Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_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: 3026330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 14
Found at i:226674 original size:21 final size:21
Alignment explanation
Indices: 226650--226716 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
226640 TTTTTTTAGT
226650 GAGCTTAATA-AGCAACGAGTC
1 GAGCTTAA-AGAGCAACGAGTC
226671 GAGCTTAAAGAGCAACGAGTC
1 GAGCTTAAAGAGCAACGAGTC
* *
226692 GAGCCTAAAGAGAAACGAGTC
1 GAGCTTAAAGAGCAACGAGTC
226713 GAGC
1 GAGC
226717 CGAGTTGAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 1 0.02
21 42 0.98
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.13
Consensus pattern (21 bp):
GAGCTTAAAGAGCAACGAGTC
Found at i:227714 original size:37 final size:38
Alignment explanation
Indices: 227646--227727 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 38
227636 CCTAAATCCT
* *
227646 ACCCGAATATCACACTTAAAAAAATTCAACCCGACTCG
1 ACCCGAATATCACACTTAAAAAAATCCAACCCGACCCG
227684 ACCCGAATATCACACTT-AAAAAATCCAACCCGACCCG
1 ACCCGAATATCACACTTAAAAAAATCCAACCCGACCCG
227721 ACCCGAA
1 ACCCGAA
227728 ATAATAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
37 25 0.60
38 17 0.40
ACGTcount: A:0.41, C:0.35, G:0.09, T:0.15
Consensus pattern (38 bp):
ACCCGAATATCACACTTAAAAAAATCCAACCCGACCCG
Found at i:229212 original size:11 final size:11
Alignment explanation
Indices: 229196--229236 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
229186 TCGACAAAGT
229196 TTTCTAAGTTG
1 TTTCTAAGTTG
229207 TTTCTAAG-T-
1 TTTCTAAGTTG
*
229216 TATCTAAGTTG
1 TTTCTAAGTTG
229227 TTTCTAAGTT
1 TTTCTAAGTT
229237 ATCTCTAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 7 0.27
10 2 0.08
11 17 0.65
ACGTcount: A:0.22, C:0.10, G:0.15, T:0.54
Consensus pattern (11 bp):
TTTCTAAGTTG
Found at i:229221 original size:20 final size:20
Alignment explanation
Indices: 229192--229240 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
229182 ATGCTCGACA
*
229192 AAGTTTTCTAAGTTGTTTCT
1 AAGTTATCTAAGTTGTTTCT
229212 AAGTTATCTAAGTTGTTTCT
1 AAGTTATCTAAGTTGTTTCT
229232 AAGTTATCT
1 AAGTTATCT
229241 CTAGTAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.51
Consensus pattern (20 bp):
AAGTTATCTAAGTTGTTTCT
Found at i:229243 original size:11 final size:11
Alignment explanation
Indices: 229196--229243 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
229186 TCGACAAAGT
*
229196 TTTCTAAGTTG
1 TTTCTAAGTTA
229207 TTTCTAAGTTA
1 TTTCTAAGTTA
*
229218 --TCTAAGTTG
1 TTTCTAAGTTA
229227 TTTCTAAGTTA
1 TTTCTAAGTTA
*
229238 TCTCTA
1 TTTCTA
229244 GTAAGAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 8 0.26
11 23 0.74
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.52
Consensus pattern (11 bp):
TTTCTAAGTTA
Found at i:230033 original size:9 final size:9
Alignment explanation
Indices: 230019--230047 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
230009 TTTGTCTTCC
230019 TCAATTGGT
1 TCAATTGGT
230028 TCAATTGGT
1 TCAATTGGT
230037 TCAATT-GT
1 TCAATTGGT
230045 TCA
1 TCA
230048 CTGCTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (9 bp):
TCAATTGGT
Found at i:230594 original size:14 final size:15
Alignment explanation
Indices: 230565--230596 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
230555 AAATAATTAA
230565 AATAATATATTTTAT
1 AATAATATATTTTAT
230580 AATAATATA-TTTAT
1 AATAATATATTTTAT
230594 AAT
1 AAT
230597 TATTTAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATATATTTTAT
Found at i:230636 original size:29 final size:27
Alignment explanation
Indices: 230555--230638 Score: 66
Period size: 27 Copynumber: 3.0 Consensus size: 27
230545 TAATATTTTA
230555 AAATAATTAAAATAATATATTTTATAAT
1 AAATAATT-AAATAATATATTTTATAAT
* *
230583 -AATATATT-TATAAT-TATTTAGTATATT
1 AAATA-ATTAAATAATATATTT--TATAAT
*
230610 CAAATAATTAGATTAATATATTTTATAAT
1 -AAATAATTA-AATAATATATTTTATAAT
230639 GATTTTATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 15
0.68 0.08 0.24
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 9 0.21
28 6 0.14
29 9 0.21
30 4 0.09
31 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (27 bp):
AAATAATTAAATAATATATTTTATAAT
Found at i:230637 original size:21 final size:20
Alignment explanation
Indices: 230582--230638 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
230572 TATTTTATAA
*
230582 TAATATA-TTTATAATTATT
1 TAATATATTTTATAATTAAT
* **
230601 TAGTATATTCAAATAATTAGAT
1 TAATATATT-TTATAATTA-AT
230623 TAATATATTTTATAAT
1 TAATATATTTTATAAT
230639 GATTTTATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
19 6 0.21
20 1 0.04
21 12 0.43
22 9 0.32
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
TAATATATTTTATAATTAAT
Found at i:230657 original size:41 final size:41
Alignment explanation
Indices: 230580--230679 Score: 107
Period size: 41 Copynumber: 2.4 Consensus size: 41
230570 TATATTTTAT
* *
230580 AATAATATA-TTTATAATTATTTAGTATATTCAAATAATTA
1 AATAATATATTTTATAATGATTTAGTATATTCAAATAAATA
* *
230620 GATTAATATATTTTATAATGATTTTA-TATTTTC-AATAAATA
1 -AATAATATATTTTATAATGA-TTTAGTATATTCAAATAAATA
*
230661 AACAATATATTTTAATAAT
1 AATAATATATTTT-ATAAT
230680 ATAAAAATAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
40 11 0.22
41 20 0.40
42 15 0.30
43 4 0.08
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (41 bp):
AATAATATATTTTATAATGATTTAGTATATTCAAATAAATA
Found at i:230688 original size:21 final size:22
Alignment explanation
Indices: 230644--230688 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
230634 ATAATGATTT
230644 TATATTTTCAATAAATAAACAA
1 TATATTTTCAATAAATAAACAA
230666 TATATTTT-AATAATATAAA-AA
1 TATATTTTCAATAA-ATAAACAA
230687 TA
1 TA
230689 AAGGTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TATATTTTCAATAAATAAACAA
Found at i:239317 original size:3 final size:3
Alignment explanation
Indices: 239309--239386 Score: 83
Period size: 3 Copynumber: 27.0 Consensus size: 3
239299 GGCATGTTTG
*
239309 TAA TAA TAA T-T TAA TAA TAA T-A TAA T-A TAA TAA T-A TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* **
239351 TAT TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
239387 AAACAAAATG
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
2 7 0.11
3 52 0.84
4 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:239339 original size:24 final size:25
Alignment explanation
Indices: 239309--239382 Score: 96
Period size: 27 Copynumber: 2.9 Consensus size: 25
239299 GGCATGTTTG
239309 TAATAATAATTTAATAATAATATAA
1 TAATAATAATTTAATAATAATATAA
* *
239334 T-ATAATAATATATATAATATTAATAA
1 TAATAATAATTTA-ATAATAAT-ATAA
239360 TAATAATAATTTTAATAATAATA
1 TAATAATAA-TTTAATAATAATA
239383 ATAAAAACAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
24 10 0.24
25 8 0.20
26 6 0.15
27 14 0.34
28 3 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
TAATAATAATTTAATAATAATATAA
Found at i:239359 original size:18 final size:17
