Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005097.1 Hibiscus syriacus cultivar Beakdansim tig00011460_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: 71053
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Found at i:3947 original size:23 final size:21
Alignment explanation
Indices: 3899--3949 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
3889 GATCACTAGT
*
3899 ATAATTTATCTTTTATTTTAA
1 ATAATTTATCTTTAATTTTAA
3920 ATAATTTATCTTTAAATTTTTAA
1 ATAATTTATCTTT-AA-TTTTAA
*
3943 CTAATTT
1 ATAATTT
3950 TATAATTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 13 0.50
22 1 0.04
23 12 0.46
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (21 bp):
ATAATTTATCTTTAATTTTAA
Found at i:5217 original size:24 final size:24
Alignment explanation
Indices: 5187--5267 Score: 153
Period size: 24 Copynumber: 3.4 Consensus size: 24
5177 AACAGTGGGG
*
5187 AAGTAGTAAAAGATATGAAGATGG
1 AAGTAGTAAAAGATATGAAGATGA
5211 AAGTAGTAAAAGATATGAAGATGA
1 AAGTAGTAAAAGATATGAAGATGA
5235 AAGTAGTAAAAGATATGAAGATGA
1 AAGTAGTAAAAGATATGAAGATGA
5259 AAGTAGTAA
1 AAGTAGTAA
5268 TGGAAACTGG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (24 bp):
AAGTAGTAAAAGATATGAAGATGA
Found at i:11091 original size:12 final size:12
Alignment explanation
Indices: 11074--11098 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11064 ACAAAGCACC
11074 ATTTGGTGCCTA
1 ATTTGGTGCCTA
11086 ATTTGGTGCCTA
1 ATTTGGTGCCTA
11098 A
1 A
11099 ATTATTTGAC
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:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (12 bp):
ATTTGGTGCCTA
Found at i:24343 original size:20 final size:21
Alignment explanation
Indices: 24318--24410 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
24308 TTTTCCCAAT
*
24318 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
24338 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
24359 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
24379 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
24400 TCGCAATGCGA
1 TCGCAATGCGA
24411 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:24363 original size:41 final size:41
Alignment explanation
Indices: 24318--24410 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
24308 TTTTCCCAAT
24318 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
24359 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
24400 TCGCAATGCGA
1 TCGCAATGCGA
24411 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:24423 original size:41 final size:41
Alignment explanation
Indices: 24337--24471 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
24327 GAATAAGTAA
** *
24337 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
24378 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
24419 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
24460 TTCGCAACGCGA
1 ATCGCAACGCGA
24472 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:24424 original size:20 final size:20
Alignment explanation
Indices: 24399--24492 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
24389 AATTGGGAAA
*
24399 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
24419 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
24440 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
24460 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
24480 TTCGCAACGCGAT
1 ATCGCAACGCGAT
24493 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:25050 original size:19 final size:19
Alignment explanation
Indices: 25011--25077 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
25001 TTCGAGAATG
25011 AAAATCGCAACGCGAAAATA
1 AAAATCGCAACGCG-AAATA
**
25031 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
25050 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
25069 AAAATCGCA
1 AAAATCGCA
25078 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.49, C:0.25, G:0.15, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:25119 original size:20 final size:19
Alignment explanation
Indices: 25073--25238 Score: 136
Period size: 20 Copynumber: 9.1 Consensus size: 19
25063 GAAACCAAAA
*
25073 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
25092 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
25111 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
25131 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
25147 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
25164 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
25178 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
25197 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
25217 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
25237 TC
1 TC
25239 AACCAAAAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 26
0.74 0.09 0.16
Matches are distributed among these distances:
14 20 0.17
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 41 0.34
20 49 0.41
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:25154 original size:39 final size:39
Alignment explanation
Indices: 25078--25154 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
25068 CAAAATCGCA
* **
25078 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
25117 TTGCGATTTTCATTTCGCGTTGCGATTGTCT-GGTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATT-TCTAGGTCGCG
25155 ATAGTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 32 0.94
40 2 0.06
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.45
Consensus pattern (39 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTCTAGGTCGCGG
Found at i:25163 original size:33 final size:33
Alignment explanation
Indices: 25126--25213 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
25116 GTTGCGATTT
* *
25126 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
25159 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
25192 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
25214 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:27297 original size:42 final size:42
Alignment explanation
Indices: 27237--27359 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
27227 GCCCGACTCG
* * *
27237 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
27279 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
27321 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
27360 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:27317 original size:21 final size:21
Alignment explanation
Indices: 27293--27359 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
27283 TCATTCCTCG
27293 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
27314 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
27335 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
27356 AGAG
1 AGAG
27360 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:27853 original size:18 final size:18
Alignment explanation
Indices: 27827--27871 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
27817 GTCGATCAGA
* *
27827 TGATGGCTCTGGGTGGGG
1 TGATGGCTCTGGGCGAGG
*
27845 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
27863 TGATGGCTC
1 TGATGGCTC
27872 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:29532 original size:22 final size:22
Alignment explanation
Indices: 29493--29536 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
29483 GATTTAGATA
*
29493 GACGGATTTTGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* *
29515 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
29537 TGAGAGAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.14, G:0.43, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:29817 original size:20 final size:20
Alignment explanation
Indices: 29704--29817 Score: 90
Period size: 20 Copynumber: 5.7 Consensus size: 20
29694 CGCTTTGAAA
29704 ATCGCATTGCGATTATGTAA--
1 ATCGCATTGCGA-TA-GTAAGT
* * *
29724 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTAAGT
* *
29744 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTAAGT
* * * *
29764 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTAAGT
29785 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTAAGT
29805 ATCGCATTGCGAT
1 ATCGCATTGCGAT
29818 TTTCCCAATT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.04
19 4 0.05
20 56 0.73
21 12 0.16
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTAAGT
Found at i:29835 original size:21 final size:21
Alignment explanation
