Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1224
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: 474570
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
File 2 of 3
Found at i:196305 original size:13 final size:13
Alignment explanation
Indices: 196287--196311 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
196277 CATAAAGTGT
196287 TGTATCGATACAA
1 TGTATCGATACAA
196300 TGTATCGATACA
1 TGTATCGATACA
196312 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:196322 original size:32 final size:33
Alignment explanation
Indices: 196267--196330 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
196257 TTCAACGATC
196267 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
196300 TGTATCGATACAT-AAGTGTTGTATCGATACA
1 TGTATCGATACATAAAGTGTTGTATCGATACA
196331 TAAGTTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 18 0.58
33 13 0.42
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:196324 original size:19 final size:19
Alignment explanation
Indices: 196267--196349 Score: 106
Period size: 19 Copynumber: 4.6 Consensus size: 19
196257 TTCAACGATC
196267 TGTATCGATACATAAAGTGT
1 TGTATCGATACAT-AAGTGT
196287 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
196300 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
196319 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
196338 TGTATCGATACA
1 TGTATCGATACA
196350 ATGTAAGCTA
Statistics
Matches: 56, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 30 0.54
20 11 0.20
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:196410 original size:13 final size:13
Alignment explanation
Indices: 196392--196416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
196382 ATTACTCAAA
196392 TGTATCGATACAT
1 TGTATCGATACAT
196405 TGTATCGATACA
1 TGTATCGATACA
196417 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:196466 original size:52 final size:52
Alignment explanation
Indices: 196425--196553 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
196415 CACTGATCTT
196425 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * * *
196477 TGCATCGATACATGCATGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
196529 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
196554 TCATATTTCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:202347 original size:165 final size:165
Alignment explanation
Indices: 201813--202611 Score: 580
Period size: 165 Copynumber: 4.8 Consensus size: 165
201803 AATTACGAGG
* * * * * *
201813 TTTTCTTCTCCGTAAATTTTTTTGGA-GGATTTT-TCTAGGTTTTTAATTTTTAAAATTCATCAA
1 TTTTCTACTCCATAAATGTTTTTCGAGGGATTTTCT-TA-GTTTATAATTTTTAAAATTTAT-AA
* * * * *
201876 AA-ATTATTAGTTAATTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCATAAATATTTGA
63 AATATTATTA-TTAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCATGAGTTTTTG-
* * * * ** * *
201940 ATTTTTTCT-TTGAAAACTACATTTTTTTCGAAATAC-GAAA
126 ATTTTTTCTCTTG-AAATTCCCTTTTTCTAAAAAAACTG-AT
* * * * *
201980 TTTTCTACTTCGTAAATGTTTTTGGAGGGATTTT-TCTAGGCTTTCT-ATTTTTAAAATTTATCA
1 TTTTCTACTCCATAAATGTTTTTCGAGGGATTTTCT-TA-G-TTTATAATTTTTAAAATTTATAA
* * * * * * *
202043 AATATTATTATTACATTTATATTAAATCAGTTTTTAAAAATTTAGTCATTTTTATGGGTTTTTGA
63 AATATTATTATTA-ATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCATGAGTTTTTG-
* * *
202108 ATTTTTT-TCTTAAAATTTCCCTATTTCT-AAAAAACAGAT
126 ATTTTTTCTCTTGAAA-TTCCCTTTTTCTAAAAAAACTGAT
* * * *
202147 TTTTCTATTCCGTAAATG-TTTTCGTGGGATTTTCTTAGTTTTTAATTTTTAAAATTTATAAAAT
1 TTTTCTACTCCATAAATGTTTTTCGAGGGATTTTCTTAGTTTATAATTTTTAAAATTTATAAAAT
202211 ATTATTATCTAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCATGAGTTTTTGATTT
66 ATTATTAT-TAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCATGAGTTTTTGATTT
*
202276 TTTCT-TTGAAA-TCCCTTTCTTCTAAAAAAACTGAG
130 TTTCTCTTGAAATTCCCTTT-TTCTAAAAAAACTGAT
* * * * * * *
202311 TTTTCTAATCCATAAATATTTCT-GAGGGAGTTTTCTTTGGTTTAAAATTTTTAAAATGTATCTA
1 TTTTCTACTCCATAAATGTTTTTCGAGGGA-TTTTC-TTAGTTTATAATTTTTAAAATTTAT-AA
* ** *
202375 AA-ATT-TTATGGAATTTC-CATTAAATTGGTTTTGAAAAATTCATTAATTTTCATGAGCTTTTT
63 AATATTATTAT-TAA-TTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCATGAG-TTTTT
* * * *
202437 -ATTTTTTTTCTTGAAATGCCCTTTTTTCCAAAAAAATTGAT
125 GATTTTTTCTCTTGAAATTCCC-TTTTTCTAAAAAAACTGAT
* * * * * * **
202478 TTTTCTACTTCATAAAT-TTTTTTG-GGAGAATTTTCTTCGATTTAAAATTTTTAGAATTCATCT
1 TTTTCTACTCCATAAATGTTTTTCGAGG-G-ATTTTCTTAG-TTTATAATTTTTAAAATTTATAA
** *
202541 AATATT-TTCATTTAATTTTCATTAAATCAGTTTTTGAAAAA-TCAATTTATTTT-ATGAGTTTT
63 AATATTATT-A-TTAATTCACATTAAATCAG-TTTTGAAAAATTC-ATTCATTTTCATGAGTTTT
**
202603 CAATTTTTT
124 TGATTTTTT
202612 TTGTATTTAT
Statistics
Matches: 523, Mismatches: 76, Indels: 65
0.79 0.11 0.10
Matches are distributed among these distances:
162 6 0.01
163 4 0.01
164 45 0.09
165 130 0.25
166 66 0.13
167 126 0.24
168 123 0.24
169 23 0.04
ACGTcount: A:0.31, C:0.10, G:0.09, T:0.50
Consensus pattern (165 bp):
TTTTCTACTCCATAAATGTTTTTCGAGGGATTTTCTTAGTTTATAATTTTTAAAATTTATAAAAT
ATTATTATTAATTCACATTAAATCAGTTTTGAAAAATTCATTCATTTTCATGAGTTTTTGATTTT
TTCTCTTGAAATTCCCTTTTTCTAAAAAAACTGAT
Found at i:202524 original size:167 final size:165
Alignment explanation
Indices: 202227--202613 Score: 444
Period size: 167 Copynumber: 2.3 Consensus size: 165
202217 ATCTAATTCA
* *
202227 CATTAAATCA-GTTTTGAAAAATTCATTCATTTTCATGAGTTTTTGATTTTTTCTTTGAAATCCC
1 CATTAAAT-AGGTTTTGAAAAATTCATTAATTTTCATGAGTTTTT-ATTTTTTTTTTGAAATCCC
* * * *
202291 TTTCTTCTAAAAAAACTGAGTTTTCTAATCCATAAATATTTCTGAGGGAGTTTTCTTTGGTTTAA
64 TTTCTTCCAAAAAAACTGAGTTTTCTAATCCATAAATATTTCTGAGGGAATTTTCTTCGATTTAA
202356 AATTTTTAAAATGT-ATCTAAAATTTT-ATGGAATTTC
129 AATTTTTAAAAT-TCATCTAAAATTTTCATGGAATTTC
*
202392 CATTAAATTGGTTTTGAAAAATTCATTAATTTTCATGAGCTTTTTATTTTTTTTCTTGAAATGCC
1 CATTAAATAGGTTTTGAAAAATTCATTAATTTTCATGAG-TTTTTATTTTTTTT-TTGAAAT-CC
* * * * * * *
202457 CTTTTTTCCAAAAAAATTGATTTTTCTACTTCATAAATTTTTTTG-GGAGAATTTTCTTCGATTT
63 CTTTCTTCCAAAAAAACTGAGTTTTCTAATCCATAAATATTTCTGAGG-GAATTTTCTTCGATTT
* * ** *
202521 AAAATTTTTAGAATTCATCTAATATTTTCATTTAATTTT
127 AAAATTTTTAAAATTCATCTAAAATTTTCATGGAATTTC
* * * *
202560 CATTAAATCAGTTTTTGAAAAA-TCAATTTATTTT-ATGAGTTTTCAATTTTTTTT
1 CATTAAAT-AGGTTTTGAAAAATTC-ATTAATTTTCATGAGTTTTTATTTTTTTTT
202614 GTATTTATTA
Statistics
Matches: 189, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
165 44 0.23
166 16 0.08
167 88 0.47
168 22 0.12
169 19 0.10
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (165 bp):
CATTAAATAGGTTTTGAAAAATTCATTAATTTTCATGAGTTTTTATTTTTTTTTTGAAATCCCTT
TCTTCCAAAAAAACTGAGTTTTCTAATCCATAAATATTTCTGAGGGAATTTTCTTCGATTTAAAA
TTTTTAAAATTCATCTAAAATTTTCATGGAATTTC
Found at i:202529 original size:333 final size:331
Alignment explanation
Indices: 201857--202611 Score: 716
Period size: 333 Copynumber: 2.3 Consensus size: 331
201847 CTAGGTTTTT
* *
201857 AATTTTTAAAATTCATCAAAA-ATTATTAGTTAATTCATATTAAATCAGTTTTCAAAAATTCATT
1 AATTTTTAAAATTCAT-AAAATATTATTA-TTAATTCACATTAAATCAGTTTTGAAAAATTCATT
* * * * ** *
201921 CATTTTCATAAATATTTGAATTTTTTCTTTGAAAACTACATTTTTTTCGAAATACGAAATTTTCT
64 CATTTTCATGAGTTTTTG-ATTTTTTCTTTGAAAACTACATTTTTCTAAAAAAACGAAATTTTCT
* * * * * * ** *
201986 ACTTCGTAAATGTTTTTGGAGGGATTTTTCTAGGCTTTCTATTTTTAAAATTTATCAAATATTAT
128 AATCCATAAATATTTCTGGAGGGAGTTTTCTAGGCTTTAAATTTTTAAAATGTATCAAATATTAT
* * * * * * *
202051 TATTACATTTATATTAAATCAGTTTTTAAAAATTTAGTCATTTTTATGGGTTTTTGAATTTTTTT
193 TATGACATTTACATTAAATCAGTTTTGAAAAATTCAGTAATTTTCATGGCTTTTTGAATTTTTTT
* * *
202116 CTTAAAATTTCCCTATTTCTAAAAAACAGATTTTTCTATTCCGTAAATGTTTTCGTGGGATTTTC
258 CTTAAAATTGCCCTATTTCCAAAAAACAGATTTTTCTATTCCATAAATGTTTTCGTGGGATTTTC
**
202181 TTAGTTTTT
323 TTAGTTTAA
*
202190 AATTTTTAAAATTTATAAAATATTATTATCTAATTCACATTAAATCAGTTTTGAAAAATTCATTC
1 AATTTTTAAAATTCATAAAATATTATTAT-TAATTCACATTAAATCAGTTTTGAAAAATTCATTC
* * *
202255 ATTTTCATGAGTTTTTGATTTTTTCTTTG-AAA-TCCCTTTCTTCTAAAAAAACTG-AGTTTTCT
65 ATTTTCATGAGTTTTTGATTTTTTCTTTGAAAACTACATTT-TTCTAAAAAAAC-GAAATTTTCT
*
202317 AATCCATAAATATTTCT-GAGGGAGTTTTCTTTGG-TTTAAAATTTTTAAAATGTATCTAAA-AT
128 AATCCATAAATATTTCTGGAGGGAGTTTTC-TAGGCTTT-AAATTTTTAAAATGTATC-AAATAT
* ** * *
202379 T-TTATGGA-ATTTCCATTAAATTGGTTTTGAAAAATTCATTAATTTTCATGAGCTTTTT-ATTT
190 TATTAT-GACATTTACATTAAATCAGTTTTGAAAAATTCAGTAATTTTCATG-GCTTTTTGAATT
* * * *
202441 TTTTTCTTGAAA-TGCCCTTTTTTCCAAAAAA-ATTGATTTTTCTACTT-CATAAATTTTTTTG-
253 TTTTTCTTAAAATTGCCC-TATTTCCAAAAAACA--GATTTTTCTA-TTCCATAAATGTTTTCGT
*
202502 GGAGAATTTTCTTCGATTTAA
314 GG-G-ATTTTCTTAG-TTTAA
* ** **
202523 AATTTTTAGAATTCATCTAATATT-TTCATTTAATTTTCATTAAATCAGTTTTTGAAAAA-TCAA
1 AATTTTTAAAATTCATAAAATATTATT-A-TTAATTCACATTAAATCAG-TTTTGAAAAATTC-A
* **
202586 TTTATTTT-ATGAGTTTTCAATTTTTT
62 TTCATTTTCATGAGTTTTTGATTTTTT
202612 TTGTATTTAT
Statistics
Matches: 348, Mismatches: 54, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
329 5 0.01
330 83 0.24
331 80 0.23
332 34 0.10
333 127 0.36
334 19 0.05
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.50
Consensus pattern (331 bp):
AATTTTTAAAATTCATAAAATATTATTATTAATTCACATTAAATCAGTTTTGAAAAATTCATTCA
TTTTCATGAGTTTTTGATTTTTTCTTTGAAAACTACATTTTTCTAAAAAAACGAAATTTTCTAAT
CCATAAATATTTCTGGAGGGAGTTTTCTAGGCTTTAAATTTTTAAAATGTATCAAATATTATTAT
GACATTTACATTAAATCAGTTTTGAAAAATTCAGTAATTTTCATGGCTTTTTGAATTTTTTTCTT
AAAATTGCCCTATTTCCAAAAAACAGATTTTTCTATTCCATAAATGTTTTCGTGGGATTTTCTTA
GTTTAA
Found at i:203100 original size:11 final size:10
Alignment explanation
Indices: 203081--203122 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
203071 GCAAGTAAGC
203081 AAAAAA-AAA
1 AAAAAAGAAA
*
203090 AAAAAGGAAA
1 AAAAAAGAAA
203100 AAAAAAGAAA
1 AAAAAAGAAA
*
203110 AAGAAAGAAA
1 AAAAAAGAAA
203120 AAA
1 AAA
203123 GTGAGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 5 0.18
10 23 0.82
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:203123 original size:11 final size:11
Alignment explanation
Indices: 203085--203139 Score: 51
Period size: 11 Copynumber: 5.1 Consensus size: 11
203075 GTAAGCAAAA
*
203085 AAAAAAAAAAGG
1 AAAAAAGAAA-G
203097 AAAAAA-AAAG
1 AAAAAAGAAAG
203107 -AAAAAGAAAG
1 AAAAAAGAAAG
**
203117 AAAAAAGTGAG
1 AAAAAAGAAAG
*
203128 AAAATAGAAAG
1 AAAAAAGAAAG
203139 A
1 A
203140 CTAAGCTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 5 0.14
10 5 0.14
11 20 0.56
12 6 0.17
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:203123 original size:17 final size:17
Alignment explanation
Indices: 203081--203123 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
203071 GCAAGTAAGC
203081 AAAAAAAAA-AAAAAGG
1 AAAAAAAAAGAAAAAGG
203097 AAAAAAAAAGAAAAA-G
1 AAAAAAAAAGAAAAAGG
203113 AAAGAAAAAAG
1 AAA-AAAAAAG
203124 TGAGAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGG
Found at i:204552 original size:25 final size:25
Alignment explanation
Indices: 204518--204565 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
204508 TTTTATAAAG
204518 TGGGACAAAAACATCATTTCTTTAT
1 TGGGACAAAAACATCATTTCTTTAT
204543 TGGGACAAAAACATCATTTCTTT
1 TGGGACAAAAACATCATTTCTTT
204566 CATTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (25 bp):
TGGGACAAAAACATCATTTCTTTAT
Found at i:204840 original size:143 final size:143
Alignment explanation
Indices: 204577--204854 Score: 389
Period size: 143 Copynumber: 1.9 Consensus size: 143
204567 ATTTTTCAAG
* *
204577 CCCTTTAGGGGTATCGAGTACTTTTGTGTCAAAGGTATCCCCTAAGGGCATTTTTGTATTTTTTT
1 CCCTTTAGGGGTATCGAGTACTTTTATGTCAAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTT
* * * *
204642 AGAACCGAGTCCTAGGTTATCACCGGGTCCACTTTTATGCCAAAGGTGGACATTTAGGATATGTT
66 AGAACCGAGTCCTAGGTTATCACCGAGTCCACTTTCATGCCAAAGGTGGACATTTAAGATAAGTT
204707 CATCCATCTAAAT
131 CATCCATCTAAAT
* * **
204720 CCCTTTAGGGGTATCGGGTACTTTTATGTCGAAGGTAT-CCCTTGGGGACATTTTTGTAATTTTT
1 CCCTTTAGGGGTATCGAGTACTTTTATGTCAAAGGTATCCCCTAAGGG-CATTTTTGTAATTTTT
* * * **
204784 TAGAATCGAGTCCTAGGTTATCATCGAGTCCGCTTTCATGCCGAAA-GTGGGTATTTAAGATAAG
65 TAGAACCGAGTCCTAGGTTATCACCGAGTCCACTTTCATGCC-AAAGGTGGACATTTAAGATAAG
204848 TTCATCC
129 TTCATCC
204855 TTTTTAAAAT
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
142 7 0.06
143 108 0.92
144 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (143 bp):
CCCTTTAGGGGTATCGAGTACTTTTATGTCAAAGGTATCCCCTAAGGGCATTTTTGTAATTTTTT
AGAACCGAGTCCTAGGTTATCACCGAGTCCACTTTCATGCCAAAGGTGGACATTTAAGATAAGTT
CATCCATCTAAAT
Found at i:211088 original size:13 final size:13
Alignment explanation
Indices: 211070--211096 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
211060 ACATTATGAT
211070 TTGTATCGATACA
1 TTGTATCGATACA
211083 TTGTATCGATACA
1 TTGTATCGATACA
211096 T
1 T
211097 GTTCATTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:211129 original size:20 final size:19
Alignment explanation
Indices: 211080--211136 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
211070 TTGTATCGAT
*
211080 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
211099 TCATTGCATCGATACATGG
1 ACATTGTATCGATACATGG
211118 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
211137 AGATTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:211210 original size:33 final size:33
Alignment explanation
Indices: 211168--211232 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
211158 CCACTGTTTG
*
211168 TATCGATACATGGT-ACAATGTATCGATACATTA
1 TATCGATACATGATGA-AATGTATCGATACATTA
211201 TATCGATACATGATGAAATGTATCGATACATT
1 TATCGATACATGATGAAATGTATCGATACATT
211233 GCTTATAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TATCGATACATGATGAAATGTATCGATACATTA
Found at i:219832 original size:16 final size:16
Alignment explanation
Indices: 219813--219867 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 16
219803 ATTTCATATT
219813 TTTTTCATTTTT-TTTC
1 TTTTTC-TTTTTCTTTC
219829 TTTTTCTTTTTCTTTC
1 TTTTTCTTTTTCTTTC
219845 TTTCTTCTTCATCTTCTTTC
1 TTT-TTCTT--T-TTCTTTC
219865 TTT
1 TTT
219868 CTTACTTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.15
16 13 0.38
17 5 0.15
19 1 0.03
20 10 0.29
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCTTTTTCTTTC
Found at i:225384 original size:22 final size:22
Alignment explanation
Indices: 225356--225411 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
225346 AGATTTGACA
*
225356 AAGGGGGAGAAATGCTGTGATT
1 AAGGGGGAGAAATGCTGTAATT
* *
225378 AAGGGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATGCTGTAATT
225400 AAGGGGGAGAAA
1 AAGGGGGAGAAA
225412 AATGAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.04, G:0.38, T:0.21
Consensus pattern (22 bp):
AAGGGGGAGAAATGCTGTAATT
Found at i:225959 original size:20 final size:20
Alignment explanation
Indices: 225936--226002 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
225926 CACACCCAGA
225936 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
225956 TGTATCGATAC---A----T
1 TGTATCGATACATTATGCTT
225969 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
225989 TGTATCGATACATT
1 TGTATCGATACATT
226003 GTATCGATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.30
16 1 0.03
17 1 0.03
20 26 0.65
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:225973 original size:13 final size:13
Alignment explanation
Indices: 225955--226014 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
225945 ACATTATGCT
225955 TTGTATCGATACA
1 TTGTATCGATACA
225968 TTGTATCGATACA
1 TTGTATCGATACA
*
225981 -T-TAT-G---CT
1 TTGTATCGATACA
225988 TTGTATCGATACA
1 TTGTATCGATACA
226001 TTGTATCGATACA
1 TTGTATCGATACA
226014 T
1 T
226015 GTTCATTGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.05
11 3 0.08
12 1 0.03
13 28 0.72
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:225978 original size:33 final size:33