Alignment explanation
Indices: 239309--239382 Score: 98
Period size: 18 Copynumber: 4.3 Consensus size: 17
239299 GGCATGTTTG
239309 TAATAATAAT-TTAATAA
1 TAAT-ATAATATTAATAA
239326 TAATATAATA-TAATAA
1 TAATATAATATTAATAA
239342 TATATATAATATTAATAA
1 TA-ATATAATATTAATAA
*
239360 TAATAATAATTTTAATAA
1 TAAT-ATAATATTAATAA
239378 TAATA
1 TAATA
239383 ATAAAAACAA
Statistics
Matches: 52, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
16 13 0.25
17 15 0.29
18 24 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATATAATATTAATAA
Found at i:240003 original size:36 final size:37
Alignment explanation
Indices: 239894--240169 Score: 272
Period size: 36 Copynumber: 7.6 Consensus size: 37
239884 TTTCGAGTGA
*
239894 AAGCGAGACAAA-TTTTGTTTTAAGAAAAACAATCTC
1 AAGCGAGATAAAGTTTTGTTTTAAGAAAAACAATCTC
* * ** ** **
239930 AAGTGAGATAAAGTTCTGTTTCGAGTGAAACTGTCTC
1 AAGCGAGATAAAGTTTTGTTTTAAGAAAAACAATCTC
239967 AAGCGAGATAAA-TTTTGTTTTAAGAAAAACAATCTC
1 AAGCGAGATAAAGTTTTGTTTTAAGAAAAACAATCTC
* * ** ** **
240003 AAGTGAGATAAAGTTCTGTTTCGAGTGAAACTGTCTC
1 AAGCGAGATAAAGTTTTGTTTTAAGAAAAACAATCTC
* *
240040 AAGCGAGACAAA-TTTTGTTTTAAGAAAAATAATCTC
1 AAGCGAGATAAAGTTTTGTTTTAAGAAAAACAATCTC
* * ** ** *
240076 AAGTGAGATAAAGTTATGTTTCGAGTGAAACTATCTC
1 AAGCGAGATAAAGTTTTGTTTTAAGAAAAACAATCTC
*
240113 AAGCGAGACAAA-TTTTGTTTTAAGAAAAACAATCTC
1 AAGCGAGATAAAGTTTTGTTTTAAGAAAAACAATCTC
*
240149 AAGTGAGATAAAGTTTTGTTT
1 AAGCGAGATAAAGTTTTGTTT
240170 AAACATCCTG
Statistics
Matches: 182, Mismatches: 54, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
36 92 0.51
37 90 0.49
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (37 bp):
AAGCGAGATAAAGTTTTGTTTTAAGAAAAACAATCTC
Found at i:240013 original size:73 final size:73
Alignment explanation
Indices: 239894--240169 Score: 507
Period size: 73 Copynumber: 3.8 Consensus size: 73
239884 TTTCGAGTGA
239894 AAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAA
1 AAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAA
239959 ACTGTCTC
66 ACTGTCTC
*
239967 AAGCGAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAA
1 AAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAA
240032 ACTGTCTC
66 ACTGTCTC
* *
240040 AAGCGAGACAAATTTTGTTTTAAGAAAAATAATCTCAAGTGAGATAAAGTTATGTTTCGAGTGAA
1 AAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAA
*
240105 ACTATCTC
66 ACTGTCTC
*
240113 AAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTTTGTTT
1 AAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTT
240170 AAACATCCTG
Statistics
Matches: 196, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 196 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (73 bp):
AAGCGAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAGTTCTGTTTCGAGTGAA
ACTGTCTC
Found at i:240171 original size:36 final size:36
Alignment explanation
Indices: 239898--240169 Score: 265
Period size: 37 Copynumber: 7.4 Consensus size: 36
239888 GAGTGAAAGC
*
239898 GAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGT
1 GAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGT
* ** ** ** *
239934 GAGATAAAGTTCTGTTTCGAGTGAAACTGTCTCAAGC
1 GAGATAAA-TTTTGTTTTAAGAAAAACAATCTCAAGT
239971 GAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGT
1 GAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGT
* ** ** ** *
240007 GAGATAAAGTTCTGTTTCGAGTGAAACTGTCTCAAGC
1 GAGATAAA-TTTTGTTTTAAGAAAAACAATCTCAAGT
* *
240044 GAGACAAATTTTGTTTTAAGAAAAATAATCTCAAGT
1 GAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGT
* ** ** * *
240080 GAGATAAAGTTATGTTTCGAGTGAAACTATCTCAAGC
1 GAGATAAA-TTTTGTTTTAAGAAAAACAATCTCAAGT
*
240117 GAGACAAATTTTGTTTTAAGAAAAACAATCTCAAGT
1 GAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGT
240153 GAGATAAAGTTTTGTTT
1 GAGATAAA-TTTTGTTT
240170 AAACATCCTG
Statistics
Matches: 179, Mismatches: 53, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
36 89 0.50
37 90 0.50
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.32
Consensus pattern (36 bp):
GAGATAAATTTTGTTTTAAGAAAAACAATCTCAAGT
Found at i:240901 original size:22 final size:22
Alignment explanation
Indices: 240876--240952 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
240866 AATAAAGCTT
240876 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
240898 TCATCTTT-AAAACGAGAATCTA
1 TCATCTTTGAAAA-GAGAATCTA
* *
240920 TCATCTTTGAAAAGATAATATA
1 TCATCTTTGAAAAGAGAATCTA
240942 TCATCTTTGAA
1 TCATCTTTGAA
240953 GAGTGTAGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.08
22 43 0.84
23 4 0.08
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:250193 original size:26 final size:28
Alignment explanation
Indices: 250164--250220 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
250154 AAATACTTGC
*
250164 AAATAAAAT-GAAATAATAA-TATATAT
1 AAATAAAATAAAAATAATAAGTATATAT
**
250190 AAATACTATAAAAATAATAAGTATATAT
1 AAATAAAATAAAAATAATAAGTATATAT
250218 AAA
1 AAA
250221 AAATTTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.27
27 9 0.35
28 10 0.38
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (28 bp):
AAATAAAATAAAAATAATAAGTATATAT
Found at i:252291 original size:3 final size:3
Alignment explanation
Indices: 252283--252372 Score: 89
Period size: 3 Copynumber: 31.0 Consensus size: 3
252273 GGCCTGTTTG
*
252283 TAA TAA TAA T-T TAA TAA TAA T-A TAA T-A TAA TAA T-A TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * ** *
252325 TAT TAA TAA TAA TAT TAA TAA TAA TAA TTT TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
252373 AAAAATGAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
2 7 0.10
3 62 0.86
4 3 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:254196 original size:23 final size:23
Alignment explanation
Indices: 254170--254236 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
254160 CCACAGCTCA
254170 TATAATTGCACCGAAGTGCCACG
1 TATAATTGCACCGAAGTGCCACG
** *
254193 TATAATTGCACCGGTGTGCCGCG
1 TATAATTGCACCGAAGTGCCACG
* *
254216 TAGAATTGCACCGTAGTGCCA
1 TATAATTGCACCGAAGTGCCA
254237 TATAATAATG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (23 bp):
TATAATTGCACCGAAGTGCCACG
Found at i:255698 original size:17 final size:16
Alignment explanation
Indices: 255667--255700 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
255657 CACGTGAGGA
255667 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
255683 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
255700 T
1 T
255701 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:262077 original size:20 final size:20
Alignment explanation
Indices: 262052--262089 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
262042 TTCTTTTATA
262052 TCTTTCATTATTAA-TTTTTC
1 TCTTTCATT-TTAACTTTTTC
262072 TCTTTCATTTTAACTTTT
1 TCTTTCATTTTAACTTTT
262090 ACCTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (20 bp):
TCTTTCATTTTAACTTTTTC
Found at i:262095 original size:19 final size:20
Alignment explanation