Indices: 29806--29898 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
29796 ATAGTAAGTA
29806 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
29827 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
29847 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
29868 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
29888 TCGCATTGCGA
1 TCGCATTGCGA
29899 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:29836 original size:41 final size:41
Alignment explanation
Indices: 29745--29879 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
29735 AAAGTCAGTA
* * * ** *
29745 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
29785 ATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
29827 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
29868 TCGCGTTGCGAT
1 TCGCGTTGCGAT
29880 TTACTTATTC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 4 0.05
41 75 0.93
42 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:29880 original size:41 final size:41
Alignment explanation
Indices: 29806--29898 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
29796 ATAGTAAGTA
29806 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
29847 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
29888 TCGCATTGCGA
1 TCGCATTGCGA
29899 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:35330 original size:21 final size:20
Alignment explanation
Indices: 35244--35401 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
35234 AAATGACCAA
**
35244 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
35263 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
35283 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
35303 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
35324 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
35345 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
35365 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
35386 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
35402 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:35394 original size:20 final size:20
Alignment explanation
Indices: 35369--35562 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
35359 GATTTTCAAT
* *
35369 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
35389 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
35409 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
35429 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
35449 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
35469 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
35489 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
35509 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
35530 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
35550 AATCGCAACGCGA
1 AATCGCAACGCGA
35563 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:35414 original size:40 final size:39
Alignment explanation
Indices: 35369--35562 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
35359 GATTTTCAAT
* ** *
35369 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
35409 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
** * * *
35449 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
35489 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
35530 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
35563 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:35452 original size:60 final size:60
Alignment explanation
Indices: 35369--35561 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
35359 GATTTTCAAT
* ** * *
35369 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
35429 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
35489 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
35550 AATCGCAACGCG
1 AATCGCAACGCG
35562 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:35982 original size:33 final size:33
Alignment explanation
Indices: 35943--36013 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
35933 TTCACTTAGA
*
35943 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
35976 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
36009 TTTCA
1 TTTCA
36014 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:36153 original size:14 final size:14
Alignment explanation
Indices: 36134--36188 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
36124 AGAATGACTG
36134 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
36148 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
36167 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
36181 TCGCAACG
1 TCGCAACG
36189 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:36171 original size:33 final size:33
Alignment explanation
Indices: 36134--36204 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
36124 AGAATGACTG
**
36134 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
36167 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
36200 TCGCA
1 TCGCA
36205 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:36222 original size:19 final size:19
Alignment explanation
Indices: 36200--36297 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
36190 GAAACCAAAA
*
36200 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
36219 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
36233 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
36252 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
36266 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
36285 TCGCGTTGCGATT
1 TCGCGTTGCGATT
36298 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:36241 original size:14 final size:14
Alignment explanation
Indices: 36222--36311 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
36212 TTTCATTTCG
36222 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
36236 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
36255 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
36269 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
36286 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
36302 CGTTGCGATT
1 CGTTGCGATT
36312 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:36247 original size:33 final size:33
Alignment explanation
Indices: 36205--36319 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
36195 CAAAATCGCA
36205 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
36238 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
36271 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
36304 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
36320 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:38222 original size:92 final size:93
Alignment explanation
Indices: 38016--38394 Score: 735
Period size: 92 Copynumber: 4.1 Consensus size: 93
38006 TAGATTGCTT
*
38016 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
38081 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
38109 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
38173 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
38201 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
38265 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
38293 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
38358 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
38386 AGTAAATTT
1 AGTAAATTT
38395 ATCCATTCAA
Statistics
Matches: 284, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.65
93 100 0.35
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:38246 original size:185 final size:185
Alignment explanation
Indices: 38016--38396 Score: 737
Period size: 185 Copynumber: 2.1 Consensus size: 185
38006 TAGATTGCTT
38016 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
38081 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
38146 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
38201 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
38266 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
38331 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
38386 AGTAAATTTAT
1 AGTAAATTTAT
38397 CCATTCAAGT
Statistics
Matches: 193, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 92 0.48
185 101 0.52
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:38478 original size:19 final size:19
Alignment explanation
Indices: 38438--38566 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
38428 TAGTTTACTT