Alignment explanation
Indices: 225936--226033 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
225926 CACACCCAGA
225936 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
225969 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
*
226002 TGTATCGATACATGT-T-CATTGTATCGATACAT
1 TGTATCGATACAT-TATGCTTTGTATCGATACAT
226034 GGACAATTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
32 15 0.24
33 47 0.75
34 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATGCTTTGTATCGATACAT
Found at i:226044 original size:20 final size:19
Alignment explanation
Indices: 225998--226054 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
225988 TTGTATCGAT
*
225998 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
226017 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
226036 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
226055 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:228399 original size:33 final size:33
Alignment explanation
Indices: 228362--228428 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
228352 TTCAACGATT
228362 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
228395 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
228428 T
1 T
228429 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:228400 original size:13 final size:13
Alignment explanation
Indices: 228382--228406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
228372 CATAAAATGT
228382 TGTATCGATACAA
1 TGTATCGATACAA
228395 TGTATCGATACA
1 TGTATCGATACA
228407 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:228489 original size:13 final size:13
Alignment explanation
Indices: 228471--228495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
228461 ATTACTCACA
228471 TGTATCGATACAT
1 TGTATCGATACAT
228484 TGTATCGATACA
1 TGTATCGATACA
228496 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:232090 original size:13 final size:13
Alignment explanation
Indices: 232072--232097 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
232062 CATTTTGGGA
232072 TGTATCGATACAT
1 TGTATCGATACAT
232085 TGTATCGATACAT
1 TGTATCGATACAT
232098 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:232094 original size:33 final size:32
Alignment explanation
Indices: 232052--232115 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
232042 TACAAGCCAA
*
232052 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
232085 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
232116 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:232204 original size:20 final size:21
Alignment explanation
Indices: 232157--232207 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
232147 GCCAATGACC
*
232157 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
232178 GGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
232198 TGTATCGATA
1 TGTATCGATA
232208 TAATGTATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:234234 original size:20 final size:22
Alignment explanation
Indices: 234195--234239 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
234185 GCTACTAGTA
*
234195 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
234217 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
234237 TGG
1 TGG
234240 TGAGTGCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.04, C:0.29, G:0.49, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:234546 original size:20 final size:19
Alignment explanation
Indices: 234508--234546 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
234498 TTGTTTTTGT
*
234508 TGATGATTTTGATGAGAAA
1 TGATGATTTTGAAGAGAAA
*
234527 TGATGTATTTTGAAGTGAAA
1 TGATG-ATTTTGAAGAGAAA
234547 AACAAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (19 bp):
TGATGATTTTGAAGAGAAA
Found at i:234699 original size:13 final size:13
Alignment explanation
Indices: 234681--234717 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
234671 ATAAACCCTT
*
234681 TGTATCGATACAC
1 TGTATCGATACAA
234694 TGTATCGATACAA
1 TGTATCGATACAA
234707 TGTATCGATAC
1 TGTATCGATAC
234718 TTCTGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:234914 original size:8 final size:8
Alignment explanation
Indices: 234901--234926 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
234891 AACATCATTC
234901 ATCACAAA
1 ATCACAAA
234909 ATCACAAA
1 ATCACAAA
234917 ATCACAAA
1 ATCACAAA
234925 AT
1 AT
234927 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:240878 original size:19 final size:20
Alignment explanation
Indices: 240833--240884 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
240823 TTACAAGCCA
*
240833 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
240853 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
240873 -TGTATCGATACA
1 ATGTATCGATACA
240885 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:240973 original size:20 final size:21
Alignment explanation
Indices: 240926--240977 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
240916 GCCAATGACC
*
240926 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
240947 GGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
240967 TGTATCGATAC
1 TGTATCGATAC
240978 TGTACAATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:241010 original size:20 final size:20
Alignment explanation
Indices: 240987--241027 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
240977 CTGTACAATC
*
240987 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTTCAAGG
*
241007 TGTATCGATACTTTTCAAGG
1 TGTATCGATACATTTCAAGG
241027 T
1 T
241028 TTTGACCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTCAAGG
Found at i:241370 original size:30 final size:30
Alignment explanation
Indices: 241295--241372 Score: 102
Period size: 31 Copynumber: 2.6 Consensus size: 30
241285 AACAAAGACC
241295 TTTCTTATTTGACTGTATTCAGTCAAATTT
1 TTTCTTATTTGACTGTATTCAGTCAAATTT
** * *
241325 TAGCCTTACTTGACTGTATTCAGTCAAGTTT
1 T-TTCTTATTTGACTGTATTCAGTCAAATTT
*
241356 TTTCTCATTTGACTGTA
1 TTTCTTATTTGACTGTA
241373 CTCGATCAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 13 0.33
31 26 0.67
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.49
Consensus pattern (30 bp):
TTTCTTATTTGACTGTATTCAGTCAAATTT
Found at i:241489 original size:30 final size:30
Alignment explanation
Indices: 241455--241562 Score: 87
Period size: 30 Copynumber: 3.6 Consensus size: 30
241445 TCACCCTTGC
241455 TTGACTATATTCAGTCAAGTCTTTCCTCAT
1 TTGACTATATTCAGTCAAGTCTTTCCTCAT
* * * *
241485 TTGACTATAGTT-AGTTAAATCTTACC-CCT
1 TTGACTATA-TTCAGTCAAGTCTTTCCTCAT
* * * *
241514 CTTGATTGTATTC-GATCAAGACCTTCCTCAT
1 -TTGACTATATTCAG-TCAAGTCTTTCCTCAT
*
241545 TTGACTATATTCGGTCAA
1 TTGACTATATTCAGTCAA
241563 ATTTCACCCT
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
29 5 0.09
30 48 0.83
31 5 0.09
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (30 bp):
TTGACTATATTCAGTCAAGTCTTTCCTCAT
Found at i:241506 original size:121 final size:121
Alignment explanation
Indices: 241289--242254 Score: 927
Period size: 121 Copynumber: 8.0 Consensus size: 121
241279 GATCTTAACA
* * * *
241289 AAGACCTTTCTTATTTGACTGTATTC-AGTCAAATTTTAGCCTTACTTGACTGTATTCAGTCAAG
1 AAGACCTTCCTTATTTGACTGTATTCGA-TCAAATTTCACCCTTGCTTGACTGTATTCAGTCAAG
* * * * * *
241353 TTTTTTCTCATTTGACTGTACTCGATCAAATCTTATCCCTCTTGACTGTAATCGGTC
65 TCTTTCCTCATTTGACTATACTCGATCAAATCTTATCCCTCTTGATTGTATTCGATC
* * * *
241410 AAAACCTTCCTCATTTAACTGTATTCGATCAAATTTCACCCTTGCTTGACTATATTCAGTCAAGT
1 AAGACCTTCCTTATTTGACTGTATTCGATCAAATTTCACCCTTGCTTGACTGTATTCAGTCAAGT
* * * *
241475 CTTTCCTCATTTGACTATAGT-TAGTTAAATCTTACCCCTCTTGATTGTATTCGATC
66 CTTTCCTCATTTGACTATACTCGA-TCAAATCTTATCCCTCTTGATTGTATTCGATC
* * *
241531 AAGACCTTCCTCATTTGACTATATTCGGTCAAATTTCACCCTTGCTTGACTGTATTCAGTCAAGT
1 AAGACCTTCCTTATTTGACTGTATTCGATCAAATTTCACCCTTGCTTGACTGTATTCAGTCAAGT
* * * * * *
241596 TTTTCCTTATTTGAATGTACTCGATCAAATCCTACCCCTCTTGATTGTATTCGATC
66 CTTTCCTCATTTGACTATACTCGATCAAATCTTATCCCTCTTGATTGTATTCGATC
* * * * * * * * *
241652 AAGACCTTTCTTACTTGATTGTATTAGGTCAAATTTCACCTTTGTTTGACTATATTCAGTCAATT
1 AAGACCTTCCTTATTTGACTGTATTCGATCAAATTTCACCCTTGCTTGACTGTATTCAGTCAAGT
* * * *
241717 TTTTCCTTATTTGACTGTACTCGGTCAAATCTTA-CCCTTCTTGATTGTATTCGATC
66 CTTTCCTCATTTGACTATACTCGATCAAATCTTATCCC-TCTTGATTGTATTCGATC
* * *
241773 AAGACCTTCCTTATTTGGCTGTATTCGGTCAAATTTCACCCTTGCTTGACTGTATTCAATCAAGT
1 AAGACCTTCCTTATTTGACTGTATTCGATCAAATTTCACCCTTGCTTGACTGTATTCAGTCAAGT
* *
241838 CTTTCCTTATTTGACTATACTCGATCAAATCTT-TCCCCTCTTAATTGTATTCGATC
66 CTTTCCTCATTTGACTATACTCGATCAAATCTTAT-CCCTCTTGATTGTATTCGATC
* * * * * *
241894 AAGATCTTCTTTATTTAACTGTATTC-AGTCAAATTTC-CCCATCGCTTGACTATATTTAGTCAA
1 AAGACCTTCCTTATTTGACTGTATTCGA-TCAAATTTCACCC-TTGCTTGACTGTATTCAGTCAA
* * * * * * * *
241957 GACTATCCTCATTTGACTATACTTGGTCAAATCTTATCCTTATTGATTGTATTTGGTC
64 GTCTTTCCTCATTTGACTATACTCGATCAAATCTTATCCCTCTTGATTGTATTCGATC
* * * * *
242015 AAGA-TTATCCTCATTTGACTGTTTTC-AGTCAAATCTT-ACCCTT-CCTGACTGTATTCATTCA
1 AAGACCT-TCCTTATTTGACTGTATTCGA-TCAAAT-TTCACCCTTGCTTGACTGTATTCAGTCA
* * ** * * * * * *
242076 AGACTATCCTTGTTTAACTATACTTGATCAAATCTTA-CCCTGTTCGACTATATTCTATC
63 AGTCTTTCCTCATTTGACTATACTCGATCAAATCTTATCCCTCTT-GATTGTATTCGATC
** * * * * * * *
242135 AAG-TTTTTCTTCATTCGACTATACTCGATCTAATCTT-ACCC-TGTTTGACTGTATT-TGATCA
1 AAGACCTTCCTT-ATTTGACTGTATTCGATCAAAT-TTCACCCTTGCTTGACTGTATTCAG-TCA
* * * *
242196 AGTCTTTCTTCATTTGACTATACTTGATCAAATCTTATCTCGCTTGATTGTATTCGATC
63 AGTCTTTCCTCATTTGACTATACTCGATCAAATCTTATCCCTCTTGATTGTATTCGATC
242255 GAGCTATTCC
Statistics
Matches: 705, Mismatches: 121, Indels: 39
0.82 0.14 0.05
Matches are distributed among these distances:
119 9 0.01
120 146 0.21
121 539 0.76
122 11 0.02
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.42
Consensus pattern (121 bp):
AAGACCTTCCTTATTTGACTGTATTCGATCAAATTTCACCCTTGCTTGACTGTATTCAGTCAAGT
CTTTCCTCATTTGACTATACTCGATCAAATCTTATCCCTCTTGATTGTATTCGATC
Found at i:241926 original size:60 final size:60
Alignment explanation
Indices: 241289--242254 Score: 408
Period size: 60 Copynumber: 16.0 Consensus size: 60
241279 GATCTTAACA
* * * * * * *
241289 AAGACCTTTCTTATTTGACTGTATTCAGTCAAAT-TTTAGCCTTACTTGACTGTATTC-AGTC
1 AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTTT-CCCCT-CTTGATTGTATTCGA-TC
* * * * * * * *
241350 AAGTTTTTTCTCATTTGACTGTACTCGATCAAATCTTAT-CCCTCTTGACTGTAATCGGTC
1 AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTT-TCCCCTCTTGATTGTATTCGATC
* * * * * * * *
241410 AAAACCTTCCTCATTTAACTGTATTCGATCAAA--TTTCACCCTTGCTTGACTATATTC-AGTC
1 AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTTTC-CCC-T-CTTGATTGTATTCGA-TC
* * * ** * *
241471 AAG-TCTTTCCTCATTTGACTATAGTTAGTTAAATCTTACCCCTCTTGATTGTATTCGATC
1 AAGATC-TTCCTTATTTGACTGTACTCGGTCAAATCTTTCCCCTCTTGATTGTATTCGATC
* * * * *
241531 AAGACCTTCCTCATTTGACTATATTCGGTCAAA--TTTCACCCTTGCTTGACTGTATTC-AGTC
1 AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTTTC-CCC-T-CTTGATTGTATTCGA-TC
* * * * * *
241592 AAGTTTTTCCTTATTTGAATGTACTCGATCAAATCCTACCCCTCTTGATTGTATTCGATC
1 AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTTTCCCCTCTTGATTGTATTCGATC
* * * * * * * *
241652 AAGACCTTTCTTACTTGATTGTATTAGGTCAAA--TTTCACCT-TTGTTTGACTATATTC-AGTC
1 AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTTTCCCCTCTTGATTG----TATTCGA-TC
** * * *
241713 AATTTTTTCCTTATTTGACTGTACTCGGTCAAATCTTACCCTTCTTGATTGTATTCGATC
1 AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTTTCCCCTCTTGATTGTATTCGATC
* * * * *
241773 AAGACCTTCCTTATTTGGCTGTATTCGGTCAAA--TTTCACCCTTGCTTGACTGTATTCAATC
1 AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTTTC-CCC-T-CTTGATTGTATTCGATC
* * *
241834 AAG-TCTTTCCTTATTTGACTATACTCGATCAAATCTTTCCCCTCTTAATTGTATTCGATC
1 AAGATC-TTCCTTATTTGACTGTACTCGGTCAAATCTTTCCCCTCTTGATTGTATTCGATC
* * * * * * *
241894 AAGATCTTCTTTATTTAACTGTATTCAGTCAAA--TTTCCCCATCGCTTGACTATATT-TAGTC
1 AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTTTCCCC-T--CTTGATTGTATTCGA-TC
* * * * * * *
241955 AAGA-CTATCCTCATTTGACTATACTTGGTCAAATCTTAT-CCTTATTGATTGTATTTGGTC
1 AAGATCT-TCCTTATTTGACTGTACTCGGTCAAATCTT-TCCCCTCTTGATTGTATTCGATC
* ** * * * * *
242015 AAGAT-TATCCTCATTTGACTGTTTTCAGTCAAATCTTACCCTTCCTGACTGTATTC-ATTC
1 AAGATCT-TCCTTATTTGACTGTACTCGGTCAAATCTTTCCCCTCTTGATTGTATTCGA-TC
* * * * * * * * * *
242075 AAGA-CTATCCTTGTTTAACTATACTTGATCAAATC-TTACCCTGTTCGACTATATTCTATC
1 AAGATCT-TCCTTATTTGACTGTACTCGGTCAAATCTTTCCCCTCTT-GATTGTATTCGATC
* * * * * * * * * *
242135 AAG-TTTTTCTTCATTCGACTATACTCGATCTAATC-TTACCCTGTTTGACTGTATTTGATC
1 AAGATCTTCCTT-ATTTGACTGTACTCGGTCAAATCTTTCCCCT-CTTGATTGTATTCGATC
* * * * * *
242195 AAG-TCTTTCTTCATTTGACTATACTTGATCAAATCTTAT-CTCGCTTGATTGTATTCGATC
1 AAGATCTTCCTT-ATTTGACTGTACTCGGTCAAATCTT-TCCCCTCTTGATTGTATTCGATC
242255 GAGCTATTCC
Statistics
Matches: 686, Mismatches: 163, Indels: 113
0.71 0.17 0.12
Matches are distributed among these distances:
57 7 0.01
58 20 0.03
59 18 0.03
60 377 0.55
61 225 0.33
62 13 0.02
63 19 0.03
64 7 0.01
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.42
Consensus pattern (60 bp):
AAGATCTTCCTTATTTGACTGTACTCGGTCAAATCTTTCCCCTCTTGATTGTATTCGATC
Found at i:241974 original size:30 final size:30
Alignment explanation
Indices: 241939--242034 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
241929 TCCCCATCGC
*
241939 TTGACTATATTTAGTCAAGACTATCCTCAT
1 TTGACTATATTTGGTCAAGACTATCCTCAT
* *
241969 TTGACTATACTTGGTCAA-ATCTTATCCTTA-
1 TTGACTATATTTGGTCAAGA-C-TATCCTCAT
* * *
241999 TTGATTGTATTTGGTCAAGATTATCCTCAT
1 TTGACTATATTTGGTCAAGACTATCCTCAT
242029 TTGACT
1 TTGACT
242035 GTTTTCAGTC
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
29 8 0.15
30 37 0.70
31 8 0.15
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (30 bp):
TTGACTATATTTGGTCAAGACTATCCTCAT
Found at i:242136 original size:30 final size:30
Alignment explanation
Indices: 242092--242201 Score: 80
Period size: 30 Copynumber: 3.7 Consensus size: 30
242082 TCCTTGTTTA
242092 ACTATACTT-GATCAAATCTTACCCTGTTCG
1 ACTATA-TTCGATCAAATCTTACCCTGTTCG
* * ** * *
242122 ACTATATTCTATCAAGT-TTTTCTTCATTCG
1 ACTATATTCGATCAAATCTTACCCT-GTTCG
* * *
242152 ACTATACTCGATCTAATCTTACCCTGTTTG
1 ACTATATTCGATCAAATCTTACCCTGTTCG
* * *
242182 ACTGTATTTGATCAAGTCTT
1 ACTATATTCGATCAAATCTT
242202 TCTTCATTTG
Statistics
Matches: 57, Mismatches: 20, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
29 6 0.11
30 47 0.82
31 4 0.07
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.43
Consensus pattern (30 bp):
ACTATATTCGATCAAATCTTACCCTGTTCG
Found at i:243564 original size:167 final size:167
Alignment explanation
Indices: 243330--243801 Score: 488
Period size: 167 Copynumber: 2.8 Consensus size: 167
243320 TGGAATTTCT
** * * ** * * **
243330 CTTGTTTTCAAATTAC-GAAATTTTCTTCTCCGTAAATTTTTTGGAAGGATTTGTTTTTTTGTTT
1 CTTGTTTTCAAAAAACAG-AATTTTCTACTCCGTAAATTTTGTGG-AGGAGATATTTCTTAATTT
* * *
243394 TTAATTTTTAAAATTCATCAAATATTATTAGTTAATCCATATTAGATTAGTTTTTAAAAATTCAT
64 TTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTTAAAAATTCAT
* *
243459 TCATGTTCATAAATTTTTGAATT-TTTTCCTTGAAA-CTC
129 TCATTTTCATAAATTGTTGAATTCTTTT-CTTGAAATCTC
* * * *
243497 CTTTTTTTCTTAAATACAGAATTTTCTACTCTGTAAATGTTTGTGGAGG-GATATTTCTTAATTT
1 CTTGTTTTC-AAAAAACAGAATTTTCTACTCCGTAAAT-TTTGTGGAGGAGATATTTCTTAATTT
* * *
243561 TTAATTTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATCAGTTTTCAAAAATT-AT
64 TTAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTTAAAAATTCA-
* *** * *
243625 TTCGTTTTCATGGGTTGTTGAATTCTTTTCTTGAAATTTT
128 TTCATTTTCATAAATTGTTGAATTCTTTTCTTGAAATCTC
