Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004597.1 Hibiscus syriacus cultivar Beakdansim tig00010271_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 225727
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:154 original size:34 final size:35
Alignment explanation
Indices: 19--214 Score: 150
Period size: 36 Copynumber: 5.4 Consensus size: 35
9 TGTTGAATAT
* *
19 TTTCCTTGAAAC-AATTTCT-TCTCCCTTGAGACAA
1 TTTCCTTGAAACAAATTT-TGTCTCTCTTGAGACAG
* * * * * * *
53 TTTCTTTTGGAACTAAGTTTGTCCCTCTTGATATAG
1 TTTC-CTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
89 TTTCTCTTG-AACAAATTTTGTCTTTGTCTCTCTTGATACAG
1 TTTC-CTTGAAACAAA-----T-TTTGTCTCTCTTGAGACAG
*
130 TTT-CTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
164 TTTCCCTTGAAACAAATTTTGTCTCTC-TGAGACAA
1 TTT-CCTTGAAACAAATTTTGTCTCTCTTGAGACAG
199 TTTCCCTTGAAACAAA
1 TTT-CCTTGAAACAAA
215 ATCTTGAATA
Statistics
Matches: 133, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
34 25 0.19
35 36 0.27
36 43 0.32
39 4 0.03
40 5 0.04
41 20 0.15
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (35 bp):
TTTCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:173 original size:36 final size:36
Alignment explanation
Indices: 111--214 Score: 160
Period size: 35 Copynumber: 3.0 Consensus size: 36
101 AAATTTTGTC
* *
111 TTTGTCTCTCTTGATACAGTTT--CTTGAAATAAAT
1 TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAT
145 TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAT
1 TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAT
*
181 TTTGTCTCTC-TGAGACAATTTCCCTTGAAACAAA
1 TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
215 ATCTTGAATA
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
34 21 0.32
35 23 0.35
36 21 0.32
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.40
Consensus pattern (36 bp):
TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAT
Found at i:326 original size:36 final size:36
Alignment explanation
Indices: 231--392 Score: 193
Period size: 36 Copynumber: 4.5 Consensus size: 36
221 AATATTTTTT
* * *
231 CCTTGAAACAAA-TTCGTCTCCCTTGAGACAATTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
** * **
266 TTTTGGAACTAGGTTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTC
*
303 TCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
1 CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
*
339 CCTT-AGAACAAATTTTGTTTCTCTTGAGACAGTTTC
1 CCTTGA-AACAAATTTTGTCTCTCTTGAGACAGTTTC
375 CCTTGAAACAAATCTTTG
1 CCTTGAAACAAAT-TTTG
393 AATATGTTTT
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
35 7 0.06
36 69 0.64
37 32 0.30
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (36 bp):
CCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTC
Found at i:326 original size:171 final size:169
Alignment explanation
Indices: 111--523 Score: 635
Period size: 171 Copynumber: 2.4 Consensus size: 169
101 AAATTTTGTC
* *
111 TTTGTCTCTCTTGATACAG-TT-TCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT-A
*
174 AACAAATTTTGTCTCTC-TGAGACAATTTCCCTTGAAACAAAATC-TTGAATATTTTTTCCTTGA
65 AACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAAC-AAATCTTTGAATATGTTTTCCTTGA
237 AACAAA-TTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAGGT
129 AACAAATTTCGTCTCCC-TGAGACAATTTC-TTTGGAACTA-GT
280 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAG
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTA-
* *
345 AACAAATTTTGTTTCTCTTGAGACAGTTTCCCTTGAAACAAATCTTTGAATATGTTTTCCTTGAA
65 AACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAATCTTTGAATATGTTTTCCTTGAA
*
410 ACAAATTTCGTCTCCCTGAGACAGTTTCTTTGGAACTAGT
130 ACAAATTTCGTCTCCCTGAGACAATTTCTTTGGAACTAGT
*
450 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AATTTTG--TCTCTTGAGACAGTTTCCCTCCA
1 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCT-TA
512 AACAAAATTTTG
65 AAC-AAATTTTG
524 CCTCCCTCGT
Statistics
Matches: 229, Mismatches: 7, Indels: 17
0.91 0.03 0.07
Matches are distributed among these distances:
167 23 0.10
168 9 0.04
169 25 0.11
170 37 0.16
171 70 0.31
172 55 0.24
173 10 0.04
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (169 bp):
TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAA
ACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAATCTTTGAATATGTTTTCCTTGAAA
CAAATTTCGTCTCCCTGAGACAATTTCTTTGGAACTAGT
Found at i:382 original size:207 final size:205
Alignment explanation
Indices: 1--392 Score: 560
Period size: 207 Copynumber: 1.9 Consensus size: 205
* * *
1 AACAAAATTGTTGAATATTTTCCTTGAAACAATTTCTTCTCCCTTGAGACAATTTCTTTTGGAAC
1 AACAAAATTCTTGAATATTTTCCTTGAAACAAATTCGTCTCCCTTGAGACAATTTCTTTTGGAAC
* * *
66 TAAGTTTGTCCCTCTTGATATAGTTTCTCTTGAACAAATTTTGTCTTTGTCTCTCTTGATACAGT
66 TAAGTTTGTCCCTCTTGAGACAGTTTCTCTTGAACAAA---T-TCTTTGTCTCTCTTGAGACAGT
*
131 TTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAT-TTTGTCTCTCTGAG
127 TTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATCTTTGTCTCTCTGAG
195 ACAATTTCCCTTGA
192 ACAATTTCCCTTGA
209 AACAAAA-TCTTGAATATTTTTTCCTTGAAACAAATTCGTCTCCCTTGAGACAATTTCTTTTGGA
1 AACAAAATTCTTGAATA--TTTTCCTTGAAACAAATTCGTCTCCCTTGAGACAATTTCTTTTGGA
* *
273 ACTAGGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA-T-TTTGTCTCTCTTGAGACAGT
64 ACTAAG-TTTGTCCCTCTTGAGACAGTTTCTCTTG-AACAAATTCTTTGTCTCTCTTGAGACAGT
*
336 TTCCCTT-AGAACAAATTTTGTTTCTCTTGAGACAGTTTCCCTTGAAACAAATCTTTG
127 TT--CTTGA-AACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATCTTTG
393 AATATGTTTT
Statistics
Matches: 166, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
205 21 0.13
206 2 0.01
207 52 0.31
208 11 0.07
209 49 0.30
210 25 0.15
211 6 0.04
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (205 bp):
AACAAAATTCTTGAATATTTTCCTTGAAACAAATTCGTCTCCCTTGAGACAATTTCTTTTGGAAC
TAAGTTTGTCCCTCTTGAGACAGTTTCTCTTGAACAAATTCTTTGTCTCTCTTGAGACAGTTTCT
TGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATCTTTGTCTCTCTGAGACAA
TTTCCCTTGA
Found at i:476 original size:15 final size:15
Alignment explanation
Indices: 456--505 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
446 TAGTTTTGTC
456 TCTCTTGAGACAGTT
1 TCTCTTGAGACAGTT
* *
471 TCTCTTGAAACAATTTT
1 TCTCTTGAGAC-A-GTT
488 GTCTCTTGAGACAGTT
1 -TCTCTTGAGACAGTT
504 TC
1 TC
506 CCTCCAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 12 0.43
16 3 0.11
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (15 bp):
TCTCTTGAGACAGTT
Found at i:478 original size:98 final size:101
Alignment explanation
Indices: 299--483 Score: 277
Period size: 98 Copynumber: 1.9 Consensus size: 101
289 CTTGAGACAG
* * *
299 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTAGAACAAATTTTGTTTCTCTT
1 TTTCTCTTGAAACAAATTTCGTCTCTCCTGAGACAGTTTCCCTTAGAACAAATTTTGTCTCTCTT
364 GAGACAGTTTCCCTTGAAACAAATCTTTGAATATGT
66 GAGACAGTTTCCCTTGAAACAAATCTTTGAATATGT
* * * *
400 TTTC-CTTGAAACAAATTTCGTCTC-CCTGAGACAGTTT-CTTTGGAACTAGTTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTTCGTCTCTCCTGAGACAGTTTCCCTTAGAACAAATTTTGTCTCTCTT
*
462 GAGACAGTTTCTCTTGAAACAA
66 GAGACAGTTTCCCTTGAAACAA
484 TTTTGTCTCT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
98 41 0.54
99 12 0.16
100 19 0.25
101 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (101 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCCTGAGACAGTTTCCCTTAGAACAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAATCTTTGAATATGT
Found at i:552 original size:37 final size:34
Alignment explanation
Indices: 292--552 Score: 96
Period size: 36 Copynumber: 7.6 Consensus size: 34
282 TGTCTCTCTT
* *
292 GAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTT
1 GAGACAGTTTCTCTCGAAACAAATTTTGTC-C-CTC
* * * *
328 GAGACAGTTTCCCT-TAGAACAAATTTTGTTTCTCTT
1 GAGACAGTTTCTCTCGA-AACAAATTTTG--TCCCTC
* * *
364 GAGACAGTTTCCCTTGAAACAAA-TCT-T---T-
1 GAGACAGTTTCTCTCGAAACAAATTTTGTCCCTC
* * *
392 GA-ATATGTTT-TCCTTGAAACAAATTTCGTCTCC-C
1 GAGACA-GTTTCT-CTCGAAACAAATTTTGTC-CCTC
* * * * *
426 TGAGACAGTTTCT-TTGGAACTAGTTTTGTCTCTCTT
1 -GAGACAGTTTCTCTCGAAACAAATTTTGTC-C-CTC
* * *
462 GAGACAGTTTCTCTTGAAAC-AATTTTGTCTCTT
1 GAGACAGTTTCTCTCGAAACAAATTTTGTCCCTC
* *
495 GAGACAGTTTCCCTCCAAACAAAATTTTGCCTCCCTC
1 GAGACAGTTTCTCTCGAAAC-AAATTTTG--TCCCTC
* *
532 GTGACAGTTTCTCTGGAAACA
1 GAGACAGTTTCTCTCGAAACA
553 CAAAAAACCT
Statistics
Matches: 175, Mismatches: 27, Indels: 46
0.71 0.11 0.19
Matches are distributed among these distances:
27 2 0.01
28 17 0.10
29 2 0.01
30 1 0.01
32 1 0.01
33 20 0.11
34 15 0.09
35 37 0.21
36 57 0.33
37 21 0.12
38 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (34 bp):
GAGACAGTTTCTCTCGAAACAAATTTTGTCCCTC
Found at i:582 original size:31 final size:33
Alignment explanation
Indices: 541--601 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
531 CGTGACAGTT
541 TCTCTGGAAACAC-AAAAAA-CCTTTGAAATCG
1 TCTCTGGAAACACAAAAAAACCCTTTGAAATCG
*
572 TCTCTTGAAACACAAAAAAACCCTTTGAAA
1 TCTCTGGAAACACAAAAAAACCCTTTGAAA
602 ATGTTTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 12 0.44
32 6 0.22
33 9 0.33
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (33 bp):
TCTCTGGAAACACAAAAAAACCCTTTGAAATCG
Found at i:894 original size:82 final size:81
Alignment explanation
Indices: 616--1018 Score: 374
Period size: 82 Copynumber: 5.0 Consensus size: 81
606 TTCTCTTGAA
* * *
616 CAAAGACCTTCGAGTTTGACTACACTCAGCTCGAGGGCACATCATTTACAGCATAACTCAAGGCT
1 CAAAGACCTTCGAGTTCGACTACAC-CAGCTC-AAGGCACATCATTTACAGCATAACTCAAGGCA
*
681 AGAAGGGTTATCTGT---
64 AGAAGGGCTATCTGTCAC
* * * * * * ** *
696 CAAAGACCTTAGAGTTCGATTCCATCAGCTCAAAGGCGCATAATTTGTAGCATAACTTAAGGCAA
1 CAAAGACCTTCGAGTTCGACTACACCAGCTC-AAGGCACATCATTTACAGCATAACTCAAGGCAA
761 GAAGGGCTATC--T-AC
65 GAAGGGCTATCTGTCAC
* * *
775 CAAAGACC-TCGAGTTCGA-TACACTCAGCTTCGAGGCACATCATTTACAGCATAACTCAATGCT
1 CAAAGACCTTCGAGTTCGACTACAC-CAGC-TCAAGGCACATCATTTACAGCATAACTCAAGGCA
* *
838 AGAAGGGTTATTTGTCAC
64 AGAAGGGCTATCTGTCAC
* * ** * ** *
856 CAAAGACCTTCGAGTTCGACTACGCCAACTCAAAGGCACATCATTCGCAGCATAGC-CTAAATCG
1 CAAAGACCTTCGAGTTCGACTACACCAGCTC-AAGGCACATCATTTACAGCATAACTC-AAGGCA
*
920 AGAAGGGCTATCTGTCAT
64 AGAAGGGCTATCTGTCAC
* * * * *
938 CAAAGACCTTCGAGTTCGATTCCATTCAGCTCAAGGCACATCATTCACAGCATAGCTCAAGGCAA
1 CAAAGACCTTCGAGTTCGACTACA-CCAGCTCAAGGCACATCATTTACAGCATAACTCAAGGCAA
*
1003 GAAGGGCTATTTGTCA
65 GAAGGGCTATCTGTCA
1019 ACAGTATTAT
Statistics
Matches: 261, Mismatches: 49, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
77 4 0.02
78 47 0.18
79 52 0.20
80 21 0.08
81 13 0.05
82 114 0.44
83 10 0.04
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (81 bp):
CAAAGACCTTCGAGTTCGACTACACCAGCTCAAGGCACATCATTTACAGCATAACTCAAGGCAAG
AAGGGCTATCTGTCAC
Found at i:1073 original size:54 final size:55
Alignment explanation
Indices: 991--1104 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 55
981 TTCACAGCAT
* * **
991 AGCTCAAGGCAAGAAGGGCTATTTGTCAACAGTATTATCGAGTTCG-TTCCATTC
1 AGCTCAAGGCAAGAAGGACTATCTGTCAACAAAATTATCGAGTTCGATTCCATTC
* * *
1045 AGCTCAAGGCAAGAAGGACTATCTGTCAACAAAATTGTCGAGTTTGATTTCATTC
1 AGCTCAAGGCAAGAAGGACTATCTGTCAACAAAATTATCGAGTTCGATTCCATTC
1100 AGCTC
1 AGCTC
1105 GATGACAGCG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
54 40 0.77
55 12 0.23
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (55 bp):
AGCTCAAGGCAAGAAGGACTATCTGTCAACAAAATTATCGAGTTCGATTCCATTC
Found at i:1360 original size:11 final size:11
Alignment explanation
Indices: 1344--1369 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1334 TATTATTTTA
1344 TTTTATTAATT
1 TTTTATTAATT
1355 TTTTATTAATT
1 TTTTATTAATT
1366 TTTT
1 TTTT
1370 TCTTTTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTAATT
Found at i:3924 original size:34 final size:36
Alignment explanation