* *
38438 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
38458 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
38477 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
38496 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
38510 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
38529 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
38543 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
38562 TCGCA
1 TCGCA
38567 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
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 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:38517 original size:33 final size:32
Alignment explanation
Indices: 38474--38566 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
38464 CGCGAAACCA
**
38474 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
38506 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
38539 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
38567 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:38564 original size:52 final size:52
Alignment explanation
Indices: 38438--38566 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
38428 TAGTTTACTT
**
38438 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
38490 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
38543 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
38567 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:38584 original size:19 final size:19
Alignment explanation
Indices: 38562--38696 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
38552 GAAACCAAAA
*
38562 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
38581 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
38597 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
38614 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
38630 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
38647 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
38666 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
38686 TCGTGTTGCGA
1 TCGCGTTGCGA
38697 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:38603 original size:14 final size:14
Alignment explanation
Indices: 38584--38640 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
38574 TTTCATTTCG
38584 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
38598 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
38615 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
38631 CGTTGCGATT
1 CGTTGCGATT
38641 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:38609 original size:33 final size:33
Alignment explanation
Indices: 38567--38659 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
38557 CAAAATCGCA
*
38567 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
38600 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
38633 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
38660 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:41118 original size:21 final size:20
Alignment explanation
Indices: 41032--41189 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
41022 AAATGACCAA
**
41032 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
41051 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
41071 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
41091 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
41112 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
41133 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
41153 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
41174 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
41190 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:41182 original size:20 final size:20
Alignment explanation
Indices: 41157--41467 Score: 79
Period size: 20 Copynumber: 15.5 Consensus size: 20
41147 GATTTTCAAT
* *
41157 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
41177 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
41197 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
41217 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
41237 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
41257 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
41277 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
41297 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
41318 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
41338 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
41358 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
41378 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* *
41398 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
41418 AATCGCAACGATAATC-CGTA
1 AATCGCAACGCGAA-CACATA
* *
41438 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
41458 AATCGCAACG
1 AATCGCAACG
41468 ATAATCCGTA
Statistics
Matches: 244, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.01
20 224 0.92
21 16 0.07
22 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:41202 original size:40 final size:40
Alignment explanation
Indices: 41157--41546 Score: 439
Period size: 40 Copynumber: 9.7 Consensus size: 40
41147 GATTTTCAAT
* ** * * *
41157 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAAC-CGTA
* *
41197 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
** * * *
41237 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
* * *
41277 TATCGCAACGCGTATCCGTAAATCGCAACGA-TAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGT-A
* *
41318 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
* * *
41358 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
41398 AATCGCAACGCGTATCCGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
41438 AATCGCAACGCGTATCCGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
* * *
41478 AATCGCAACGAGAATCTGTAAATCGCAACGA-TAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGTAA-CCGTA
* * * *
41518 AATCGCAACGAGAATCTGTAAATCACAAC
1 AATCGCAACGCGTATCCGTAAATCGCAAC
41547 ACTGAAATTT
Statistics
Matches: 312, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
39 4 0.01
40 272 0.87
41 34 0.11
42 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGTAACCGTA
Found at i:41474 original size:20 final size:19
Alignment explanation
Indices: 41195--41546 Score: 398
Period size: 20 Copynumber: 17.6 Consensus size: 19
41185 CGCGAACACA
41195 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
41215 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
**
41235 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACG-GTATCCG
*
41255 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
41275 TATATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
* * *
41295 TAAATCGCAACGATAATACA
1 TAAATCGCAACGGT-ATCCG
41315 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACG-GTATCCG
41336 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
41356 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
41376 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
41396 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
41416 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
41436 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
41456 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
41476 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
41496 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
41516 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
41536 TAAATCACAAC
1 TAAATCGCAAC
41547 ACTGAAATTT
Statistics
Matches: 290, Mismatches: 33, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.01
20 270 0.93
21 16 0.06
22 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:42261 original size:24 final size:24
Alignment explanation
Indices: 42222--42268 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
42212 AAATTTGGTC
42222 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
42246 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
42269 GATGTTTCAG
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:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:42460 original size:12 final size:12
Alignment explanation
Indices: 42443--42467 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42433 ATATAATCCT
42443 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42455 GAAGAAGAAAAA
1 GAAGAAGAAAAA
42467 G
1 G
