mismatches: 16, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
80 43 0.32
82 2 0.02
83 88 0.66
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (83 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGAGAGAATCGCAATGCGATTTAGAGAATC
GCAATGCGACTGAGAGAA
Found at i:141458 original size:20 final size:20
Alignment explanation
Indices: 141435--141478 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
141425 AACGCGATTT
*
141435 AGAAAATCGCAACGTTAAAA
1 AGAAAATCGCAACGGTAAAA
*
141455 AGAAAATCGCAACGGTCAAA
1 AGAAAATCGCAACGGTAAAA
141475 AGAA
1 AGAA
141479 TAGTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.16, G:0.18, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGGTAAAA
Found at i:141463 original size:60 final size:59
Alignment explanation
Indices: 141276--141466 Score: 161
Period size: 60 Copynumber: 3.1 Consensus size: 59
141266 CGATTTATAG
* * ** ***
141276 AATCGCAATGCGATTGAGAGAGTCGCAACGCGATCTAGAAGAAAATCGCAATGCGACTGAGA
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGAT-T--AAGAAAATCGCAACGTTAAAAAGA
* * * * * * *
141338 GAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGATT-TATAG-
1 -AATCGCAATGCGATTGAGAGAATCGCAACGCGATTAAGAAAATCGCAA--CG-TTAAAAAGA
*
141399 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAATCGCAACGTTAAAAAGAA
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTAAGAAAATCGCAACGTTAAAAAG-A
141459 AATCGCAA
1 AATCGCAA
141467 CGGTCAAAAG
Statistics
Matches: 103, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
57 2 0.02
58 5 0.05
60 62 0.60
62 4 0.04
63 30 0.29
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (59 bp):
AATCGCAATGCGATTGAGAGAATCGCAACGCGATTAAGAAAATCGCAACGTTAAAAAGA
Found at i:141567 original size:6 final size:6
Alignment explanation
Indices: 141556--141593 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
141546 GACACGTATT
141556 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
141594 CGAGACGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.32, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:142304 original size:6 final size:6
Alignment explanation
Indices: 142288--142343 Score: 105
Period size: 6 Copynumber: 9.5 Consensus size: 6
142278 TCTCGTCTCG
142288 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
142335 GGTCGT GGT
1 GGTCGT GGT
142344 AATACGTGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.10
6 45 0.90
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:142446 original size:20 final size:20
Alignment explanation
Indices: 142421--142464 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
142411 TTTTTAACTA
*
142421 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
142441 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
142461 TTCT
1 TTCT
142465 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:142474 original size:20 final size:20
Alignment explanation
Indices: 142453--142704 Score: 270
Period size: 20 Copynumber: 12.3 Consensus size: 20
142443 CTTTTTAACG
* *
142453 TTGCGATTTTCTAAATCGCG
1 TTGCGATTCTCTAAATCGCA
*
142473 TTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTAAATCGCA
*
142493 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTAAATCGCA
* *
142513 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
* *
142533 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
* *
142553 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
* *
142573 TTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCA
* *
142593 TTGCGATTTTCTTCTAGATCGCG
1 TTGCGA--TTC-TCTAAATCGCA
* *
142616 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTAAATCGCA
*
142636 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTAAATCGCA
* *
142656 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTAAATCGCA
*
142676 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TTC-TCTAAATCGCA
142699 TTGCGA
1 TTGCGA
142705 ACTTGGAAGC
Statistics
Matches: 203, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
20 168 0.83
21 2 0.01
22 6 0.03
23 27 0.13
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (20 bp):
TTGCGATTCTCTAAATCGCA
Found at i:142497 original size:40 final size:40
Alignment explanation
Indices: 142453--142683 Score: 300
Period size: 40 Copynumber: 5.7 Consensus size: 40
142443 CTTTTTAACG
* * *
142453 TTGCGATTTTCTAAATCGCGTTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCA
* * *
142493 TTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCA
* *
142533 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCA
* * *
142573 TTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAGATCGCG
1 TTGCGATTCTCTCAATCGCATTGCGATTCTC-TC-A-ATCGCA
* * *
142616 TTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCA
*
142656 TTGCGATTCTATCAATCGCATTGCGATT
1 TTGCGATTCTCTCAATCGCATTGCGATT
142684 TTCTTCTAAA
Statistics
Matches: 170, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 134 0.79
41 3 0.02
42 2 0.01
43 31 0.18
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.36
Consensus pattern (40 bp):
TTGCGATTCTCTCAATCGCATTGCGATTCTCTCAATCGCA
Done.