** * * * * **
243665 CTTGTTTTCAAAAAATGGAGTTTTCTACTCCGTAAATTTTTTGGGGGAGATTTTTCTTGTTTTTT
1 CTTGTTTTCAAAAAACAGAATTTTCTACTCCGTAAATTTTGTGGAGGAGATATTTCTTAATTTTT
* * * *
243730 AATTTTTAAAATTCATTAAATACTATTATTTAATTCACATTAAATTA-TTTTTAAATATTCATTC
66 AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTTAAAAATTCATTC
243794 ATTTTCAT
131 ATTTTCAT
243802 TCATTTTTTT
Statistics
Matches: 251, Mismatches: 46, Indels: 17
0.80 0.15 0.05
Matches are distributed among these distances:
166 29 0.12
167 177 0.71
168 38 0.15
169 7 0.03
ACGTcount: A:0.29, C:0.10, G:0.09, T:0.51
Consensus pattern (167 bp):
CTTGTTTTCAAAAAACAGAATTTTCTACTCCGTAAATTTTGTGGAGGAGATATTTCTTAATTTTT
AATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTTAAAAATTCATTC
ATTTTCATAAATTGTTGAATTCTTTTCTTGAAATCTC
Found at i:243792 original size:22 final size:23
Alignment explanation
Indices: 243731--243792 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 23
243721 TTGTTTTTTA
243731 ATTTTTAAA-ATTCATTAAATACT
1 ATTTTTAAATATTCATTAAATA-T
*
243754 ATTATTT-AAT-TCACATTAAAT-T
1 ATT-TTTAAATAT-TCATTAAATAT
243776 ATTTTTAAATATTCATT
1 ATTTTTAAATATTCATT
243793 CATTTTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
21 3 0.09
22 11 0.34
23 7 0.22
24 11 0.34
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTTTTAAATATTCATTAAATAT
Found at i:250568 original size:52 final size:52
Alignment explanation
Indices: 250490--250618 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
250480 CAAAATATGA
*
250490 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
* *
250542 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
250594 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
250619 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
Found at i:250631 original size:52 final size:51
Alignment explanation
Indices: 250490--250638 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
250480 CAAAATATGA
250490 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
* * *
250542 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGC
*
250594 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
250639 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGC
Found at i:250645 original size:13 final size:13
Alignment explanation
Indices: 250627--250651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
250617 CAAAGATCAG
250627 TGTATCGATACAA
1 TGTATCGATACAA
250640 TGTATCGATACA
1 TGTATCGATACA
250652 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:250731 original size:13 final size:13
Alignment explanation
Indices: 250713--250737 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
250703 ACAAAACTTA
250713 TGTATCGATACAT
1 TGTATCGATACAT
250726 TGTATCGATACA
1 TGTATCGATACA
250738 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:250733 original size:32 final size:33
Alignment explanation
Indices: 250692--250757 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
250682 AGTAGCTTAA
250692 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
250724 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
250757 A
1 A
250758 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:251643 original size:67 final size:68
Alignment explanation
Indices: 251521--251647 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
251511 ATTGGGTTTT
* * *
251521 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
251586 AGA
66 AGA
* * * *
251589 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
251648 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:251697 original size:55 final size:53
Alignment explanation
Indices: 251597--251751 Score: 168
Period size: 53 Copynumber: 2.9 Consensus size: 53
251587 GAAAAGTGAT
* * * * * * * *
251597 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATG-GAA
* *
251651 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATT-GAACTTAAAGATGGAA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTAG-ACTTAAAGATGGAA
* *
251705 AAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTAGACTTAAAG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAG
251752 GTGCCAATGT
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
53 37 0.44
54 13 0.15
55 35 0.41
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (53 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGGAA
Found at i:251732 original size:53 final size:55
Alignment explanation
Indices: 251600--251751 Score: 184
Period size: 55 Copynumber: 2.8 Consensus size: 55
251590 AAGTGATAAA
* * * * **
251600 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
* * * *
251655 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-GAAAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
251709 G-TGCCAATATGCTGATTCAAGGCCAGCTATATT-AGACTTAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGA-ACTTAAAG
251752 GTGCCAATGT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.01
53 37 0.45
54 7 0.08
55 38 0.46
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (55 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
Found at i:251871 original size:28 final size:28
Alignment explanation
Indices: 251840--252185 Score: 176
Period size: 29 Copynumber: 11.7 Consensus size: 28
251830 GTTTGCATCA
* *
251840 ACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
*
251868 ACTTGTGGGCTTTTAAAGATTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
251896 ACTTGTGGGCTTTTAAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
*
251924 ACTTGTGGGCTTTTGAAAAGGGTGCCACT-
1 ACTTGTGGGCTTTT--AAAGGTTGCCACTG
* * * * *
251953 ACCTTATGGGC-TTAAAAGGAAAAAGAGTGCTACGG
1 A-CTTGTGGGCTTTTAAA-G-----G-TTGCCACTG
* * * * *
251988 AGTTGTGAGCTTATAAAAGAAAAAGAGTGCCACGG
1 ACTTGTGGGCTT-TTAAAG-----G-TTGCCACTG
* * * * * *
252023 AGTTGTGGACTTTGGAAAAGATGCCACCG
1 ACTTGTGGGCTTT-TAAAGGTTGCCACTG
** *
252052 ACTTGTGGGCTTCGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTT--TTAAAGGTTGCCACTG
* *
252082 ATTTGTGGGC-TTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
* * * *
252109 ACTTGTGGACTTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTT-TAAAGGTTGCCACTG
* * *
252138 ACTTGTGGGCTTTGAAAAAGATGCCACTG
1 ACTTGTGGGCTTT-TAAAGGTTGCCACTG
*
252167 ACTTGTGGGCTTTTGAAGG
1 ACTTGTGGGCTTTTAAAGG
252186 GTGAGGAACA
Statistics
Matches: 259, Mismatches: 41, Indels: 36
0.77 0.12 0.11
Matches are distributed among these distances:
27 23 0.09
28 72 0.28
29 73 0.28
30 41 0.16
33 1 0.00
34 13 0.05
35 31 0.12
36 5 0.02
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
ACTTGTGGGCTTTTAAAGGTTGCCACTG
Found at i:251968 original size:56 final size:55
Alignment explanation
Indices: 251855--252180 Score: 159
Period size: 56 Copynumber: 5.5 Consensus size: 55
251845 TGTGCTTTTG
* *
251855 AAGGTTGCCACTGACTTGTGGGCTTTTAAAGATTGCCACTGACTTGTGGGCTTTTA
1 AAGGTTGCCACTGACTTGTGGGCTTTTAAAGAGTGCCACTGACTTATGGGC-TTTA
* *
251911 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACT-ACCTTATGGGCTTAA
1 AAGGTTGCCACTGACTTGTGGGCTTTT--AAAGAGTGCCACTGA-CTTATGGGCTTTA
* * * * * * * * * *
251968 AAGGAAAAAGAGTGCTACGGAGTTGTGAGCTTATAAAAGAAAAAGAGTGCCACGGAGTTGTGGAC
1 AA-G-----G-TTGCCACTGACTTGTGGGCTT-T------TAAAGAGTGCCACTGACTTATGGGC
252033 TTTGGA
52 TTT--A
* * * ** * * * *
252039 AAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAGGTTGCCACTGACTTGTGGGCTT--TTAAAGAGTGCCACTGACTTATGGGCTTTA
* * * *
252096 AAGGTTGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAA
1 AAGGTTGCCACTGACTTGTGGGCTTTTAAAGAG-TGCCACTGACTTATGGGCTTT--A
* *
252154 AAAGATGCCACTGACTTGTGGGCTTTT
1 AAGGTTGCCACTGACTTGTGGGCTTTT
252181 GAAGGGTGAG
Statistics
Matches: 203, Mismatches: 43, Indels: 46
0.70 0.15 0.16
Matches are distributed among these distances:
55 4 0.02
56 47 0.23
57 27 0.13
58 43 0.21
59 24 0.12
63 1 0.00
64 32 0.16
65 2 0.01
69 19 0.09
70 1 0.00
71 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (55 bp):
AAGGTTGCCACTGACTTGTGGGCTTTTAAAGAGTGCCACTGACTTATGGGCTTTA
Found at i:252057 original size:29 final size:29
Alignment explanation
Indices: 252008--252179 Score: 204
Period size: 29 Copynumber: 5.9 Consensus size: 29
251998 TTATAAAAGA
* * *
252008 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* *
252038 AAAAGATGCCACCGACTTGTGGGCTTCGG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
252067 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * * *
252096 -AAGGTTGCCACTGACTTGTGGACTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
*
252124 AAAAGATGCCACTGACTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
252153 AAAAGATGCCACTGACTTGTGGGCTTT
1 AAAAGATGCCACTGACTTGTGGGCTTT
252180 TGAAGGGTGA
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
27 20 0.16
28 2 0.02
29 76 0.62
30 25 0.20
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:252182 original size:86 final size:86
Alignment explanation
Indices: 252015--252185 Score: 254
Period size: 86 Copynumber: 2.0 Consensus size: 86
252005 AGAAAAAGAG
* * * *
252015 TGCCACGGAGTTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAGGGTGCCAC
1 TGCCACGGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCAC
*
252080 TGATTTGTGGGCTTTGAAGGT
66 TGACTTGTGGGCTTTGAAGGT
* * *
252101 TGCCACTGACTTGTGGACTTTGAAAAAGATGCCACTGACTTGTGGGCTT-TGAAAAAGATGCCAC
1 TGCCACGGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCAC
252165 TGACTTGTGGGCTTTTGAAGG
66 TGACTTGTGGGC-TTTGAAGG
252186 GTGAGGAACA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
85 23 0.30
86 53 0.70
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.28
Consensus pattern (86 bp):
TGCCACGGACTTGTGGACTTTGAAAAAGATGCCACCGACTTGTGGGCTTCGGAAAAAGATGCCAC
TGACTTGTGGGCTTTGAAGGT
Found at i:253630 original size:11 final size:11
Alignment explanation
Indices: 253606--253650 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
253596 CCGGACCCTT
253606 TTTTTTGTTGTTG
1 TTTTTT-TT-TTG
253619 TTTTTTTTTTG
1 TTTTTTTTTTG
*
253630 TTTTTTGTTTG
1 TTTTTTTTTTG
253641 TTTTTTTTTT
1 TTTTTTTTTT
253651 TTTGCGGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 22 0.73
12 2 0.07
13 6 0.20
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:253641 original size:25 final size:24
Alignment explanation
Indices: 253606--253654 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
253596 CCGGACCCTT
253606 TTTTTTGTTGTTGTTTTTTTTTTG
1 TTTTTTGTTGTTGTTTTTTTTTTG
*
253630 TTTTTTGTTTGTTTTTTTTTTTTTG
1 TTTTTTG-TTGTTGTTTTTTTTTTG
253655 CGGAGGACGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (24 bp):
TTTTTTGTTGTTGTTTTTTTTTTG
Found at i:253651 original size:18 final size:17
Alignment explanation
Indices: 253604--253654 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
253594 ATCCGGACCC
* *
253604 TTTTTTTTGTTGTTGTT
1 TTTTTTTTTTTTTTGTT
253621 TTTTTTTTGTTTTTTGTT
1 TTTTTTTT-TTTTTTGTT
253639 TGTTTTTTTTTTTTTG
1 T-TTTTTTTTTTTTTG
253655 CGGAGGACGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 8 0.27
18 15 0.50
19 7 0.23
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (17 bp):
TTTTTTTTTTTTTTGTT
Found at i:267596 original size:19 final size:21
Alignment explanation
Indices: 267572--267622 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
267562 CATTTGAGTA
267572 ATGTATCGATACCAA-AC-TT
1 ATGTATCGATACCAACACTTT
267591 ATGTATCGATA-CAACACTTT
1 ATGTATCGATACCAACACTTT
267611 ATGTATCGATAC
1 ATGTATCGATAC
267623 AAATCGTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.10
19 13 0.45
20 13 0.45
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACCAACACTTT
Found at i:267614 original size:20 final size:18
Alignment explanation
Indices: 267572--267625 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 18
267562 CATTTGAGTA
267572 ATGTATCGATACCAAACTT
1 ATGTATCGATA-CAAACTT
267591 ATGTATCGATACAACACTTT
1 ATGTATCGATACAA-AC-TT
267611 ATGTATCGATACAAA
1 ATGTATCGATACAAA
267626 TCGTTGAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.09
19 14 0.42
20 16 0.48
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (18 bp):
ATGTATCGATACAAACTT
Found at i:268496 original size:67 final size:68
Alignment explanation
Indices: 268374--268500 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
268364 ATTGGGTTTT
* * *
268374 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
268439 AGA
66 AGA
* * * *
268442 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
268501 GAAAAAGGAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:268550 original size:55 final size:53
Alignment explanation
Indices: 268490--268604 Score: 158
Period size: 53 Copynumber: 2.1 Consensus size: 53
268480 CGATATTGGG
* * *
268490 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-GAAAAAGG-TGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* * *
268545 CTTAAAGATGGAAAAATGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
268598 CTTAAAG
1 CTTAAAG
268605 GTGCCAATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 37 0.69
54 7 0.13
55 10 0.19
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (53 bp):
CTTAAAGATGGAAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
Found at i:268588 original size:53 final size:55
Alignment explanation
Indices: 268453--268604 Score: 164
Period size: 55 Copynumber: 2.8 Consensus size: 55
268443 AAGTGATAAA
* * * * * * **
268453 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
* * * *
268508 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-GAAAAAT
1 GATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
* *
268562 G-TGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAG
268605 GTGCCAATGT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 37 0.45
54 7 0.09
55 38 0.46
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (55 bp):
GATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
Found at i:268623 original size:43 final size:43
Alignment explanation
Indices: 268562--268646 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
268552 ATGGAAAAAT
*
268562 GTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATATGCTAATTCAAGGCCAGCTACATTGGACTTAAAG
* * *
268605 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAA
1 GTGCCAATATGCTAATTCAAGGCCAGCTACATTGGACTTAAA
268647 AGGGTTGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
GTGCCAATATGCTAATTCAAGGCCAGCTACATTGGACTTAAAG
Found at i:268724 original size:28 final size:28
Alignment explanation
Indices: 268693--268805 Score: 172
Period size: 28 Copynumber: 4.0 Consensus size: 28
268683 GTTTGCATCA
* *
268693 ACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
*
268721 ACTTGTGGGCTTTTAAAGATTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
268749 ACTTGTGGGCTTTTAAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
*
268777 ACTTGTGGGCTTTTGAAAAGGGTGCCACT
1 ACTTGTGGGCTTTT--AAAGGTTGCCACT
268806 AATTCGTCCC
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 66 0.85
30 12 0.15
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (28 bp):
ACTTGTGGGCTTTTAAAGGTTGCCACTG
Found at i:270188 original size:78 final size:80
Alignment explanation
Indices: 270090--270418 Score: 243
Period size: 79 Copynumber: 4.2 Consensus size: 80
270080 AAAATTAATA
* * *
270090 TTTTAGAGATAAAAAT-GAGGTCAGAGTA-CTTGCTCAGAAATAACGGGGTTAGAGTATCCCCAA
1 TTTTAGAAATAAAAGTCGAGGTCAGAGTATCCT-CTCAGAAATAACGGGGTTAGAGTATCCCCAA
* * *
270153 TGGTGGAAAATTGATG
65 TGATGAAAAATCGATG
* * *
270169 TTTT-GAAA-AAAAGTCGAGGTCGGAGTATCCTCTCGGAAATAACGGGGTTAGAGTATCCCCGAT
1 TTTTAGAAATAAAAGTCGAGGTCAGAGTATCCTCTCAGAAATAACGGGGTTAGAGTATCCCCAAT
*
270232 TATGAAAAATCGATG
66 GATGAAAAATCGATG
* ** * * * * *