42468 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:44770 original size:19 final size:19
Alignment explanation
Indices: 44748--45020 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
44738 CGGAAAATAC
*
44748 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
44767 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
44781 AATCGCAATGCGGAAATG-A
1 AATCGCAATGC-GAAATGAA
*
44800 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
44814 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44833 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
44852 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
44866 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44885 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
44904 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
44923 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44942 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44961 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
44975 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
44994 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
45013 AATCGCAA
1 AATCGCAA
45021 CGAGATAATC
Statistics
Matches: 224, Mismatches: 8, Indels: 44
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.00
14 39 0.17
15 1 0.00
16 12 0.05
17 10 0.04
18 2 0.01
19 156 0.70
20 3 0.01
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:44803 original size:33 final size:32
Alignment explanation
Indices: 44748--45042 Score: 136
Period size: 33 Copynumber: 8.5 Consensus size: 32
44738 CGGAAAATAC
*
44748 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATG-AAATCCCAACGA-GAA
* *
44781 AATCGCAATGCGGAAATGAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAATCCCAACGAGAA
*
44814 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-AAATCCCAA--CG--A-GAA
* * * * *
44852 AATCGCAACGAGAGAATCGCAATGCGAA--ATGAA
1 AATCGCAATGCGA-AAT-GAAATCCCAACGA-GAA
* *
44885 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATG-AAATCCCAA--CG--A-GAA
*
44923 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATG-AAATCCCAA--CG--A-GAA
*
44961 AATCGCAA--CGAAA-G-AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAATCCCAA--CG--A-GAA
* *
44994 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATG-AAATCCCAACGAGAA
45027 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
45043 TATAAACGCA
Statistics
Matches: 221, Mismatches: 19, Indels: 44
0.78 0.07 0.15
Matches are distributed among these distances:
31 1 0.00
32 14 0.06
33 102 0.46
34 8 0.04
35 8 0.04
36 8 0.04
37 1 0.00
38 70 0.32
39 8 0.04
40 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (32 bp):
AATCGCAATGCGAAATGAAATCCCAACGAGAA
Found at i:45002 original size:71 final size:74
Alignment explanation
Indices: 44776--45020 Score: 320
Period size: 71 Copynumber: 3.4 Consensus size: 74
44766 AAATCCCAAC
*
44776 ATGAAAATCGCAATGCGGAAATG-AAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-AAA
44835 TCGCAATGCGAA
63 TCGCAATGCGAA
*
44847 ATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAAT
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-AAAT
44907 CGCAATGCGAA
64 CGCAATGCGAA
*
44918 ATGGAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-AATCG
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGAAATCG
44980 CAATGCGAA
66 CAATGCGAA
44989 ATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA
45021 CGAGATAATC
Statistics
Matches: 158, Mismatches: 5, Indels: 22
0.85 0.03 0.12
Matches are distributed among these distances:
65 1 0.01
66 9 0.06
68 3 0.02
69 1 0.01
70 1 0.01
71 105 0.66
73 3 0.02
74 5 0.03
75 1 0.01
76 29 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (74 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGAAATCG
CAATGCGAA
Found at i:45058 original size:52 final size:52
Alignment explanation
Indices: 44776--45042 Score: 446
Period size: 52 Copynumber: 5.0 Consensus size: 52
44766 AAATCCCAAC
44776 ATGAAAATCGCAATGCGGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
44828 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
44880 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAGA--G-AATCGCAATGCGAA
*
44937 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
44989 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
45041 AT
1 AT
45043 TATAAACGCA
Statistics
Matches: 206, Mismatches: 3, Indels: 12
0.93 0.01 0.05
Matches are distributed among these distances:
51 6 0.03
52 143 0.69
53 1 0.00
54 4 0.02
55 5 0.02
56 1 0.00
57 46 0.22
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:45058 original size:71 final size:69
Alignment explanation
Indices: 44748--45042 Score: 318
Period size: 71 Copynumber: 4.2 Consensus size: 69
44738 CGGAAAATAC
* *
44748 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAATCGCAA
44808 CGAGA
65 CGAGA
* * *
44813 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCG
1 -AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAT-CG
* *
44878 AAATGA-A
62 CAACGAGA
*
44885 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAA
* *
44950 TGCGA
65 CGAGA
* * *
44955 AAT-GAAAAT-CGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
1 AATCG-CAATGCGAAATG-AA-AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCG
45018 CAACGAGA
62 CAACGAGA
45026 TAATCGCAATGCGAAAT
1 -AATCGCAATGCGAAAT
45043 TATAAACGCA
Statistics
Matches: 191, Mismatches: 22, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
66 25 0.13
68 1 0.01
69 13 0.07
70 17 0.09
71 113 0.59
72 11 0.06
73 11 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (69 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAAC
GAGA
Found at i:45074 original size:20 final size:19
Alignment explanation
Indices: 45049--45131 Score: 104
Period size: 20 Copynumber: 4.6 Consensus size: 19
45039 AAATTATAAA
45049 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
45068 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
45088 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
45104 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
45121 CGCATTACGAT
1 CGCATTGCGAT
45132 AGTCATTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.13
17 7 0.13
19 16 0.29
20 19 0.35
ACGTcount: A:0.16, C:0.24, G:0.17, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:45257 original size:14 final size:14
Alignment explanation
Indices: 45238--45274 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
45228 CATCAATTAC
45238 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
45252 ACAAATCATCTTTT
1 ACAAATCAACTTTT
45266 ACAAATCAA
1 ACAAATCAA
45275 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:47244 original size:14 final size:14
Alignment explanation
Indices: 47225--47281 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
47215 GCGAAATGAA
*
47225 AATCGCAACGACAG
1 AATCGCAACGAAAG
47239 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
47256 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
47272 AATCGCAACG
1 AATCGCAACG
47282 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:47252 original size:33 final size:33
Alignment explanation
Indices: 47206--47298 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
47196 GCGAAACCAA
*
47206 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
47239 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
47272 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
47299 TGCGATTTTG
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:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:47263 original size:19 final size:19
Alignment explanation
Indices: 47169--47303 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
47159 TAGTTTACTT
* *
47169 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
47189 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
47208 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
47227 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
47241 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
47260 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
47274 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
47293 TCGCAATGCGA
1 TCGCAACGCGA
47304 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:47321 original size:19 final size:19
Alignment explanation
Indices: 47299--47427 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
47289 AAAATCGCAA