Indices: 262052--262095 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
262042 TTCTTTTATA
*
262052 TCTTTCATTATTAATTTTTC
1 TCTTTCATTATTAATTTTAC
262072 TCTTTCATT-TTAACTTTTAC
1 TCTTTCATTATTAA-TTTTAC
262092 -CTTT
1 TCTTT
262096 TCTCTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (20 bp):
TCTTTCATTATTAATTTTAC
Found at i:265957 original size:17 final size:16
Alignment explanation
Indices: 265926--265959 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
265916 CACGTGAGGA
265926 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
265942 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
265959 T
1 T
265960 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:267288 original size:64 final size:64
Alignment explanation
Indices: 267216--267372 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 64
267206 TTCCCTATCG
* * * ** *
267216 GTGCATCGATGCACTACCTGTGCATCGGTGCATAAAATACATTCGATGTTTGTT-TATT-ACTGG
1 GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTT-TTAGATTAAAAGA
* * * * *
267279 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTTTTAGATTAAAAG
1 G-TGCATCGATGCACTACC-TGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAG
267343 A
64 A
*
267344 GTGCATCGATGCACTACTTGTGCATCGAT
1 GTGCATCGATGCACTACCTGTGCATCGAT
267373 ACACCTTCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
63 6 0.08
64 64 0.85
65 5 0.07
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (64 bp):
GTGCATCGATGCACTACCTGTGCATCGATGCACAAAATACATTCGATGTTTTTAGATTAAAAGA
Found at i:270569 original size:33 final size:33
Alignment explanation
Indices: 270532--270645 Score: 131
Period size: 33 Copynumber: 3.5 Consensus size: 33
270522 GGTGTCTAAA
* *
270532 CCTCCGCCAGTTCCAGTATATGAA-AAACCACTT
1 CCTCCGCCAGTTCCAATATAT-AAGAAACCACAT
* * * *
270565 CCTCCACCAGTTCCAAAATACAAGAAGCCACAT
1 CCTCCGCCAGTTCCAATATATAAGAAACCACAT
*
270598 CCTCCGCCAGTTCCAATCTATAAGAAACCACAT
1 CCTCCGCCAGTTCCAATATATAAGAAACCACAT
* *
270631 CCACCTCCAGTTCCA
1 CCTCCGCCAGTTCCA
270646 GCTTACAAGC
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
32 2 0.03
33 65 0.97
ACGTcount: A:0.32, C:0.38, G:0.10, T:0.20
Consensus pattern (33 bp):
CCTCCGCCAGTTCCAATATATAAGAAACCACAT
Found at i:270731 original size:33 final size:33
Alignment explanation
Indices: 270671--270764 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 33
270661 GTCAATAAAT
*
270671 CTCCTCCAGTCCCCATATACAAGAAACCACAT-C
1 CTCCTCCAGTTCCCATATACAAGAAACCA-ATAC
** * * *
270704 CTCCTCCAGTTCCTGTATATAATAAACCATTAC
1 CTCCTCCAGTTCCCATATACAAGAAACCAATAC
* *
270737 CTCCGCCAGTT-CCAGTGTACAAGAAACC
1 CTCCTCCAGTTCCCA-TATACAAGAAACC
270765 TCCGACTCCA
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
32 2 0.04
33 45 0.96
ACGTcount: A:0.31, C:0.36, G:0.10, T:0.23
Consensus pattern (33 bp):
CTCCTCCAGTTCCCATATACAAGAAACCAATAC
Found at i:272714 original size:31 final size:31
Alignment explanation
Indices: 272679--272753 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
272669 AAAAAAACAT
272679 AAGATGTGGTCACTTTCACTTTCATTTAATG
1 AAGATGTGGTCACTTTCACTTTCATTTAATG
* * *** * *
272710 AAGATATGGTCATTTTTGTTTTTATTTAATT
1 AAGATGTGGTCACTTTCACTTTCATTTAATG
272741 AAGATGTGGTCAC
1 AAGATGTGGTCAC
272754 CCCGAGTTAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (31 bp):
AAGATGTGGTCACTTTCACTTTCATTTAATG
Found at i:274224 original size:17 final size:17
Alignment explanation
Indices: 274198--274230 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
274188 TTTTGTTTTT
274198 AATTTATTTAAGTATTTA
1 AATTTATTTAA-TATTTA
274216 AATTT-TTTAATATTT
1 AATTTATTTAATATTT
274231 TATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTATTTAATATTTA
Found at i:274232 original size:17 final size:19
Alignment explanation
Indices: 274193--274232 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
274183 TAATATTTTG
*
274193 TTTTTAATTTATTTAAGTA
1 TTTTAAATTTATTTAAGTA
274212 -TTTAAATTT-TTTAA-TA
1 TTTTAAATTTATTTAAGTA
274228 TTTTA
1 TTTTA
274233 TTTAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 2 0.11
17 9 0.47
18 8 0.42
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTAAATTTATTTAAGTA
Found at i:275562 original size:35 final size:32
Alignment explanation
Indices: 275527--275607 Score: 83
Period size: 35 Copynumber: 2.3 Consensus size: 32
275517 TTTGGTTAAT
275527 TTTGTT-TATTACCATTTAATATCAGTTATTGTAA
1 TTTGTTATATTACCATTTAATA-C--TTATTGTAA
275561 TTTGTTTATCATTTACCATTTAATACTTATTGTAA
1 TTTG-TTAT-A-TTACCATTTAATACTTATTGTAA
*
275596 GTTTGTTGTATT
1 -TTTGTTATATT
275608 TAAAATTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
33 2 0.05
34 5 0.12
35 14 0.34
36 5 0.12
37 2 0.05
38 13 0.32
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.56
Consensus pattern (32 bp):
TTTGTTATATTACCATTTAATACTTATTGTAA
Found at i:279544 original size:20 final size:20
Alignment explanation
Indices: 279519--279567 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
279509 TATCTCCAAC
279519 TATATAACCTTACCTTCAGT
1 TATATAACCTTACCTTCAGT
279539 TATATAACCTTACCTTCAGT
1 TATATAACCTTACCTTCAGT
279559 TATATAACC
1 TATATAACC
279568 AACCTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (20 bp):
TATATAACCTTACCTTCAGT
Found at i:280375 original size:21 final size:19
Alignment explanation
Indices: 280333--280376 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
280323 GCCTTATTTG
*
280333 TTTATTAAATTATGTGATA
1 TTTATTAAATCATGTGATA
*
280352 TTTATTATAATCATGCTTATA
1 TTTATTA-AATCATG-TGATA
280373 TTTA
1 TTTA
280377 GGAAGGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 6 0.29
21 8 0.38
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTATTAAATCATGTGATA
Found at i:283349 original size:33 final size:33
Alignment explanation
Indices: 283311--283402 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
283301 CCCGATACAC
*
283311 AAGAAACCACTTCCTCCACCAATTCCATTATAT
1 AAGAAACCACTTCCTCCACCAATTCCAGTATAT
* *
283344 AAGAAACCACTTCCTCCACCAGTTCGAGTATAT
1 AAGAAACCACTTCCTCCACCAATTCCAGTATAT
* * *
283377 AAAAAAACACTTCCTCCACCTATTCC
1 AAGAAACCACTTCCTCCACCAATTCC
283403 TGCATACAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.36, C:0.34, G:0.05, T:0.25
Consensus pattern (33 bp):
AAGAAACCACTTCCTCCACCAATTCCAGTATAT
Found at i:284662 original size:21 final size:19
Alignment explanation
Indices: 284620--284663 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
284610 GCCTTATTTG
*
284620 TTTATTAAATTATGTGATA
1 TTTATTAAATCATGTGATA
*
284639 TTTATTATAATCATGCTTATA
1 TTTATTA-AATCATG-TGATA
284660 TTTA
1 TTTA
284664 GGAAGGGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 6 0.29
21 8 0.38
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTATTAAATCATGTGATA
Found at i:287628 original size:33 final size:33
Alignment explanation
Indices: 287590--287681 Score: 139
Period size: 33 Copynumber: 2.8 Consensus size: 33
287580 CCCGATACAC
*
287590 AAGAAACCACTTCCTCCACCAATTCCATTATAT