270247 TTTTAGAAATAAAA--CCAGGGTTGGAATATCGC-CAT-GGAAATAACAGGGTTGGAGTATCCTC
1 TTTTAGAAATAAAAGTCGA-GGTCAGAGTATC-CTC-TCAGAAATAACGGGGTTAGAGTATCCCC
* *
270308 AATTATGAAAAATTGATG
63 AATGATGAAAAATCGATG
* * * * * *
270326 TTTTAGAAAT-AAAGCCGGGGGT-GGAGTATCCTCTC-GAAAATAACGAGGTTGGAGTGTCCCCG
1 TTTTAGAAATAAAAGTC-GAGGTCAGAGTATCCTCTCAG-AAATAACGGGGTTAGAGTATCCCC-
*
270388 ACT-ATGAAAAATC-AGTG
63 AATGATGAAAAATCGA-TG
*
270405 TTTTAGGAATAAAA
1 TTTTAGAAATAAAA
270419 ACTAGGGTTA
Statistics
Matches: 206, Mismatches: 28, Indels: 31
0.78 0.11 0.12
Matches are distributed among these distances:
77 5 0.02
78 68 0.33
79 118 0.57
80 15 0.07
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.26
Consensus pattern (80 bp):
TTTTAGAAATAAAAGTCGAGGTCAGAGTATCCTCTCAGAAATAACGGGGTTAGAGTATCCCCAAT
GATGAAAAATCGATG
Found at i:270313 original size:79 final size:78
Alignment explanation
Indices: 270126--270479 Score: 281
Period size: 79 Copynumber: 4.5 Consensus size: 78
270116 TACTTGCTCA
* * ** * * *
270126 GAAATAACGGGGTTAGAGTATCCCCAATGGTGGAAAATTGATGTTTT-GAAA-AAAAGTC-GAGG
1 GAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAA-CCAG-GG
* *
270188 TCGGAGTATCCTCTCG
63 TTGGAATATCCTCTCG
*
270204 GAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCAGGGTT
1 GAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCAGGGTT
270269 GGAATATCGC-CAT-G
65 GGAATATC-CTC-TCG
* * * * * *
270283 GAAATAACAGGGTTGGAGTATCCTCAATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGGT
1 GAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCAGGGTT
*
270348 GGAGTATCCTCTCG
65 GGAATATCCTCTCG
* * * * *
270362 AAAATAACGAGGTTGGAGTGTCCCCGACTATGAAAAATC-AGTGTTTTAGGAATAAAAACTAGGG
1 GAAATAACG-GGTTGGAGTATCCCCGATTATGAAAAATCGA-TGTTTTAGAAAT-AAAACCAGGG
* * **
270426 TTAGAGTATACC-CTAA
63 TTGGAATAT-CCTCTCG
* * * *
270442 AAAATAAGGAGGTTGGAATATCCCCGATTGTGAAAAAT
1 GAAATAACG-GGTTGGAGTATCCCCGATTATGAAAAAT
270480 TAGTGTTTTG
Statistics
Matches: 229, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
78 46 0.20
79 125 0.55
80 56 0.24
81 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (78 bp):
GAAATAACGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCAGGGTTG
GAATATCCTCTCG
Found at i:270410 original size:158 final size:158
Alignment explanation
Indices: 270126--270427 Score: 412
Period size: 158 Copynumber: 1.9 Consensus size: 158
270116 TACTTGCTCA
* * * *
270126 GAAATAACGGGGTTAGAGTATCCCCAATGGTGGAAAATTGATGTTTTGAAAAAAAGTCGAGGTCG
1 GAAATAACAGGGTTAGAGTATCCCCAATGATGAAAAATTGATGTTTTGAAAAAAAGCCGAGGTCG
* * *
270191 GAGTATCCTCTCGGAAATAACGGGGTTAGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAA
66 GAGTATCCTCTCGAAAATAACGAGGTTAGAGTATCCCCGACTATGAAAAATCGATGTTTTAGAAA
270256 T-AAAACCAGGGTTGGAATATCGCCATG
131 TAAAAACCAGGGTTGGAATATCGCCATG
* * * * *
270283 GAAATAACAGGGTTGGAGTATCCTCAATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGGT
1 GAAATAACAGGGTTAGAGTATCCCCAATGATGAAAAATTGATGTTTT-GAAAAAAAGCC-GAGGT
* *
270348 -GGAGTATCCTCTCGAAAATAACGAGGTTGGAGTGTCCCCGACTATGAAAAATC-AGTGTTTTAG
64 CGGAGTATCCTCTCGAAAATAACGAGGTTAGAGTATCCCCGACTATGAAAAATCGA-TGTTTTAG
* *
270411 GAATAAAAACTAGGGTT
128 AAATAAAAACCAGGGTT
270428 AGAGTATACC
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
157 42 0.34
158 68 0.54
159 15 0.12
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (158 bp):
GAAATAACAGGGTTAGAGTATCCCCAATGATGAAAAATTGATGTTTTGAAAAAAAGCCGAGGTCG
GAGTATCCTCTCGAAAATAACGAGGTTAGAGTATCCCCGACTATGAAAAATCGATGTTTTAGAAA
TAAAAACCAGGGTTGGAATATCGCCATG
Found at i:270662 original size:80 final size:79
Alignment explanation
Indices: 270549--270714 Score: 215
Period size: 80 Copynumber: 2.1 Consensus size: 79
270539 TATCTCCTTA
* * * * *
270549 AAAATAACAGGGTAGGAGTGTCCCCGATTGTGAAAAATAGGTATTTTAGACATAAAAACTAGGGT
1 AAAATAACAGGGTAGGACTATCCCCGATGGTGAAAAATAGGTATTTTAGAAAT-AAAACCAGGGT
*
270614 TGGAGTATCCCCTCG
65 TAGAGTATCCCCTCG
* * * * * *
270629 GAAATAACAGGGTAGGACTATCCCTGATGGTGAAAAATTGGTGTTTTAGAAATAAAGCCGGGGTT
1 AAAATAACAGGGTAGGACTATCCCCGATGGTGAAAAATAGGTATTTTAGAAATAAAACCAGGGTT
270694 AGAGTATCCCCTCG
66 AGAGTATCCCCTCG
270708 AAAATAA
1 AAAATAA
270715 TGGGGTTAGA
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
79 28 0.38
80 45 0.62
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (79 bp):
AAAATAACAGGGTAGGACTATCCCCGATGGTGAAAAATAGGTATTTTAGAAATAAAACCAGGGTT
AGAGTATCCCCTCG
Found at i:270708 original size:187 final size:187
Alignment explanation
Indices: 270362--270720 Score: 422
Period size: 187 Copynumber: 1.9 Consensus size: 187
270352 TATCCTCTCG
* *
270362 AAAATAACGAGGTTGGAGTGTCCCCGACTATGAAAAATCAGTGTTTTAGGAATAAAAACTAGGGT
1 AAAATAACGAGGTAGGAGTGTCCCCGACTATGAAAAATCAGTATTTTAGGAATAAAAACTAGGGT
* * * *
270427 TAGAGTATACCCTAAAAAATAAGGAGGTTGGAATATCCCCGATTGTGAAAAATTAGTGTTTTGGA
66 TAGAGTATACCCTAAAAAATAAAGAGGTAGGAATATCCCCGATGGTGAAAAATTAGTGTTTTAGA
* *
270492 AACAAAATCAAGATTGAAGTATTCCCTCGAAAATAATAGGGTAGTAGTATCTCCTTA
131 AACAAAACCAAGATTGAAGTATCCCCTCGAAAATAATAGGGTAGTAGTATCTCCTTA
* *
270549 AAAATAAC-AGGGTAGGAGTGTCCCCGATTGTGAAAAAT-AGGTATTTTA-GACATAAAAACTAG
1 AAAATAACGA-GGTAGGAGTGTCCCCGACTATGAAAAATCA-GTATTTTAGGA-ATAAAAACTAG
* * *** * * *
270611 GGTTGGAGTATCCCCTCGGAAATAACAG-GGTAGGACTATCCCTGATGGTGAAAAATTGGTGTTT
63 GGTTAGAGTATACCCTAAAAAATAA-AGAGGTAGGAATATCCCCGATGGTGAAAAATTAGTGTTT
* * ** * *
270675 TAGAAATAAAGCCGGGGTT-AGAGTATCCCCTCGAAAATAATGGGGT
127 TAGAAACAAAACCAAGATTGA-AGTATCCCCTCGAAAATAATAGGGT
270721 TAGAGTGTCC
Statistics
Matches: 143, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
186 5 0.03
187 137 0.96
188 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (187 bp):
AAAATAACGAGGTAGGAGTGTCCCCGACTATGAAAAATCAGTATTTTAGGAATAAAAACTAGGGT
TAGAGTATACCCTAAAAAATAAAGAGGTAGGAATATCCCCGATGGTGAAAAATTAGTGTTTTAGA
AACAAAACCAAGATTGAAGTATCCCCTCGAAAATAATAGGGTAGTAGTATCTCCTTA
Found at i:270737 original size:79 final size:79
Alignment explanation
Indices: 270549--270765 Score: 233
Period size: 79 Copynumber: 2.7 Consensus size: 79
270539 TATCTCCTTA
* * * *
270549 AAAATAACAGGGTAGGAGTGTCCCCGATTGTGAAAAATAGGTATTTTAGACATAAAAACTAGGGT
1 AAAATAACAGGGTAGGAGTGT-CCCGATGGTGAAAAATTGGTATTTTAGAAATAAAAACCAGGGT
*
270614 TGGAGTATCCCCTCG
65 TAGAGTATCCCCTCG
* * * * * *
270629 GAAATAACAGGGTAGGACTATCCCTGATGGTGAAAAATTGGTGTTTTAGAAAT-AAAGCCGGGGT
1 AAAATAACAGGGTAGGAGTGTCCC-GATGGTGAAAAATTGGTATTTTAGAAATAAAAACCAGGGT
270693 TAGAGTATCCCCTCG
65 TAGAGTATCCCCTCG
** * * *
270708 AAAATAATGGGGTTA-GAGTGTCCTCGATGGTGGAAAATT-ATATTTTGGAAATAAAAAC
1 AAAATAACAGGG-TAGGAGTGTCC-CGATGGTGAAAAATTGGTATTTTAGAAATAAAAAC
270766 ATTGATGAAA
Statistics
Matches: 112, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
78 10 0.09
79 57 0.51
80 45 0.40
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (79 bp):
AAAATAACAGGGTAGGAGTGTCCCGATGGTGAAAAATTGGTATTTTAGAAATAAAAACCAGGGTT
AGAGTATCCCCTCG
Found at i:273155 original size:50 final size:50
Alignment explanation
Indices: 273096--273210 Score: 187
Period size: 50 Copynumber: 2.3 Consensus size: 50
273086 AAAATGCCTG
*
273096 AATGTATCGATACATTGAGA-AATCTATCGATGCATCTGGGTAAAACCCAA
1 AATGTATCGATACAATGA-ATAATCTATCGATGCATCTGGGTAAAACCCAA
* *
273146 AATGTATCGATACAATGAATAATGTATCGATGCATCTGGGTAAAACCCAT
1 AATGTATCGATACAATGAATAATCTATCGATGCATCTGGGTAAAACCCAA
273196 AATGTATCGATACAA
1 AATGTATCGATACAA
273211 ATTTTGAAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
49 1 0.02
50 60 0.98
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (50 bp):
AATGTATCGATACAATGAATAATCTATCGATGCATCTGGGTAAAACCCAA
Found at i:273420 original size:36 final size:38
Alignment explanation
Indices: 273338--273424 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 38
273328 AGGACAAAGG
* *
273338 AAAAAAGAAATAAAGTGCGTCCTGTTCTTTGAGGACAAAAG
1 AAAAAGGAAATAAAGTGCGTCCTGTTCTTT---GACAAAAC
*
273379 AAAAAGGAAATAAAGTGCGTCCTGTTCTTT-A-AAGAC
1 AAAAAGGAAATAAAGTGCGTCCTGTTCTTTGACAAAAC
273415 AAAAAGGAAA
1 AAAAAGGAAA
273425 AGAAAGAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 13 0.30
37 1 0.02
41 29 0.67
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (38 bp):
AAAAAGGAAATAAAGTGCGTCCTGTTCTTTGACAAAAC
Found at i:273501 original size:44 final size:42
Alignment explanation
Indices: 273321--274017 Score: 427
Period size: 45 Copynumber: 16.3 Consensus size: 42
273311 TTACACCCTT
273321 CTCTTTGAGGACAAAGGAAAAAA-GAAAT--AAAGTGCGTCCTG
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATGAAAAGT--GTCCTG
* *
273362 TTCTTTGAGGACAAAAG-AAAAAGGAAAT--AAAGTGCGTCCTG
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATGAAAAGT--GTCCTG
* * * *
273403 TTCTTTAAAGACAAAAAGGAAAAGAAAGAAATG--AAGTACGTCCTG
1 CTCTTTGAGGAC--AAAGGAAAA-AAGGAAATGAAAAGT--GTCCTG
*
273448 CTCTTTGAGGACAAAGGAAAAAAGGAAATGAGGAAAGTGTCCTA
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATGA--AAAGTGTCCTG
* * * *
273492 CTCCTTGAGGTCAAAAGGGAAAAAAGGAAATGAAATGTGCCCTG
1 CTCTTTGAGGAC-AAA-GGAAAAAAGGAAATGAAAAGTGTCCTG
* * ** *
273536 CTCTTTAAGGATAAA-GAAGAAAAGGAAAAAAAAAAGTGCATCCTA
1 CTCTTTGAGGACAAAGGAA-AAAAGG-AAATGAAAAGTG--TCCTG
**
273581 CTCTTTGAGGACAGAAGGGAAAAGAAGGAAATGAAATTTGTCCTG
1 CTCTTTGAGGACA-AA-GGAAAA-AAGGAAATGAAAAGTGTCCTG
*
273626 CTCTTTGAGGACAAAGGAGAAAA-G----GAAAAGTCGTCCTG
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATGAAAAGT-GTCCTG
* * ** *
273664 CTCTTTGAAGACAAA-GAAAAAAGAAAAT-AAATTA-CATCCTA
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATGAAA--AGTGTCCTG
** * *
273705 CTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGAGTCTTG
1 CTCTTTGAGGAC-AAAG-GAAAA-AAGGAAATGAAAAGTGTCCTG
* * *
273750 CTCTTCGAGGACAAATGGAAAAAAAGGAAATGAAATA-TCTCCTA
1 CTCTTTGAGGACAAA-GG-AAAAAAGGAAATGAAA-AGTGTCCTG
*
273794 CTCTTTGAGGACAAA-GAAGAAAA-G----GAAAAGTCGTCTTG
1 CTCTTTGAGGACAAAGGAA-AAAAGGAAATGAAAAGT-GTCCTG
* * *** *
273832 CTTTTTAAGGACTAAAGGAAAAGAAGGAAATGAGGTGTGCCCTG
1 CTCTTTGAGGAC-AAAGGAAAA-AAGGAAATGAAAAGTGTCCTG
* ** *
273876 CTCTTTGAGGACAAAGG-AAAAAGGAAATCAAGTGCGTCCTG
1 CTCTTTGAGGACAAAGGAAAAAAGGAAATGAAAAGTGTCCTG
* * * * *
273917 CTTTTTGTGGACAAAAAAGAAAAAAGGGAAATGAAATGTGTCCTT
1 CTCTTTGAGGAC--AAAGGAAAAAA-GGAAATGAAAAGTGTCCTG
*
273962 CTCTTTGAGGATAAAGTGAAAAAAGGAAATGAGGAAAGTGTCCTG
1 CTCTTTGAGGACAAAG-GAAAAAAGGAAATGA--AAAGTGTCCTG
*
274007 CTCCTTGAGGA
1 CTCTTTGAGGA
274018 TTAAAAGGTG
Statistics
Matches: 513, Mismatches: 88, Indels: 106
0.73 0.12 0.15
Matches are distributed among these distances:
36 1 0.00
37 16 0.03
38 33 0.06
39 5 0.01
40 10 0.02
41 96 0.19
42 27 0.05
43 51 0.10
44 99 0.19
45 134 0.26
46 24 0.05
47 10 0.02
48 7 0.01
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (42 bp):
CTCTTTGAGGACAAAGGAAAAAAGGAAATGAAAAGTGTCCTG
Found at i:273626 original size:90 final size:88
Alignment explanation
Indices: 273412--274017 Score: 323
Period size: 89 Copynumber: 7.0 Consensus size: 88
273402 GTTCTTTAAA
* * * *
273412 GACAAAAAGGAAAAGAAAGAAATGAAGTACGTCCTGCTCTTTGAGGACAAAGGAA-AAAAGGAAA
1 GACAAAAGGGAAAAGAAGGAAATGAAATATGTCCTGCTCTTTGAGGACAAA-GAAGAAAAGGAAA
* **
273476 TGAGGAAAGTGTCCTACTCCTTGAG
65 -AAAAAAAGTGTCCTACTCCTTGAG
* * * * *
273501 GTCAAAAGGGAAAA-AAGGAAATGAAATGTGCCCTGCTCTTTAAGGATAAAGAAGAAAAGGAAAA
1 GACAAAAGGGAAAAGAAGGAAATGAAATATGTCCTGCTCTTTGAGGACAAAGAAGAAAAGGAAAA
*
273565 AAAAAAGTGCATCCTACTCTTTGAG
66 AAAAAAGTG--TCCTACTCCTTGAG
* * *
273590 GACAGAAGGGAAAAGAAGGAAATGAAATTTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGG----
1 GACAAAAGGGAAAAGAAGGAAATGAAATATGTCCTGCTCTTTGAGGACAAAGAAGAAAAGGAAAA
* * *
273651 --AAAAGTCGTCCTGCTCTTTGAA
66 AAAAAAGT-GTCCTACTCCTTGAG
* ** *
273673 GAC-AAA--GAAAA-AAGAAAAT-AAATTACATCCTACTCTTTGAGGACAAA-AGAGAAAA-GAA
1 GACAAAAGGGAAAAGAAGGAAATGAAA-TATGTCCTGCTCTTTGAGGACAAAGA-AGAAAAGGAA
* ** * *
273731 GGAAATGAAGTGAGTCTTGCT-CTTCGAG
64 -AAAAAAAAGT--GTCCTACTCCTT-GAG
* * * *
273759 GAC-AAATGGAAAAAAAGGAAATGAAATATCTCCTACTCTTTGAGGACAAAGAAGAAAAGG----
1 GACAAAAGGGAAAAGAAGGAAATGAAATATGTCCTGCTCTTTGAGGACAAAGAAGAAAAGGAAAA
* * ** *
273819 --AAAAGTCGTCTTGCTTTTTAAG
66 AAAAAAGT-GTCCTACTCCTTGAG
* ** * * *
273841 GACTAAA-GGAAAAGAAGGAAATGAGGTGTGCCCTGCTCTTTGAGGACAAAGGA-AAAAGG-AAA
1 GACAAAAGGGAAAAGAAGGAAATGAAATATGTCCTGCTCTTTGAGGACAAAGAAGAAAAGGAAAA
** ** * * ** *
273903 TCAAGTGCGTCCTGCTTTTTGTG
66 AAAAAAGTGTCCTACTCCTTGAG
** * * *
273926 GACAAAAAAGAAAA-AAGGGAAATGAAATGTGTCCTTCTCTTTGAGGATAAAGTGAA-AAAAGGA
1 GACAAAAGGGAAAAGAA-GGAAATGAAATATGTCCTGCTCTTTGAGGACAAA--GAAGAAAAGGA
* ** *
273989 AATGAGGAAAGTGTCCTGCTCCTTGAG
63 AA-AAAAAAAGTGTCCTACTCCTTGAG
274016 GA
1 GA
274018 TTAAAAGGTG
Statistics
Matches: 407, Mismatches: 75, Indels: 69
0.74 0.14 0.13
Matches are distributed among these distances:
78 4 0.01
79 33 0.08
80 5 0.01
81 6 0.01
82 53 0.13
83 24 0.06
84 6 0.01
85 27 0.07
86 52 0.13
87 10 0.02
88 51 0.13
89 74 0.18
90 62 0.15
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (88 bp):
GACAAAAGGGAAAAGAAGGAAATGAAATATGTCCTGCTCTTTGAGGACAAAGAAGAAAAGGAAAA
AAAAAAGTGTCCTACTCCTTGAG
Found at i:273802 original size:168 final size:167
Alignment explanation
Indices: 273363--273990 Score: 504
Period size: 168 Copynumber: 3.7 Consensus size: 167
273353 TGCGTCCTGT
* * * * * *
273363 TCTTTGAGGACAAAAGAAAAAGGAAATAAAGTGCGTCCTGTTCTTTAAAGACAAAAAGGAAAAGA
1 TCTTTGAGGACAAAGGAAAAAGGAAATCAAGTGAGTCCTGCTCTTTGAGGAC-AAAAGGAAAA-A
* * * *
273428 AA-GAAATGAAGTACGTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAGGAAAGT-GTCCT
64 AAGGAAATGAAATATGTCCTACTCTTTGAGGACAAAGGAGAAAA-G----GA--AAAGTCGTCCT
* * * * * * *
273491 ACTCCTTG-AGGTCAAAAGGGAAAA-AAGGAAATGAAATGTGCCCTGC
122 GCT-TTTGAAGGACTAAA-GGAAAAGAAGAAAATGAAATGTACCCTAC
* * * ** * *
273537 TCTTTAAGGATAAAGAAGAAAAGGAAAAAAAAAAGTGCA-TCCTACTCTTTGAGGACAGAAGGGA
1 TCTTTGAGGACAAAGGA-AAAAGG---AAATCAAGTG-AGTCCTGCTCTTTGAGGACA-AAAGGA
* * *
273601 AAAGAAGGAAATGAAATTTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGTCGTCCTGCT
60 AAAAAAGGAAATGAAATATGTCCTACTCTTTGAGGACAAAGGAGAAAAGGAAAAGTCGTCCTGCT
273666 CTTTGAA-GAC-AAA-GAAAA-AAGAAAAT-AAAT-TACATCCTAC
125 -TTTGAAGGACTAAAGGAAAAGAAGAAAATGAAATGTAC--CCTAC
* * * *
273706 TCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGAGTCTTGCTCTTCGAGGACAAATGGAAA
1 TCTTTGAGGAC-AAAG-G-AAA-AAGGAAATCAAGTGAGTCCTGCTCTTTGAGGACAAAAGGAAA
* * *
273771 AAAAGGAAATGAAATATCTCCTACTCTTTGAGGACAAAGAAGAAAAGGAAAAGTCGTCTTGCTTT
62 AAAAGGAAATGAAATATGTCCTACTCTTTGAGGACAAAGGAGAAAAGGAAAAGTCGTCCTGCTTT
* * ** * *
273836 TTAAGGACTAAAGGAAAAGAAGGAAATGAGGTGTGCCCTGC
127 TGAAGGACTAAAGGAAAAGAAGAAAATGAAATGTACCCTAC
* * * *
273877 TCTTTGAGGACAAAGGAAAAAGGAAATCAAGTGCGTCCTGCTTTTTGTGGACAAAAAAGAAAAAA
1 TCTTTGAGGACAAAGGAAAAAGGAAATCAAGTGAGTCCTGCTCTTTGAGGAC-AAAAGGAAAAAA
* * * * *
273942 GGGAAATGAAATGTGTCCTTCTCTTTGAGGATAAAGTGAAAAAAGGAAA
65 AGGAAATGAAATATGTCCTACTCTTTGAGGACAAAG-GAGAAAAGGAAA
273991 TGAGGAAAGT
Statistics
Matches: 372, Mismatches: 58, Indels: 53
0.77 0.12 0.11
Matches are distributed among these distances:
167 34 0.09
168 116 0.31
169 62 0.17
170 13 0.03
171 32 0.09
172 20 0.05
173 5 0.01
174 13 0.03
175 6 0.02
177 4 0.01
178 67 0.18
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (167 bp):
TCTTTGAGGACAAAGGAAAAAGGAAATCAAGTGAGTCCTGCTCTTTGAGGACAAAAGGAAAAAAA
GGAAATGAAATATGTCCTACTCTTTGAGGACAAAGGAGAAAAGGAAAAGTCGTCCTGCTTTTGAA
GGACTAAAGGAAAAGAAGAAAATGAAATGTACCCTAC
Found at i:274098 original size:62 final size:62
Alignment explanation
Indices: 274001--276557 Score: 2664
Period size: 62 Copynumber: 41.4 Consensus size: 62
273991 TGAGGAAAGT
* * * ** * * * *
274001 GTCCTGCTCCTTGAGGATTAAAAGGTGCCACCAACTTTTATGGGATTTAAAAAGAAAAATGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * *
274063 GTCCTACTCTTTGAGAACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * *
274125 CTCATGCGCTTTGAGGATTAAAAGGTGCCACCAACTCTTGTGGGC-TTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* *
274186 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* ** **
274248 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAAC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* ** * **
274310 GTCTTGCTCTTT-ACGGACTAAAGCATGCCACCAACTCATGCAGGCTTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGA-GGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
274372 GTCTTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCATGTGGGCATTG-AAAGAAAAAGGG
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * **
274433 GTCCTACTCTTTGAGGACTAAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAA-AAAAAGAT
1 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
274495 GTCCTACTCTTTAAGGACAAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
274557 GTCCTGCTCTTTGAGCACTAAAGGGTGCCACTAACTTGTGTGGGATTGCTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGG-CT--TTGAAAAGAAAAAGGC
* * * *
274622 GT-CTAGCTCTTTGAGAACTAAAGGGTGCCACCAACTCGTATAGGC-TTGAAAAAAAAAAGGC
1 GTCCT-GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * *
274683 GTCTTGCTCTTTGAGGACTAAAAGTTGCCACCAACTCGTGTGAGCTTTG-AATGAAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
** * *
274744 ACCCCGCTCTTTGAGGACTAAAGGGTGCCACCAACTCTTGTGGGCTTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
274806 GTCCTGCTCTTTGAGGA-TAAAAAGGTACCACCAACTTGTGTGGGCTTTGAAAAGGAAAATGC
1 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *** * * *
274868 GTCTTGCTTTTTGAGGACTAAAAGGTATGACTAACTCATGTGGGCCTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * * *
274930 GCCCTGTTTTTTTAGAACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-TAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * * **
274991 ATCCTACTTTTTGAGGACTAAAAAGGTGCCACCAACTCGTATGTGCTTT-AAAACG-AAAAGAT
1 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGC
* * * * * *
275053 GTCCTGCTCTTTGAGGACAAAAGGGT-CCACCAACTCATGTGAGCTTTGAAAATAAGAAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
275114 GTCCTACTCTTTAAGGATTAAATGGTGCCACCAACTCGCT-TGGGCTTT-AAAATGAAAAA-GC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCG-TGTGGGCTTTGAAAA-GAAAAAGGC
* * * * * *
275175 ATCTTGCTCTTTTAGGATTGAAA-GGTGCCACCAACTTGTGTGGGC-TTGAAAAGGAAAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
275236 GTCATGCTCTTTGAGGAC-AGAAAGGTGCC-CTAACTTGTGT-GGCTTT-AAAATG-AAAGGGC
1 GTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGC
* * * * * * * * *
275295 ATCCTACTCTTTGAGGACTGAAGGGTACTACCAACTCATGTGGGCTTTGAATAGAAAAAAAAGT
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAA-A-AGAAAAAGGC
* * *
275359 GTCTTGCTCTTTGAGGACTAATGGGTGCCACCAACTCGTGTGGGTTTTGAAAA-AGAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAAAGGC
** * * *
275421 GTCCTATTTTTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGC
1 GTCCT-GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
275484 ATCCTGCTCTTTGAGGACTAAAAGATACCACCAACTCGTGTGGGC-TTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
275545 GTTCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
275607 ATCCTACTCTTT-AGGGACTAAAAGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGA-GGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* ** **
275669 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAAC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* ** * **
275731 GTCTTGCTCTTT-ACGGACTAAAGCATGCCACCAACTCATGCAGGCTTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGA-GGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
275793 GTCTTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCATGTGGGCATTG-AAAGAAAAAGGA
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* ** *
275854 GTCCTACTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGTTTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
275916 AT-CTAGCTCTTTGAGGACTAAATGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAATGC
1 GTCCT-GCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * *
275978 ATCCTTCTCTTTGAAGACTATAGGGTGCCACCAACTTGTGTGGGC-TTGAAAAGAAAAAGTC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
276039 ATCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AATGAAAAAGGT
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * * *
276100 ATCCTACTCTTTGAGGACTAAAAGGTGCCACTAACTCGTATAGGCTTTGAAAAGAAAAAAGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
276162 GTCCTACTCTTTGAGGA-TAAAAAGATGCCACCAACTCGTGCGGGCTTTGAAAA-AGAAAACGC
1 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAAAGGC
* * * * * *
276224 GTCTTGTTTTTTGAGGACTAAAAGATGCCACCAACTCGTGTGGGCCTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
276286 ATCTTGCTCTTTGAAGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-GAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * * * *
276347 ATCCTACTCTTTGTGGACTAAAACGATGCCACCAGCTCGTGTGGGATTTAAAAAGGAAAAA-GC
1 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGC
* * ** * *
276410 GTCCTGCTTTTTGAGGACTAAATGGTGTTACCAGCTCGTGTGGGCTTT-AAAAGAAAAAAGC
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * ***
276471 GTCCTTCTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATAT
1 GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* *
276533 GTCCTGCTCTTTGAGGCCTAGAGGG
1 GTCCTGCTCTTTGAGGACTAAAGGG
276558 CTTAAAGGGG
Statistics
Matches: 2092, Mismatches: 344, Indels: 118
0.82 0.13 0.05
Matches are distributed among these distances:
59 35 0.02
60 55 0.03
61 637 0.30
62 1176 0.56
63 85 0.04
64 53 0.03
65 51 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (62 bp):
GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
Found at i:274341 original size:185 final size:185
Alignment explanation
Indices: 274001--276548 Score: 2617
Period size: 185 Copynumber: 13.8 Consensus size: 185
273991 TGAGGAAAGT
* * ** * * * *
274001 GTCCTGCTCCTTGAGGATTAAAAGGTGCCACCAACTTTTATGGGATTTAAAAAGAAAAATGCGTC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * * * *
274066 CTACTCTTTGAGAACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGCCTCATG
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTG
* * *
274131 CGCTTTGAGGATTAAAAGGTGCCACCAACTCTTGTGGGC-TTGAAAAGAAAAAGGC
131 CTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* *
274186 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* ** *
274251 CTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAACGTCTTG
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTG
* * **
274316 CTCTTT-ACGGACTAAAGCATGCCACCAACTCATGCAGGCTTTGAAAAGAAAAAGGC
131 CTCTTTGA-GGACTAAAG-GTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * *
274372 GTCTTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCATGTGGGCATTG-AAAGAAAAAGGGGTC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * **
274436 CTACTCTTTGAGGACTAAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAA-AAAAAGATGTCCT
66 CTGCTCTTTGAGGACTAAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCT
* * * *
274500 ACTCTTTAAGGACAAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGT
130 GCTCTTTGAGGAC-TAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
274557 GTCCTGCTCTTTGAGCACTAAAGGGTGCCACTAACTTGTGTGGGATTGCTTGAAAAGAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGG-CT--TTGAAAAGAAAAAGGC
* * * * *
274622 GT-CTAGCTCTTTGAGAACTAAAGGGTGCCACCAACTCGTATAGGC-TTGAAAAAAAAAAGGCGT
63 GTCCT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGT
* * * * *
274685 CTTGCTCTTTGAGGACTAAAAGTTGCCACCAACTCGTGTGAGCTTTG-AATGAAAAAGGT
127 CCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
** * * *
274744 ACCCCGCTCTTTGAGGACTAAAGGGTGCCACCAACTCTTGTGGGCTTTGAAAAGAAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * * *
274809 CTGCTCTTTGAGGA-TAAAAAGGTACCACCAACTTGTGTGGGCTTTGAAAAGGAAAATGCGTCTT
66 CTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCT
* *** * * *
274873 GCTTTTTGAGGACTAAAAGGTATGACTAACTCATGTGGGCCTTGAAAAGAAAAAGGC
130 GCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * * * * * *
274930 GCCCTGTTTTTTTAGAACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-TAAAGGCATC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * * **
274994 CTACTTTTTGAGGACTAAAAAGGTGCCACCAACTCGTATGTGCTTT-AAAACG-AAAAGATGTCC
66 CTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGCGTCC
* * * * * *
275057 TGCTCTTTGAGGACAAAAGG-GTCCACCAACTCATGTGAGCTTTGAAAATAAGAAGGT
129 TGCTCTTTGAGGACTAAAGGTG-CCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * *
275114 GTCCTACTCTTTAAGGATTAAATGGTGCCACCAACTCGCT-TGGGCTTT-AAAATGAAAAA-GCA
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCG-TGTGGGCTTTGAAAA-GAAAAAGGCG
* * * * * * *
275176 TCTTGCTCTTTTAGGATTGAAAGGTGCCACCAACTTGTGTGGGC-TTGAAAAGGAAAAGGCGTCA
64 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * *
275240 TGCTCTTTGAGGACAGAAAGGTGCC-CTAACTTGTGT-GGCTTT-AAAATG-AAAGGGC
129 TGCTCTTTGAGGAC-TAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGC
* * * * * * * * * *
275295 ATCCTACTCTTTGAGGACTGAAGGGTACTACCAACTCATGTGGGCTTTGAATAGAAAAAAAAGTG
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAA-A-AGAAAAAGGCG
* ** *
275360 TCTTGCTCTTTGAGGACTAATGGGTGCCACCAACTCGTGTGGGTTTTGAAAA-AGAAAAGGCGTC
64 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAAAGGCGTC
** * * *
275424 CTATTTTTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGC
128 CT-GCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
275484 ATCCTGCTCTTTGAGGACTAAAAGATACCACCAACTCGTGTGGGC-TTGAAAAGAAAAAGGCGTT
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * ** *
275548 CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAAGGTATCCTA
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTG
*
275613 CTCTTT-AGGGACTAAAAGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGC
131 CTCTTTGA-GGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * **
275669 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAACGTC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * ** *
275734 TTGCTCTTT-ACGGACT-AAAGCATGCCACCAACTCATGCAGGCTTTGAAAAGAAAAAGGCGTCT
66 CTGCTCTTTGA-GGACTAAAAG-GTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * *
275797 TGCTCTTTGAGGACTAGAGGGTGCCACCAACTCATGTGGGCATTG-AAAGAAAAAGGA
129 TGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * *
275854 GTCCTACTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGTTTTGAAAAGAAAAAGGCAT-
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * *
275918 CTAGCTCTTTGAGGACTAAATGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAATGCATCCT
66 CT-GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCT
* * * * *
275983 TCTCTTTGAAGACTATAGGGTGCCACCAACTTGTGTGGGC-TTGAAAAGAAAAAGTC
130 GCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
* * * * **
276039 ATCATGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AATGAAAAAGGTATC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * * * *
276103 CTACTCTTTGAGGACTAAAAGGTGCCACTAACTCGTATAGGCTTTGAAAAGAAAAAAGCGTCCTA
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTG
* * *
276168 CTCTTTGAGGA-TAAAAAGATGCCACCAACTCGTGCGGGCTTTGAAAA-AGAAAACGC
131 CTCTTTGAGGACT--AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAAAGGC
* * * * * *
276224 GTCTTGTTTTTTGAGGACTAAAAGATGCCACCAACTCGTGTGGGCCTTGAAAAGAAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * * * * *
276289 TTGCTCTTTGAAGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-GAAAGGCATCCTA
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTG
* * * * *
276353 CTCTTTGTGGACTAAAACGATGCCACCAGCTCGTGTGGGATTTAAAAAGGAAAAA-GC
131 CTCTTTGAGGACT-AAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGC
* * ** * *
276410 GTCCTGCTTTTTGAGGACTAAATGGTGTTACCAGCTCGTGTGGGCTTT-AAAAGAAAAAAGCGTC
1 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * ***
276474 CTTCTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATATGTCCTG
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTG
276539 CTCTTTGAGG
131 CTCTTTGAGG
276549 CCTAGAGGGC
Statistics
Matches: 1980, Mismatches: 319, Indels: 127
0.82 0.13 0.05
Matches are distributed among these distances:
180 1 0.00
181 46 0.02
182 10 0.01
183 68 0.03
184 292 0.15
185 824 0.42
186 508 0.26
187 70 0.04
188 85 0.04
189 76 0.04
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (185 bp):
GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTG
CTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGC
Found at i:274445 original size:247 final size:248
Alignment explanation
Indices: 274002--276557 Score: 2695
Period size: 247 Copynumber: 10.3 Consensus size: 248
273992 GAGGAAAGTG
* * * ** * * * *
274002 TCCTGCTCCTTGAGGATTAAAAGGTGCCACCAACTTTTATGGGATTTAAAAAGAAAAATGCGTCC
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * * * * * *
274067 TACTCTTTGAGAACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGCCTCATGC
66 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTAC
* * *
274132 GCTTTGAGGATTAAAAGGTGCCACCAACTCTTGTGGGC-TTGAAAAGAAAAAGGCGTCCTGCTCT
131 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCT
*
274196 TTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCA
196 TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
** *
274249 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAACGTCT
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
** ** * *
274314 TGCTCTTT-ACGGACTAAAGCATGCCACCAACTCATGCAGGCTTTGAAAAGAAAAAGGCGTCTTG
66 TGCTCTTTGA-GGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTA
* * * * * *
274378 CTCTTTGAGGACTAGAGGGTGCCACCAACTCATGTGGGCATTG-AAAGAAAAAGGGGTCCTACTC
130 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTC
* ***
274442 TTTGAGGACTAAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAA-AAAAAGATG
195 TTTGAGGACTAAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * *
274496 TCCTACTCTTTAAGGAC-AAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTGTC
1 TCCTGCTCTTTGAGGACTAAAAA-GTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * ** *
274560 CTGCTCTTTGAGCACTAAAGGGTGCCACTAACTTGTGTGGGATTGCTTGAAAAGAAAAAGGCGT-
65 CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGG-CT--TTGAAAAGAAAAAGGCGTC
* * * * * *
274624 CTAGCTCTTTGAGAACTAAAGGGTGCCACCAACTCGTATAGGC-TTGAAAAAAAAAAGGCGTCTT
127 CTA-CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCT
* * * *
274688 GCTCTTTGAGGACTAAAAGTTGCCACCAACTCGTGTGAGCTTTG-AATGAAAAAGGTA
191 GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * ** *
274745 CCCCGCTCTTTGAGGACTAAAGGGTGCCACCAACTCTTGTGGGCTTTGAAAAGAAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * ** * * * *
274810 TGCTCTTTGAGGA-TAAAAAGGTACCACCAACTTGTGTGGGCTTTGAAAAGGAAAATGCGTCTTG
66 TGCTCTTTGAGGACT-AAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTA
* *** * * * * * *
274874 CTTTTTGAGGACTAAAAGGTATGACTAACTCATGTGGGCCTTGAAAAGAAAAAGGCGCCCTGTTT
130 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTC
* * * * *
274939 TTTTAGAACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-TAAAGGCA
195 TTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * * * **
274992 TCCTACTTTTTGAGGACTAAAAAGGTGCCACCAACTCGTATGTGCTTT-AAAACG-AAAAGATGT
1 TCCTGCTCTTTGAGGACTAAAAA-GTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGCGT
* * * * *
275055 CCTGCTCTTTGAGGACAAAAGGGT-CCACCAACTCATGTGAGCTTTGAAAATAAGAAGGTGTCCT
64 CCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCT
* * * * *
275119 ACTCTTTAAGGATTAAATGGTGCCACCAACTCGCT-TGGGCTTT-AAAATGAAAAA-GCATCTTG
129 ACTCTTTGAGGACTAAAAGGTGCCACCAACTCG-TGTGGGCTTTGAAAA-GAAAAAGGCGTCCTG
* * * * * *