47299 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
47318 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
47332 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
47351 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
47365 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
47384 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
47403 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
47423 TGCGA
1 TGCGA
47428 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:47341 original size:33 final size:33
Alignment explanation
Indices: 47299--47390 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
47289 AAAATCGCAA
47299 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
47332 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
47365 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
47391 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:47762 original size:92 final size:93
Alignment explanation
Indices: 47471--47847 Score: 717
Period size: 92 Copynumber: 4.1 Consensus size: 93
47461 TTGAATGGAT
47471 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
47536 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
47564 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TA-TTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
47627 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
47655 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
47719 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
47747 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
47811 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
47839 AAATTTACT
1 AAATTTACT
47848 AAGCAATCTA
Statistics
Matches: 281, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
91 95 0.34
92 147 0.52
93 39 0.14
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:49573 original size:14 final size:14
Alignment explanation
Indices: 49554--49643 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
49544 TTGAAATGAA
49554 AATCGCAACGAGAG
1 AATCGCAACGAGAG
49568 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
49585 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
49601 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
49620 AATCGCAACGAGAG
1 AATCGCAACGAGAG
49634 AATCGCAACG
1 AATCGCAACG
49644 CGAAATGAAA
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:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:49591 original size:33 final size:33
Alignment explanation
Indices: 49546--49660 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
49536 TCTTTTGGTT
49546 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
49579 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
49612 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
49645 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
49661 TGCGATTTTG
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:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:49592 original size:19 final size:18
Alignment explanation
Indices: 49553--49665 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
49543 GTTGAAATGA
49553 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
49568 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
49585 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
49601 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
49618 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
49634 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
49651 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
49666 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:49696 original size:14 final size:14
Alignment explanation
Indices: 49677--49731 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
49667 TTTGGTTTCG
49677 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
49691 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
49710 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
49724 CGTTGCGA
1 CGTTGCGA
49732 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:49709 original size:33 final size:33
Alignment explanation
Indices: 49661--49731 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
49651 AAAATCGCAA
**
49661 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
49694 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
49727 TGCGA
1 TGCGA
49732 CAGTCATTCT
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:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:49739 original size:33 final size:33
Alignment explanation
Indices: 49672--49753 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
49662 GCGATTTTGG
***
49672 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
49705 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
49738 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
49754 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:49758 original size:20 final size:20
Alignment explanation
Indices: 49684--49772 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
49674 TCGCGTTGCG
49684 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
49704 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
49717 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
49737 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
49757 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
49773 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:49894 original size:33 final size:33
Alignment explanation
Indices: 49852--49922 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
49842 AATACTAACT
*
49852 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
49885 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
49918 TGAAA
1 TGAAA
49923 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:50156 original size:22 final size:22
Alignment explanation
Indices: 50104--50158 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
50094 TGGTTGTGAG
**
50104 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
50126 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
50148 GGATTTCTTCG
1 GGATTTCTTCG
50159 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:50329 original size:20 final size:20
Alignment explanation
Indices: 50304--50496 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
50294 CTTTAAATAT
50304 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
50324 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
50346 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
50365 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
50385 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
50405 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
50425 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
50445 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
50465 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
50485 CGCGTTGCGATT
1 CGCGTTGCGATT
50497 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:50491 original size:60 final size:60
Alignment explanation
Indices: 50304--50496 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
50294 CTTTAAATAT
**
50304 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
50365 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
50425 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
50485 CGCGTTGCGATT
1 CGCGTTGCGATT
50497 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:55580 original size:59 final size:58
Alignment explanation
Indices: 55405--55587 Score: 249
Period size: 58 Copynumber: 3.1 Consensus size: 58
55395 TTCAAATTTT
*
55405 TTTGAACTCAAATCGAACTCCAATTTTTAATTTCGAGTCATACTTACTAATTTCAAAA
1 TTTGAACTCAAATCAAACTCCAATTTTTAATTTCGAGTCATACTTACTAATTTCAAAA
* * ** * *
55463 TTCGAACTCAAATCAAACTCCAATTTTTGATTTCGAGTCATACCAACCAATTTTAAAA
1 TTTGAACTCAAATCAAACTCCAATTTTTAATTTCGAGTCATACTTACTAATTTCAAAA
* * * *
55521 TTTGAACTCAAATCAAACTCTAGTTTTTTTATTTCAAGTCATACTTACTAATTTCAAAA
1 TTTGAACTCAAATCAAACTCCA-ATTTTTAATTTCGAGTCATACTTACTAATTTCAAAA
*
55580 TTAGAACT
1 TTTGAACT
55588 AACTCATTTC
Statistics
Matches: 107, Mismatches: 17, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
58 71 0.66
59 36 0.34
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.38
Consensus pattern (58 bp):
TTTGAACTCAAATCAAACTCCAATTTTTAATTTCGAGTCATACTTACTAATTTCAAAA
Found at i:55738 original size:125 final size:122
Alignment explanation