Indices: 3855--3925 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 36
3845 GTTGGAAAAT
* *
3855 ATTTATATATTTTTTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTTTTTAAAAATTGAAAATCATAAA
3891 ATTTATA-A-TTTTTTTATAAAATTGAAAAT-ATAAA
1 ATTTATATATTTTTTTTA-AAAATTGAAAATCATAAA
3925 A
1 A
3926 GGTTTAATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 14 0.44
35 11 0.34
36 7 0.22
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (36 bp):
ATTTATATATTTTTTTTAAAAATTGAAAATCATAAA
Found at i:4506 original size:21 final size:20
Alignment explanation
Indices: 4463--4506 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4453 TTTTTAATTT
* * *
4463 TTTTAATAATAAAAATATTA
1 TTTTAAAAATAAAAAAATAA
4483 TTTTAAAAATTAAAAAAATAA
1 TTTTAAAAA-TAAAAAAATAA
4504 TTT
1 TTT
4507 ATTTATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTTAAAAATAAAAAAATAA
Found at i:11586 original size:27 final size:28
Alignment explanation
Indices: 11528--11593 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
11518 GATCAACTGT
11528 TGACGTCGTTCGTCTTCTAGCCAACTCC
1 TGACGTCGTTCGTCTTCTAGCCAACTCC
* * *
11556 -GACGTCGTTTGTCTTCTCGTCAAC-CC
1 TGACGTCGTTCGTCTTCTAGCCAACTCC
*
11582 TGACGCCGTTCG
1 TGACGTCGTTCG
11594 CCTTTTCTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.12, C:0.35, G:0.21, T:0.32
Consensus pattern (28 bp):
TGACGTCGTTCGTCTTCTAGCCAACTCC
Found at i:16401 original size:23 final size:23
Alignment explanation
Indices: 16354--16403 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
16344 AATAACATAT
**
16354 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
*
16377 TAGGTAGCGTTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
16400 TAGG
1 TAGG
16404 CATTTAACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:16463 original size:87 final size:87
Alignment explanation
Indices: 16317--16479 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
16307 TATGTTATAT
*
16317 CATTTAACCGAAAATATTATTAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
*
16382 AGCGTTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
*
16404 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
16469 AGCGCTTATAT
66 AGCGCTTATAT
16480 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (87 bp):
CATTTAACCGAAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
AGCGCTTATATAATAAAATAGG
Found at i:16846 original size:199 final size:197
Alignment explanation
Indices: 16497--17198 Score: 861
Period size: 199 Copynumber: 3.5 Consensus size: 197
16487 TTTTATAAGT
*
16497 AAACCGATATATTTATA-CGGGTAACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCG
1 AAACCGATATATTTATACCGGGT-ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* * *
16561 ATGTTTTTTTGGATCGATACAATTT--TAAATGTATTGACACTTTATGCGTGCACCTCGTTGGGC
65 ATG-TTTTTTGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGC
* * *
16624 ATTCATTCTGGAAAAAAGTATCGACACAAACTTAA-AGAGTGTTGATACATTATTTAGACTTATT
128 ATTCATTATGGACAAAAGTATCGACACAAA-TTAACA-AGTGTCGATACATTATTTAGAC-TATT
16688 TTTTCATA
190 TTTTCATA
* * * * * *
16696 AAACTGATATATTTCTATCGGGTACATTGTAAATTTACCTATCATATTGTAATTATCGGTTTCGA
1 AAACCGATATATTTATACCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
16761 TG-TTTTTGAGATCAATACTTTTAATAAATGTATCGACTCTTTATGCGTGCACC-CGTTTGGCAT
66 TGTTTTTTG-GATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCAT
* *
16824 TCATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTA-TGATGACCTATTT
130 TCATTATGGACAAAA-GTATCGACACAAA-TTAACAAGTGTCGATACATTATTTA-GA-CTATTT
*
16888 TCTCATA
191 TTTCATA
* * * * *
16895 AAACCGGTATATTTATACCAGTTACATTGTAAATTTACATATTACATTATAATTATCGATTTCGA
1 AAACCGATATATTTATACCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * * *
16960 T-TTTATTGGGATCGATATTTTTAATAATTGTATCGACACTTTATGCGTGCACCTGGTTTGGGCA
66 TGTTT-TTTGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTT-GGCA
*
17024 TTCATTATGGACAATAAGTATCGACACAAATTACACAAGTGTCGATACATTATGTT-GAC-ATGT
129 TTCATTATGGACAA-AAGTATCGACACAAATTA-ACAAGTGTCGATACATTAT-TTAGACTATTT
17087 TTTC-TA
191 TTTCATA
* * *
17093 ATTAACCGATATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTC
1 A--AACCGATATATTTATACCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
*
17158 GATGTTTTTTGGGTCGATACTTTTAGA-AAATGTATCGACAC
64 GATGTTTTTTGGATCGATACTTTTA-ATAAATGTATCGACAC
17199 ATATTTAGGT
Statistics
Matches: 434, Mismatches: 49, Indels: 39
0.83 0.09 0.07
Matches are distributed among these distances:
197 9 0.02
198 35 0.08
199 228 0.53
200 105 0.24
201 54 0.12
202 2 0.00
203 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (197 bp):
AAACCGATATATTTATACCGGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTTGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATT
CATTATGGACAAAAGTATCGACACAAATTAACAAGTGTCGATACATTATTTAGACTATTTTTTCA
TA
Found at i:21668 original size:200 final size:198
Alignment explanation
Indices: 21321--21797 Score: 668
Period size: 200 Copynumber: 2.4 Consensus size: 198
21311 TGCGTTATTT
* * * * *
21321 AAAAGTATCGACACAAAATCCAAAAGTGTCGACACATTATGTACACATATTCTCTTATAAAACTG
1 AAAAGTATCGACA-AAAATCTAAAAGTGTCGACACATTATGTTCACCTATTTTCTCATAAAAC-G
* *
21386 GTATATTTATACCGGTTACATTGTAAATTTACCTATTATATTATAATTATCGGTTTCGATGTTTT
64 GTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * *
21451 TGGGATCAATTCTTTTTAAAAATATATCGACACTTTATGCGTGCAACCCTTTT-GGCATTCATTT
129 TGGGATCAATACTTTTTAAAAATATATCGACACTTTATGCGTGC-ACCATTTTGGGCATTCATTC
21515 TGGACA
193 TGGACA
* * ** *
21521 AAAAGTATCGACATAAATCTAAAACGTGTCGATATGTTATGTTCACCTATTTTCTCATAAAATCA
1 AAAAGTATCGACAAAAATCTAAAA-GTGTCGACACATTATGTTCACCTATTTTCTCATAAAA-CG
*
21586 GTATATTTATACCGGTTATATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
64 GTATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
* * * *
21651 TGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCT
129 TGGGATCAATACTTTTTAAAAATATATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCT
21716 GGACA
194 GGACA
* * * *
21721 AAAAATATCGACACAAATTTAAAAAGTGTCGACACATTATGTTCCCCTATTTTCTCATAAAACCG
1 AAAAGTATCGACAAAAATCT-AAAAGTGTCGACACATTATGTTCACCTATTTTCTCATAAAA-CG
21786 GTATATTTATAC
64 GTATATTTATAC
21798 TGCTTATGTA
Statistics
Matches: 244, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
199 16 0.07
200 223 0.91
201 5 0.02
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (198 bp):
AAAAGTATCGACAAAAATCTAAAAGTGTCGACACATTATGTTCACCTATTTTCTCATAAAACGGT
ATATTTATACCGGTTACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTG
GGATCAATACTTTTTAAAAATATATCGACACTTTATGCGTGCACCATTTTGGGCATTCATTCTGG
ACA
Found at i:22516 original size:15 final size:15
Alignment explanation
Indices: 22488--22521 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22478 CCGTAGGACC
*
22488 ACTACATCCTGAAGG
1 ACTACATCCCGAAGG
*
22503 ACTACGTCCCGAAGG
1 ACTACATCCCGAAGG
22518 ACTA
1 ACTA
22522 TTATACCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (15 bp):
ACTACATCCCGAAGG
Found at i:22650 original size:29 final size:29
Alignment explanation
Indices: 22606--22715 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
22596 TTTCATATGT
*
22606 TCATGTA-CCCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
22634 TCATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
22663 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
22692 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
22716 ATATCACATA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
28 7 0.09
29 65 0.84
30 5 0.06
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:29395 original size:18 final size:18
Alignment explanation
Indices: 29372--29406 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
29362 GTCATATTTA
*
29372 TCCCGTAGGACCCCTATG
1 TCCCGTAGGACCACTATG
29390 TCCCGTAGGACCACTAT
1 TCCCGTAGGACCACTAT
29407 ATCCTGAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (18 bp):
TCCCGTAGGACCACTATG
Found at i:29561 original size:29 final size:29
Alignment explanation
Indices: 29520--29629 Score: 159
Period size: 29 Copynumber: 3.8 Consensus size: 29
29510 TTTCATATGT
*
29520 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGATCATGTCATTTCTCTTGTGA
* *
29548 TTATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGATCATGTCATTTCTCTTGTGA
*
29577 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGATCATGTCATTTCTCTTGTGA
*
29606 TCATGCAGATCATGTCATGTTCTC
1 TCATGTAGATCATGTCAT-TTCTC
29630 GTATCACATA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
28 6 0.08
29 63 0.85
30 5 0.07
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (29 bp):
TCATGTAGATCATGTCATTTCTCTTGTGA
Found at i:29596 original size:58 final size:58
Alignment explanation
Indices: 29520--29629 Score: 177
Period size: 58 Copynumber: 1.9 Consensus size: 58
29510 TTTCATATGT
* * *
29520 TCATGTACTCATGTCATTTCTCTTGTGATTATGTAGTTCATGTCAT-TTCTCTTGTGA
1 TCATGTACTCATGTCATTTCTCTTGTGATCATGCAGATCATGTCATGTTCTCTTGTGA
29577 TCATGTAGCTCATGTCATTTCTCTTGTGATCATGCAGATCATGTCATGTTCTC
1 TCATGTA-CTCATGTCATTTCTCTTGTGATCATGCAGATCATGTCATGTTCTC
29630 GTATCACATA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
57 7 0.15
58 36 0.75
59 5 0.10
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (58 bp):
TCATGTACTCATGTCATTTCTCTTGTGATCATGCAGATCATGTCATGTTCTCTTGTGA
Found at i:30075 original size:64 final size:65
Alignment explanation
Indices: 30006--30166 Score: 179
Period size: 64 Copynumber: 2.5 Consensus size: 65
29996 TAATGAAGGT
* *
30006 ATGCATCGATGCACTACTTGTGCATCGGTACA-TAAAATGCATTCGAT-GTTTTATTATT-AATG
1 ATGCATCGATGCACTACTTGTGCATCGATACACT-AAATGCATTCGATCGTTTTATT-TTGAAAG
*
30068 GG
64 AG
* * * * *
30070 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTGAAAGA
1 ATGCATCGATGCACT-ACTTGTGCATCGATACACTAAATGCATTCGATCGTTTTATTTTGAAAGA
30134 G
65 G
*
30135 -TGCATCGATGCACTACCTGTGCATCGATACAC
1 ATGCATCGATGCACTACTTGTGCATCGATACAC
30167 CTTCAAACAC
Statistics
Matches: 80, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
63 1 0.01
64 66 0.82
65 13 0.16
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (65 bp):
ATGCATCGATGCACTACTTGTGCATCGATACACTAAATGCATTCGATCGTTTTATTTTGAAAGAG
Found at i:31288 original size:200 final size:200
Alignment explanation
Indices: 30933--32002 Score: 1215
Period size: 200 Copynumber: 5.5 Consensus size: 200
30923 GGATGTTACA
30933 GGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACT
1 GGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACT
* *
30998 TTTTATAAATGTATGGACACTTTATGCGTTCACCATTTTGGGCATTCATTATGGACAAAAAGTAT
66 TTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAAAGTAT
* * * *
31063 CGACACAAATTTAAAAAATGTCGACACATTATGTTCCCCTATTTTCTCATAAAACCGATATATTT
131 CGACACAAAATTAAAAAGTGTCGACACATTATGTTCACCTATTCTCTCATAAAACCGATATATTT
31128 ATACT
196 ATACT
*
31133 GGTTACATTGTAAATTTATCTATTACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACT
1 GGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACT
* * * *
31198 ATTTATAAATATATCGACAATTTATGCGTTCACCATTTTGGGCATTCATTCTTGACAAAAAGTAT
66 TTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAAAGTAT
* * * * * * *
31263 CAATACAAAATTCAAAAGCGTCGACACATTATGTACACCTATTCTCACATAAAACCAATATATTT
131 CGACACAAAATTAAAAAGTGTCGACACATTATGTTCACCTATTCTCTCATAAAACCGATATATTT
31328 ATACT
196 ATACT
*
31333 GGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGATATTTTTGGGATCGATACT
1 GGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACT
* * * *
31398 TTTTATAAATGTATCGATACTTTATACATTCACCATTTTGGGCATTCATTCTGGACAAAATGTAT
66 TTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAAAGTAT
* * * * * * *** ** * ** * * *
31463 C-A-AC-ACATT---ATGT-TC--C-C-CTATTTTCTCATA-AAACTGGT-ATA--TTTTTACTG
131 CGACACAAAATTAAAAAGTGTCGACACATTATGTTCACCTATTCTCTCATAAAACCGATATATTT
31513 ATTACAT
196 A-TAC-T
* * ** *