1 AAGAAACCACTTCCTCCACCAATTCCAGTATAT
* *
287623 AAGAAACCACTTCCTCCACCAGTTCGAGTATAT
1 AAGAAACCACTTCCTCCACCAATTCCAGTATAT
* *
287656 AAAAAACCACTTCCTCCACCTATTCC
1 AAGAAACCACTTCCTCCACCAATTCC
287682 TGCATACAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.35, C:0.35, G:0.05, T:0.25
Consensus pattern (33 bp):
AAGAAACCACTTCCTCCACCAATTCCAGTATAT
Found at i:288852 original size:312 final size:313
Alignment explanation
Indices: 288457--289041 Score: 1091
Period size: 315 Copynumber: 1.9 Consensus size: 313
288447 TGTATGTCTC
288457 CTCTCTCTCGATTTTGATGGAGAGTTTTTATAGTGATTTTAAGTGTTAATGTTAAGTGTAGATCT
1 CTCTCTCTCGATTTTGATGGAGAGTTTTTATAGTGATTTTAAGTGTTAATGTTAAGTGTAGATCT
*
288522 ATGATCATTATATGTAAGTT-TAAACAAACAAATTTATTTGACGTGATTAACTGTCAATTGATTT
66 ATGATCATTATATGTAAGTTATAAACAAACAAATTTATTGGACGTGATTAACTGTCAATTGATTT
*
288586 TAATAAATTACAGAGAATATTTTAGAAGTTATATCAAAAGATTGTGATTTCTCTAAGGATATAAG
131 TAATAAATCACAGAGAATATTTTAGAAGTTATATCAAAAGATTGTGATTTCTCTAAGGATATAAG
288651 GCTTCGAGTGTCTTATGTCTCGTGCTTAGAAATATTTTTTTGGGGCACTCCTCTCTGAAGGAGGA
196 GCTTCGAGTGTCTTATGTCTCGTGCTTAGAAATATTTTTTTGGGGCACTCCTCTCTGAAGGAGGA
288716 GAGACCATGATGTGTAGAGTGGAGGAGATTCGAAGAACTTGGATGTCTCCTCT
261 GAGACCATGATGTGTAGAGTGGAGGAGATTCGAAGAACTTGGATGTCTCCTCT
*
288769 CTCTCTCTCTATTTTGATGGAGAGTTTTTATAGTGATTTTAAGTGTTAATGTTAAGTGTAGATCT
1 CTCTCTCTCGATTTTGATGGAGAGTTTTTATAGTGATTTTAAGTGTTAATGTTAAGTGTAGATCT
*
288834 ATGATCATTATATGTAAGTTAACTAAACAAACAAATTTATTGGATGTGATTAACTGTCAATTGAT
66 ATGATCATTATATGTAAGTT-A-TAAACAAACAAATTTATTGGACGTGATTAACTGTCAATTGAT
* *
288899 TTTGATAAATCATAGAGAATATTTTAGAAGTTATATCAAAAGATTGTGATTTCTCTAAGGATATA
129 TTTAATAAATCACAGAGAATATTTTAGAAGTTATATCAAAAGATTGTGATTTCTCTAAGGATATA
288964 AGGCTTCGAGTGTCTTATGTCTCGTGCTTAGAAATATTTTTTTGGGGCACTCCTCTCTGAAGGAG
194 AGGCTTCGAGTGTCTTATGTCTCGTGCTTAGAAATATTTTTTTGGGGCACTCCTCTCTGAAGGAG
289029 GAGAGACCATGAT
259 GAGAGACCATGAT
289042 AGGGATGGCA
Statistics
Matches: 264, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
312 84 0.32
315 180 0.68
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (313 bp):
CTCTCTCTCGATTTTGATGGAGAGTTTTTATAGTGATTTTAAGTGTTAATGTTAAGTGTAGATCT
ATGATCATTATATGTAAGTTATAAACAAACAAATTTATTGGACGTGATTAACTGTCAATTGATTT
TAATAAATCACAGAGAATATTTTAGAAGTTATATCAAAAGATTGTGATTTCTCTAAGGATATAAG
GCTTCGAGTGTCTTATGTCTCGTGCTTAGAAATATTTTTTTGGGGCACTCCTCTCTGAAGGAGGA
GAGACCATGATGTGTAGAGTGGAGGAGATTCGAAGAACTTGGATGTCTCCTCT
Found at i:290087 original size:19 final size:18
Alignment explanation
Indices: 290052--290097 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
290042 GATCCTTAAT
*
290052 TTTTTATTACATTTTTTA
1 TTTTTATAACATTTTTTA
290070 TTTTTATAACATTTTTTTA
1 TTTTTATAACA-TTTTTTA
*
290089 TCTTTATAA
1 TTTTTATAA
290098 TTAATACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATAACATTTTTTA
Found at i:290436 original size:14 final size:15
Alignment explanation
Indices: 290407--290442 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
290397 ATATGGATTG
290407 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
290422 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
290436 ATTTATT
1 ATTTATT
290443 AGTATGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:290461 original size:22 final size:22
Alignment explanation
Indices: 290445--290490 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
290435 AATTTATTAG
290445 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
290467 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
290489 TA
1 TA
290491 ATTTATTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:290486 original size:54 final size:54
Alignment explanation
Indices: 290422--290753 Score: 628
Period size: 54 Copynumber: 6.1 Consensus size: 54
290412 TTTTAAAATA
290422 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
290476 ATTTATTTTAAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
290531 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
290585 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
290639 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
290693 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
290747 ATTTATT
1 ATTTATT
290754 ATTGTAGTTG
Statistics
Matches: 273, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
54 220 0.81
55 53 0.19
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:290570 original size:22 final size:22
Alignment explanation
Indices: 290554--290596 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
290544 AATTTATTAG
*
290554 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
290576 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
290597 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:290624 original size:22 final size:22
Alignment explanation
Indices: 290608--290650 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
290598 AATTTATTAG
*
290608 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
290630 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
290651 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:290660 original size:108 final size:108
Alignment explanation
Indices: 290422--291036 Score: 629
Period size: 108 Copynumber: 5.7 Consensus size: 108
290412 TTTTAAAATA
290422 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTT-A
290487 AATAATTTATTAGTATAG-ATTGATTTATTTTAAAATATGGATTG
65 AATAATTTATTAGTAT-GTATTGATTTATTTTAAAATATGGATTG
*
290531 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
290596 ATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
66 ATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
290639 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
*
290704 ATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
66 ATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
* * * * * * *
290747 ATTTATTATT--GTAGTTGTA-TAG-ATTGATTTATGTTAAATAATTTATTAGTATGAATTGATT
1 ATTTATT-TTAAATAATT-TATTAGTATGGATTGAT-TT--AT--TTTA-AAATATGGATTGATT
** * * ** * * *
290808 TATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGGATTG
58 TATTTTAAATA-ATTTATTAGTATGTA-TTGATTTATTTTA-AAATATGGATTG
** * * * ** * * *
290859 ATTTATTTTAAA-ATATGGATTGGT-T-TATTTTAAATAATTTATTAGTATGGATTGATTTATTT
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTT
** * * *
290921 TAAA-ATATGGATT-G-ATTTATT-ATTGTA-GTT---GTATGGATTG
63 TAAATA-ATTTATTAGTATGTATTGATT-TATTTTAAAATATGGATTG
*
290961 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
291026 ATAATTTATTA
66 ATAATTTATTA
291037 TTGTAGTTGT
Statistics
Matches: 437, Mismatches: 45, Indels: 54
0.82 0.08 0.10
Matches are distributed among these distances:
102 56 0.13
103 12 0.03
104 1 0.00
106 11 0.03
107 14 0.03
108 201 0.46
109 66 0.15
110 4 0.01
111 17 0.04
112 47 0.11
113 8 0.02
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (108 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
ATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