Indices: 55453--55760 Score: 307
Period size: 125 Copynumber: 2.5 Consensus size: 122
55443 CATACTTACT
* * * * * * **
55453 AATTTCAAAATTCGAACTCAAATCAAACTCCAATTTTTGATTTCGAGTCATACCAACCAATTTTA
1 AATTTTAAAATTCGAACTCAAATCGAACTCCAATTTTTTATTTCAAATCGTACTTACCAATTTTA
** * * * *
55518 AAATTTGAACTCAAATCAAACTCTAGTTTTTTTATTTCAAGTCATACTTACTAATTTC
66 AAATTCAAACTAAAATCAAACGCTAG-TTTTTTATTTCAAATCATACTTACCAATTTC
** * * ** *
55576 AAAATTAGAA--CTAACTCATTTCGAATTCCAATTTTTTTTATTTCAAATCGTACTTACCAATTT
1 AATTTTAAAATTCGAACTCAAATCGAACTCCAA--TTTTTTATTTCAAATCGTACTTACCAATTT
*
55639 TAAAATTCAAACTTTAAAATTCGAACGCATA-TTTTTTATTTCAAATCATACTTACCAATTTC
64 TAAAATTCAAAC--TAAAA-TCAAACGC-TAGTTTTTTATTTCAAATCATACTTACCAATTTC
** *
55701 AATTTTAAAATTCGAACTCAAATCGAACTGTAATTTTTTATTTCAACTCGTACTTACCAA
1 AATTTTAAAATTCGAACTCAAATCGAACTCCAATTTTTTATTTCAAATCGTACTTACCAA
55761 CTTCAAAAGT
Statistics
Matches: 145, Mismatches: 32, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
121 16 0.11
123 40 0.28
125 66 0.46
126 6 0.04
127 17 0.12
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (122 bp):
AATTTTAAAATTCGAACTCAAATCGAACTCCAATTTTTTATTTCAAATCGTACTTACCAATTTTA
AAATTCAAACTAAAATCAAACGCTAGTTTTTTATTTCAAATCATACTTACCAATTTC
Found at i:55746 original size:64 final size:62
Alignment explanation
Indices: 55408--55760 Score: 241
Period size: 58 Copynumber: 5.8 Consensus size: 62
55398 AAATTTTTTT
* * *
55408 GAACTCAAATCGAACTCCAATTTTTAATTTCGAGTCATACTTA-C--T-AATTTCAAAATTC
1 GAACTCAAATCGAACTCCAATTTTTTATTTCAAGTCATACTTACCAATCAATTTTAAAATTC
* * * * *
55466 GAACTCAAATCAAACTCCAATTTTTGATTTCGAGTC--A--TACCAACCAATTTTAAAATTT
1 GAACTCAAATCGAACTCCAATTTTTTATTTCAAGTCATACTTACCAATCAATTTTAAAATTC
* * * * ** *
55524 GAACTCAAATCAAACTCTAGTTTTTTTATTTCAAGTCATACTTACTAATTTCAAAATTAGAA--C
1 GAACTCAAATCGAACTCCA-ATTTTTTATTTCAAGTCATACTTACCAA--TCAATTTTAAAATTC
* ** * * *
55587 TAACTCATTTCGAATTCCAATTTTTTTTATTTCAAATCGTACTTA-C---CAATTTTAAAATTC
1 GAACTCAAATCGAACTCCAA--TTTTTTATTTCAAGTCATACTTACCAATCAATTTTAAAATTC
* * * *
55647 AAACTTTAAAATTCGAAC-GCATATTTTTTATTTCAAATCATACTTACCAATTTCAATTTTAAAA
1 GAAC--TCAAA-TCGAACTCCA-ATTTTTTATTTCAAGTCATACTTACCAA--TCAATTTTAAAA
55711 TTC
60 TTC
** * *
55714 GAACTCAAATCGAACTGTAATTTTTTATTTCAACTCGTACTTACCAA
1 GAACTCAAATCGAACTCCAATTTTTTATTTCAAGTCATACTTACCAA
55761 CTTCAAAAGT
Statistics
Matches: 229, Mismatches: 40, Indels: 46
0.73 0.13 0.15
Matches are distributed among these distances:
54 2 0.01
55 1 0.00
56 1 0.00
58 71 0.31
59 14 0.06
60 4 0.02
61 23 0.10
62 5 0.02
63 24 0.10
64 53 0.23
65 14 0.06
67 17 0.07
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (62 bp):
GAACTCAAATCGAACTCCAATTTTTTATTTCAAGTCATACTTACCAATCAATTTTAAAATTC
Found at i:55766 original size:64 final size:66
Alignment explanation
Indices: 55633--55766 Score: 175
Period size: 64 Copynumber: 2.0 Consensus size: 66
55623 TCGTACTTAC
*
55633 CAATTTTAAAATTCAAACTTTAAAATTCGAACGCATATTTTTTATTTCAAATCATACTTACCAAT
1 CAATTTTAAAATTCAAAC-TTAAAATTCGAACGCATATTTTTTATTTCAAATCATACTTACCAAC
55698 TT
65 TT
* * * * *
55700 CAATTTTAAAATTCGAAC-TCAAA-TCGAACTGTA-ATTTTTTATTTCAACTCGTACTTACCAAC
1 CAATTTTAAAATTCAAACTTAAAATTCGAAC-GCATATTTTTTATTTCAAATCATACTTACCAAC
55762 TT
65 TT
55764 CAA
1 CAA
55767 AAGTGTGAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
64 37 0.62
65 6 0.10
67 17 0.28
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.40
Consensus pattern (66 bp):
CAATTTTAAAATTCAAACTTAAAATTCGAACGCATATTTTTTATTTCAAATCATACTTACCAACT
T
Found at i:57191 original size:229 final size:225
Alignment explanation
Indices: 56170--57495 Score: 1296
Period size: 228 Copynumber: 5.8 Consensus size: 225
56160 GGAGAGTGAG
* * * * * * * *
56170 TTCCTTCTGGATATTGTACTCCGCAAGAGTCCTGCCATCCTCCAGCTGCTTCCCTGCAAAGATCA
1 TTCCTTCTGGATGTTGTAGTCAGCAAG-GTCCGGCCATCCTCGAGCTGTTTACCGGCAAAGAT-A
* * * *
56235 GCCTCTGCTGGTCCGGGGGTATCCCTTCCTTATCCAGTTATCCTGGATCTTAGCCTTCACATTGT
64 ACCTCTGCTGGTCTGGGGG-AT--C--CC-T-TCC--TTATCCTGGATCTTAGCCTTGACATTAT
** * * *
56300 CAATGGTGTTGGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCTGTGGGTGTCTTGACAAAAATC
120 CAATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAAATC
* *
56365 TGCATACCACCACGGAGACGGAGCACCAAGTGAAGGGTCGA
185 TGCATACCACCACGGAAACGGAGCACCAAGTGAAGGGTAGA
* * * * * * *
56406 CTCTTTCAGGATGTTGTAGTCAGCAAGAGTCCTGCCATCCTCGAGCTGCTTCCCTGCAAAGATTA
1 TTCCTTCTGGATGTTGTAGTCAGCAAG-GTCCGGCCATCCTCGAGCTGTTTACCGGCAAAGA-TA
* * * *
56471 TCCTCTGCCGGTCCGCAGGGA--CCTTCCTTATCCTGGATCTTAGCCTTGACATTATCAATGGTG
64 ACCTCTGCTGGTCTG-GGGGATCCCTTCCTTATCCTGGATCTTAGCCTTGACATTATCAATGGTG
* * ** * *
56534 TTCGAGCTCTCAACCTCCAATGTGATGGTCTTCCCTCTGAGTGTCTTGACAAAAATCTACATACC
128 TCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAAATCTGCATACC
*
56599 ACCACGGAAACGGAGCACCAAATG-AGGGTAGA
193 ACCACGGAAACGGAGCACCAAGTGAAGGGTAGA
* * * * * *
56631 TTCTTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCATCCTCCAGCTGCTTCCCTGCAAAGATTA
1 TTCCTTCTGGATGTTGTAGTCAGCAA-GGTCCGGCCATCCTCGAGCTGTTTACCGGCAAAGA-TA
* * * * * *
56696 GCCTCTGCTGGACCGGGGGGATACCTTCCTTATCCTGGATCTTAGCCTCGACATTGTCAATGGTG
64 ACCTCTGCTGG-TCTGGGGGATCCCTTCCTTATCCTGGATCTTAGCCTTGACATTATCAATGGTG
* *
56761 TCCGAGCTCTCAACCTCCAATGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAAACCTGCATACC
128 TCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAAATCTGCATACC
* * *
56826 ACCACGGAGACGCAGCACCAAGTGAAGGGTGGA
193 ACCACGGAAACGGAGCACCAAGTGAAGGGTAGA
* * * * * * *
56859 TTCCTTTTGAACGTTGTAGTCAGCCAAGGTGCGGCCATCTTCGAGTTGTTTACCGGCAAATATCA
1 TTCCTTCTGGATGTTGTAGTCAG-CAAGGTCCGGCCATCCTCGAGCTGTTTACCGGCAAAGAT-A
* * * * * * *
56924 ACCTCTGCTGGTATGGTGGGATACCC-TCCTTATCTTGAATCTTAGTCTTGACATTGTTAATAGT
64 ACCTCTGCTGGTCTGG-GGGAT-CCCTTCCTTATCCTGGATCTTAGCCTTGACATTATCAATGGT
56988 GTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAAATCTGCATAC
127 GTCCGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAAATCTGCATAC
*
57053 CACCCACGGAAACGGAGCACCAAGTGAAGGTTAGA
192 CA-CCACGGAAACGGAGCACCAAGTGAAGGGTAGA
* * *
57088 TTCCTTCTGGATGTTATAGTCAGCCAAGGTGCGGCCATCCTCGAGTTGTTTACCGGCAAAGATCA
1 TTCCTTCTGGATGTTGTAGTCAG-CAAGGTCCGGCCATCCTCGAGCTGTTTACCGGCAAAGAT-A
* * * * * * * **
57153 ATCTCTGCTGGTCTGGGGGAATCCCTTCCTTGTCTTGAATCTTTGCCTTGACGTTATTAATGAAG
64 ACCTCTGCTGGTCTGGGGG-ATCCCTTCCTTATCCTGGATCTTAGCCTTGACATTATCAATGGTG
* * * * * * * * * * *
57218 TCGGAGCTTTCCACCT-CGAGGTTGATAGTCTTGCCAGTAAGGGTCTTAACAAAGATTTGCATAC
128 TCCGAGCTCTCAACCTCCAAGG-TGATGGTCTTCCCAGTGAGTGTCTTCACAAAAATCTGCATAC
* * ** * * * *
57282 AACCCCTCAAACGAAGGACCAAGTGGAGGGTGGA
192 CACCACGGAAACGGAGCACCAAGTGAAGGGTAGA
* * * * * *
57316 CTCCTTCTGAATGTTGTAGTCGGCAAGGGTACGGCCATCCTCCAGCTGTTTTCCGGCAAAGATAA
1 TTCCTTCTGGATGTTGTAGTCAGCAA-GGTCCGGCCATCCTCGAGCTGTTTACCGGCAAAGATAA
* * * *
57381 GCCACTGTTGGTCTGGTGGGATTCCTTCCTTATCCTGGATCTTGGCCTTGACATTATCAATGGTG
65 -CCTCTGCTGGTCTGG-GGGATCCCTTCCTTATCCTGGATCTTAGCCTTGACATTATCAATGGTG
* * * * * *
57446 TCGGAGCTTTCCACCT-CAAGGGTGATGGTCTTGCCAGTAAGGGTCTTCAC
128 TCCGAGCTCTCAACCTCCAA-GGTGATGGTCTTCCCAGTGAGTGTCTTCAC
57496 GAAGGTTTGC
Statistics
Matches: 942, Mismatches: 129, Indels: 46
0.84 0.12 0.04
Matches are distributed among these distances:
225 80 0.08
226 119 0.13
227 128 0.14
228 345 0.37
229 194 0.21
230 2 0.00
236 70 0.07
237 4 0.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (225 bp):
TTCCTTCTGGATGTTGTAGTCAGCAAGGTCCGGCCATCCTCGAGCTGTTTACCGGCAAAGATAAC
CTCTGCTGGTCTGGGGGATCCCTTCCTTATCCTGGATCTTAGCCTTGACATTATCAATGGTGTCC
GAGCTCTCAACCTCCAAGGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAAATCTGCATACCACC
ACGGAAACGGAGCACCAAGTGAAGGGTAGA
Found at i:57353 original size:457 final size:455
Alignment explanation
Indices: 56170--57495 Score: 1241
Period size: 457 Copynumber: 2.9 Consensus size: 455
56160 GGAGAGTGAG
* * * * * * * *
56170 TTCCTTCTGGATATTGTACTCCGCAAGAGTCCTGCCATCCTCCAGCTGCTTCCCTGCAAAGATCA
1 TTCCTTCTGGATGTTATAGTCAGCAAGGGTCCGGCCATCCTCCAGCTGCTTACCGGCAAAGATCA
* * * * * *
56235 GCCTCTGCTGGTCCGGGGGTATCCCTTCCTTATCCAGTTATCCTGGATCTTAGCCTTC-ACATTG
66 ACCTCTGCTGGACCGGGGG-A---ATACC-T-TCC--TTATCCTGAATCTTAGCC-TCGACATTA
** ** * * * * *
56299 TCAATGGTGTTGGAGCTCTCAACCTCCAAGGTGATGGTCTTCCCTGT-GGGTGTCTTGACAAAAA
122 TCAATGAAGTCCGAGCTCTCAACCTCCAATGTGATAGTCTTCCCAGTAAGG-GTCTTAACAAAAA
* * * * * * * * * *
56363 TCTGCATACCACCACGGAGACGGAGCACCAAGTGAAGGGTCGACTCTTTCAGGATGTTGTAGTCA
186 CCTGCATACAACCACGCAAACGAAGCACCAAGTGAAGGGTGGACTCCTTCTGAACGTTGTAGTCA
* * * * * * * * * * ** **