31520 TG-TAAATT-TACCTATTA-C-ATT-----ATAATTATTGGTTTCGATGTTTTTGGGATCGATAC
1 GGTTACATTGTAAAT-TTACCTATTACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATAC
*
31576 TTTTTATAAATGTATCGACACTTTATGCGTTCA-CATTTTGGGCATTCATTTTGGACAAAAAGTA
65 TTTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAAAGTA
* * * *
31640 TCGACAGAAAATTAAAAAGTGTCGACACATTATGTACACCTATTCTCACATAAAACCGGTATATT
130 TCGACACAAAATTAAAAAGTGTCGACACATTATGTTCACCTATTCTCTCATAAAACCGATATATT
31705 TATACT
195 TATACT
* * *
31711 GGTTACATTGTAAAATTACCTATTACATTATAATTATTTGTTTTGATGTTTTTGGGATCAATACT
1 GGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACT
* * * * * * * * *
31776 TTTTAAAAATTTATCGACACTTTATGGGTGCACCCTTTTTGGGCATGCCTTGTGGACCAAAAGTA
66 TTTTATAAATGTATCGACACTTTATGCGTTCA-CCATTTTGGGCATTCATTCTGGACAAAAAGTA
* * * * * * *
31841 TCGACAC-AAATTCCACAAGTTTCGATACATTATGTAT-ATCTATTTTCTCAAAAAACCGATATA
130 TCGACACAAAATT-AAAAAGTGTCGACACATTATGT-TCACCTATTCTCTCATAAAACCGATATA
31904 TTTATACT
193 TTTATACT
* * *
31912 TGTTACATTGTAAATTTACCTATTACATTATAATT-TTCAGTTTCGATGTTTTTGGGATCGATAC
1 GGTTACATTGTAAATTTACCTATTACATTATAATTATT-GGTTTTGATGTTTTTGGGATCGATAC
* *
31976 TTTTTAAAAATGTATCAACACTTTATG
65 TTTTTATAAATGTATCGACACTTTATG
32003 GGAAACTTTA
Statistics
Matches: 724, Mismatches: 114, Indels: 63
0.80 0.13 0.07
Matches are distributed among these distances:
178 31 0.04
179 64 0.09
180 1 0.00
181 4 0.01
184 6 0.01
185 11 0.02
186 11 0.02
187 5 0.01
188 3 0.00
189 16 0.02
190 3 0.00
191 5 0.01
192 11 0.02
193 10 0.01
194 5 0.01
197 4 0.01
198 2 0.00
199 62 0.09
200 310 0.43
201 160 0.22
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (200 bp):
GGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACT
TTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGCATTCATTCTGGACAAAAAGTAT
CGACACAAAATTAAAAAGTGTCGACACATTATGTTCACCTATTCTCTCATAAAACCGATATATTT
ATACT
Found at i:31586 original size:179 final size:178
Alignment explanation
Indices: 31286--31641 Score: 559
Period size: 179 Copynumber: 2.0 Consensus size: 178
31276 AAAAGCGTCG
*
31286 ACACATTATGTACACCTATTCTCACATAAAACCAATATATTTATACTGGTTACATTGTAAATTTA
1 ACACATTATGTACACCTATTCTCACATAAAACCAATATATTTATACTGATTACATTGTAAATTTA
* *
31351 CCTATTACATTATAATTATTGGTTTTGATATTTTTGGGATCGATACTTTTTATAAATGTATCGAT
66 CCTATTACATTATAATTATTGGTTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGAC
*
31416 ACTTTATACATTCACCATTTTGGGCATTCATTCTGGACAAAATGTATCA
131 ACTTTATACATTCA-CATTTTGGGCATTCATTCTGGACAAAAAGTATCA
* * * * *** *
31465 ACACATTATGTTCCCCTATTTTCTCATAAAACTGGTATATTTTTACTGATTACATTGTAAATTTA
1 ACACATTATGTACACCTATTCTCACATAAAACCAATATATTTATACTGATTACATTGTAAATTTA
*
31530 CCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGAC
66 CCTATTACATTATAATTATTGGTTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGAC
* * *
31595 ACTTTATGCGTTCACATTTTGGGCATTCATTTTGGACAAAAAGTATC
131 ACTTTATACATTCACATTTTGGGCATTCATTCTGGACAAAAAGTATC
31642 GACAGAAAAT
Statistics
Matches: 161, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
178 31 0.19
179 130 0.81
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (178 bp):
ACACATTATGTACACCTATTCTCACATAAAACCAATATATTTATACTGATTACATTGTAAATTTA
CCTATTACATTATAATTATTGGTTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGAC
ACTTTATACATTCACATTTTGGGCATTCATTCTGGACAAAAAGTATCA
Found at i:31732 original size:199 final size:200
Alignment explanation
Indices: 31465--32002 Score: 740
Period size: 201 Copynumber: 2.7 Consensus size: 200
31455 AAATGTATCA
* * * * *
31465 ACACATTATGTTCCCCTATTTTCTCATAAAACTGGTATATTTTTACTGATTACATTGTAAATTTA
1 ACACATTATGTACACCTATTTTCTCATAAAACCGGTATATTTATACTGGTTACATTGTAAATTTA
* *
31530 CCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGAC
66 CCTATTACATTATAATTATTAGTTTCGATGTTTTTGGGATCGATACTTTTTAAAAATGTATCGAC
* * *
31595 ACTTTATGCGTTCA-CATTTTGGGCATTCATTTTGGACAAAAAGTATCGACAGAAAATT-AAAAA
131 ACTTTATGCGTGCACCATTTTGGGCATGCATTGTGGACAAAAAGTATCGACA-AAAATTCAAAAA
31658 GTGTCG
195 GTGTCG
* * *
31664 ACACATTATGTACACCTATTCTCACATAAAACCGGTATATTTATACTGGTTACATTGTAAAATTA
1 ACACATTATGTACACCTATTTTCTCATAAAACCGGTATATTTATACTGGTTACATTGTAAATTTA
* * * *
31729 CCTATTACATTATAATTATTTGTTTTGATGTTTTTGGGATCAATACTTTTTAAAAATTTATCGAC
66 CCTATTACATTATAATTATTAGTTTCGATGTTTTTGGGATCGATACTTTTTAAAAATGTATCGAC
* * * * * * *
31794 ACTTTATGGGTGCACCCTTTTTGGGCATGCCTTGTGGACCAAAAGTATCGACACAAATTCCACAA
131 ACTTTATGCGTGCA-CCATTTTGGGCATGCATTGTGGACAAAAAGTATCGACAAAAATTCAAAAA
*
31859 GTTTCG
195 GTGTCG
* * * * * *
31865 ATACATTATGTATATCTATTTTCTCAAAAAACCGATATATTTATACTTGTTACATTGTAAATTTA
1 ACACATTATGTACACCTATTTTCTCATAAAACCGGTATATTTATACTGGTTACATTGTAAATTTA
*
31930 CCTATTACATTATAATT-TTCAGTTTCGATGTTTTTGGGATCGATACTTTTTAAAAATGTATCAA
66 CCTATTACATTATAATTATT-AGTTTCGATGTTTTTGGGATCGATACTTTTTAAAAATGTATCGA
31994 CACTTTATG
130 CACTTTATG
32003 GGAAACTTTA
Statistics
Matches: 297, Mismatches: 38, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
199 129 0.43
200 7 0.02
201 161 0.54
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (200 bp):
ACACATTATGTACACCTATTTTCTCATAAAACCGGTATATTTATACTGGTTACATTGTAAATTTA
CCTATTACATTATAATTATTAGTTTCGATGTTTTTGGGATCGATACTTTTTAAAAATGTATCGAC
ACTTTATGCGTGCACCATTTTGGGCATGCATTGTGGACAAAAAGTATCGACAAAAATTCAAAAAG
TGTCG
Found at i:31800 original size:378 final size:379
Alignment explanation
Indices: 31086--31800 Score: 1200
Period size: 378 Copynumber: 1.9 Consensus size: 379
31076 AAAAATGTCG
*
31086 ACACATTATGTTCCCCTATTTTCTCATAAAACCGATATATTTATACTGGTTACATTGTAAATTTA
1 ACACATTATGTTCCCCTATTTTCTCATAAAACCGATATATTTATACTGATTACATTGTAAATTTA
* *
31151 TCTATTACATTATAATTATTGGTTTTGATGTTTTTGGGATCGATACTATTTATAAATATATCGAC
66 CCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTATTTATAAATATATCGAC
* *
31216 AATTTATGCGTTCACCATTTTGGGCATTCATTCTTGACAAAAAGTATCAATACAAAATTCAAAAG
131 AATTTATGCGTTCACCATTTTGGGCATTCATTCTTGACAAAAAGTATCAACACAAAATTAAAAAG
31281 CGTCGACACATTATGTACACCTATTCTCACATAAAACCAATATATTTATACTGGTTACATTGTAA
196 CGTCGACACATTATGTACACCTATTCTCACATAAAACCAATATATTTATACTGGTTACATTGTAA
* * *
31346 ATTTACCTATTACATTATAATTATTGGTTTTGATATTTTTGGGATCGATACTTTTTATAAATGTA
261 AATTACCTATTACATTATAATTATTGGTTTTGATATTTTTGGGATCAATACTTTTTAAAAATGTA
*
31411 TCGATACTTTATACATTCACCATTTTGGGCATTCATTCTGGACAAAATGTATCA
326 TCGACACTTTATACATTCACCATTTTGGGCATTCATTCTGGACAAAATGTATCA
* * *
31465 ACACATTATGTTCCCCTATTTTCTCATAAAACTGGTATATTTTTACTGATTACATTGTAAATTTA
1 ACACATTATGTTCCCCTATTTTCTCATAAAACCGATATATTTATACTGATTACATTGTAAATTTA
* *
31530 CCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGAC
66 CCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTATTTATAAATATATCGAC
* * *
31595 ACTTTATGCGTTCA-CATTTTGGGCATTCATT-TTGGACAAAAAGTATCGACAGAAAATTAAAAA
131 AATTTATGCGTTCACCATTTTGGGCATTCATTCTT-GACAAAAAGTATCAACACAAAATTAAAAA
* **
31658 GTGTCGACACATTATGTACACCTATTCTCACATAAAACCGGTATATTTATACTGGTTACATTGTA
195 GCGTCGACACATTATGTACACCTATTCTCACATAAAACCAATATATTTATACTGGTTACATTGTA
* * *
31723 AAATTACCTATTACATTATAATTATTTGTTTTGATGTTTTTGGGATCAATACTTTTTAAAAATTT
260 AAATTACCTATTACATTATAATTATTGGTTTTGATATTTTTGGGATCAATACTTTTTAAAAATGT
31788 ATCGACACTTTAT
325 ATCGACACTTTAT
31801 GGGTGCACCC
Statistics
Matches: 312, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
377 2 0.01
378 175 0.56
379 135 0.43
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (379 bp):
ACACATTATGTTCCCCTATTTTCTCATAAAACCGATATATTTATACTGATTACATTGTAAATTTA
CCTATTACATTATAATTATTGGTTTCGATGTTTTTGGGATCGATACTATTTATAAATATATCGAC
AATTTATGCGTTCACCATTTTGGGCATTCATTCTTGACAAAAAGTATCAACACAAAATTAAAAAG
CGTCGACACATTATGTACACCTATTCTCACATAAAACCAATATATTTATACTGGTTACATTGTAA
AATTACCTATTACATTATAATTATTGGTTTTGATATTTTTGGGATCAATACTTTTTAAAAATGTA
TCGACACTTTATACATTCACCATTTTGGGCATTCATTCTGGACAAAATGTATCA
Found at i:32423 original size:24 final size:24
Alignment explanation
Indices: 32382--32432 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
32372 CGAAATTTAT
32382 ATTGAAACTCAAACTCAAACTCAA
1 ATTGAAACTCAAACTCAAACTCAA
* * * *
32406 ATTGAAATTTAAATTCAAACTCCA
1 ATTGAAACTCAAACTCAAACTCAA
32430 ATT
1 ATT
32433 ACATATGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (24 bp):
ATTGAAACTCAAACTCAAACTCAA
Found at i:33758 original size:6 final size:6
Alignment explanation
Indices: 33737--33807 Score: 79
Period size: 6 Copynumber: 11.8 Consensus size: 6
33727 ACTTGTTTGG
* * * *
33737 ATCATC ATAATC ATCATA ATCATC ATCATC ATCATC ATCTTC ACCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * *
33785 ATCATC TTCATC GTCATC TTCAT
1 ATCATC ATCATC ATCATC ATCAT
33808 TGACCTCTTG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.31, C:0.31, G:0.01, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:33772 original size:9 final size:9
Alignment explanation
Indices: 33737--33807 Score: 79
Period size: 9 Copynumber: 7.9 Consensus size: 9
33727 ACTTGTTTGG
*
33737 ATCATCATA
1 ATCATCATC
*
33746 ATCATCATA
1 ATCATCATC
33755 ATCATCATC
1 ATCATCATC
33764 ATCATCATC
1 ATCATCATC
* *
33773 ATCTTCACC
1 ATCATCATC
33782 ATCATCATC
1 ATCATCATC
* *
33791 TTCATCGTC
1 ATCATCATC
*
33800 ATCTTCAT
1 ATCATCAT
33808 TGACCTCTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.31, C:0.31, G:0.01, T:0.37
Consensus pattern (9 bp):
ATCATCATC
Found at i:33801 original size:15 final size:15
Alignment explanation
Indices: 33737--33802 Score: 78
Period size: 15 Copynumber: 4.4 Consensus size: 15
33727 ACTTGTTTGG
**
33737 ATCATCATAATCATC
1 ATCATCATCTTCATC
* *
33752 ATAATCATCATCATC
1 ATCATCATCTTCATC
*
33767 ATCATCATCTTCACC
1 ATCATCATCTTCATC
33782 ATCATCATCTTCATC
1 ATCATCATCTTCATC
*
33797 GTCATC
1 ATCATC
33803 TTCATTGACC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.32, C:0.32, G:0.02, T:0.35
Consensus pattern (15 bp):
ATCATCATCTTCATC
Found at i:35754 original size:199 final size:201
Alignment explanation
Indices: 35281--35755 Score: 620
Period size: 201 Copynumber: 2.4 Consensus size: 201
35271 ATTTAAAATT
** *
35281 GTATCGACAC-AAATCTAAAACGTGTCGATACATTATGTTCACCTATTTTCTCATAAAACCGGTA
1 GTATCGACACAAAATC-AAAA-GTGTCGATACATTATGTAGACCTATTTTCTCATAAATCCGGTA
* * *
35345 AATTTATACCGGTTACATTGTAAATTTACCTATTATATTATAATTATCGGTTTCGATGTTTTTGG
64 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTCTGG
** * * * *
35410 GATCGAAACTTTTTATTAAATGTATCGACACTTTATGGGTGCACCCTTTTGGGCATTCCTTCTGG
129 GATCGAAACTTTTTATTAAATGTATCGACACTAAATGCGTACACCATTTTGGGCATTCATTCTGG
35475 ACAAACAA
194 ACAAACAA
* * * *
35483 -TATCGACACAAATTTCATATGTGTCGATACATTATGTAGACCTATTTTCTCATAAAAT-TGGTA
1 GTATCGACACAAA-ATCAAAAGTGTCGATACATTATGTAGACCTATTTTCTCAT-AAATCCGGTA
* * * *
35546 TAGTTATACCGGTTACATTGTAAATTTACCTATTACATTATATTTATGGGTTTTGATGTTTCTGG
64 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTCTGG
* * *
35611 GATCGATATTTTTTA-TAAATGTATCGACAC-AAATGCGTACATCATTTTGGGCATTCATTCTGG
129 GATCGAAACTTTTTATTAAATGTATCGACACTAAATGCGTACACCATTTTGGGCATTCATTCTGG
35674 ACAAA-AA
194 ACAAACAA
* ** *
35681 GTATCGACACAAAATGAGAAAGTGTCGATACATTATGTAGACCTATTCACACATAAATCCGGTAT
1 GTATCGACACAAAATCA-AAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAATCCGGTAT
35746 ATTTATACCG
65 ATTTATACCG
35756 CTTATTACAT
Statistics
Matches: 235, Mismatches: 32, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
198 8 0.03
199 88 0.37
200 15 0.06
201 115 0.49
202 7 0.03
203 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (201 bp):
GTATCGACACAAAATCAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAATCCGGTATA
TTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTCTGGGA
TCGAAACTTTTTATTAAATGTATCGACACTAAATGCGTACACCATTTTGGGCATTCATTCTGGAC
AAACAA
Found at i:36160 original size:19 final size:19
Alignment explanation
Indices: 36136--36184 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
36126 TTACATTCAC