Found at i:290687 original size:22 final size:22
Alignment explanation
Indices: 290662--290704 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
290652 AATTTATTAG
290662 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
290684 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
290705 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:290807 original size:188 final size:188
Alignment explanation
Indices: 290580--291036 Score: 860
Period size: 188 Copynumber: 2.4 Consensus size: 188
290570 TTAAAATATG
*
290580 GATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
290645 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT
66 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT
290710 TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATA
131 TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATA
*
290768 GATTGATTTATGTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
*
290833 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGGTTTATTTTAAATAATT
66 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT
*
290898 TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATG
131 TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATA
* *
290956 GATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
291021 TTTAAATAATTTATTA
66 TTTAAATAATTTATTA
291037 TTGTAGTTGT
Statistics
Matches: 262, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 262 1.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (188 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT
TATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATA
Found at i:290811 original size:134 final size:133
Alignment explanation
Indices: 290422--291036 Score: 620
Period size: 134 Copynumber: 4.6 Consensus size: 133
290412 TTTTAAAATA
290422 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTT--
* * * *
290487 AATAATTTATTAGTATAGATTGATTT--AT--TTTA-AAATATGGATTGATTTATTTT-AAATAA
64 AATAATTTATTAG-ATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-A
**
290546 TTTATTAG
127 TGGATT-G
* * ** * * *
290554 TATGTA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
*
290617 ATTTATTTTAA-AA--TA-TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATT
55 ATTTATTTTAATAATTTATTAGATTGATTTA-TTTAAATAATTTATTAGTATGGATTGATTTATT
290678 TTAAAATATGGATTG
119 TTAAAATATGGATTG
290693 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATT-
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT-TTA
* * *
290757 GTAGTTGTA-TAGATTGATTTATGTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATAT
65 ATAATT-TATTAGATTGATTTAT-TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT
290821 GGATTG
128 GGATTG
*
290827 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGGTTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTT-A
* * * * ***
290892 ATAATTTATTAGTATGGATTGATTT--AT--TTTA-AAATATGGATTGATTTATTATTGTAGTTG
65 ATAATTTATTAG-ATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAA
290952 TATGGATTG
125 TATGGATTG
*
290961 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTT-A
291026 ATAATTTATTA
65 ATAATTTATTA
291037 TTGTAGTTGT
Statistics
Matches: 411, Mismatches: 38, Indels: 65
0.80 0.07 0.13
Matches are distributed among these distances:
130 25 0.06
131 28 0.07
132 13 0.03
133 13 0.03
134 212 0.52
135 17 0.04
136 13 0.03
137 3 0.01
138 8 0.02
139 18 0.04
140 44 0.11
141 17 0.04
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (133 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
TAATTTATTAGATTGATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGA
TTG
Found at i:290812 original size:22 final size:22
Alignment explanation
Indices: 290796--290838 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
290786 AATTTATTAG
290796 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
290818 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
290839 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:290832 original size:54 final size:54
Alignment explanation
Indices: 290768--290941 Score: 321
Period size: 54 Copynumber: 3.2 Consensus size: 54
290758 TAGTTGTATA
* *
290768 GATTGATTTATGTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
290822 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
*
290876 GATTGGTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
290930 GATTGATTTATT
1 GATTGATTTATT
290942 ATTGTAGTTG
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 116 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (54 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
Found at i:290875 original size:22 final size:22
Alignment explanation
Indices: 290850--290892 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
290840 AATTTATTAG
290850 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
290872 TATGGATTGGTTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
290893 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:290918 original size:18 final size:18
Alignment explanation
Indices: 290895--290942 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
290885 ATTTTAAATA
*
290895 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
290913 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
290935 ATTTATTA
1 ATTTATTA
290943 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:291000 original size:22 final size:22
Alignment explanation
Indices: 290984--291026 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
290974 AATTTATTAG
290984 TATGGATTAATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
*
291006 TATGGATTGATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
291027 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:291108 original size:31 final size:31
Alignment explanation
Indices: 291051--291109 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
291041 AGTTGTATAG
* * **
291051 ATTATTTAAATTTTAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTACAAAACTAAA
291082 ATTATTTAAATCTCAGTATTACAAAACT
1 ATTATTTAAATCTCAGTATTACAAAACT
291110 CTTTTAAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTACAAAACTAAA
Found at i:292992 original size:22 final size:21
Alignment explanation
Indices: 292949--292992 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
292939 ATTACATAAC
*
292949 TTTAAAAAAGTATCGATCCTT
1 TTTAAAAAAGTATCGAACCTT
292970 TTTATAAAAAGTAT-GAACACTT
1 TTTA-AAAAAGTATCGAAC-CTT
292992 T
1 T
292993 CAATATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (21 bp):
TTTAAAAAAGTATCGAACCTT
Found at i:293044 original size:23 final size:23
Alignment explanation
Indices: 293018--293082 Score: 130
Period size: 23 Copynumber: 2.8 Consensus size: 23
293008 AAATATGATA
293018 TAATAGGTAGTGCTTATATAATG
1 TAATAGGTAGTGCTTATATAATG
293041 TAATAGGTAGTGCTTATATAATG
1 TAATAGGTAGTGCTTATATAATG
293064 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGTGCTTATAT
293083 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.40