56428 G-CAAGAGTCCTGCCATCCTCGAGCTGCTTCCCTGCAAAGATTATCCTCTGCCGGTCCGCAGGG-
251 GCCAAG-GTACGGCCATCCTCCAGCTGTTTACCGGCAAAGATAAGCCACTGCTGGTATGGTGGGA
* * *
56491 -ACCTTCCTTATCCTGGATCTTAGCCTTGACATTATCAATGGTGTTCGAGCTCTCAACCTCCAAT
315 TACCCTCCTTATCCTGGATCTTAGCCTTGACATTATCAATGGTGTCCGAGCTCTCAACCTCCAAG
** *
56555 GTGATGGTCTTCCCTCTGAGTGTCTTGACAAAAATCTACATACCACCACGGAAACGGAGCACCAA
380 GTGATGGTCTTCCCAGTGAGTGTCTTCACAAAAATCTACATACCACCACGGAAACGGAGCACCAA
56620 ATGAGGGTAGA
445 ATGAGGGTAGA
* * * * * *
56631 TTCTTTCTGGATGTTGTAGTCAGCAAGGGTCCTGCCATCCTCCAGCTGCTTCCCTGCAAAGATTA
1 TTCCTTCTGGATGTTATAGTCAGCAAGGGTCCGGCCATCCTCCAGCTGCTTACCGGCAAAGATCA
* * * * **
56696 GCCTCTGCTGGACCGGGGGGATACCTTCCTTATCCTGGATCTTAGCCTCGACATTGTCAATGGTG
66 ACCTCTGCTGGACCGGGGGAATACCTTCCTTATCCTGAATCTTAGCCTCGACATTATCAATGAAG
* * * * *
56761 TCCGAGCTCTCAACCTCCAATGTGATGGTCTTCCCAGTGAGTGTCTTCACAAAAACCTGCATACC
131 TCCGAGCTCTCAACCTCCAATGTGATAGTCTTCCCAGTAAGGGTCTTAACAAAAACCTGCATACA
* * * * * *
56826 ACCACGGAGACGCAGCACCAAGTGAAGGGTGGATTCCTTTTGAACGTTGTAGTCAGCCAAGGTGC
196 ACCACGCAAACGAAGCACCAAGTGAAGGGTGGACTCCTTCTGAACGTTGTAGTCAGCCAAGGTAC
* * * * *
56891 GGCCATCTTCGAGTTGTTTACCGGCAAATATCAA-CCTCTGCTGGTATGGTGGGATACCCTCCTT
261 GGCCATCCTCCAGCTGTTTACCGGCAAAGAT-AAGCCACTGCTGGTATGGTGGGATACCCTCCTT
* * * * * *
56955 ATCTTGAATCTTAGTCTTGACATTGTTAATAGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCT
325 ATCCTGGATCTTAGCCTTGACATTATCAATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCT
* * *
57020 TCCCAGTGAGTGTCTTCACAAAAATCTGCATACCACCCACGGAAACGGAGCACCAAGTGAAGGTT
390 TCCCAGTGAGTGTCTTCACAAAAATCTACATACCA-CCACGGAAACGGAGCACCAAATG-AGGGT
57085 AGA
453 AGA
* * * *
57088 TTCCTTCTGGATGTTATAGTCAGCCAA-GGTGCGGCCATCCTCGAGTTGTTTACCGGCAAAGATC
1 TTCCTTCTGGATGTTATAGTCAG-CAAGGGTCCGGCCATCCTCCAGCTGCTTACCGGCAAAGATC
* * * * * * * * * *
57152 AATCTCTGCTGGTCTGGGGGAATCCCTTCCTTGTCTTGAATCTTTGCCTTGACGTTATTAATGAA
65 AACCTCTGCTGGACCGGGGGAATACCTTCCTTATCCTGAATCTTAGCCTCGACATTATCAATGAA
* * * * * * * **
57217 GTCGGAGCTTTCCACCT-CGAGGTTGATAGTCTTGCCAGTAAGGGTCTTAACAAAGATTTGCATA
130 GTCCGAGCTCTCAACCTCCAATG-TGATAGTCTTCCCAGTAAGGGTCTTAACAAAAACCTGCATA
* * * * * *
57281 CAACCCCTCAAACGAAGGACCAAGTGGAGGGTGGACTCCTTCTGAATGTTGTAGTC-GGCAAGGG
194 CAACCACGCAAACGAAGCACCAAGTGAAGGGTGGACTCCTTCTGAACGTTGTAGTCAGCCAA-GG
* * * * *
57345 TACGGCCATCCTCCAGCTGTTTTCCGGCAAAGATAAGCCACTGTTGGTCTGGTGGGATTCCTTCC
258 TACGGCCATCCTCCAGCTGTTTACCGGCAAAGATAAGCCACTGCTGGTATGGTGGGATACCCTCC
* * * *
57410 TTATCCTGGATCTTGGCCTTGACATTATCAATGGTGTCGGAGCTTTCCACCT-CAAGGGTGATGG
323 TTATCCTGGATCTTAGCCTTGACATTATCAATGGTGTCCGAGCTCTCAACCTCCAA-GGTGATGG
* * *
57474 TCTTGCCAGTAAGGGTCTTCAC
387 TCTTCCCAGTGAGTGTCTTCAC
57496 GAAGGTTTGC
Statistics
Matches: 722, Mismatches: 130, Indels: 30
0.82 0.15 0.03
Matches are distributed among these distances:
452 2 0.00
453 177 0.25
454 6 0.01
455 99 0.14
456 35 0.05
457 323 0.45
458 3 0.00
461 77 0.11
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (455 bp):
TTCCTTCTGGATGTTATAGTCAGCAAGGGTCCGGCCATCCTCCAGCTGCTTACCGGCAAAGATCA
ACCTCTGCTGGACCGGGGGAATACCTTCCTTATCCTGAATCTTAGCCTCGACATTATCAATGAAG
TCCGAGCTCTCAACCTCCAATGTGATAGTCTTCCCAGTAAGGGTCTTAACAAAAACCTGCATACA
ACCACGCAAACGAAGCACCAAGTGAAGGGTGGACTCCTTCTGAACGTTGTAGTCAGCCAAGGTAC
GGCCATCCTCCAGCTGTTTACCGGCAAAGATAAGCCACTGCTGGTATGGTGGGATACCCTCCTTA
TCCTGGATCTTAGCCTTGACATTATCAATGGTGTCCGAGCTCTCAACCTCCAAGGTGATGGTCTT
CCCAGTGAGTGTCTTCACAAAAATCTACATACCACCACGGAAACGGAGCACCAAATGAGGGTAGA
Found at i:58796 original size:3 final size:3
Alignment explanation
Indices: 58788--58813 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58778 CGATGTTTTA
58788 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
58814 ACAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:59293 original size:17 final size:16
Alignment explanation
Indices: 59271--59312 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
59261 TATATTTTTA
59271 TTTATTTTACTTATTAT
1 TTTATTTTA-TTATTAT
*
59288 TTTATTCTTATTTTTAT
1 TTTATT-TTATTATTAT
59305 TTT-TTTTA
1 TTTATTTTA
59313 AAACTAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 2 0.09
17 15 0.65
18 3 0.13
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTATTAT
Found at i:59348 original size:24 final size:25
Alignment explanation
Indices: 59321--59388 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 25
59311 TAAAACTAAC
59321 CATTTTGTCTTTTTTTATTTT-ATT
1 CATTTTGTCTTTTTTTATTTTAATT
* *
59345 CA-TTTGACTTTCTTTTTTTTTAATT
1 CATTTTGTCTTT-TTTTATTTTAATT
*
59370 -ATTTTTGT-TTTGTTTATTT
1 CA-TTTTGTCTTTTTTTATTT
59389 CTTTTTTACT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 8 0.23
24 17 0.49
25 6 0.17
26 4 0.11
ACGTcount: A:0.13, C:0.07, G:0.06, T:0.74
Consensus pattern (25 bp):
CATTTTGTCTTTTTTTATTTTAATT
Found at i:61277 original size:19 final size:19
Alignment explanation
Indices: 61248--61294 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
61238 CATTTAGACA
61248 TTTTGCATTTTGTTATTTTC
1 TTTT-CATTTTGTTATTTTC
61268 TTTTCATTTTGTTATTTTC
1 TTTTCATTTTGTTATTTTC
*
61287 TTTGCATT
1 TTTTCATT
61295 CACATTAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.70
Consensus pattern (19 bp):
TTTTCATTTTGTTATTTTC
Found at i:64969 original size:164 final size:164
Alignment explanation
Indices: 64689--65881 Score: 1080
Period size: 164 Copynumber: 7.2 Consensus size: 164
64679 TAAAAGACAA
* * * * *
64689 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAGACCTTTGAGTTCGACTACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* * *
64754 CTCAGCTCCAAGGCATATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
*
64819 TCAAGTTCGATTACACTCAGCTTCGAGGGCACAT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * *
64853 CATTTACAACATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTT-GAGTTCGATTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTAC
* ** * *
64917 GTTCAGCTCCAAGGCACATCATTTGCAATATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGGCC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* *
64982 CCCGAGTTCAATTACACTCAGCTTCGAGGGCACAT
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * *
65017 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTTCGATTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTAC
* * * * *
65082 GTTCAGCTCAAAGGCACACCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATTTGCCAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* *
65147 CCCGAGTTCCATTACACTCAGCTTCGAGGGCACAT
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
*** * * * * * * *
65182 CATTTTTTGCATAACTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCCTCGAGTTCGATTACA
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* * * * * * * * * *
65244 CTTAGCTTCGAGGGCACATCATTTACAGCATA-ATTCAAGGCTAAAAGGGTTATCTATCACCAAA
66 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTT-AAGTCGAGAAGGGCTATC--T-GCCAAA
* * * * * ** * * *
65308 GATCTTCAAGTTCGACTGCGTTCAGC-TCCATGGCATAT
126 GACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * ** * *
65346 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTAC
* * * *
65411 GCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCAAAAAGGGCTATCTGCCAAATACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* * *
65476 CTCGAGTTCGATTACACTCAACTTCAAGGGCATAT
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * * * *
65511 TATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACTAAAGACCTTCGAGTTCAACCACG
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
* * *
65576 CTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAACCAAAG
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAG
* * ** * * *
65641 ACCTTCGAGTTCGACTACGTTCAAC-TCCAAGGCACAT
127 ACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * * * * * * * *
65678 TATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC--TC-CCAAAGACCTTCAAGTTCGATTACA
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
** * * * * * * * * *
65740 CTCAATTTCGAGGGCACATCATTTGAAACATAACTCAAGGT-TATAAGGGTTATCTGCCAACAAA
66 CTC-AGCTCCAAGGCACATCATTTGCAGCATAGCTTAA-GTCGAGAAGGGCTATCTG-C--CAAA
* * * *
65804 GACCTTCGAGTTCGACTACGCTCAGC-TCTTA-GGCACAT
126 GACCCTCGAGTTCGATTACACTCAGCTTC-GAGGGCACAT
* * * * * *
65842 CATTTACAGCATAGCCCAAGGCAATAAGAGTTATATGTCA
1 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA
65882 ATAAAATTGT
Statistics
Matches: 852, Mismatches: 152, Indels: 47
0.81 0.14 0.04
Matches are distributed among these distances:
161 27 0.03