36136 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
36155 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
36174 ATACAAAATTA
1 ATACAAAATTA
36185 ACCCTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:37764 original size:18 final size:19
Alignment explanation
Indices: 37741--37780 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
37731 TCCTCCTCAT
37741 TTCCT-CCATCTTTTCTTC
1 TTCCTCCCATCTTTTCTTC
*
37759 TTCCTCCCCTCTTTTCTTC
1 TTCCTCCCATCTTTTCTTC
37778 TTC
1 TTC
37781 ATATTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.03, C:0.42, G:0.00, T:0.55
Consensus pattern (19 bp):
TTCCTCCCATCTTTTCTTC
Found at i:38001 original size:33 final size:33
Alignment explanation
Indices: 37964--38063 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 33
37954 CCATCTTAAG
37964 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
37997 TTCACCCCTCAACACCTCAAC-TCATTTCACCAT
1 TTCACCCCTCAACACCTCAACTTC-TTTCACCAC
* * *
38030 TTTACTCCTCAACACCTCAACTCCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
38063 T
1 T
38064 CTATCTATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
32 2 0.03
33 57 0.95
34 1 0.02
ACGTcount: A:0.25, C:0.46, G:0.00, T:0.29
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:38121 original size:21 final size:21
Alignment explanation
Indices: 38096--38139 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
38086 CCCCTTATGC
38096 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
*
38117 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
38138 CT
1 CT
38140 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.34, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:38546 original size:22 final size:26
Alignment explanation
Indices: 38518--38575 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
38508 AACCTGCATT
38518 TATAATAAAATT-TA-T-T-ATTTTA
1 TATAATAAAATTATACTATCATTTTA
38540 TATAATAATAATTATACTATCATTTTA
1 TATAATAA-AATTATACTATCATTTTA
38567 TATAA-AAAA
1 TATAATAAAA
38576 CAAAAACGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.26
23 4 0.13
24 2 0.06
25 3 0.10
26 3 0.10
27 11 0.35
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (26 bp):
TATAATAAAATTATACTATCATTTTA
Found at i:40847 original size:182 final size:182
Alignment explanation
Indices: 40536--41380 Score: 1148
Period size: 182 Copynumber: 4.6 Consensus size: 182
40526 TACACGTACT
* * * ** *
40536 TATTAAAATATCGACACTTTCAATATATCCGGTAGCTC-AT-TACCAGTTTTTTTATTTCGAGAC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATAT-CGA-TTTTGTCCTTTAGAGAC
* * *
40599 CGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATTGATACATTTTTATAAAATACCGACA
64 CGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACA
*
40664 CTTTTTAGGCGCTAAAACTGCTTCTCTTTTAAATTCA-ATAAGTGTCGATACTTA
129 CTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACA-AAGTGTCGATACTTA
40718 TATTAAAGTATCGACACTTTCAATATATCCGGTCA-CTCTATATCGATTTTGTCCTTTAGAGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGT-AGCTCTATATCGATTTTGTCCTTTAGAGACC
* *
40782 GGTTTTGTCATATTTTTACCTGTTAAATCGTTGTGGATCGATACATTATTATAAAATATCGACAC
65 GGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACAC
* *
40847 TTTATAGGCGCTAAAATTACTTCTCTTTTAAATTCACAAAGTGT-GATACTTA
130 TTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
40899 TATTAAAGTATCAACACTTTCAATATATCCGATCGCTCTATATCGATTTTGTCCTCTAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATATCGATTTTGTCCTTTAGAGACCG
* * * *
40964 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATAAATTGTTATAAAGTATCAACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACT
* * *
41029 TTATATGCGCTAAAATTGCTTCTATTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * * * * *
41081 TATTAAAGTATCGAGACTTTCAATATATCCTGTAGCGCTTTACCGGTTTTGTCCTTTAGAGACTG
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATATCGATTTTGTCCTTTAGAGACCG
* * * *
41146 ATTTTGTCATATATTTT-CATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACAC
66 GTTTTGTCATAT-TTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACAC
*
41210 TTTATAGGCGTTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
130 TTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
** * * * * *
41263 TATTAAAGTATCGACACTTTCAATATATCTAGTAGCGCTTTACCGATTTTGTCTTTTCA-TGACC
1 TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATATCGATTTTGTCCTTT-AGAGACC
* * *
41327 GGTTTTGTCATATTTTTTCCTGTTATAAT-GATGTGGATCGATATATTTTTATAA
65 GGTTTTGTCATATTTTTACCTGTTAT-ATCGTTGTGGATCGATACATTTTTATAA
41381 CGTATTGACA
Statistics
Matches: 594, Mismatches: 59, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
181 172 0.29
182 408 0.69
183 13 0.02
184 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCCGGTAGCTCTATATCGATTTTGTCCTTTAGAGACCG
GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTTTTATAAAATATCGACACT
TTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:41207 original size:363 final size:365
Alignment explanation
Indices: 40536--41385 Score: 1128
Period size: 363 Copynumber: 2.3 Consensus size: 365
40526 TACACGTACT
* * ** * * * ** *
40536 TATTAAAATATCGACACTTTCAATATATCCGGTAGCTCATTACC-AGTTTTTTTATTTC-GAGAC
1 TATTAAAGTATCAACACTTTCAATATATCTAGTAGCGCTTTACCGA-TTTTGTCCTCTCAGAGAC
* * * * * *
40599 CGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATTGATACATTTTTATAAAATACCGACA
65 CGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATAAATTTTTATAAAGTATCAACA
* *
40664 CTTTTTAGGCGCTAAAACTGCTTCTCTTTTAAATTCAATAAGTGTCGATACTTATATTAAAGTAT
130 CTTTATAGGCGCTAAAACTGCTTCTATTTTAAATTCAATAAGTGTCGATACTTATATTAAAGTAT
* * *
40729 CGACACTTTCAATATATCCGGTCACTCTATATCGATTTTGTCCTTTAGAGACCGGTTTTGTCATA
195 CGACACTTTCAATATATCCGGTCACGCTATACCGATTTTGTCCTTTAGAGACCGATTTTGTCATA
* *
40794 TTTTTACCTGTTAAATCGTTGTGGATCGATACATTATTATAAAATATCGACACTTTATAGGCGCT
260 TTTTTACATGTTAAATCGTTATGGATCGATACATTATTATAAAATATCGACACTTTATAGGCGCT
*
40859 AAAATTACTTCTCTTTTAAATTCACAAAGTGT-GATACTTA
325 AAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * *
40899 TATTAAAGTATCAACACTTTCAATATATC-CG-ATCGCTCTATATCGATTTTGTCCTCT-AGAGA
1 TATTAAAGTATCAACACTTTCAATATATCTAGTAGCGCT-T-TACCGATTTTGTCCTCTCAGAGA
*
40961 CCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATAAATTGTTATAAAGTATCAAC
64 CCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATAAATTTTTATAAAGTATCAAC
* *
41026 ACTTTATATGCGCTAAAATTGCTTCTATTTTAAATTCACA-AAGTGTCGATACTTATATTAAAGT
129 ACTTTATAGGCGCTAAAACTGCTTCTATTTTAAATTCA-ATAAGTGTCGATACTTATATTAAAGT
* * * * *
41090 ATCGAGACTTTCAATATATCCTGT-AGCGCTTTACCGGTTTTGTCCTTTAGAGACTGATTTTGTC
193 ATCGACACTTTCAATATATCCGGTCA-CGCTATACCGATTTTGTCCTTTAGAGACCGATTTTGTC
* * *
41154 ATATATTTT-CATGTTATATCGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
257 ATAT-TTTTACATGTTAAATCGTTATGGATCGATACATTATTATAAAATATCGACACTTTATAGG
* *
41218 CGTTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
321 CGCTAAAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
* * * *
41263 TATTAAAGTATCGACACTTTCAATATATCTAGTAGCGCTTTACCGATTTTGTCTTTTCA-TGACC
1 TATTAAAGTATCAACACTTTCAATATATCTAGTAGCGCTTTACCGATTTTGTCCTCTCAGAGACC
* * * *
41327 GGTTTTGTCATATTTTTTCCTGTTATAAT-GATGTGGATCGATATATTTTTATAACGTAT
66 GGTTTTGTCATATTTTTACCTGTTAT-ATCGTTGTGGATCGATAAATTTTTATAAAGTAT
41386 TGACATAAAC
Statistics
Matches: 425, Mismatches: 50, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
361 3 0.01
362 3 0.01
363 298 0.70
364 111 0.26
365 5 0.01
366 5 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (365 bp):
TATTAAAGTATCAACACTTTCAATATATCTAGTAGCGCTTTACCGATTTTGTCCTCTCAGAGACC
GGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATAAATTTTTATAAAGTATCAACAC
TTTATAGGCGCTAAAACTGCTTCTATTTTAAATTCAATAAGTGTCGATACTTATATTAAAGTATC
GACACTTTCAATATATCCGGTCACGCTATACCGATTTTGTCCTTTAGAGACCGATTTTGTCATAT
TTTTACATGTTAAATCGTTATGGATCGATACATTATTATAAAATATCGACACTTTATAGGCGCTA
AAACTACTTCTCTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:42521 original size:14 final size:16
Alignment explanation
Indices: 42497--42528 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
42487 TGTATTCATT
42497 TTTCTTGTTTT-TAAA
1 TTTCTTGTTTTATAAA
42512 TTTC-TGTTTTATAAA
1 TTTCTTGTTTTATAAA
42527 TT
1 TT
42529 ATAGGTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTCTTGTTTTATAAA
Found at i:49958 original size:20 final size:20
Alignment explanation
Indices: 49924--49989 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
49914 AATTTGTAAA
* *
49924 TCGCAACATAGAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
*
49944 TCGTAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
*
49964 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
49984 TCGCAA
1 TCGCAA
49990 AGCACCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.45, C:0.23, G:0.14, T:0.18
Consensus pattern (20 bp):
TCGCAACACAAAAGTCAAAT
Found at i:50516 original size:20 final size:20
Alignment explanation
Indices: 50493--50563 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
50483 AAACTTAAAT
*
50493 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
50513 TCGCAACGCGAACATGAAAA
1 TCGCAACGCGAAAATGAAAA
50533 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
50553 TCGCAACGCGA
1 TCGCAACGCGA
50564 TTTTAGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:50663 original size:20 final size:20
Alignment explanation
Indices: 50638--50683 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
50628 GTTGCAATTT
*
50638 TTGCGATTTTCATGTTCGCG
1 TTGCGATTTTCATGTTCACG
*
50658 TTGCGATTTTCATTTTCACG
1 TTGCGATTTTCATGTTCACG
50678 TTGCGA
1 TTGCGA
50684 ATTTAAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.46
Consensus pattern (20 bp):
TTGCGATTTTCATGTTCACG
Found at i:50694 original size:20 final size:20
Alignment explanation
Indices: 50656--50695 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
50646 TTCATGTTCG
* * *
50656 CGTTGCGATTTTCATTTTCA
1 CGTTGCGAATTTAAGTTTCA
50676 CGTTGCGAATTTAAGTTTCA
1 CGTTGCGAATTTAAGTTTCA
50696 GAAGCTACTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.45
Consensus pattern (20 bp):
CGTTGCGAATTTAAGTTTCA
Found at i:52911 original size:21 final size:21
Alignment explanation
Indices: 52887--52957 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
52877 CTCATCATCG
52887 AAGAAGCCCCACCCACCGTTC
1 AAGAAGCCCCACCCACCGTTC
* *** *
52908 AAGAGGCCCCTGTCATCGTTC
1 AAGAAGCCCCACCCACCGTTC
* * **
52929 AAGAGGTCCCGTCCACCGTTC
1 AAGAAGCCCCACCCACCGTTC
52950 AAG-AGCCC
1 AAGAAGCCC
52958 GATTCACATG
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
20 3 0.08
21 35 0.92
ACGTcount: A:0.24, C:0.39, G:0.21, T:0.15
Consensus pattern (21 bp):
AAGAAGCCCCACCCACCGTTC
Found at i:52945 original size:42 final size:40
Alignment explanation
Indices: 52836--52954 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 40
52826 GATGCACCTA
* *
52836 TCATCGTTCAAGAGGCGTCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGC-CCTCC-ACCGTTCAAGAGGCCCCTC
* * * *
52878 TCATC-ATCGAAGAAGCCCCACCCACCGTTCAAGAGGCCCCTG
1 TCATCGTTC-AAG-AGGCCC-TCCACCGTTCAAGAGGCCCCTC
52920 TCATCGTTCAAGAGGTCCCGTCCACCGTTCAAGAG
1 TCATCGTTCAAGAGG-CCC-TCCACCGTTCAAGAG
52955 CCCGATTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
41 4 0.06
42 51 0.82
43 7 0.11
ACGTcount: A:0.23, C:0.35, G:0.21, T:0.21
Consensus pattern (40 bp):
TCATCGTTCAAGAGGCCCTCCACCGTTCAAGAGGCCCCTC
Found at i:54519 original size:34 final size:34
Alignment explanation
Indices: 54471--54607 Score: 130
Period size: 34 Copynumber: 3.9 Consensus size: 34
54461 CTTTCGCAAC
* * * *
54471 GCGAAAGTCAAATTCGCGTTGTGATTTTCTCGTT
1 GCGATAGTCAAATTCGCATTGCGATTTTCGCGTT
* *
54505 GCAATAGTCAAATTCGCATTGCGATAGTCAAATTCGCATT
1 GCGATAGTCAAATTCGCATTGCGAT--T----TTCGCGTT
*
54545 GCGATAGTCAAATTCGCATTGTGATTTTCGCGTT