Consensus pattern (23 bp):
TAATAGGTAGTGCTTATATAATG
Found at i:293529 original size:23 final size:23
Alignment explanation
Indices: 293498--293570 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
293488 ATAAGTAAAA
*
293498 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
293521 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
293544 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
293567 ATAT
1 ATAT
293571 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:294008 original size:23 final size:23
Alignment explanation
Indices: 293977--294049 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
293967 ATAGATAAAA
*
293977 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
294000 ATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
294023 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
294046 ATAT
1 ATAT
294050 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:294072 original size:479 final size:478
Alignment explanation
Indices: 292586--296359 Score: 6206
Period size: 479 Copynumber: 7.8 Consensus size: 478
292576 TTTTTACCTG
* *
292586 TTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTTCACTGTAGAAAACAT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTTCACTGTGGAAAACAT
* * *
292651 TAATTTAAGGTTATCTTTTAAGTAAGTTTTAAGAAATTAATTTAGTAATTATAGACGTGTAATGA
65 TAATTTAAGG--------T---T-AGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
292716 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
118 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
*
292781 TTTATTATTATCTTTTGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
183 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
292846 AACAATCAAATAATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
248 AACAATCAAATAA-TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
*
292911 AATACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTAT
312 AACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT
* * *
292975 AAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTAGTGCTTATATAAT
377 AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
* *
293040 GTAATAGGTAGTGCTTATATAATGTAATAGGTAGTGC
442 GTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
293077 TTATATTGTAAAGTATCTATCCTTTTAATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
293142 AATTTAAGGTTATATTTTGAGTAAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGG-------TT-AG----TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
293207 TTA-TTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
119 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* * *
293271 TTATTATTATATTTGGTTAATATTATTAAATTTAAATTCTAAATAATATTTT-TAAAATGTCAAA
184 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
* *
293335 AAAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAA
249 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
293400 CACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
314 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-A
* *
293464 AAAAATATGGACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
378 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
293529 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
443 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
293565 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
293630 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTCTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
293695 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
*
293760 TTGGTTAATATTGGTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
293825 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* * *
293890 ATAAATGAAATATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGAC
326 A-AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
* *
293955 ACTTTCAATATAATAGATAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTAGCG
390 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
294020 TTTATATAATGTAATAGGTAGTGC
455 TTTATATAATGTAATAGGTAGTGC
* *
294044 TTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTATGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
294109 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
*
294174 TTAAGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
294239 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
294304 -TTTTTGTGTAAATGAAATTA-T-AATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
*
294365 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGTACA
326 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
* * *
294430 CTTTTAATATAATAGGTAAAAATATAATGTAATAGGTAGCCCTTATATAATGTAATAGGTAGCGT
391 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
*
294495 TTATATAATGTAATAGGTAGTGT
456 TTATATAATGTAATAGGTAGTGC
*
294518 TTATATTGTAAAGTATCTATCCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACAT
1 TTATATTGTAAAGTATCTATCC-TTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
* *
294583 TAATTTAAGGTTAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAT
65 TAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
294648 GTTACGGTATATATTATTATTAAATT-AAAACAATAAACATATATATTACATATTTATTATTATC
130 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
294712 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
195 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
294777 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
260 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* * *
294842 AAAATTGAAACATAAATTGCATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGAAC
325 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
* *
294907 ACTTTCAATATAACAGGTAAAAATATGATGTAATAGGTATCGCTTATATAATGTAATAGGTAGCG
390 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
*
294972 TTTATATAATGTAATAGGTAGTGT
455 TTTATATAATGTAATAGGTAGTGC
* *
294996 TTATTTTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
295061 AATTTAAGGTTAGTTTCAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
* *
295126 TTACGGTATATATTATTATTAAATTAAAAATAATAAACATATATATTACAAATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
* *
295191 TTGGTTAATATTGTTAAATTTAAATTATAAATAGTATTTTATAAAATATCAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
*
295256 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACGCTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* *
295321 AAATTGAAACATAAATTACATAACTTTTAAAAAAAATATCGATCATTTTTATAAAAAGTATGGAC
326 AAATTGAAACATAAATTACATAAC-TTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
* * *
295386 ACTTTCAATATAATAGGTAAAAATATGATGTAATAAGTAGCGGTTATATAATGTAATAAGTAGCG
390 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
295451 TTTATATAATGTAATAGGTAGTGC
455 TTTATATAATGTAATAGGTAGTGC
* * * * *
295475 TTATATTGCAAAATATTTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