275181 CTCTTTTAGGATTGAAAGGTGCCACCAACTTGTGTGGGC-TTGAAAAGGAAAAGGCG
192 CTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * * * * *
275237 TCATGCTCTTTGAGGAC-AGAAAGGTGCC-CTAACTTGTGT-GGCTTT-AAAATG-AAAGGGCAT
1 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGCGT
* * * * * * *
275297 CCTACTCTTTGAGGACTGAAGGGTACTACCAACTCATGTGGGCTTTGAATAGAAAAAAAAGTGTC
64 CCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAA-A-AGAAAAAGGCGTC
* * ** *
275362 TTGCTCTTTGAGGACTAATGGGTGCCACCAACTCGTGTGGGTTTTGAAAA-AGAAAAGGCGTCCT
127 CTACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAAAGGCGTCCT
** * * * *
275426 ATTTTTTTAAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATGCA
191 -GCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* *
275485 TCCTGCTCTTTGAGGACT-AAAAGATACCACCAACTCGTGTGGGC-TTGAAAAGAAAAAGGCGTT
1 TCCTGCTCTTTGAGGACTAAAAAG-TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* **
275548 CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGGAAAAGGTATCCTA
65 CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTA
* *
275613 CTCTTT-AGGGACTAAAAGGTGCCACCAACTCCTGTGGGCTTTGAAAAGAAAAAGGCATCCTGCT
130 CTCTTTGA-GGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCT
* ** *
275677 CTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAACG
194 CTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * * **
275732 TCTTGCTCTTT-ACGGACTAAAGCA-TGCCACCAACTCATGCAGGCTTTGAAAAGAAAAAGGCGT
1 TCCTGCTCTTTGA-GGACTAAA-AAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGT
* * * *
275795 CTTGCTCTTTGAGGACTAGAGGGTGCCACCAACTCATGTGGGCATTG-AAAGAAAAAGGAGTCCT
64 CCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCT
* * *
275859 ACTCTTTGAGGACTAAAATGTGCCACCAACTCGTGTGGGTTTTGAAAAGAAAAAGGCAT-CTAGC
129 ACTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCT-GC
* * *
275923 TCTTTGAGGACTAAATGGTGCCACTAACTCGTGTGGGCTTTGAAAAGAAAAATGCA
193 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * * ** * * * *
275979 TCCTTCTCTTTGAAGACTATAGGGTGCCACCAACTTGTGTGGGC-TTGAAAAGAAAAAGTCATCA
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* * **
276043 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTG-AATGAAAAAGGTATCCTAC
66 TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTAC
* * * * *
276107 TCTTTGAGGACTAAAAGGTGCCACTAACTCGTATAGGCTTTGAAAAGAAAAAAGCGTCCTACTCT
131 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCT
* * * *
276172 TTGAGGA-TAAAAAGATGCCACCAACTCGTGCGGGCTTTGAAAA-AGAAAACGCG
196 TTGAGGACT-AAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAAAGGCA
* * * * *
276225 TCTTGTTTTTTGAGGACT-AAAAGATGCCACCAACTCGTGTGGGCCTTGAAAAGAAAAAGGCATC
1 TCCTGCTCTTTGAGGACTAAAAAG-TGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTC
* * * * * *
276289 TTGCTCTTTGAAGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTAAAAAG-GAAAGGCATCCTA
65 CTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTA
* * * * *
276353 CTCTTTGTGGACTAAAACGATGCCACCAGCTCGTGTGGGATTTAAAAAGGAAAAA-GCGTCCTGC
130 CTCTTTGAGGACTAAAA-GGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAAAAAGGCGTCCTGC
* * ** * * *
276417 TTTTTGAGGACTAAATGGTGTTACCAGCTCGTGTGGGCTTT-AAAAGAAAAAAGCG
193 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
* * ** ***
276472 TCCTTCTTTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAATATGTCC
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
* *
276537 TGCTCTTTGAGGCCTAGAGGG
66 TGCTCTTTGAGGACTAAAGGG
276558 CTTAAAGGGG
Statistics
Matches: 1925, Mismatches: 325, Indels: 118
0.81 0.14 0.05
Matches are distributed among these distances:
242 36 0.02
243 30 0.02
244 16 0.01
245 118 0.06
246 334 0.17
247 810 0.42
248 294 0.15
249 143 0.07
250 144 0.07
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (248 bp):
TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCC
TGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAGAAAAAGGCGTCCTAC
TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTGCTCT
TTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCA
Found at i:277852 original size:20 final size:19
Alignment explanation
Indices: 277803--277852 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
277793 GTTTTTCCTC
*
277803 TTTATTTATTTTTTTGTTTT
1 TTTATTT-TTTTTTTATTTT
277823 TTTATGTTTTTTTTTATTTT
1 TTTAT-TTTTTTTTTATTTT
*
277843 TTTAATTTTT
1 TTTATTTTTT
277853 GTTTCTTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 5 0.19
20 20 0.74
21 2 0.07
ACGTcount: A:0.12, C:0.00, G:0.04, T:0.84
Consensus pattern (19 bp):
TTTATTTTTTTTTTATTTT
Found at i:282784 original size:79 final size:78
Alignment explanation
Indices: 282600--282794 Score: 264
Period size: 78 Copynumber: 2.5 Consensus size: 78
282590 CCCGCTCAGT
* * * *
282600 AATAATGGGGTTGGAGTATCCTTGATGGTGGAAGATCAATGTTTTGAAAATAAAACCGGGATTGG
1 AATAATGGGGTTGGAGTATCCTCGATTGTGAAAAATCAATGTTTTGAAAATAAAACCGGGATTGG
*
282665 AGTATCCCTTCAA
66 AGTATCCCTACAA
* ** *
282678 AATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTGAAAATAAAACCGGGGTTGG
1 AATAATGGGGTTGGAGTATCCTCGATTGTGAAAAATCAATGTTTTGAAAATAAAACCGGGATTGG
**
282743 AGTATTCCCTAGGA
66 AGTA-TCCCTACAA
* *
282757 AATAATGGGGTAGGAGTATCCCCGATTGTGAAAAATCA
1 AATAATGGGGTTGGAGTATCCTCGATTGTGAAAAATCA
282795 GTATTTTAGA
Statistics
Matches: 100, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
78 61 0.61
79 39 0.39
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (78 bp):
AATAATGGGGTTGGAGTATCCTCGATTGTGAAAAATCAATGTTTTGAAAATAAAACCGGGATTGG
AGTATCCCTACAA
Found at i:282810 original size:79 final size:80
Alignment explanation
Indices: 282600--282890 Score: 261
Period size: 80 Copynumber: 3.7 Consensus size: 80
282590 CCCGCTCAGT
* * * * * * *
282600 AATAATGGGGTTGGAGTATCCTTGATGGTGGAAGATCAATGTTTT-GAAAATAAAACCGGGATTG
1 AATAATGGGGTAGGAGTATCCTCGATGGTGAAAAATCAGTATTTTAGAAAATAAAACCGGGGTTG
***
282664 GAGTA-TCCCTTCAA
66 GAGTATTCCCTAGGA
* * * * *
282678 AATAACGGGGTTGGAGTATCCTCGATTGTGAAAAAT-TG-ATGTTTTGAAAATAAAACCGGGGTT
1 AATAATGGGGTAGGAGTATCCTCGATGGTGAAAAATCAGTAT-TTTAGAAAATAAAACCGGGGTT
282741 GGAGTATTCCCTAGGA
65 GGAGTATTCCCTAGGA
* * * **
282757 AATAATGGGGTAGGAGTATCCCCGATTGTGAAAAATCAGTATTTTAG-ACATAAAAACTAGGGTT
1 AATAATGGGGTAGGAGTATCCTCGATGGTGAAAAATCAGTATTTTAGAAAAT-AAAACCGGGGTT
* * *
282821 AGAGTATCCCCTCGGA
65 GGAGTATTCCCTAGGA
* * * * * *
282837 CATAATAGGGTAGAAGTATCCTTGATGGTGAAAAATCGGTGTTTTAG-AAATAAA
1 AATAATGGGGTAGGAGTATCCTCGATGGTGAAAAATCAGTATTTTAGAAAATAAA
282891 GTTGGGGTTA
Statistics
Matches: 175, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
76 1 0.01
77 3 0.02
78 54 0.31
79 45 0.26
80 70 0.40
81 2 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (80 bp):
AATAATGGGGTAGGAGTATCCTCGATGGTGAAAAATCAGTATTTTAGAAAATAAAACCGGGGTTG
GAGTATTCCCTAGGA
Found at i:282855 original size:80 final size:79
Alignment explanation
Indices: 282725--282969 Score: 208
Period size: 80 Copynumber: 3.1 Consensus size: 79
282715 GATGTTTTGA
** * * * * *
282725 AAATAAAACCGGGGTTGGAGTATTCCCTAGGAAATAATGGGGTAGGAGTATCCCCGATTGTGAAA
1 AAATAAAACTAGGGTTAGAGTATCCCCTAGGAAATAATAGGGTAGAAGTATCCCCGATGGTGAAA
282790 AATCAGTATTTTAG
66 AATCAGTATTTTAG
* * * **
282804 ACATAAAAACTAGGGTTAGAGTATCCCCTCGGACATAATAGGGTAGAAGTATCCTTGATGGTGAA
1 AAAT-AAAACTAGGGTTAGAGTATCCCCTAGGAAATAATAGGGTAGAAGTATCCCCGATGGTGAA
* *
282869 AAATCGGTGTTTTAG
65 AAATCAGTATTTTAG
** * * *** * * *
282884 AAATAAAGTTGGGGTTAGAGTATCTCCTTA-GAAATAGCGGGGCTAG-AGTGTCCCCGATGTTGG
1 AAATAAAACTAGGGTTAGAGTATC-CCCTAGGAAATAATAGGG-TAGAAGTATCCCCGATGGTGA
* *
282947 AAAATTA-TATTTTGG
64 AAAATCAGTATTTTAG
282962 AAATAAAA
1 AAATAAAA
282970 TCATTGATGA
Statistics
Matches: 129, Mismatches: 34, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
78 13 0.10
79 45 0.35
80 71 0.55
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (79 bp):
AAATAAAACTAGGGTTAGAGTATCCCCTAGGAAATAATAGGGTAGAAGTATCCCCGATGGTGAAA
AATCAGTATTTTAG
Found at i:287810 original size:21 final size:21
Alignment explanation
Indices: 287785--287829 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
287775 TGTAGGAGGT
*
287785 GGAGCATTGCTACAAGGCAAA
1 GGAGCATTACTACAAGGCAAA
287806 GGAGCATTACTACAAGGCAAA
1 GGAGCATTACTACAAGGCAAA
287827 GGA
1 GGA
287830 ATCAAGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.29, T:0.13
Consensus pattern (21 bp):
GGAGCATTACTACAAGGCAAA
Found at i:291295 original size:13 final size:13
Alignment explanation
Indices: 291274--291303 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
291264 AATGTTCTAA
*
291274 GTATTGATACATT
1 GTATCGATACATT
291287 GTATCGATACATT
1 GTATCGATACATT
291300 GTAT
1 GTAT
291304 TGCTATAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:293282 original size:21 final size:21
Alignment explanation
Indices: 293234--293275 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
293224 GAAAAGCTTT
293234 AATTATTTTATTAAAGGGGAG
1 AATTATTTTATTAAAGGGGAG
* *
293255 AAATATTTTATTAAGGGGGAG
1 AATTATTTTATTAAAGGGGAG
293276 TTTTATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (21 bp):
AATTATTTTATTAAAGGGGAG
Found at i:293929 original size:19 final size:20
Alignment explanation
Indices: 293907--293960 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
293897 TAATTTTGCT
293907 TTGTATCGATACATGCTC-A
1 TTGTATCGATACATGCTCAA
*
293926 TTGTATCGATACATACTCAA
1 TTGTATCGATACATGCTCAA
*
293946 TTGTATTGATACATG
1 TTGTATCGATACATG
293961 AAACTGGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGCTCAA
Found at i:296770 original size:67 final size:65
Alignment explanation
Indices: 296699--296862 Score: 149
Period size: 66 Copynumber: 2.5 Consensus size: 65
296689 TTTTGTCTTG
296699 GCCAACTCTTTTTTGACTTAGGTTTTTGCCTTGGTCA-TTCTCTATTCATTCATATGGTTTAGTC
1 GCCAACTCTTTTTTGACTTAGGTTTTTGCCTTGGTCACTT-T-TATTCATTCATATGGTTTAGTC
296763 CC
64 CC
** * ** ** *
296765 TGCCAACTC-CATTTGAACTTAGGTTTCAT-CC-TGGTCACCTTTTATTGGTTTGTATGGTTTAT
1 -GCCAACTCTTTTTTG-ACTTAGGTTT-TTGCCTTGGTCA-CTTTTATTCATTCATATGGTTTAG
296827 TCCC
62 TCCC
*
296831 GTCCAACTCTTTTTTGTCTTAGG-TTTTGCCTT
1 G-CCAACTCTTTTTTGACTTAGGTTTTTGCCTT
296863 ACCCTTTATT
Statistics
Matches: 77, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
64 1 0.01
65 5 0.06
66 43 0.56
67 25 0.32
68 3 0.04
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.47
Consensus pattern (65 bp):
GCCAACTCTTTTTTGACTTAGGTTTTTGCCTTGGTCACTTTTATTCATTCATATGGTTTAGTCCC
Found at i:297562 original size:66 final size:65
Alignment explanation
Indices: 297394--297650 Score: 169
Period size: 66 Copynumber: 3.9 Consensus size: 65
297384 TTTCATTTCG
* ** * * ** * *
297394 ATCAACCCTTTTTTTACTTAGGTTCCACCCTAGTCATTTTTTGTTGGTTCATGTGGTTTCGT-CT
1 ATCAACTCTTTTTCGACTTAGGTTTCA-CCTAGTTACCTTTTGTTGGTTCATATGGTTTCATCCT
297458 CA
65 -A
* ** * *
297460 ATCAACTCTTGTTT-GACTTACGTTTTGTCCTAGTTACCTTTTGTTGGTTCCTATGGTTTAATCC
1 ATCAACTCTT-TTTCGACTTA-GGTTTCACCTAGTTACCTTTTGTTGGTTCATATGGTTTCATCC
297524 TA
64 TA
* * * ** *
297526 ATCAACTCTTTTTCGACTTAGGTTTCACCTTGGTTACCCTTTGTTGTTTTTTATGGTTTCATCCC
1 ATCAACTCTTTTTCGACTTAGGTTTCACC-TAGTTACCTTTTGTTGGTTCATATGGTTTCATCCT
297591 A
65 A
* * ** * ** * *
297592 ACCAATTCCATTTCAACTTAGGTTTGGCCTTAGTCATGC-TTTGTTGGTTCATATGGTTT
1 ATCAACTCTTTTTCGACTTAGGTTTCACC-TAGTTA-CCTTTTGTTGGTTCATATGGTTT
297651 TGTCCAAGCT
Statistics
Matches: 149, Mismatches: 36, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
65 9 0.06
66 131 0.88
67 9 0.06
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (65 bp):
ATCAACTCTTTTTCGACTTAGGTTTCACCTAGTTACCTTTTGTTGGTTCATATGGTTTCATCCTA
Found at i:298055 original size:66 final size:66
Alignment explanation
Indices: 297927--298062 Score: 157
Period size: 66 Copynumber: 2.1 Consensus size: 66
297917 GGCCAACTTT
* * * * **
297927 TTTTCGACTTAGGTTTCACCATGGTCACTTTTTGTTGGTTCATATGGTTTTATCCTTGCCAACTC
1 TTTTCGACTTAGGTTTCACCATGGTCACCTTTTGTTGATTCATATAGTCTTATCCTAACCAACTC
297992 C
66 C
* * * *
297993 TTTTCGACTTAGGTTTCATCTTGGTCACCCTTTT-TTGATTCGTATAGTCTTGTCCTAACCAACT
1 TTTTCGACTTAGGTTTCACCATGGTCA-CCTTTTGTTGATTCATATAGTCTTATCCTAACCAACT
*
298057 CT
65 CC
298059 TTTT
1 TTTT
298063 TGACCAAAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 53 0.91
67 5 0.09
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (66 bp):
TTTTCGACTTAGGTTTCACCATGGTCACCTTTTGTTGATTCATATAGTCTTATCCTAACCAACTC
C
Found at i:298211 original size:66 final size:65
Alignment explanation
Indices: 298102--298363 Score: 238
Period size: 66 Copynumber: 4.0 Consensus size: 65
298092 TTTTATCTTT
* ** * * ** *
298102 GCCAACTCCTTCTCAACTTAAATTCTA-CCTCGGTCACCCTTTGTTATTTTGTATGGTTTCGTCC
1 GCCAACTCCTTTTCAACTTAGGTTCCACCCT-AGTCACCCTTTGTTGGTTTGTATGGTTTTGTCC
298166 C
65 C
* * * * ** *
298167 GACTACTACCTTTTCAACTTAGGTTCCACCCTAGTTACCTTTTGTTGGTTAATATGTTTTTGTCC
1 GCCAACT-CCTTTTCAACTTAGGTTCCACCCTAGTCACCCTTTGTTGGTTTGTATGGTTTTGTCC
*
298232 TA
65 -C
* * * *
298234 GCCAACTCCTTTTCAACTTAAGTTTCACCTTAGTCACCCTTTGTTGGTTTGTATGGTTTTTTCCC
1 GCCAACTCCTTTTCAACTTAGGTTCCACCCTAGTCACCCTTTGTTGGTTTGTATGGTTTTGTCCC
* * * * * **
298299 GGCCAACTCCTTTTTAACTTAGGTTCTACCTTAATCACCCTTAGTTGGTTCATATGGTTTTGTCC
1 -GCCAACTCCTTTTCAACTTAGGTTCCACCCTAGTCACCCTTTGTTGGTTTGTATGGTTTTGTCC
298364 TTGTCAACTC
Statistics
Matches: 156, Mismatches: 37, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
65 5 0.03
66 143 0.92
67 8 0.05
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.43
Consensus pattern (65 bp):
GCCAACTCCTTTTCAACTTAGGTTCCACCCTAGTCACCCTTTGTTGGTTTGTATGGTTTTGTCCC
Found at i:298346 original size:132 final size:133
Alignment explanation
Indices: 298102--298422 Score: 344
Period size: 132 Copynumber: 2.4 Consensus size: 133
298092 TTTTATCTTT
* ** *
298102 GCCAACTCCTTCTCAACTTAA-ATTCTACCTCGGTCACCCTTTGTTATTTTGTATGGTTTCGTCC
1 GCCAACTCCTTTTCAACTTAAGATTCTACCTTAGTCACCCTTTGTTAGTTTGTATGGTTTCGTCC
* * * * * *
298166 CGACTACTACCTTTTCAACTTAGGTTCCACCCTAGTTACCTTTTGTTGGTTAATATGTTTTTGTC
66 CGACAACTACCTTTTCAACTTAGGTTCCACCCTAATCACCCTTAGTTGGTTAATATGGTTTTGTC
298231 CTA
131 CTA
* * **
298234 GCCAACTCCTTTTCAACTTAAGTTTC-ACCTTAGTCACCCTTTGTTGGTTTGTATGGTTTTTTCC
1 GCCAACTCCTTTTCAACTTAAGATTCTACCTTAGTCACCCTTTGTTAGTTTGTATGGTTTCGTCC
* * * * *
298298 CGGCCAACT-CCTTTTTAACTTAGGTTCTACCTTAATCACCCTTAGTTGGTTCATATGGTTTTGT
66 C-GACAACTACCTTTTCAACTTAGGTTCCACCCTAATCACCCTTAGTTGGTTAATATGGTTTTGT
*
298362 CCTT
130 CCTA
* * ** * * * * *
298366 GTCAACTCATTTTTGACTT-AGATTCTGCCTTAGTCACCCCTAGTTAGGTTGCATGGT
1 GCCAACTCCTTTTCAACTTAAGATTCTACCTTAGTCACCCTTTGTTAGTTTGTATGGT
298423 GTTATCCTAA
Statistics
Matches: 155, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
131 5 0.03
132 142 0.92
133 8 0.05
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (133 bp):
GCCAACTCCTTTTCAACTTAAGATTCTACCTTAGTCACCCTTTGTTAGTTTGTATGGTTTCGTCC
CGACAACTACCTTTTCAACTTAGGTTCCACCCTAATCACCCTTAGTTGGTTAATATGGTTTTGTC
CTA
Found at i:298372 original size:66 final size:66
Alignment explanation
Indices: 298175--298491 Score: 264
Period size: 66 Copynumber: 4.8 Consensus size: 66
298165 CCGACTACTA
* * * * * * * *
298175 CCTTTTCAACTTAGGTTCCACCCTAGTTACCTTTTGTTGGTTAATATGTTTTTGTCCTAGCCAAC
1 CCTTTTTAACTTAGGTTCTACCTTAGTCACCCTTAGTTGGTTCATATGGTTTTGTCCTAGCCAAC
298240 T
66 T
* * * ** * **
298241 CCTTTTCAACTTAAGTT-TCACCTTAGTCACCCTTTGTTGGTTTGTATGGTTTTTTCCCGGCCAA
1 CCTTTTTAACTTAGGTTCT-ACCTTAGTCACCCTTAGTTGGTTCATATGGTTTTGTCCTAGCCAA
298305 CT
65 CT
* * *
298307 CCTTTTTAACTTAGGTTCTACCTTAATCACCCTTAGTTGGTTCATATGGTTTTGTCCTTGTCAAC
1 CCTTTTTAACTTAGGTTCTACCTTAGTCACCCTTAGTTGGTTCATATGGTTTTGTCCTAGCCAAC
298372 T
66 T
* * * * * * * *
298373 CATTTTTGACTTAGATTCTGCCTTAGTCACCCCTAGTTAGGTTGC--ATGGTGTTATCCTAACCA
1 CCTTTTTAACTTAGGTTCTACCTTAGTCACCCTTAGTT-GGTT-CATATGGTTTTGTCCTAGCCA