1 GCGATAGTCAAATTCGCATTGCGATTTTCGCGTT
* * *
54579 GCGATAGTCAAATTCACGTTGCGTTTTTC
1 GCGATAGTCAAATTCGCATTGCGATTTTC
54608 TGTTTGCGAA
Statistics
Matches: 84, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
34 53 0.63
36 1 0.01
38 1 0.01
40 29 0.35
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (34 bp):
GCGATAGTCAAATTCGCATTGCGATTTTCGCGTT
Found at i:54531 original size:20 final size:20
Alignment explanation
Indices: 54503--54565 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
54493 GATTTTCTCG
*
54503 TTGCAATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
54523 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
54543 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
54563 TTG
1 TTG
54566 TGATTTTCGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:54634 original size:20 final size:20
Alignment explanation
Indices: 54611--54649 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
54601 GTTTTTCTGT
*
54611 TTGCGAATTTGACTTTCGCG
1 TTGCGAATTTAACTTTCGCG
54631 TTGCGAATTTAACTTTCGC
1 TTGCGAATTTAACTTTCGC
54650 AACAATCGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTAACTTTCGCG
Found at i:65421 original size:18 final size:19
Alignment explanation
Indices: 65386--65422 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
65376 TTGAACAGTA
65386 GGGGGAATCGATAGTCCCTG
1 GGGGGAATCGATA-TCCCTG
65406 GGGGGAATCGAT-TCCCT
1 GGGGGAATCGATATCCCT
65423 TCGAGCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
20 12 0.71
ACGTcount: A:0.19, C:0.22, G:0.38, T:0.22
Consensus pattern (19 bp):
GGGGGAATCGATATCCCTG
Found at i:67561 original size:16 final size:16
Alignment explanation
Indices: 67540--67570 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67530 AGTCGAAGCG
67540 AAAAAAAAACAAAAAA
1 AAAAAAAAACAAAAAA
*
67556 AAAAAAAAAGAAAAA
1 AAAAAAAAACAAAAA
67571 TGCTTAGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.94, C:0.03, G:0.03, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAAAA
Found at i:67619 original size:73 final size:75
Alignment explanation
Indices: 67500--67641 Score: 173
Period size: 73 Copynumber: 1.9 Consensus size: 75
67490 AAGTACTTCT
* * * * **
67500 CTTAGGATGATAACCCGAGAGGGCGTCCTAAGTCGAAGCGAAAAAAAAACAAA-AA-AAAA-AAA
1 CTTAGGATGAAAACCCGAAAGGGCGCCCTAAATCGAAAAGAAAAAAAAA-AAAGAACAAAAGAAA
67562 AAAGAAAAATG
65 AAAGAAAAATG
* * *
67573 CTTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAAAAGAGAAAAAAAAAAGAACAAAAGAAAA
1 CTTAGGATGAAAACCCGAAAGGGCGCCCTAAATCGAAAAGAAAAAAAAAAAAGAACAAAAGAAAA
67638 AAGA
66 AAGA
67642 GAAGAAAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
72 3 0.05
73 42 0.74
74 4 0.07
75 8 0.14
ACGTcount: A:0.56, C:0.13, G:0.21, T:0.10
Consensus pattern (75 bp):
CTTAGGATGAAAACCCGAAAGGGCGCCCTAAATCGAAAAGAAAAAAAAAAAAGAACAAAAGAAAA
AAGAAAAATG
Found at i:69975 original size:22 final size:25
Alignment explanation
Indices: 69932--69985 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 25
69922 TTAGTTTAGG
69932 GTTTCCAAAAACCCTCATCCAACGCC
1 GTTTCCAAAAACCCTCA-CCAACGCC
69958 GTTTCCAAAAA-CC-C-CCAACGCC
1 GTTTCCAAAAACCCTCACCAACGCC
69980 GTTTCC
1 GTTTCC
69986 TGTGAGGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 14 0.50
24 1 0.04
25 2 0.07
26 11 0.39
ACGTcount: A:0.28, C:0.43, G:0.09, T:0.20
Consensus pattern (25 bp):
GTTTCCAAAAACCCTCACCAACGCC
Found at i:70969 original size:3 final size:3
Alignment explanation
Indices: 70961--70986 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
70951 TTATATATGT
70961 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
70987 TATTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:71090 original size:30 final size:29
Alignment explanation
Indices: 71051--71121 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
71041 TTTCATTTCA
*
71051 TTTAGTATTTATATTGATATATATAT-TAGT
1 TTTATTATTTATATT-ATATATATATCTA-T
* *
71081 TTTATTATTT-TATTTTATTTATATCTAT
1 TTTATTATTTATATTATATATATATCTAT
71109 TTTACTTATTTAT
1 TTTA-TTATTTAT
71122 CTATTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 13 0.37
29 12 0.34
30 10 0.29
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (29 bp):
TTTATTATTTATATTATATATATATCTAT
Found at i:71101 original size:17 final size:17
Alignment explanation
Indices: 71081--71157 Score: 52
Period size: 17 Copynumber: 4.4 Consensus size: 17
71071 ATATATTAGT
71081 TTTATTA-TTTTATTTTA
1 TTTATTACTTTTA-TTTA
*
71098 TTTA-TATCTATTTTACTTA
1 TTTATTA-C--TTTTATTTA
*
71117 TTTATCTATTTTTATTT-
1 TTTAT-TACTTTTATTTA
*
71134 TCTTTTTACTTTTATTTA
1 T-TTATTACTTTTATTTA
71152 TTTATT
1 TTTATT
71158 TAGTACGTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
16 2 0.04
17 19 0.41
18 11 0.24
19 7 0.15
20 5 0.11
21 2 0.04
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTACTTTTATTTA
Found at i:71184 original size:3 final size:3
Alignment explanation
Indices: 71176--71210 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
71166 ATATATTACT
*
71176 TTA TTA TTA TTA TTA TTA TTA TTA TTA ATA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
71211 TTTTACTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:71446 original size:5 final size:5
Alignment explanation
Indices: 71436--71494 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
71426 CTATAATTAT
* * **
71436 TTTTA TTTTA TTTTA TTTTA TTTTTCA TTTCA -TTTC TTTGG TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA
71487 -TTTA TTTT
1 TTTTA TTTT
71495 CTATTTTCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
4 6 0.14
5 29 0.67
6 7 0.16
7 1 0.02
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:71503 original size:31 final size:30
Alignment explanation
Indices: 71446--71505 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
71436 TTTTATTTTA
*
71446 TTTTATTTTATTTTTCATTTCATTTCTTTGG
1 TTTTATTTTATTTAT-ATTTCATTTCTTTGG
71477 TTTTATTTTATTTAT-TTTCTATTTTCTTT
1 TTTTATTTTATTTATATTTC-A-TTTCTTT
71506 ATTATATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 4 0.15
30 1 0.04
31 21 0.81
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.75
Consensus pattern (30 bp):
TTTTATTTTATTTATATTTCATTTCTTTGG
Found at i:75711 original size:18 final size:17
Alignment explanation
Indices: 75682--75718 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
75672 CTAATAACCT
*
75682 ATAAAAATAAATATCAA
1 ATAAAAATAAATAACAA
75699 ATAAAAATAAAATAACAA
1 ATAAAAAT-AAATAACAA
75717 AT
1 AT
75719 CTCAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAAAATAAATAACAA
Found at i:77789 original size:23 final size:23
Alignment explanation
Indices: 77762--77816 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
77752 TTTTTTGATT
77762 TGGGTTTGATGTTTGGGTCA-TC
1 TGGGTTTGATGTTTGGGTCATTC
*** *
77784 TCGGGTTACTTGTTTTGGTCATTC
1 T-GGGTTTGATGTTTGGGTCATTC
77808 TGGGTTTGA
1 TGGGTTTGA
77817 GTCATTACAT
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
22 1 0.04
23 20 0.83
24 3 0.12
ACGTcount: A:0.09, C:0.11, G:0.33, T:0.47
Consensus pattern (23 bp):
TGGGTTTGATGTTTGGGTCATTC
Found at i:86822 original size:41 final size:41
Alignment explanation
Indices: 86772--86913 Score: 94
Period size: 41 Copynumber: 3.4 Consensus size: 41
86762 TGTTTATAGT
86772 GACGTTTTTTCAACAAACGACGCAATAGAATAGTAATTTAGC
1 GACG-TTTTTCAACAAACGACGCAATAGAATAGTAATTTAGC
* * * ** * *
86814 GACGTTTTTGTAA-AAACGCCGTAATAGGGTTGT--TTATAGT
1 GACGTTTTT-CAACAAACGACGCAATAGAATAGTAATT-TAGC
* * *
86854 GGCGTTTGTTCAACAAATGACGCTATAGAGA-AGTAATTTAGC
1 GACGTTT-TTCAACAAACGACGCAATAGA-ATAGTAATTTAGC
* *
86896 GGCGTTTATCAAACAAAC
1 GACGTTTTTC-AACAAAC
86914 ACCTCAATAG
Statistics
Matches: 73, Mismatches: 19, Indels: 16
0.68 0.18 0.15
Matches are distributed among these distances:
39 2 0.03
40 11 0.15
41 36 0.49
42 22 0.30
43 2 0.03
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (41 bp):
GACGTTTTTCAACAAACGACGCAATAGAATAGTAATTTAGC
Found at i:86882 original size:82 final size:82
Alignment explanation
Indices: 86745--87025 Score: 282
Period size: 82 Copynumber: 3.4 Consensus size: 82
86735 TTTATAGCTC
* * * * *
86745 AAACGTCGGAATAGAGTTGTTTATAGTGACGTTTTTTCAACAAACGACGCAATAGAATAGTAATT
1 AAACGCCGTAATAGAGTTGTTTATAGTGGCGTTTGTTCAACAAAAGACGCAATAGAATAGTAATT
* *
86810 TAGCGACGTTTTTGTAA
66 TAGCGGCGTTTTTCTAA
* * *
86827 AAACGCCGTAATAGGGTTGTTTATAGTGGCGTTTGTTCAACAAATGACGCTATAGAGA-AGTAAT
1 AAACGCCGTAATAGAGTTGTTTATAGTGGCGTTTGTTCAACAAAAGACGCAATAGA-ATAGTAAT
* *
86891 TTAGCGGCGTTTATCAAA
65 TTAGCGGCGTTTTTCTAA
* * * * *
86909 CAAACACC-TCAATAGAGTTGTTTATAGTGGCGTTTGTGC-ACAAAACATCGCAATAGAGTATTA
1 -AAACGCCGT-AATAGAGTTGTTTATAGTGGCGTTTGTTCAACAAAAGA-CGCAATAGAATAGTA
* * * *
86972 ATTTAGTGGCATTTGTCCTAC
63 ATTTAGCGGCGTTT-TTCTAA
* *
86993 AAACGCCGCAATA-TGTTGTTTATAGTGGCGTTT
1 AAACGCCGTAATAGAGTTGTTTATAGTGGCGTTT
87026 TTATAAAAAC
Statistics
Matches: 164, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
82 95 0.58
83 67 0.41
84 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (82 bp):
AAACGCCGTAATAGAGTTGTTTATAGTGGCGTTTGTTCAACAAAAGACGCAATAGAATAGTAATT
TAGCGGCGTTTTTCTAA
Found at i:86955 original size:41 final size:41
Alignment explanation
Indices: 86827--87025 Score: 122
Period size: 42 Copynumber: 4.8 Consensus size: 41
86817 GTTTTTGTAA
* * * * *
86827 AAACGCCGTAATAGGGTTGTTTATAGTGGCGTTTGTTCAAC
1 AAACACCGCAATAGAGTTGTTTATAGTGGCGTTTGTCCTAC
* * ** * * **
86868 AAATGA-CGCTATAGAGAAGTAATT-TAGCGGCGTTTATCAAAC
1 AAA-CACCGCAATAGAGTTGT--TTATAGTGGCGTTTGTCCTAC
* *
86910 AAACACCTCAATAGAGTTGTTTATAGTGGCGTTTGTGC-AC
1 AAACACCGCAATAGAGTTGTTTATAGTGGCGTTTGTCCTAC
* *
86950 AAAACATCGCAATAGAGTAT-TAATT-TAGTGGCATTTGTCCTAC
1 -AAACACCGCAATAGAGT-TGT--TTATAGTGGCGTTTGTCCTAC
* *
86993 AAACGCCGCAATA-TGTTGTTTATAGTGGCGTTT
1 AAACACCGCAATAGAGTTGTTTATAGTGGCGTTT
87026 TTATAAAAAC
Statistics
Matches: 118, Mismatches: 28, Indels: 25
0.69 0.16 0.15
Matches are distributed among these distances:
39 2 0.02
40 15 0.13
41 43 0.36
42 52 0.44
43 6 0.05
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (41 bp):
AAACACCGCAATAGAGTTGTTTATAGTGGCGTTTGTCCTAC
Found at i:87467 original size:22 final size:22
Alignment explanation
Indices: 87441--87484 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
87431 AGAAGTGTTT
87441 TTTGCTTTCGAATAGAAAAATA
1 TTTGCTTTCGAATAGAAAAATA
*
87463 TTTGCTTTCGAATAGGAAAATA
1 TTTGCTTTCGAATAGAAAAATA
87485 ATAGCTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (22 bp):
TTTGCTTTCGAATAGAAAAATA
Found at i:87491 original size:22 final size:22
Alignment explanation
Indices: 87444--87491 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
87434 AGTGTTTTTT
* *
87444 GCTTTCGAATAGAAAAATATTT
1 GCTTTCGAATAGAAAAATAATA
*
87466 GCTTTCGAATAGGAAAATAATA
1 GCTTTCGAATAGAAAAATAATA
87488 GCTT
1 GCTT
87492 ATGAAAACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (22 bp):
GCTTTCGAATAGAAAAATAATA
Found at i:97898 original size:21 final size:21
Alignment explanation
Indices: 97874--97952 Score: 113
Period size: 21 Copynumber: 3.8 Consensus size: 21
97864 CAGCAGCGGA
* *
97874 AGCAGAGAGAGAAGCAATGGC
1 AGCACAGAGAGAAACAATGGC
97895 AGCACAGAGAGAAACAATGGC
1 AGCACAGAGAGAAACAATGGC
** *
97916 AGCACAGAGAGAAACAGCGGA
1 AGCACAGAGAGAAACAATGGC
97937 AGCACAGAGAGAAACA
1 AGCACAGAGAGAAACA
97953 TCATATCATC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.48, C:0.18, G:0.32, T:0.03
Consensus pattern (21 bp):
AGCACAGAGAGAAACAATGGC
Found at i:98412 original size:44 final size:43
Alignment explanation
Indices: 98364--98496 Score: 169
Period size: 43 Copynumber: 3.1 Consensus size: 43
98354 CAGACCTTTA
*
98364 GCGGTGTTTGT-ATCAAAAAACGCTGCTAAATCTCAACACTTATT
1 GCGGTGTTTGTGAT--AAAAACGCCGCTAAATCTCAACACTTATT
* * * *
98408 GCGGTATTTGTGAGAAAAACGCCACTAATTCTCAACACTTATT
1 GCGGTGTTTGTGATAAAAACGCCGCTAAATCTCAACACTTATT