295540 AATTTAAGGTTAGTTTTAAGTTATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
* * *
295605 TTACGGTATTTATTATTATTAAGTTAAAAACAATAAACATATATATTACATATTTATTATTATAT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
* *
295670 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAGAATATTAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
*
295735 TTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* * * * *
295799 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATTGATCCTTTTAATAAAAAGGATCGATA
326 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
* *
295864 CTTTACAATAT-ATCAAGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGC
391 CTTT-CAATATAAT-AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
* *
295928 GCTTATATAATGTAATAGGTAGCGC
454 GTTTATATAATGTAATAGGTAGTGC
* * * *
295953 TTATATTGTAAATTATCTATCCTTTTTATAGAAGTGTCCATAGTTATTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * **
296018 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGG--------T---T-AGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* *
296083 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
119 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
296148 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
184 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
*
296213 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAA
249 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* **
296278 CACTATT--AAAAAATTGAAACATAAATTACATAACTTTAAAAAATGTATTAATCCTTTTTATAA
314 CACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
296341 AAAGTATGGACACTTTCAA
379 AAAGTATGGACACTTTCAA
296360 CATATTATAA
Statistics
Matches: 3097, Mismatches: 155, Indels: 65
0.93 0.05 0.02
Matches are distributed among these distances:
474 267 0.09
475 153 0.05
476 80 0.03
477 314 0.10
478 625 0.20
479 779 0.25
480 49 0.02
481 2 0.00
486 35 0.01
487 81 0.03
488 192 0.06
489 180 0.06
490 299 0.10
491 41 0.01
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (478 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
TTATATAATGTAATAGGTAGTGC
Found at i:294074 original size:46 final size:45
Alignment explanation
Indices: 293977--294074 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
293967 ATAGATAAAA
* * *
293977 ATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATATATAGCCTTT
* *
294023 ATATAATGTAATAGGTAGTGCTTATAT-TGTAAAGTATATATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TATATAGCCTTT
*
294069 TTATAA
1 ATATAA
294075 AAGTGTCCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATATATAGCCTTT
Found at i:294519 original size:23 final size:23
Alignment explanation
Indices: 294451--294523 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
294441 ATAGGTAAAA
**
294451 ATATAATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCGTTT
294474 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
294497 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
294520 ATAT
1 ATAT
294524 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:294960 original size:23 final size:23
Alignment explanation
Indices: 294929--294992 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
294919 ACAGGTAAAA
* *
294929 ATATGATGTAATAGGTATCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
294952 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
294975 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
294993 TGTTTATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:295434 original size:23 final size:23
Alignment explanation
Indices: 295408--295480 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
295398 ATAGGTAAAA
* *
295408 ATATGATGTAATAAGTAGCGGTT
1 ATATAATGTAATAAGTAGCGCTT
*
295431 ATATAATGTAATAAGTAGCGTTT
1 ATATAATGTAATAAGTAGCGCTT
* *
295454 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAAGTAGCGCTT
295477 ATAT
1 ATAT
295481 TGCAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAAGTAGCGCTT
Found at i:295867 original size:22 final size:21
Alignment explanation
Indices: 295823--295867 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
295813 ATTACATAAC
* * *
295823 TTTAAAAAAAGTATTGATCCT
1 TTTAAAAAAAGGATCGATACT
295844 TTTAATAAAAAGGATCGATACT
1 TTTAA-AAAAAGGATCGATACT
295866 TT
1 TT
295868 ACAATATATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (21 bp):
TTTAAAAAAAGGATCGATACT
Found at i:295897 original size:957 final size:956
Alignment explanation
Indices: 292586--296359 Score: 6194
Period size: 957 Copynumber: 3.9 Consensus size: 956
292576 TTTTTACCTG
* *
292586 TTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACTTTTTTTCACTGTAGAAAACAT
1 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATAC-TTTTTTCACTGTAGAAAACAT
* * *
292651 TAATTTAAGGTTATCTTTTAAGTAAGTTTTAAGAAATTAATTTAGTAATTATAGACGTGTAATGA
65 TAATTTAAGG--------T---T-AGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
292716 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
118 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
*
292781 TTTATTATTATCTTTTGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
183 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
292846 AACAATCAAATAATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
248 AACAATCAAATAA-TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGA
*
292911 AATACTATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTAT
312 AACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT
* * *
292975 AAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTAGTGCTTATATAAT
377 AAAAAGTATGAACACTTTCAATAT-ATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
* *
293040 GTAATAGGTAGTGCTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTAA
441 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTA
293105 TAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATATTTTGAGTAAATTT
506 TAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGG------TTTGAG----TTT
*
293170 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATATATTAT
561 TAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTAT
* *
293234 TATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATATTTGGTTAATATTATTA
626 TATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTA
* *
293299 AATTTAAATTCTAAATAATATTTT-TAAAATGTCAAAAAAATCAAATAATTTTTTGTGTAAATGA
691 AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGA
293363 AATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATT
756 AATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATT
* *
293428 ACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAAATATGGACACTTTCAATATAATAAG
821 ACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAATATAATAGG
293493 TAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAG
885 TAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAG
293558 GTAGTGC
950 GTAGTGC
*
293565 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