162 38 0.04
164 408 0.48
165 246 0.29
166 4 0.00
167 74 0.09
168 55 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (164 bp):
CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
TCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
Found at i:65350 original size:329 final size:325
Alignment explanation
Indices: 64689--65863 Score: 1164
Period size: 329 Copynumber: 3.6 Consensus size: 325
64679 TAAAAGACAA
* * * *
64689 CATTTGCAGCATAACTCAAGGCTAGAAGGGTTATTTGCCAACAAAGACCTTTGAGTTCGACTACG
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACG
* * *
64754 CTCAGCTCCAAGGCATATCATTTGCAGAATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
*
64819 TCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGT
* * * **
64884 TATCTATCACCAAAAGA-CCTTGAGTTCGATTACGTTCAGCTCCAAGGCACATCATTTGCAATAT
196 TATC--T-GCCAAAAGACCCTCGAGTTCGATTACCTT-AGCTCCAAGGCACATCATTTGCAGCAT
* * * ** * * ** * *
64948 AGCTTAAGTCGAGAAGGGCTATC-T-ACCAAAGGCCCCCGAGTTCAATTACACTCAGCTTCGAGG
257 A-ATTAAGTCGAGAAGGGTTATCTTCACCAAAGACCTTCGAGTTCGACTACGTTCAGC-TCCAAG
65011 GCACAT
320 GCACAT
* * * ** *
65017 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTATCACCAAAAGACCTTCGAGTTCGATTAC
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACC-AAAGACCTTCGAGTTCGACTAC
* * * * *
65082 GTTCAGCTCAAAGGCACACCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATTTGCCAAAGACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* * **** * * *
65147 CCCGAGTTCCATTACACTCAGCTTCGAGGGCACATCATTTTTTGCATAACTTAAGTCGAGAAGGG
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGG
* * * *
65212 CTATCTGCC-AAAGACCCTCGAGTTCGATTACACTTAGCTTCGAGGGCACATCATTTACAGCATA
195 TTATCTGCCAAAAGACCCTCGAGTTCGATTAC-CTTAGC-TCCAAGGCACATCATTTGCAGCATA
* * * * * * *
65276 ATTCAAGGCTAAAAGGGTTATCTATCACCAAAGATCTTCAAGTTCGACTGCGTTCAGCTCCATGG
258 ATT-AAGTCGAGAAGGGTTATCT-TCACCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGG
*
65341 CATAT
321 CACAT
* **
65346 CATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCC-ACCAAAGACCTTCGAGTTCGACTAC
* * * *
65411 GCTCAGCTCCAAGGCGCATCATTTGCAGCATAGCTTAAGTCAAAAAGGGCTATCTGCCAAATACC
65 GCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
* * * *
65476 CTCGAGTTCGATTACACTCAACTTCAAGGGCATATTATTTACAACATAACTCAAGGCTAGAAGGG
130 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGG
* * * ** * *
65541 TTATCTGTCACTAAAGACCTTCGAGTTCAACCACGCTCAGCTCCAAGGCATATCATTTGCAGCAT
195 TTATCTG-C-CAAAAGACCCTCGAGTTCGATTAC-CTTAGCTCCAAGGCACATCATTTGCAGCAT
*
65606 AACTTAAGTCGAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGACTACGTTCAACTCCAA
257 AA-TTAAGTCGAGAAGGGTTATCT-TC-ACCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAA
65671 GGCACAT
319 GGCACAT
* * * * * * *
65678 TATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCT--C-CCAAAGACCTTCAAGTTCGATTACA
1 CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACG
** * * * * * * * * *
65740 CTCAATTTCGAGGGCACATCATTTGAAACATAACTCAAGGT-TATAAGGGTTATCTGCCAACAAA
66 CTC-AGCTCCAAGGCACATCATTTGCAGCATAGCTTAA-GTCGAGAAGGGCTATCTG-C--CAAA
* * * * * * *
65804 GACCTTCGAGTTCGACTACGCTCAGC-TCTTA-GGCACATCATTTACAGCATAGCCCAAGGC
126 GACCCTCGAGTTCGATTACACTCAGCTTC-GAGGGCACATCATTTACAACATAACTCAAGGC
65864 AATAAGAGTT
Statistics
Matches: 693, Mismatches: 134, Indels: 37
0.80 0.16 0.04
Matches are distributed among these distances:
325 5 0.01
326 22 0.03
327 37 0.05
328 61 0.09
329 349 0.50
330 30 0.04
331 67 0.10
332 122 0.18
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (325 bp):
CATTTGCAGCATAACTCAAGGCGAGAAGGGTTATCTGCCACCAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGT
TATCTGCCAAAAGACCCTCGAGTTCGATTACCTTAGCTCCAAGGCACATCATTTGCAGCATAATT
AAGTCGAGAAGGGTTATCTTCACCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACAT
Found at i:65493 original size:248 final size:247
Alignment explanation
Indices: 64809--65854 Score: 1265
Period size: 248 Copynumber: 4.2 Consensus size: 247
64799 GGGCTATCTG
* * * * * * * * * *
64809 CCAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGG
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGT
* * * *
64874 CTAGAAGGGTTATCTATCACCAAAAGACCTT-GAGTTCGATTACGTTCAGCTCCAAGGCACATCA
65 CGAGAAGGGTTATCTGTCACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
** * * * * *
64938 TTTGCAATATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGGCCCCCGAGTTCAATTACACTCAG
129 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAA
**
65003 CTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTATCA
194 CTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTATCA
* * * * *
65057 CCAAAAGACCTTCGAGTTCGATTACGTTCAGCTCAAAGGCACACCATTTGCAGCATAGCTTAAGT
1 CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* ** * * * * *
65122 CGAGAAGGGTTAT-T-T-GCCAAAGACCCCCGAGTTCCATTACACTCAGCTTCGAGGGCACATCA
65 CGAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCA
*** * * *
65184 TTTTTTGCATAACTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTTAG
129 TTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAA
* * *
65249 CTTCGAGGGCACATCATTTACAGCATAATTCAAGGCTAAAAGGGTTATCTATCA
194 CTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTATCA
* * * * * * *
65303 CCAAAGATCTTCAAGTTCGACTGCGTTCAGCTCCATGGCATATCATTTGCAGCATAACTTAAATC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* *
65368 GAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCGCATCAT
66 GAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * *
65433 TTGCAGCATAGCTTAAGTCAAAAAGGGCTATCTGCCAAATACCCTCGAGTTCGATTACACTCAAC
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAAC
* * * *
65498 TTCAAGGGCATATTATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCA
195 TTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTATCA
* * * *
65551 CTAAAGACCTTCGAGTTCAACCACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTC
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* * *
65616 GAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGACTACGTTCAACTCCAAGGCACATTAT
66 GAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
* * * * *
65681 TTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTCCCAAAGACCTTCAAGTTCGATTACACTCAAT
130 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAAC
* * **
65746 TTCGAGGGCACATCATTTGA-AACATAACTCAAGGTTATAAGGGTTATCTGCCA
195 TTCGAGGGCACATCATTT-ACAACATAACTCAAGGCTAGAAGGGTTATCTATCA
* ** *
65799 ACAAAGACCTTCGAGTTCGACTACGCTCAGCTCTTAGGCACATCATTTACAGCATA
1 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATA
65855 GCCCAAGGCA
Statistics
Matches: 683, Mismatches: 107, Indels: 16
0.85 0.13 0.02
Matches are distributed among these distances:
244 7 0.01
245 83 0.12
246 121 0.18
247 1 0.00
248 419 0.61
249 52 0.08
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (247 bp):
CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTC
GAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACT
TCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTATCA
Found at i:66856 original size:3 final size:3
Alignment explanation
Indices: 66848--66888 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
66838 CGATGTCTTA
66848 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
66889 ACAAAACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:67360 original size:21 final size:22
Alignment explanation
Indices: 67331--67371 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
67321 CTTTCACGGT
67331 TTTAGTTTACATA-TATTTTTA
1 TTTAGTTTACATATTATTTTTA
* *
67352 TTTATTTTACTTATTATTTT
1 TTTAGTTTACATATTATTTT
67372 ATTCTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.68
Consensus pattern (22 bp):
TTTAGTTTACATATTATTTTTA
Found at i:67993 original size:20 final size:21
Alignment explanation
Indices: 67968--68013 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
67958 AGTATCTAAC
*
67968 AATAACAAAACTGGTAGAAA-
1 AATAACAAAACCGGTAGAAAT
67988 AATAACAAAACCGGTAGAAAT
1 AATAACAAAACCGGTAGAAAT
68009 AATAA
1 AATAA
68014 TATTTCCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.15
Consensus pattern (21 bp):
AATAACAAAACCGGTAGAAAT
Found at i:70941 original size:18 final size:19
Alignment explanation
Indices: 70908--70943 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
70898 ATTTAAGAAT
70908 AATATTTAAAATTTAAATA
1 AATATTTAAAATTTAAATA
70927 AATATTTAAAA-TTAAAT
1 AATATTTAAAATTTAAAT
70944 TATTAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATTTAAAATTTAAATA
Done.