298436 ACT
64 ACT
** * * * * *
298439 TTTTTTTTACTTAGGTTCTGCCCTATTCACCCTTTA-TTGTTTCATATGGTTTT
1 CCTTTTTAACTTAGGTTCTACCTTAGTCACCC-TTAGTTGGTTCATATGGTTTT
298492 ATTTTGACTA
Statistics
Matches: 203, Mismatches: 41, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
64 1 0.00
65 3 0.01
66 191 0.94
67 7 0.03
68 1 0.00
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.45
Consensus pattern (66 bp):
CCTTTTTAACTTAGGTTCTACCTTAGTCACCCTTAGTTGGTTCATATGGTTTTGTCCTAGCCAAC
T
Found at i:298437 original size:132 final size:131
Alignment explanation
Indices: 298175--298528 Score: 327
Period size: 132 Copynumber: 2.7 Consensus size: 131
298165 CCGACTACTA
* * * * * * * * * *
298175 CCTTTTCAACTTAGGTTCCACCCTAGTTACCTTTTGTTGGTTAATATGTTTTTGTCCTAGCCAAC
1 CCTTTTTAACTTAGGTTCTACCCTAATCACCCTTAGTTGGTTCATATGGTTTTGTCCTTGACAAC
* * * * * * * * **
298240 TCCTTTTCAACTTAAGTTTCACCTTAGTCACCCTTTGTTGGTTTGTATGGTTTTTTCCCGGCCAA
66 TCATTTTCGACTT-AGATTCACCTTAGTCACCCCTAGTTGGTTTGCATGGTGTTATCCCAACCAA
298305 CT
130 CT
* *
298307 CCTTTTTAACTTAGGTTCTACCTTAATCACCCTTAGTTGGTTCATATGGTTTTGTCCTTGTCAAC
1 CCTTTTTAACTTAGGTTCTACCCTAATCACCCTTAGTTGGTTCATATGGTTTTGTCCTTGACAAC
* * *
298372 TCATTTTTGACTTAGATTCTGCCTTAGTCACCCCTAGTTAGG-TTGCATGGTGTTATCCTAACCA
66 TCATTTTCGACTTAGATTC-ACCTTAGTCACCCCTAGTT-GGTTTGCATGGTGTTATCCCAACCA
298436 ACT
129 ACT
** * * * * * *
298439 TTTTTTTTACTTAGGTTCTGCCCTATTCACCCTTTA-TTGTTTCATATGGTTTTAT-TTTGACTA
1 CCTTTTTAACTTAGGTTCTACCCTAATCACCC-TTAGTTGGTTCATATGGTTTTGTCCTTGAC-A
*
298502 ACTCATTTTCGACTTAGGTTCCACCTT
64 ACTCATTTTCGACTTAGATT-CACCTT
298529 GGCACTCTTT
Statistics
Matches: 180, Mismatches: 37, Indels: 10
0.79 0.16 0.04
Matches are distributed among these distances:
131 9 0.05
132 165 0.92
133 6 0.03
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.45
Consensus pattern (131 bp):
CCTTTTTAACTTAGGTTCTACCCTAATCACCCTTAGTTGGTTCATATGGTTTTGTCCTTGACAAC
TCATTTTCGACTTAGATTCACCTTAGTCACCCCTAGTTGGTTTGCATGGTGTTATCCCAACCAAC
T
Found at i:300202 original size:65 final size:65
Alignment explanation
Indices: 300070--300297 Score: 226
Period size: 65 Copynumber: 3.5 Consensus size: 65
300060 CCCAGCCAAT
* * * * * * * * * *
300070 TTCTTTTCAACTTAAGTTTCACCCTAGTCAC-CTTTTGTTGATTCGTATAGTTTCATCTTGGCCA
1 TTCTTTTCAAATTAAGTTCCA-CCTAGTCACAC-ATTCTTGGTTTGAATGGTTTTATCTTGGCTA
300134 AC
64 AC
** * * *
300136 TTCTTTTGGATTTAAGTTCCATCTAGTCACACATTCTTGGTTTGAATGGTTTTGTCTTGGCTAAC
1 TTCTTTTCAAATTAAGTTCCACCTAGTCACACATTCTTGGTTTGAATGGTTTTATCTTGGCTAAC
* *
300201 TTCTTTTCAAATTATGTTCCACCTAGTCACACATTCTTTGTTTGAATGGTTTTATCCTT-GCTAA
1 TTCTTTTCAAATTAAGTTCCACCTAGTCACACATTCTTGGTTTGAATGGTTTTAT-CTTGGCTAA
300265 C
65 C
* * *
300266 TTCTTTTCAACTTATGTTCCGCCCTAGTCACA
1 TTCTTTTCAAATTAAGTTCC-ACCTAGTCACA
300298 TTCTTTTGGT
Statistics
Matches: 136, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
65 105 0.77
66 31 0.23
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (65 bp):
TTCTTTTCAAATTAAGTTCCACCTAGTCACACATTCTTGGTTTGAATGGTTTTATCTTGGCTAAC
Found at i:300903 original size:66 final size:64
Alignment explanation
Indices: 300792--301447 Score: 347
Period size: 66 Copynumber: 10.0 Consensus size: 64
300782 CCAGCCAACA
* *
300792 TTTT-ACTTAGG-TTCTGCCTTAGTCACCCTAT-TTGGTTCGTATGGTTTTATCTTATTCAACTC
1 TTTTGACTTAGGTTTCT-CC-TAGTCACCCTTTGTTGGTTCGTATGGTTTTATCTTA-CCAACTC
300854 CT
63 CT
* * * *
300856 TTTTGACTTAAGTTTCATCCTAGTCACCCTTTGTTGGTTCGTATGGTTTCATTTTAGTCAACTTT
1 TTTTGACTTAGGTTTC-TCCTAGTCACCCTTTGTTGGTTCGTATGGTTTTATCTTA-CCAAC--T
**
300921 TTT
62 CCT
* * * * ** **
300924 TTTTTACTTAGGTTTCGTCTTGGTCACCCTTTGTT-G--CAGTATGGTGTCGTCACAGCCAACTC
1 TTTTGACTTAGGTTTC-TCCTAGTCACCCTTTGTTGGTTC-GTATGGTTTTATCTTA-CCAACTC
*
300986 AT
63 CT
* ** * ** * * * *
300988 TTTT-AGCTTAGGTTTTATCCTAGTCATGCTCTGTTGGTTTATGTGGTTTCATCCTAGCTAACTC
1 TTTTGA-CTTAGG-TTTCTCCTAGTCACCCTTTGTTGGTTCGTATGGTTTTATCTTA-CCAACTC
301052 CT
63 CT
* * * *
301054 TTTCGACTTAGG-TTCTGCCTTAGTCATCCTTTGTTGGTTCGTATGGTTTTATCTTAGCAAAATC
1 TTTTGACTTAGGTTTCT-CC-TAGTCACCCTTTGTTGGTTCGTATGGTTTTATCTTA-CCAACTC
*
301118 TT
63 CT
* ** **
301120 TTTTGACTTAGGTTTCATCCTAGTCACCCTTTATTGGTTCACATGGTTTCT-TCTTAGTTAACTC
1 TTTTGACTTAGGTTTC-TCCTAGTCACCCTTTGTTGGTTCGTATGGTTT-TATCTTA-CCAACTC
*
301184 TT
63 CT
* * * * * * *
301186 TTTTTACTTAGGTTT-TGCTCAGTCACCATTTGTTGATTCATATGGTTTTATCTCACCTAACTTC
1 TTTTGACTTAGGTTTCTCCT-AGTCACCCTTTGTTGGTTCGTATGGTTTTATCTTACC-AACTCC
301250 T
64 T
** * * * * * *
301251 TTTTGACTTAGGTTT-TGCCTTCA-TCATTCTTTGTTGGTTTGTACGGTTTAATCCTAGCAACTT
1 TTTTGACTTAGGTTTCT-CC-T-AGTCACCCTTTGTTGGTTCGTATGGTTTTATCTTACCAACTC
301314 CT
63 CT
* * * * * *
301316 TTTTAACTTAGGTTT-TGCCTAGTCAACCTTTGTTTGTTTGTAT-ATTTTATCTTGGCCAACTCC
1 TTTTGACTTAGGTTTCT-CCTAGTCACCCTTTGTTGGTTCGTATGGTTTTATCTT-ACCAACTCC
301379 T
64 T
* * * * *
301380 TTTTGACTTAAGTTTCGCCCTTGTCA-CCTTTATTGG-TCTGTAT-GTTTTCATCCTAGCCAACT
1 TTTTGACTTAGGTTTC-TCCTAGTCACCCTTTGTTGGTTC-GTATGGTTTT-ATCTTA-CCAACT
301442 CCT
62 CCT
301445 TTT
1 TTT
301448 CAACTTAAGT
Statistics
Matches: 462, Mismatches: 100, Indels: 59
0.74 0.16 0.10
Matches are distributed among these distances:
63 10 0.02
64 90 0.19
65 120 0.26
66 197 0.43
67 12 0.03
68 33 0.07
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (64 bp):
TTTTGACTTAGGTTTCTCCTAGTCACCCTTTGTTGGTTCGTATGGTTTTATCTTACCAACTCCT
Found at i:301382 original size:64 final size:65
Alignment explanation
Indices: 301301--301458 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 65
301291 GTACGGTTTA
* * * * * *
301301 ATCCTAG-CAACTTCTTTTTAACTTAGGTTTTG-CCTAGTCAACCTTTGTTTGTTTGTATATTTT
1 ATCCTAGCCAACTCCTTTTTAACTTAAGTTTCGCCCTAGTC-ACCTTTATTGGTCTGTATATTTT
301364 -
65 C
* * * * *
301364 ATCTTGGCCAACTCCTTTTTGACTTAAGTTTCGCCCTTGTCACCTTTATTGGTCTGTATGTTTTC
1 ATCCTAGCCAACTCCTTTTTAACTTAAGTTTCGCCCTAGTCACCTTTATTGGTCTGTATATTTTC
*
301429 ATCCTAGCCAACTCCTTTTCAACTTAAGTT
1 ATCCTAGCCAACTCCTTTTTAACTTAAGTT
301459 CCACTCTTGT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
63 5 0.06
64 40 0.52
65 32 0.42
ACGTcount: A:0.18, C:0.23, G:0.13, T:0.46
Consensus pattern (65 bp):
ATCCTAGCCAACTCCTTTTTAACTTAAGTTTCGCCCTAGTCACCTTTATTGGTCTGTATATTTTC
Found at i:301658 original size:64 final size:65
Alignment explanation
Indices: 301562--301740 Score: 182
Period size: 64 Copynumber: 2.8 Consensus size: 65
301552 GCCTCATTCT
* * * * *
301562 TTGTTGGTTTGTACAGTTTAATACTAG-CAACTTCTTTTTAACTTAGGTTTTG-CCTAGTCAACC
1 TTGTTGGTTTGTATA-TTTTATCCTAGCCAACTTCTTTTTAACTTAAGTTTCGCCCTAGTCAACC
301625 A
65 A
* * * * *
301626 TTGTTGGTTTGTATATTTTATCCTGGCCAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACCCT
1 TTGTTGGTTTGTATATTTTATCCTAGCCAACTTCTTTTTAACTTAAGTTTCGCCCTAGTCAACCA
* * * * **
301691 TTATTGGTTTGTATGTTTTCATCCTAACCAACTCCTTTTCGACTTAAGTT
1 TTGTTGGTTTGTATATTTT-ATCCTAGCCAACTTCTTTTTAACTTAAGTT
301741 CCACCCTTGT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
63 8 0.08
64 36 0.38
65 26 0.27
66 26 0.27
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (65 bp):
TTGTTGGTTTGTATATTTTATCCTAGCCAACTTCTTTTTAACTTAAGTTTCGCCCTAGTCAACCA
Found at i:301729 original size:66 final size:65
Alignment explanation
Indices: 301589--301753 Score: 188
Period size: 66 Copynumber: 2.5 Consensus size: 65
301579 TTAATACTAG
* * * * * * **
301589 CAACTTCTTTTTAACTTAGGTTTTG-CCTAGTCAACCATTGTTGGTTTGTATATTTTATCCTGGC
1 CAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACCCATTATTGGTTTGTATATTTTATCCTAAC
* *
301653 CAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACCCTTTATTGGTTTGTATGTTTTCATCCTAA
1 CAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACCCATTATTGGTTTGTATATTTT-ATCCTAA
301718 C
65 C
* * * *
301719 CAACTCCTTTTCGACTTAAGTTCCACCCTTGTCAC
1 CAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCAC
301754 ATTTTTTCAC
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
64 22 0.26
65 26 0.31
66 37 0.44
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (65 bp):
CAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACCCATTATTGGTTTGTATATTTTATCCTAAC
Found at i:303174 original size:28 final size:28
Alignment explanation
Indices: 303143--303208 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
303133 AATGGGGTTG
303143 GAGTATCCCCTTGAAAATAACGGGGCTA
1 GAGTATCCCCTTGAAAATAACGGGGCTA
303171 GAGTATCCCCTTGAAAATAACGGGGCTA
1 GAGTATCCCCTTGAAAATAACGGGGCTA
303199 GAGTATCCCC
1 GAGTATCCCC
303209 GGTTATGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.21
Consensus pattern (28 bp):
GAGTATCCCCTTGAAAATAACGGGGCTA
Found at i:303281 original size:76 final size:78
Alignment explanation
Indices: 303169--303366 Score: 231
Period size: 76 Copynumber: 2.6 Consensus size: 78
303159 ATAACGGGGC
* * * * *
303169 TAGAGTATCCCCTTGAAAATAACGGGGCTAGAGTATCCCCGGTTATGAGAAATCGATGA-TT-AG
1 TAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTGAG
*
303232 AA-AAAATCGAGAT
65 AATAAAACCGAGAT
* *
303245 TAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGG
1 TAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTGAG
* *
303310 AATAAAGCCGAGGT
65 AATAAAACCGAGAT
* * **
303324 TGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGAT
1 TAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
303367 GAAATAACGA
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
75 1 0.01
76 51 0.50
77 2 0.02
78 3 0.03
79 46 0.45
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (78 bp):
TAGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTGAGA
ATAAAACCGAGAT
Found at i:303459 original size:108 final size:107
Alignment explanation
Indices: 303261--303474 Score: 275
Period size: 108 Copynumber: 2.0 Consensus size: 107
303251 ATCCCCTCGA
* * ** *
303261 AAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGAGGTTG
1 AAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGAAAATAAAACCGAGGTTG
* **
303326 GAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATG
66 GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG
* * * ** * *
303368 AAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTTTTGAAAATAAAACCGGGGTT
1 AAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAAT-ATTTTGAAAATAAAACCGAGGTT
*
303433 GGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGAT
65 GGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
303475 TATGAGAAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
107 34 0.38
108 56 0.62
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (107 bp):
AAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGAAAATAAAACCGAGGTTG
GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG
Found at i:303523 original size:79 final size:79
Alignment explanation
Indices: 303347--303818 Score: 650
Period size: 79 Copynumber: 6.0 Consensus size: 79
303337 CGGAGGTAAC
* * * * *
303347 GGGGTTGGAGTAT-CCC-CGATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGATG
1 GGGGTTGGAGTATCCCCTCGA--AAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAAT-
* * *
303410 TTTTTGAAAATAAAACC
63 ATTTTGAAAATAAAGCA
*
303427 GGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATT
*
303492 TTGAAAATAAAGTA
66 TTGAAAATAAAGCA
*
303506 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATT
* *
303571 TTGGAAATAAAGCC
66 TTGAAAATAAAGCA
* * * *
303585 GAGGTTGGAGTATCTCCTCGAAAATAACGGGATTGGAGTATCCCCAATTATGAGAAATTAATATT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATT
*
303650 TT-AGAAATAAAGCT
66 TTGA-AAATAAAGCA
*
303664 GGGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
1 GGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
303728 TTT-AAGAATAAAGCA
65 TTTGAA-AATAAAGCA
* *
303743 GGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTAT-AGAAAATTAATGT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAG-AAATTAATAT
303807 TTTGAAAATAAA
65 TTTGAAAATAAA
303819 ATCAGAGCTG
Statistics
Matches: 355, Mismatches: 29, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
78 4 0.01
79 295 0.83
80 50 0.14
81 3 0.01
82 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATT
TTGAAAATAAAGCA
Found at i:306227 original size:13 final size:13
Alignment explanation
Indices: 306209--306234 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
306199 ACAAAGATCG
306209 ATGTATCGATACA
1 ATGTATCGATACA
306222 ATGTATCGATACA
1 ATGTATCGATACA
306235 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:306245 original size:21 final size:21
Alignment explanation
Indices: 306221--306262 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
306211 GTATCGATAC
306221 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
306242 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
306263 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:306311 original size:19 final size:19
Alignment explanation
Indices: 306287--306368 Score: 95
Period size: 19 Copynumber: 4.6 Consensus size: 19
306277 AGCGATACAT
*
306287 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
306306 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
306325 TGTAGCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
306338 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
306357 TGTATCGATACA
1 TGTATCGATACA
306369 TTTACTGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
13 7 0.13
14 1 0.02
16 6 0.12
18 1 0.02
19 37 0.71
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:306342 original size:32 final size:32
Alignment explanation
Indices: 306306--306370 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
306296 ACAAAACTTA
*
306306 TGTATCGATACAACACTTATGTAGCGATACAT
1 TGTATCAATACAACACTTATGTAGCGATACAT
*
306338 TGTATCAATACAACACTTATGTATCGATACAT
1 TGTATCAATACAACACTTATGTAGCGATACAT
306370 T
1 T
306371 TACTGAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TGTATCAATACAACACTTATGTAGCGATACAT
Found at i:307158 original size:46 final size:44
Alignment explanation
Indices: 307033--307304 Score: 215
Period size: 42 Copynumber: 6.2 Consensus size: 44
307023 TGTCCCACTT
* * * *
307033 TTTGAGGAC-AAAGGAAAA-AGGGAAACGAAATA-CGTCTTGCTC
1 TTTGAGGACTAAAGGAAAAGAAGGAAA-TAAAGAGCGTCCTGCTC
* ** * *
307075 TCTGAGGAAAAAAGG-AAA-AAGAAAATAAAGTGCGTCCTGCTC
1 TTTGAGGACTAAAGGAAAAGAAGGAAATAAAGAGCGTCCTGCTC
*
307117 TTTGAGGACTAGAAGGGAAAAGAAGGAAATAAAGAGTGTCCTGCTC
1 TTTGAGGACTA-AA-GGAAAAGAAGGAAATAAAGAGCGTCCTGCTC
* * * *
307163 TTTGAGGAC-AAAGGAGAA-AAGGAAA-ACAAAATGTGTCCTGCTT
1 TTTGAGGACTAAAGGAAAAGAAGGAAATA-AAGA-GCGTCCTGCTC
* * *
307206 TTTGAGGACTAGAAGGGAAAATAAGGAAATAAAGAGCGTCCTACTT
1 TTTGAGGACTA-AA-GGAAAAGAAGGAAATAAAGAGCGTCCTGCTC
* * *
307252 TTTGAGGAC-AAAAG-AAAG-AGGAAAATAAAGTGAGTCCTGCTC
1 TTTGAGGACTAAAGGAAAAGAAGG-AAATAAAGAGCGTCCTGCTC
307294 TTTGAGGACTA
1 TTTGAGGACTA
307305 CCAAGTGCCA
Statistics
Matches: 188, Mismatches: 27, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
41 7 0.04
42 70 0.37
43 33 0.18
44 7 0.04
45 7 0.04
46 53 0.28
47 10 0.05
48 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.20
Consensus pattern (44 bp):
TTTGAGGACTAAAGGAAAAGAAGGAAATAAAGAGCGTCCTGCTC
Found at i:307210 original size:89 final size:89
Alignment explanation
Indices: 307065--307304 Score: 326
Period size: 89 Copynumber: 2.7 Consensus size: 89
307055 AAACGAAATA
* * * *
307065 CGTCTTGCTCTCTGAGGAAAAAAGGA-AAAA-GAAAATAAAGTGCGTCCTGCTCTTTGAGGACTA
1 CGTCCTGCTCTTTGAGG-ACAAAGGAGAAAAGGAAAATAAAGTGAGTCCTGCTCTTTGAGGACTA
307128 GAAGGGAAAAGAAGGAAATAAAGAG
65 GAAGGGAAAAGAAGGAAATAAAGAG
* * * * *
307153 TGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAACAAAATGTGTCCTGCTTTTTGAGGACTAG
1 CGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGAGTCCTGCTCTTTGAGGACTAG
*