* * *
98451 GCGGCGTTTGTGATAAAAACGCCGCTAAATCTCGACACATATT
1 GCGGTGTTTGTGATAAAAACGCCGCTAAATCTCAACACTTATT
98494 GCG
1 GCG
98497 ACATTTATGG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
43 65 0.86
44 10 0.13
45 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
GCGGTGTTTGTGATAAAAACGCCGCTAAATCTCAACACTTATT
Found at i:106636 original size:17 final size:18
Alignment explanation
Indices: 106607--106654 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
106597 TGCAAAAAAA
*
106607 TTAATTAAA-TAAAATA-
1 TTAAATAAATTAAAATAC
*
106623 TTAAA-AAATTTAAATAC
1 TTAAATAAATTAAAATAC
106640 TTAAATAAATTAAAA
1 TTAAATAAATTAAAA
106655 ACAAAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 10 0.38
17 5 0.19
18 8 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAATAAATTAAAATAC
Found at i:107983 original size:40 final size:40
Alignment explanation
Indices: 107934--108036 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
107924 TCGTTTATTT
* ***
107934 ATTAAATGAATGAACATGAACAAGATTTTGTGTTCGTTTA
1 ATTAAATGAACGAACATGAACAAGATTTTACATTCGTTTA
107974 ATTAAATGAACGAACATGAACAAGATTTTACATTCGTTTA
1 ATTAAATGAACGAACATGAACAAGATTTTACATTCGTTTA
*
108014 ATTAAATGAACGAACACGAACAA
1 ATTAAATGAACGAACATGAACAA
108037 AGGGCTCGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.30
Consensus pattern (40 bp):
ATTAAATGAACGAACATGAACAAGATTTTACATTCGTTTA
Found at i:108385 original size:13 final size:12
Alignment explanation
Indices: 108371--108451 Score: 53
Period size: 13 Copynumber: 6.8 Consensus size: 12
108361 TGTGTTTGTG
108371 TTGTTCGTTTA-
1 TTGTTCGTTTAT
*
108382 -TGTTCGTTCAT
1 TTGTTCGTTTAT
*
108393 TGTATTCGTTTATT
1 T-TGTTCGTTTA-T
*
108407 TTGTTCG-TT-C
1 TTGTTCGTTTAT
* *
108417 GTGTTCGTTCAT
1 TTGTTCGTTTAT
108429 TGTGTTCGTTTATT
1 T-TGTTCGTTTA-T
108443 TTGTTCGTT
1 TTGTTCGTT
108452 CGTGTTCGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
10 15 0.29
11 1 0.02
12 2 0.04
13 30 0.58
14 4 0.08
ACGTcount: A:0.07, C:0.12, G:0.20, T:0.60
Consensus pattern (12 bp):
TTGTTCGTTTAT
Found at i:108422 original size:36 final size:36
Alignment explanation
Indices: 108371--108461 Score: 155
Period size: 36 Copynumber: 2.5 Consensus size: 36
108361 TGTGTTTGTG
**
108371 TTGTTCGTTTATGTTCGTTCATTGTATTCGTTTATT
1 TTGTTCGTTCGTGTTCGTTCATTGTATTCGTTTATT
*
108407 TTGTTCGTTCGTGTTCGTTCATTGTGTTCGTTTATT
1 TTGTTCGTTCGTGTTCGTTCATTGTATTCGTTTATT
108443 TTGTTCGTTCGTGTTCGTT
1 TTGTTCGTTCGTGTTCGTT
108462 TATTATTTAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.07, C:0.13, G:0.21, T:0.59
Consensus pattern (36 bp):
TTGTTCGTTCGTGTTCGTTCATTGTATTCGTTTATT
Found at i:108423 original size:23 final size:22
Alignment explanation
Indices: 108372--108438 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
108362 GTGTTTGTGT
* *
108372 TGTTCGTTTATGTTCGTTCATTG
1 TGTTCGTTTAT-TTTGTTCGTTG
*
108395 TATTCGTTTATTTTGTTCGTTCG
1 TGTTCGTTTATTTTGTTCGTT-G
* *
108418 TGTTCGTTCATTGTGTTCGTT
1 TGTTCGTTTATTTTGTTCGTT
108439 TATTTTGTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
22 8 0.22
23 29 0.78
ACGTcount: A:0.07, C:0.13, G:0.21, T:0.58
Consensus pattern (22 bp):
TGTTCGTTTATTTTGTTCGTTG
Found at i:111083 original size:22 final size:22
Alignment explanation
Indices: 111040--111083 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
111030 AAATTTTCAT
*
111040 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
111062 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
111084 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:113135 original size:3 final size:3
Alignment explanation
Indices: 113122--113202 Score: 83
Period size: 3 Copynumber: 25.3 Consensus size: 3
113112 TATATGTAAC
* *
113122 ATA ATTA ATA ATA ACA ATA A-A CAAA ATA ATA ATA ATAA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA
113169 ATA ATA ATA ATAA ATA TATAA ATA ATA ATA ATA A
1 ATA ATA ATA AT-A ATA -AT-A ATA ATA ATA ATA A
113203 AAAAGACCCG
Statistics
Matches: 68, Mismatches: 3, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
2 1 0.01
3 52 0.76
4 14 0.21
5 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:113522 original size:46 final size:46
Alignment explanation
Indices: 113437--113727 Score: 167
Period size: 40 Copynumber: 6.7 Consensus size: 46
113427 TGGTCGGGGA
* * ** **
113437 ATGACACGGCTCATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTG
1 ATGACACGGCTCCTACGTGATGAGGACGAGCTGGTTATCT-AAGGTG
* * *
113483 ATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT-
1 ATGACACGGCTCCTACGTGATGAGGACGAGCTGGTTATCTAAGGTG
*
113527 -TGACACGGCTCCTACGTGATGAGGA-GATCTGG---TCT--GG-G
1 ATGACACGGCTCCTACGTGATGAGGACGAGCTGGTTATCTAAGGTG
* * * * ** **
113565 AATGACATGGCTCATACGTGATGA-AAAGTTCTGGCCATCTAAAGGTG
1 -ATGACACGGCTCCTACGTGATGAGGACGAGCTGGTTATCT-AAGGTG
* * *
113612 ATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT-
1 ATGACACGGCTCCTACGTGATGAGGACGAGCTGGTTATCTAAGGTG
* * *
113656 -TGACACGGCTCCTACGTGATGAGGA-AATCTGG---TCT--GGGG
1 ATGACACGGCTCCTACGTGATGAGGACGAGCTGGTTATCTAAGGTG
* *
113695 ATGACACGGTTCCTACATGATGAGGACG-GCTGG
1 ATGACACGGCTCCTACGTGATGAGGACGAGCTGG
113728 CAATCTTTAG
Statistics
Matches: 193, Mismatches: 34, Indels: 42
0.72 0.13 0.16
Matches are distributed among these distances:
38 4 0.02
39 1 0.01
40 59 0.31
42 1 0.01
43 57 0.30
45 8 0.04
46 59 0.31
47 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (46 bp):
ATGACACGGCTCCTACGTGATGAGGACGAGCTGGTTATCTAAGGTG
Found at i:113637 original size:129 final size:129
Alignment explanation
Indices: 113407--113717 Score: 550
Period size: 129 Copynumber: 2.4 Consensus size: 129
113397 TTAACGCGAT
* *
113407 TCCTACGTGATGAGGAAATCTGGTCGGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACGTGATGAGGAAATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAAAGTTCTGGCC
113472 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
66 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
* *
113536 TCCTACGTGATGAGGAGATCTGGTCTGGGAATGACATGGCTCATACGTGATGAAAAGTTCTGGCC
1 TCCTACGTGATGAGGAAATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAAAGTTCTGGCC
113601 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
66 ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
* * * *
113665 TCCTACGTGATGAGGAAATCTGGTCTGGGGATGACACGGTTCCTACATGATGA
1 TCCTACGTGATGAGGAAATCTGGTCTGGGAATGACACGGCTCATACGTGATGA
113718 GGACGGCTGG
Statistics
Matches: 172, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 172 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (129 bp):
TCCTACGTGATGAGGAAATCTGGTCTGGGAATGACACGGCTCATACGTGATGAAAAGTTCTGGCC
ATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGC
Found at i:113786 original size:28 final size:27
Alignment explanation
Indices: 113746--113842 Score: 106
Period size: 28 Copynumber: 3.4 Consensus size: 27
113736 AGGAGTTATG
* *
113746 GTTTCAAGAGAAACCAATTCAAAGATTT
1 GTTTCAAAAGAAA-CAACTCAAAGATTT
113774 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACA-ACTCAAAGATTT
113802 GTTTCAAGAA-AAACAAGCTCAAAGATAATGT
1 GTTTCAA-AAGAAACAA-CTCAAAGAT--T-T
113833 GTTTCAAAAG
1 GTTTCAAAAG
113843 CAACTGTCTC
Statistics
Matches: 60, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.05
28 44 0.73
29 2 0.03
30 3 0.05
31 8 0.13
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (27 bp):
GTTTCAAAAGAAACAACTCAAAGATTT
Found at i:114033 original size:66 final size:63
Alignment explanation
Indices: 113844--114033 Score: 148
Period size: 66 Copynumber: 2.9 Consensus size: 63
113834 TTTCAAAAGC
** * * *
113844 AACTGTCTCGAAAGAGACAAAATTCATTTCAAATGAAACAACTCAAAAGATG-ACGTTTAAAGGG
1 AACTGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAAGATCTC-AAAGATGTATGTTTAAAGGG
* * ** * * * * * * *
113908 AATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGGGAAACGTTCTCAAATATCTGTGTTTCATGG
1 AACTGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAA-GATCTCAAAGATGTATGTTTAAAGG
113973 G
63 G
*
113974 AAACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAATGATCTCAAAGATGTTTGTTT
1 -AACTGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAA-GATCTCAAAGATGTATGTTT
114034 TGTTTCAAGG
Statistics
Matches: 94, Mismatches: 26, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
63 2 0.02
64 17 0.18
65 16 0.17
66 40 0.43
67 19 0.20
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (63 bp):
AACTGTCTCAAAGAGACAAAATTCATTTCAAGGGAAAGATCTCAAAGATGTATGTTTAAAGGG
Found at i:114866 original size:37 final size:38
Alignment explanation
Indices: 114820--114946 Score: 114
Period size: 37 Copynumber: 3.6 Consensus size: 38
114810 GAAACAGATT
*
114820 CAAAGATTTTTTTTCAAAAGAAAATATCTTAAGAGAGA
1 CAAAGATTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
* **
114858 CAAA-ATTTTGTTTCCAAAG--AA-A-C-----AGACC
1 CAAAGATTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
*
114886 CAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGA
1 CAAAGA-TTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
*
114925 CAAA-ATTTTGTTTCCAAAGAAA
1 CAAAGATTTTGTTTCAAAAGAAA
114947 CAGACTCAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 23
0.68 0.09 0.23
Matches are distributed among these distances:
28 7 0.10
29 1 0.01
30 13 0.19
32 1 0.01
33 2 0.03
34 2 0.03
35 2 0.03
37 29 0.42
38 5 0.07
39 7 0.10
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.31
Consensus pattern (38 bp):
CAAAGATTTTGTTTCAAAAGAAAATATCTTAAGAGAGA
Found at i:114897 original size:30 final size:30
Alignment explanation
Indices: 114863--114993 Score: 106
Period size: 30 Copynumber: 4.1 Consensus size: 30
114853 AGAGACAAAA
* *
114863 TTTTGTTTCCAAAGAAACAGACCCAAAGAT
1 TTTTGTTTCAAAAGAAACAGACTCAAAGAT
**
114893 TTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAA-A-
1 TTTTGTTTCAAAAG-AA--A-C-----AGACTCAAAGAT
*
114930 TTTTGTTTCCAAAGAAACAGACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGACTCAAAGAT
114960 TTTTGTTTCAAAAGAAACA-ATCTCAAAGAT
1 TTTTGTTTCAAAAGAAACAGA-CTCAAAGAT
114990 TTTT
1 TTTT
114994 TCACAAAATT
Statistics
Matches: 82, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
28 7 0.09
29 2 0.02
30 44 0.54
31 2 0.02
33 2 0.02
34 2 0.02
36 2 0.02
37 13 0.16
38 1 0.01
39 7 0.09
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:114915 original size:67 final size:67
Alignment explanation
Indices: 114767--114976 Score: 302
Period size: 67 Copynumber: 3.2 Consensus size: 67
114757 AAAGATTTAC
* * * * * *
114767 TTCAAGAGAAATTGTCTCAAGAGATACAAAATTCAT-TTT--AAGAGAAACAGATTCAAAGATTT
1 TTCAAAAGAAATTATCTTAAGAGAGACAAAATT-TTGTTTCCAA-AGAAACAGACTCAAAGATTT
114829 TT-T
64 TTGT
* *
114832 TTCAAAAGAAAATATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACCCAAAGATTTTT
1 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
114897 GT
66 GT
114899 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
1 TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
114964 GT
66 GT
114966 TTCAAAAGAAA
1 TTCAAAAGAAA
114977 CAATCTCAAA
Statistics
Matches: 131, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
64 1 0.01
65 31 0.24
66 20 0.15
67 79 0.60
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (67 bp):
TTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTT
GT
Found at i:115055 original size:52 final size:53
Alignment explanation
Indices: 114981--115083 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 53
114971 AAGAAACAAT
114981 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
* *
115034 CTCAAAGA-TTTTTCACGAAATTGTCTTAAGAGAGACAAAACTTTGTTTCA
1 CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
115084 AAAGAAATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 40 0.83
53 8 0.17
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (53 bp):
CTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGA
Found at i:115109 original size:27 final size:27
Alignment explanation
Indices: 115079--115137 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
115069 CAAAACTTTG
*
115079 TTTCAAAAGAAATAGA-CTCAAAGATTT
1 TTTCAAAAGAAACA-ATCTCAAAGATTT
115106 TTTCAAAAGAAACAATCTCAAAGATTT
1 TTTCAAAAGAAACAATCTCAAAGATTT
115133 TTTCA
1 TTTCA
115138 CAAAATTGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTCAAAAGAAACAATCTCAAAGATTT
Found at i:115163 original size:141 final size:143
Alignment explanation
Indices: 114906--115170 Score: 471
Period size: 141 Copynumber: 1.9 Consensus size: 143
114896 TGTTTCAAAA
* *
114906 GAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGAAACAGACTCAAAGATTTTTGTTTCAA
1 GAAATTATCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGA-TTTTGTTTCAA
114971 AAGAAACAATCTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACT
65 AAGAAACAATCTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACT
115036 CAAAGATTTTTCAC
130 CAAAGATTTTTCAC
* *
115050 GAAATTGTCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAATAGACTCAAAGA-TTT-TTTCAAA
1 GAAATTATCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTGTTTCAAA
115113 AGAAACAATCTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTT
66 AGAAACAATCTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTT
115171 TAAAAGATTC
Statistics
Matches: 117, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
141 65 0.56
142 3 0.03
144 49 0.42
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (143 bp):
GAAATTATCTTAAGAGAGACAAAACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTGTTTCAAA
AGAAACAATCTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAGACTC
AAAGATTTTTCAC
Found at i:115468 original size:36 final size:36
Alignment explanation
Indices: 115384--115487 Score: 133
Period size: 36 Copynumber: 3.0 Consensus size: 36
115374 GAAAAAATGA
* *
115384 TGTCTCAAGCGAGACAAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
115418 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
115454 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
115488 ACGATCTCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
34 20 0.34
35 10 0.17
36 29 0.49
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:115515 original size:36 final size:36
Alignment explanation
Indices: 115385--115503 Score: 120
Period size: 36 Copynumber: 3.4 Consensus size: 36
115375 AAAAAATGAT
* * *
115385 GTCTCAAGCGAGACAAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AAAC
* **
115419 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
115455 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
115490 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
115504 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
34 20 0.29
35 12 0.17
36 38 0.54
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:115634 original size:105 final size:101
Alignment explanation
Indices: 115455--115687 Score: 292
Period size: 105 Copynumber: 2.3 Consensus size: 101
115445 TAGAGAAATT
*
115455 GTCTCAAGCGAGAC-AAAGTTTGTTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACGAAA-TTTG-TTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
* *
115519 GTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
64 GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
115557 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTG--AG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
115621 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
60 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
115662 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACGAAATTTGTTTT
115688 AAAATTCTCA
Statistics
Matches: 115, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
101 5 0.04
102 18 0.16
103 5 0.04
104 4 0.03
105 78 0.68
106 5 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (101 bp):
GTCTCAAGCGAGACGAAATTTGTTTTGAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAATGT
GAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:121375 original size:22 final size:22
Alignment explanation
Indices: 121332--121375 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
121322 AAATTTTCAT
*
121332 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
121354 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
121376 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:123430 original size:3 final size:3
Alignment explanation
Indices: 123417--123491 Score: 71
Period size: 3 Copynumber: 23.3 Consensus size: 3
123407 TATATGTAAC
* *
123417 ATA ATTA ATA ATA ACA ATA A-A CAAA ATA ATA ATA ATAA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA
123464 ATA ATAA ATA TATAA ATA ATA ATA ATA A
1 ATA AT-A ATA -AT-A ATA ATA ATA ATA A
123492 AAAAGACCCG
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
2 1 0.02
3 46 0.74
4 14 0.23
5 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:123470 original size:34 final size:37
Alignment explanation
Indices: 123417--123492 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 37
123407 TATATGTAAC
*
123417 ATAATTAATAATAACAAT-AA-ACA-AAATAATAATA
1 ATAAATAATAATAACAATAAATACATAAATAATAATA
* *
123451 ATAAATAATAATAATAATAAATATATAAATAATAATA
1 ATAAATAATAATAACAATAAATACATAAATAATAATA
123488 ATAAA
1 ATAAA
123493 AAAGACCCGG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 16 0.44
35 2 0.06
36 2 0.06
37 16 0.44
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (37 bp):
ATAAATAATAATAACAATAAATACATAAATAATAATA
Found at i:123785 original size:31 final size:31
Alignment explanation
Indices: 123724--123785 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
123714 TGAATTCAAA
* * *
123724 GTCAAATTGATATTCTAACTAAAGTTTAGGG
1 GTCAAAATGATATTCTAACTAAAATCTAGGG
* *
123755 GTCAAAATGATATTTTATCTAAAATCTAGGG
1 GTCAAAATGATATTCTAACTAAAATCTAGGG
123786 TTAAATTAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (31 bp):
GTCAAAATGATATTCTAACTAAAATCTAGGG
Found at i:130181 original size:66 final size:66
Alignment explanation
Indices: 130101--130233 Score: 205
Period size: 66 Copynumber: 2.0 Consensus size: 66
130091 TTATTTATCA
130101 TATGATAGCATAAGATGTTGCTGCATGTTAATTTTTATTGTAATTTTTTTTAAAAA-TAATTATT
1 TATGATAGCATAAGATGTTGCTGCATGTTAATTTTTATTGTAA-TTTTTTTAAAAAGTAATTATT
130165 TG
65 TG
* * * * *
130167 TATGATATCCTAAGATGTTGCTGCATGTTGATTTTTATTTTAATTTTTTTAAAAAGTAGTTATTT
1 TATGATAGCATAAGATGTTGCTGCATGTTAATTTTTATTGTAATTTTTTTAAAAAGTAATTATTT
130232 G
66 G
130233 T
1 T
130234 TAAAATAACT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 12 0.20
66 49 0.80
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.51
Consensus pattern (66 bp):
TATGATAGCATAAGATGTTGCTGCATGTTAATTTTTATTGTAATTTTTTTAAAAAGTAATTATTT
G
Found at i:132784 original size:4 final size:4
Alignment explanation
Indices: 132777--132803 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
132767 CACATGCATA
132777 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
132804 TGATTCTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:138056 original size:4 final size:4
Alignment explanation
Indices: 138047--138091 Score: 74
Period size: 4 Copynumber: 11.2 Consensus size: 4
138037 ATATGATTTA
138047 TATG TATG TATG TATG TATG TAAT- TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG T-ATG TATG TATG TATG TATG TATG T
138092 TACCTTTCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 2 0.05
4 35 0.90
5 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:144837 original size:2 final size:2
Alignment explanation
Indices: 144830--144858 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
144820 CAAAGACAAC
144830 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
144859 ACTTGTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:145232 original size:30 final size:28
Alignment explanation
Indices: 145173--145234 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 28
145163 ACGTGTATAT
**
145173 TTTTTTTATTTTTTAATTATATGTTGAC
1 TTTTTTTATTTTTTAATTATAACTTGAC
*
145201 TTTTTTTATTTTTTAATTGTCAACTTAGAC
1 TTTTTTTATTTTTTAATTAT-AACTT-GAC
145231 TTTT
1 TTTT
145235 AGTAATGGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 19 0.66
29 3 0.10
30 7 0.24
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.66
Consensus pattern (28 bp):
TTTTTTTATTTTTTAATTATAACTTGAC
Found at i:149580 original size:2 final size:2
Alignment explanation
Indices: 149573--149604 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
149563 CAAATCTCAT
149573 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
149605 GTTTTAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:149668 original size:22 final size:23
Alignment explanation
Indices: 149619--149678 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
149609 TAAAGTGTTT
*
149619 AAATGTAGTATTTTATTAATAAA
1 AAATATAGTATTTTATTAATAAA
149642 AAATATAGTATTTTATTAAT-AA
1 AAATATAGTATTTTATTAATAAA
149664 AAATATAGTATTTTA
1 AAATATAGTATTTTA
149679 CACATTATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 17 0.47
23 19 0.53
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (23 bp):
AAATATAGTATTTTATTAATAAA
Found at i:149945 original size:2 final size:2
Alignment explanation
Indices: 149938--149962 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
149928 TAAAAGAGTG
149938 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
149963 CAAATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:156205 original size:23 final size:23
Alignment explanation
Indices: 156146--156197 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
156136 CTCGTATAAA
156146 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAT
* *
156169 TGCACTGTAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCGCGTAGAAT
156192 TGCACC
1 TGCACC
156198 AAATTGCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.29, T:0.21
Consensus pattern (23 bp):
TGCACCGAAGTGCCGCGTAGAAT
Found at i:157249 original size:4 final size:4
Alignment explanation
Indices: 157240--157482 Score: 441
Period size: 4 Copynumber: 60.8 Consensus size: 4
157230 TTATATTCAT
157240 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
157288 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
157336 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
157384 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
* * * * *
157432 ACAC GCAC GCAC GCAC GCAC GCAC ACAC ACAC ACAC ACAC ACAC ACAC
1 ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC
157480 ACA
1 ACA
157483 TATCAATGAT
Statistics
Matches: 237, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 237 1.00
ACGTcount: A:0.48, C:0.50, G:0.02, T:0.00
Consensus pattern (4 bp):
ACAC
Found at i:157691 original size:20 final size:20
Alignment explanation
Indices: 157666--157703 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
157656 TTCCCCTTGA
*
157666 AGTGTATTGATACATTCTAC
1 AGTGTATCGATACATTCTAC
*
157686 AGTGTATCGATGCATTCT
1 AGTGTATCGATACATTCT
157704 TTAACATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (20 bp):
AGTGTATCGATACATTCTAC
Found at i:160104 original size:34 final size:33
Alignment explanation
Indices: 160065--160135 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
160055 TTTTGTAAAG
* *
160065 GGGAAATGTTCTAGTTAAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGTTAAGCCCGTG-AAAAACTA
*
160099 GGGAAAGGTTCTAGTTTAGCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGTTAAGCCCGTGAAAAACTA
160132 GGGA
1 GGGA
160136 GTTTGTAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (33 bp):
GGGAAAGGTTCTAGTTAAGCCCGTGAAAAACTA
Found at i:162163 original size:18 final size:18