307218 AAGGGAAAATAAGGAAATAAAGAG
66 AAGGGAAAAGAAGGAAATAAAGAG
* *
307242 CGTCCTACTTTTTGAGGACAAA--AGAAAGAGGAAAATAAAGTGAGTCCTGCTCTTTGAGGACTA
1 CGTCCTGCTCTTTGAGGACAAAGGAGAAA-AGGAAAATAAAGTGAGTCCTGCTCTTTGAGGACTA
307305 CCAAGTGCCA
Statistics
Matches: 133, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
87 12 0.09
88 49 0.37
89 72 0.54
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (89 bp):
CGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGAGTCCTGCTCTTTGAGGACTAG
AAGGGAAAAGAAGGAAATAAAGAG
Found at i:307429 original size:55 final size:55
Alignment explanation
Indices: 307340--307473 Score: 196
Period size: 55 Copynumber: 2.4 Consensus size: 55
307330 CTTGAAAAGA
* * *
307340 AAAAGGCATCCTGTTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCCTT
1 AAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCCTT
* * * *
307395 AAAAGGCGTCCTGCTCTTTTAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCCTT
*
307450 GAAAGGCATCCTGCTCTTTGAGGA
1 AAAAGGCATCCTGCTCTTTGAGGA
307474 TTAAAGGGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (55 bp):
AAAAGGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCCTT
Found at i:307573 original size:209 final size:211
Alignment explanation
Indices: 307285--307682 Score: 572
Period size: 209 Copynumber: 1.9 Consensus size: 211
307275 AATAAAGTGA
*
307285 GTCCTGCTCTTTGAGGACTACCAAGTGCCACCAACTTGAGTGGGCCTTGAAAAGAAAAAGGCATC
1 GTCCTGCTCTTTGAGGACTACAAAGTGCCACCAACTTGAGTGGGCCTTGAAAAGAAAAAGGCATC
* ** *
307350 CTGTTCTTTGAGGACTG-GAGGGTGCCACCAACTCGTGTGGGCCTTAAAAGGCGTCCTGCTCTTT
66 CTGCTCTTTGAGGACTGAGA-AATGCCACCAACTCGTGTGGGCCTTAAAAGGCGTCCTACTCTTT
* * * *
307414 TAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGATTAA
130 GAGGACTGGAAA-ATGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGATTAA
307478 AGGGTGAAAAGAGAGAGC
194 AGGGTGAAAAGAGAGAGC
* * *
307496 GTCCTGCTC-TTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGG-CTTTAAAAGGAAAAGGCAT
1 GTCCTGCTCTTTGAGGACTACAAA-GTGCCACCAACTTGAGTGGGCCTTGAAAAGAAAAAGGCAT
* * *
307558 CCTGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTACTCTTT
65 CCTGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCCTTAAAAGGCGTCCTACTCTTT
* * *
307623 GAGGACTGGAAAATGCCATCAACTCGTGTGGGTTTTGAAAGGCGTCCTACTCTTTGAGGA
130 GAGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGA
307683 CTTGGAAGTG
Statistics
Matches: 166, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
209 122 0.73
210 35 0.21
211 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (211 bp):
GTCCTGCTCTTTGAGGACTACAAAGTGCCACCAACTTGAGTGGGCCTTGAAAAGAAAAAGGCATC
CTGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCCTTAAAAGGCGTCCTACTCTTTG
AGGACTGGAAAATGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGATTAAAG
GGTGAAAAGAGAGAGC
Found at i:307737 original size:116 final size:109
Alignment explanation
Indices: 307496--307799 Score: 326
Period size: 116 Copynumber: 2.7 Consensus size: 109
307486 AAGAGAGAGC
* *
307496 GTCCTGCTC-TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 GTCCTACTCTTTGAGGACTAAAA-GTGCCACCAACTCGTGTGGGCTTT-----G-AAAGGCATCC
307560 TGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCTTTGAAAGGT
59 TGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCTTTGAAAGGT
* * * *
307611 GTCCTACTCTTTGAGGACTGGAAAA-TGCCATCAACTCGTGTGGGTTTTGAAAGGCGTCCTACTC
1 GTCCTACTCTTTGAGGACT--AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTC
* **
307675 TTTGAGGACTTG-GAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAAGGT
64 TTTGAGGAC-TGAGAAATGCCACCAACTCGTGTGGGCTTT-----GA-AAGGT
* * *
307727 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCATCCTGCTCT
1 GTCCTACTCTTTGAGGACTAAAA-GTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCT
307792 TTGAGGAC
65 TTGAGGAC
307800 AAAAAGGCGA
Statistics
Matches: 161, Mismatches: 16, Indels: 23
0.81 0.08 0.12
Matches are distributed among these distances:
110 46 0.29
111 3 0.02
114 4 0.02
115 10 0.06
116 94 0.58
118 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (109 bp):
GTCCTACTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTT
TGAGGACTGAGAAATGCCACCAACTCGTGTGGGCTTTGAAAGGT
Found at i:307794 original size:171 final size:165
Alignment explanation
Indices: 307494--308045 Score: 648
Period size: 171 Copynumber: 3.3 Consensus size: 165
307484 AAAAGAGAGA
307494 GCGTCCTGCTC-TTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* * * *
307558 CCTGCTCTTTGAGGACTGAGAAA--TGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTACTCT
65 CCTGCTCTTTGAGGACT-A-AAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
307621 TTGAGGACTGGAAAATGCCATCAACTCGTGTGGGTTTTGAAAG
128 TTGAGGACT--AAAATGCCA-CAACT-GTGTGGG-TTTGAAAG
* ** * * **
307664 GCGTCCTACTCTTTGAGGACTTGGAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAAGGTGT
1 GCGTCCTGCTCTTTGAGGAC-TAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
*
307729 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTT
65 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
* * * *
307794 GAGGACAAAAAGGCGA-AA--G-G-AGG---G--A-
130 GAGGACTAAAATGCCACAACTGTGTGGGTTTGAAAG
*
307819 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* * *
307884 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGACGTCCAGCTTTTT
65 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
307949 GAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
130 GAGGACTAAAA--TGCCA-CAAC-TGTGTGGG-TTTGAAAG
* *
307990 GTGTCCTGCTCTTTGAGGACTAAAAG-GCGCTACCAACTTGTGTGGGCTTTGAAAGG
1 GCGTCCTGCTCTTTGAGGACTAAAAGTGC-C-ACCAACTTGTGTGGGCTTTAAAAGG
308046 CGTCTTGCCC
Statistics
Matches: 326, Mismatches: 33, Indels: 45
0.81 0.08 0.11
Matches are distributed among these distances:
154 1 0.00
155 128 0.39
156 1 0.00
157 3 0.01
158 1 0.00
159 2 0.01
162 3 0.01
163 2 0.01
164 3 0.01
167 2 0.01
168 1 0.00
169 12 0.04
170 16 0.05
171 148 0.45
172 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (165 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATC
CTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
AGGACTAAAATGCCACAACTGTGTGGGTTTGAAAG
Found at i:307806 original size:55 final size:55
Alignment explanation
Indices: 307494--307799 Score: 289
Period size: 55 Copynumber: 5.4 Consensus size: 55
307484 AAAAGAGAGA
307494 GCGTCCTGCTC-TTGAGGAC-TAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTTAAAA-GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* * *
307554 GCATCCTGCTCTTTGAGGACTGAGAAA-TGCCACCAACTCGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTTA-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * * * *
307609 GTGTCCTACTCTTTGAGGACTGGAAAA-TGCCATCAACTCGTGTGGGTTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT-TAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* ** *
307664 GCGTCCTACTCTTTGAGGACTTGGAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACTTAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAG
* *
307725 GTGTCCTGCTCTTTGAGGAC-TAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTTAAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
*
307780 GCATCCTGCTCTTTGAGGAC
1 GCGTCCTGCTCTTTGAGGAC
307800 AAAAAGGCGA
Statistics
Matches: 210, Mismatches: 24, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
54 2 0.01
55 111 0.53
56 5 0.02
60 15 0.07
61 73 0.35
62 1 0.00
63 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTTAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:307899 original size:326 final size:323
Alignment explanation
Indices: 307397--308045 Score: 932
Period size: 326 Copynumber: 2.0 Consensus size: 323
307387 TGGGCCTTAA
* *
307397 AAGGCGTCCTGCTCTTTTAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCT
1 AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCT
** * *
307462 GCTCTTTGAGGATTAAAGGGTGAAAAGAGAGAGCGTCCTGCTCTTGAGGACTAAAAGGTGCCACC
66 GCTCTTTGAGGACAAAAAGGCGAAAAGAGAGAGCGTCCTGCTCTTGAGGACTAAAAGGTGCCACC
307527 AACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGAGAAA-TGCCACCAAC
131 AACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACT-A-AAAGTGCCACCAAC
** *
307591 TCGTGTGGGCTTTGAAAGGTGTCCTA-CTCTTTGAGGACTGGAAAA-TGCCATCAACTCGTGTGG
194 TCGTGTGGGCTTTGAAAGACGTCC-AGCTCTTTGAGGACT--AAAAGTGCCACCAACTCGTGTGG
* ** *
307654 GTTTTGAAAGGCGTCCTACTCTTTGAGGACTTGGAAGTGC-C-ACCAACTTTTGTGGGCTTTAAA
256 GCTTTGAAAGGCGTCCTACTCTTTGAGGAC-TAAAAG-GCGCTACCAACTTGTGTGGGCTTTAAA
307717 AGGAG
319 AGGAG
* *
307722 AAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCATCCT
1 AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCT
* * *
307787 GCTCTTTGAGGACAAAAAGGCGAAAGGAGGGAGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCA
66 GCTCTTTGAGGACAAAAAGGCGAAAAGAGAGAGCGTCCTGCTC-TTGAGGACTA-AAAGGTGCCA
*
307851 CCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAG
129 CCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAA-GTGCCACCAA
* * *
307916 CTTGTGTGGGCTTTGAAAGACGTCCAGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGG
193 CTCGTGTGGGCTTTGAAAGACGTCCAGCTCTTTGAGGACTAAAA-GTGCCACCAACTCGTGTGGG
* * *
307981 CTTTGAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGCGCTACCAACTTGTGTGGGCTTTGAAAGG
257 CTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAAGGCGCTACCAACTTGTGTGGGCTTTAAAAGG
308046 CGTCTTGCCC
Statistics
Matches: 290, Mismatches: 25, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
324 9 0.03
325 105 0.36
326 174 0.60
327 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (323 bp):
AAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCT
GCTCTTTGAGGACAAAAAGGCGAAAAGAGAGAGCGTCCTGCTCTTGAGGACTAAAAGGTGCCACC
AACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTC
GTGTGGGCTTTGAAAGACGTCCAGCTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTT
GAAAGGCGTCCTACTCTTTGAGGACTAAAAGGCGCTACCAACTTGTGTGGGCTTTAAAAGGAG
Found at i:307950 original size:155 final size:155
Alignment explanation
Indices: 307664--307961 Score: 497
Period size: 155 Copynumber: 1.9 Consensus size: 155
307654 GTTTTGAAAG
* * * **
307664 GCGTCCTACTCTTTGAGGACTTGGAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAAGGTGT
1 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* *
307729 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTT
66 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGACATCCAGCTCTTT
307794 GAGGACAAAAAGGCGAAAGGAGGGA
131 GAGGACAAAAAGGCGAAAGGAGGGA
*
307819 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
* *
307884 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGACGTCCAGCTTTTT
66 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGACATCCAGCTCTTT
*
307949 GAGGACTAAAAGG
131 GAGGACAAAAAGG
307962 TGCCACCAAC
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
155 132 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (155 bp):
GCGTCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
CCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGACATCCAGCTCTTT
GAGGACAAAAAGGCGAAAGGAGGGA
Found at i:307975 original size:55 final size:55
Alignment explanation
Indices: 307819--308068 Score: 331
Period size: 55 Copynumber: 4.4 Consensus size: 55
307809 AAAGGAGGGA
*
307819 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* *
307880 GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
307935 ACGTCCAGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * *
307990 GTGTCCTGCTCTTTGAGGACTAAAAGGCGCTACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
308045 GCGTCTTGCCCTTTGAGGACTAAA
1 GCGTCCTGCTCTTTGAGGACTAAA
308069 GGGCGAAAGG
Statistics
Matches: 171, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
55 124 0.73
56 1 0.01
60 2 0.01
61 44 0.26
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:308046 original size:265 final size:266
Alignment explanation
Indices: 307557--308173 Score: 835
Period size: 265 Copynumber: 2.3 Consensus size: 266
307547 GGAAAAGGCA
* * **
307557 TCCTGCTCTTTGAGGACTGAGAAATGCCACCAACTCGTGTGGGCTTT-----G-AAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* * * *
307616 ACTCTTTGAGGACTGGAAAA-TGCCATCAACTCGTGTGGGTTTTGAAAGGCGTCCTACTCTTTGA
65 GCTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTACTCTTTGA
** *
307680 GGACTTGGAAGTGCCACCAACTTTTGTGGGCTTTAAAAGGAGAAGGTGTCCTGCTCTTTGAGGAC
129 GGACTTAAAAGTGCCACCAACTTGTGTGGGCTTT---A-GAGAAGGTGTCCTGCTCTTTGAGGAC
* * *
307745 TAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGACAAAAAGGCGA
190 TAAAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCCCTTTGAGGACAAAAAGGCGA
*
307810 AAGGAGGGAGCG
255 AAGGAGAGAGCG
307822 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
* * *
307887 GCTCTTTGAGGACT-AAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGACGTCC-AGCTTTTTG
65 GCTCTTTGAGGACTGAAAA-GTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTA-CTCTTTG
307950 AGGAC-TAAAAGGTGCCACCAACTTGTGTGGGCTTT-GA-AAGGTGTCCTGCTCTTTGAGGACTA
128 AGGACTTAAAA-GTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTGTCCTGCTCTTTGAGGACTA
* * * * *
308012 AAAGGCGCTACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCCCTTTGAGGACTAAAGGGCGAAA
192 AAAGGCGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCCCTTTGAGGACAAAAAGGCGAAA
308077 GGAGAGAGCG
257 GGAGAGAGCG
*
308087 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
308152 GCTCTTTGAGGACTGAAAAGTG
65 GCTCTTTGAGGACTGAAAAGTG
308174 GAAGGAGAAG
Statistics
Matches: 315, Mismatches: 25, Indels: 24
0.87 0.07 0.07
Matches are distributed among these distances:
265 214 0.68
266 7 0.02
269 4 0.01
270 5 0.02
271 85 0.27
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (266 bp):
TCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
CTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGACGTCCTACTCTTTGAGG
ACTTAAAAGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTGTCCTGCTCTTTGAGGACTAAAAG
GCGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCCCTTTGAGGACAAAAAGGCGAAAGGAG
AGAGCG
Found at i:309169 original size:21 final size:20
Alignment explanation
Indices: 309140--309184 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
309130 TTCTTTTCTC
309140 TTTTTC-TTTGTTTTGTGTTT
1 TTTTTCTTTTGTTTT-TGTTT
309160 TTTTTGCTTTTGTTTTTGTTT
1 TTTTT-CTTTTGTTTTTGTTT
309181 TTTT
1 TTTT
309185 GTTTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.00, C:0.04, G:0.13, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTTGTTTTTGTTT
Found at i:318300 original size:66 final size:66
Alignment explanation
Indices: 318190--318464 Score: 216
Period size: 66 Copynumber: 4.2 Consensus size: 66
318180 TGGTTTCACA
* * * * * * * *
318190 AACTCCATTTTGACTTAAGTTTCATCC-TAGTCAGCCATTGTTGGTTCGCATGGTTTCATCCTAG
1 AACTCCTTTTTAACTGAAGTTTCA-CCTTAGTCACCCTTTATTGGTTTGTATGGTTTCATCCTAG
*
318254 CT
65 CC
** * *
318256 AACTCCTTTTTAATCT-AAGTTTTGCCTTAGTCACCTTTTATTGGTTTTTATGGTTTCATCCTAG
1 AACTCCTTTTTAA-CTGAAGTTTCACCTTAGTCACCCTTTATTGGTTTGTATGGTTTCATCCTAG
318320 CC
65 CC
* * * ** **
318322 AACTTCTTTTCAACTGAAGTTTCACCTTAGTCACCCTTTGTTGGTTTGTATGGTTTTTTCCCGGC
1 AACTCCTTTTTAACTGAAGTTTCACCTTAGTCACCCTTTATTGGTTTGTATGGTTTCATCCTAGC
318387 C
66 C
* * * * ** ** *
318388 AACTCCTTTTTAACT-TAGGTTCTACCCTAATCACCC-TTAGTTGGTTCATATGGTTTTGTCCTT
1 AACTCCTTTTTAACTGAAGTTTC-ACCTTAGTCACCCTTTA-TTGGTTTGTATGGTTTCATCCTA
*
318451 GTC
64 GCC
318454 AACTCCTTTTT
1 AACTCCTTTTT
318465 GACTTAGATT
Statistics
Matches: 168, Mismatches: 36, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
65 11 0.07
66 155 0.92
67 2 0.01
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (66 bp):
AACTCCTTTTTAACTGAAGTTTCACCTTAGTCACCCTTTATTGGTTTGTATGGTTTCATCCTAGC
C
Done.