Alignment explanation
Indices: 162134--162196 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
162124 TTTTCATATA
162134 TTTTTCAACAATTGGTATC
1 TTTTT-AACAATTGGTATC
* *
162153 TTTTTAGCAATTGATATCC
1 TTTTTAACAATTGGTAT-C
*
162172 TTTTATTAACAATTAGTATC
1 -TTT-TTAACAATTGGTATC
162192 TTTTT
1 TTTTT
162197 CAGTAAACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
18 12 0.33
19 9 0.25
20 4 0.11
21 11 0.31
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (18 bp):
TTTTTAACAATTGGTATC
Found at i:162619 original size:20 final size:22
Alignment explanation
Indices: 162581--162620 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
162571 TTTTTACAGA
162581 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
162603 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
162621 AGATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:162875 original size:34 final size:33
Alignment explanation
Indices: 162836--162906 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
162826 TTTTGTAAAG
162836 GGGAAATGTTATAGCTAAGCCCGTGTAAAAGCTA
1 GGGAAATGTTATAGCTAAGCCCGTG-AAAAGCTA
* * * *
162870 GGGAAATGTTCTAGTTTAGCCCGTGAAAATCTA
1 GGGAAATGTTATAGCTAAGCCCGTGAAAAGCTA
162903 GGGA
1 GGGA
162907 GTTTGTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 11 0.33
34 22 0.67
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.25
Consensus pattern (33 bp):
GGGAAATGTTATAGCTAAGCCCGTGAAAAGCTA
Found at i:163406 original size:15 final size:15
Alignment explanation
Indices: 163380--163415 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
163370 CTCCATTGAT
163380 AGTACTCCGACAGTTC
1 AGTAC-CCGACAGTTC
163396 AGTACCCGACAGTTC
1 AGTACCCGACAGTTC
163411 A-TACC
1 AGTACC
163416 AGCTACCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.20
15 11 0.55
16 5 0.25
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (15 bp):
AGTACCCGACAGTTC
Found at i:166054 original size:24 final size:24
Alignment explanation
Indices: 166003--166054 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
165993 TAATGGCGGT
* *
166003 CAGGCCTCGAGAAAGGCTGGCGGT
1 CAGGCCTCGAGAAAGGCTGGCCGC
** *
166027 CAGGCCTCGAGAGGGGTTGGCCGC
1 CAGGCCTCGAGAAAGGCTGGCCGC
166051 CAGG
1 CAGG
166055 GCAGACGCGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (24 bp):
CAGGCCTCGAGAAAGGCTGGCCGC
Found at i:180496 original size:14 final size:14
Alignment explanation
Indices: 180477--180503 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
180467 TCTATGCATT
180477 TTTGCATTATATTC
1 TTTGCATTATATTC
180491 TTTGCATTATATT
1 TTTGCATTATATT
180504 ATTTATTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTGCATTATATTC
Found at i:183740 original size:14 final size:14
Alignment explanation
Indices: 183729--183767 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
183719 GCCTAAAATA
183729 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
183743 AAAGAAAAAGAAAAAGG
1 AAAG-AAAA-AAAAA-G
183760 AAAGAAAA
1 AAAGAAAA
183768 TGAGAGGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 9 0.41
17 5 0.23
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:183741 original size:10 final size:10
Alignment explanation
Indices: 183723--183767 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
183713 TATTACGCCT
*
183723 AAAATAAAAG
1 AAAAAAAAAG
183733 AAAAAAAAAG
1 AAAAAAAAAG
*
183743 AAAGAAAAAG
1 AAAAAAAAAG
*
183753 AAAAAGGAAAG
1 AAAAA-AAAAG
183764 AAAA
1 AAAA
183768 TGAGAGGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:183762 original size:17 final size:15
Alignment explanation
Indices: 183729--183767 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
183719 GCCTAAAATA
183729 AAAG-AAAAAAAAAG
1 AAAGAAAAAAAAAAG
183743 AAAGAAAAAGAAAAAGG
1 AAAGAAAAA-AAAAA-G
183760 AAAGAAAA
1 AAAGAAAA
183768 TGAGAGGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 4 0.18
16 5 0.23
17 9 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAG
Found at i:184959 original size:136 final size:136
Alignment explanation
Indices: 184700--185007 Score: 429
Period size: 136 Copynumber: 2.3 Consensus size: 136
184690 TGAACTGATC
*
184700 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCACCCGACAAAGGGAAAAGAAGTTCATAA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCACCCGACAAAGGGAAAAGAAGTTCATAA
* ** * * * * *
184765 TGAGAATAGCTTGTTCAATTTATCACTCGATTCACGACATTTCGAATTAGTGGCGCCTCGCTTGA
66 TGAGAAGAGCTTGTTCAACCTATCACTCGATTCACGACATTTCAAATCAGCGACGCCTCACTTGA
*
184830 GGGATT
131 AGGATT
* * *
184836 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-AAGTGGGAGAAGAAGTTCATA
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCACCCGACAA-AGGGAAAAGAAGTTCATA
* * * * * *
184900 ATGAGAAGAGCTTGTTCGACCTATCGCTCGATTCACGATATTTTAAATCAGCGATGCCTCACTTT
65 ATGAGAAGAGCTTGTTCAACCTATCACTCGATTCACGACATTTCAAATCAGCGACGCCTCACTTG
184965 AAGGATT
130 AAGGATT
184972 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACT
1 AACATTTCAAATGGAGAGTTCATAATGAGAAGAACT
185008 TGTTCGACCT
Statistics
Matches: 152, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
135 2 0.01
136 150 0.99
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (136 bp):
AACATTTCAAATGGAGAGTTCATAATGAGAAGAACTCACCCGACAAAGGGAAAAGAAGTTCATAA
TGAGAAGAGCTTGTTCAACCTATCACTCGATTCACGACATTTCAAATCAGCGACGCCTCACTTGA
AGGATT
Found at i:185057 original size:96 final size:96
Alignment explanation
Indices: 184892--185097 Score: 295
Period size: 96 Copynumber: 2.1 Consensus size: 96
184882 TGGGAGAAGA
* * * *
184892 AGTTCATAATGAGAAGAGCTTGTTCGACCTATCGCTCGATTCACGATATTTTAAATCAGCGATGC
1 AGTTCATAATGAGAAGAACTTGTTCGACCTATCGCTCGATTCACAATATTTTAAAGCAGCAATGC
*
184957 CTCACTTTAAGGATTAACATTTCAAATGGAG
66 CTCACTTGAAGGATTAACATTTCAAATGGAG
* * *
184988 AGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTTGAAGCAGCAATGT
1 AGTTCATAATGAGAAGAACTTGTTCGACCTATCGCTCGATTCACAATATTTTAAAGCAGCAATGC
* * * * *
185053 CTCACTTGAGGGATTGATATTTCCATTGGAG
66 CTCACTTGAAGGATTAACATTTCAAATGGAG
185084 AGTTCATAATGAGA
1 AGTTCATAATGAGA
185098 GAATCTCCTC
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (96 bp):
AGTTCATAATGAGAAGAACTTGTTCGACCTATCGCTCGATTCACAATATTTTAAAGCAGCAATGC
CTCACTTGAAGGATTAACATTTCAAATGGAG
Found at i:185271 original size:137 final size:137
Alignment explanation
Indices: 184988--185347 Score: 449
Period size: 137 Copynumber: 2.6 Consensus size: 137
184978 TCAAATGGAG
* * * * *
184988 AGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTTGAAGCAGCAATGT
1 AGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTCGAATCAGTAACGC
* * ** * *
185053 CTCACTTGAGGGATTGATA-TTTCCATTGGAGAGTTCATAATGAGAGAATCTCCTCCGAAAGAGG
66 CTCACTTAAGGGATTGACATTTTAAAATGGAGAGTTCATAATGAGAGAATCTCATCCGAAAGAGG
185117 GAGAGAA
131 GAGAGAA
* * * ** * * *
185124 AGTTTATAATGAGAAGAACTTATTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGC
1 AGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTCGAATCAGTAACGC
*
185189 CTCGCTTAAGGGATTGACATTTTAAAATGGAGAGTTCATAATGAGAAGAA-CTCATCCGACAA-A
66 CTCACTTAAGGGATTGACATTTTAAAATGGAGAGTTCATAATGAG-AGAATCTCATCCGA-AAGA
185252 GGGAGA-AGA
129 GGGAGAGA-A
* * *
185261 AGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACAC
1 AGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTCGAATCAGTAACGC
*
185326 CTCACTTAAGGGATTAACATTT
66 CTCACTTAAGGGATTGACATTT
185348 CCAAAAGAAA
Statistics
Matches: 187, Mismatches: 33, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
136 69 0.37
137 112 0.60
138 6 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (137 bp):
AGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTCGATTCACAATATTTCGAATCAGTAACGC
CTCACTTAAGGGATTGACATTTTAAAATGGAGAGTTCATAATGAGAGAATCTCATCCGAAAGAGG
GAGAGAA
Found at i:185388 original size:369 final size:370
Alignment explanation
Indices: 184700--185586 Score: 1101
Period size: 369 Copynumber: 2.4 Consensus size: 370
184690 TGAACTGATC
*
184700 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCAC-CCGACAA-AGGGAAAAGAAGTTCAT
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTC-CTCCGACAAGAGGGAGAAGAAGTTCAT
* * ** ** * *
184763 AATGAGAATAGCTTGTTCAATTTATCACTCGATTCACGACATTTCGAATTAGTGGCGCCTCGCTT
65 AATGAGAAGAACTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTT
* * *
184828 GAGGGATTAACA-TTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGTGGGAGAAGA
130 AAGGGATTAACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGA
* * * * * * **
184892 AGTTCATAATGAGAAGAGCTTGTTCGACCTATCGCTCGATTCACGATATTTTAAATCAGCGATGC
195 AGTTCATAATGAGAAGAACTTGTTCGACCTATCGCTAGATTCACAATACTTCAAATCAGCAACAC
* * ** * **
184957 CTCACTTTAAGGATTAACATTTCAAATGGAGAGTTCATAATGAGAAGAACTTGTTCGACCTATTG
260 CTCACTTTAAGGATTAACATTTCAAATAGAAAAATCACAATGAGAAGAACTTGTTCGACCTATCA
* *
185022 CTCGATTCACAATATTTTGAAGCAGCAATGTCTCACTTGAGGGATT
325 CTCGATTCACAATATTTTGAAGCAGCAACGCCTCACTTGAGGGATT
* * * *
185068 GATATTTCCATTGGAGAGTTCATAATGAG-AGAATCTCCTCCGA-AAGAGGGAG-AGAAAGTTTA
1 AACATTTCCAATGGAGAGTTCATAATGAGAAGAA-CTCCTCCGACAAGAGGGAGAAG-AAGTTCA
*
185130 TAATGAGAAGAACTTATTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCT
64 TAATGAGAAGAACTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCT
*
185195 TAAGGGATTGACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAA-AGGGAGAA
129 TAAGGGATTAACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGA-AAGAGGGAGAA
* * *
185259 GAAGTTCATAATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAAC
193 GAAGTTCATAATGAGAAGAACTTGTTCGACCTATCGCTAGATTCACAATACTTCAAATCAGCAAC
* * *
185324 ACCTCAC-TTAAGGGATTAACATTTCCAAA-AGAAAAATCACGATGAGAAGAATTTGTTTGACCT
258 ACCTCACTTTAA-GGATTAACATTT-CAAATAGAAAAATCACAATGAGAAGAACTTGTTCGACCT
* * ** **
185387 ATCACTCGATTCACGATATTTTGAATCAGTGACGCCTTGCTTGAGGGATT
321 ATCACTCGATTCACAATATTTTGAAGCAGCAACGCCTCACTTGAGGGATT
* * *
185437 AACATTTTCAAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAAG-GGGAGAAGAAGTTCAT
1 AACA-TTTCCAATGGAGAGTTCATAATGAGAAGAACTCCTCCGACAAGAGGGAGAAGAAGTTCAT
** * * * * * *
185501 AATGAGAAGAACTTGTTTGACCTATTGCTAGATTCACAACACTTCGAATCAGTAACACCTCACTT
65 AATGAGAAGAACTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTT
*
185566 AAGGGATCAACATTTTTAAAA
130 AAGGGATTAACA-TTTTAAAA
185587 GAAAAATCAC
Statistics
Matches: 442, Mismatches: 64, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
367 9 0.02
368 115 0.26
369 186 0.42
370 115 0.26
371 17 0.04
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (370 bp):
AACATTTCCAATGGAGAGTTCATAATGAGAAGAACTCCTCCGACAAGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTTGACCTATCACTCGATTCACGACATTTCGAATCAGTGACGCCTCGCTTA
AGGGATTAACATTTTAAAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGGGAGAAGAA
GTTCATAATGAGAAGAACTTGTTCGACCTATCGCTAGATTCACAATACTTCAAATCAGCAACACC
TCACTTTAAGGATTAACATTTCAAATAGAAAAATCACAATGAGAAGAACTTGTTCGACCTATCAC
TCGATTCACAATATTTTGAAGCAGCAACGCCTCACTTGAGGGATT
Found at i:185434 original size:96 final size:96
Alignment explanation
Indices: 185269--185448 Score: 234
Period size: 96 Copynumber: 1.9 Consensus size: 96
185259 GAAGTTCATA
**
185269 ATGAGAAGAACTTGTTCGACCTATTGCTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
1 ATGAGAAGAACTTGTTCGACCTATCACTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
185334 AGGGATTAACATTTCCAAAAGAAAAATCACG
66 AGGGATTAACATTTCCAAAAGAAAAATCACG
* * * * * * * * ** *
185365 ATGAGAAGAATTTGTTTGACCTATCACTCGATTCACGATATTTTGAATCAGTGACGCCTTGCTTG
1 ATGAGAAGAACTTGTTCGACCTATCACTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
*
185430 AGGGATTAACATTTTCAAA
66 AGGGATTAACATTTCCAAA
185449 TGGAGAGTTC
Statistics
Matches: 70, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (96 bp):
ATGAGAAGAACTTGTTCGACCTATCACTAGATTCACAATACTTCGAATCAGTAACACCTCACTTA
AGGGATTAACATTTCCAAAAGAAAAATCACG
Done.