*
293630 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTCTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
293695 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
*
293760 TTGGTTAATATTGGTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
293825 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* * * *
293890 ATAAATGAAATATAAATTACATAACTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGAC
326 A-AATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAAC
*
293955 ACTTTCAATATA-ATAGATAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTAGC
390 ACTTTCAATATATA-AG-TAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
* *
294019 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCA
453 GCTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
*
294084 TACTTTTTTCACTATGGAAAACATTAATTTAAGG-TT-AGTTTTAAGATATTAATTTAGTAATTA
518 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTTGAGTTTTAAGATATTAATTTAGTAATTA
*
294147 TAGGCGTCTAATGATTTATTTTTTACGTTAAGGTATATATTATTATTAAATTAAAAACAATAAAC
583 TAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAC
294212 ATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATT
648 ATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATT
*
294277 TTATAAAATATCAAAACAATCAAATAA-TTTTTGTGTAAATGAAATTA-T-AATTAATATTGTAG
713 TTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAG
294339 GTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATC
778 GTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATC
* * *
294404 GATCCTTTTTATAAAAAGTATGTACACTTTTAATATAATAGGTAAAAATATAATGTAATAGGTAG
843 GATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAG
* *
294469 CCCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGT
908 CGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
294518 TTATATTGTAAAGTATCTATCCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACAT
1 TTATATTGTAAAGTATCTAT-CATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACAT
* *
294583 TAATTTAAGGTTAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAT
65 TAATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
294648 GTTACGGTATATATTATTATTAAATT-AAAACAATAAACATATATATTACATATTTATTATTATC
130 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
294712 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
195 TTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
294777 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
260 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* *
294842 AAAATTGAAACATAAATTGCATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGAAC
325 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAAC
*
294907 ACTTTCAATATA-ACAGGTAAAAATATGATGTAATAGGTATCGCTTATATAATGTAATAGGTAGC
390 ACTTTCAATATATA-A-GTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
* * * *
294971 GTTTATATAATGTAATAGGTAGTGTTTATTTTGTAAAATATCTATCCTTTTTATAAAAGTGTCCA
453 GCTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
*
295036 TACTTTTTTCACTGTGGAAAACATTAATTTAAGG-TT-AGTTTCAAGATATTAATTTAGTAATTA
518 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTTGAGTTTTAAGATATTAATTTAGTAATTA
*
295099 TAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATAATAAAC
583 TAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAC
* * *
295164 ATATATATTACAAATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAGTATT
648 ATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATT
*
295229 TTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAG
713 TTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAG
* *
295294 GTGGAAAACATGAAACGCTATTAAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAATA
778 GTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAAC-TTTAAAAAAAGTA
* *
295359 TCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAAGT
841 TCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGT
* *
295424 AGCGGTTATATAATGTAATAAGTAGCGTTTATATAATGTAATAGGTAGTGC
906 AGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* * * * *
295475 TTATATTGCAAAATATTTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATT
1 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
*
295540 AATTTAAGGTTAGTTTTAAGTTATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
66 AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
* * *
295605 TTACGGTATTTATTATTATTAAGTTAAAAACAATAAACATATATATTACATATTTATTATTATAT
131 TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
* *
295670 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAGAATATTAAAACAATCAAATAA
196 TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
*
295735 TTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAA
261 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
* * * *
295799 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATTGATCCTTTTAATAAAAAGGATCG-AT
326 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTAT-GAAC
*
295863 ACTTTACAATATATCAAGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGC
390 ACTTT-CAATATAT-AAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
* * *
295928 GCTTATATAATGTAATAGGTAGCGCTTATATTGTAAATTATCTATCCTTTTTATAGAAGTGTCCA
453 GCTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
* * *
295993 TAGTTATTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAAT
518 TACTTTTTTCACTGTGGAAAACATTAATTTAAGG-------TT---TGAGTTTTAAGATATTAAT
* ** * *
296058 TTAGTAATTATATGTATCTAATGATTTATTTTTTATGTTACGGTATATATTATCATTAAATTAAA
573 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAA
296123 AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCT
638 AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCT
*
296188 AAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATT
703 AAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATT
296253 AATATTATAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAA
768 AATATTATAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAA
* **
296317 AAAATGTATTAATCCTTTTTATAAAAAGTATGGACACTTTCAA
833 AAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
296360 CATATTATAA
Statistics
Matches: 2643, Mismatches: 122, Indels: 73
0.93 0.04 0.03
Matches are distributed among these distances:
952 391 0.15
953 305 0.12
954 221 0.08
955 79 0.03
956 349 0.13
957 463 0.18
958 1 0.00
959 3 0.00
960 2 0.00
965 67 0.03
966 247 0.09
967 211 0.08
968 1 0.00
969 231 0.09
970 1 0.00
978 30 0.01
979 41 0.02
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (956 bp):
TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATT
AATTTAAGGTTAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACG
TTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
TTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGAACA
CTTTCAATATATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGCT
TATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC
TTTTTTCACTGTGGAAAACATTAATTTAAGGTTTGAGTTTTAAGATATTAATTTAGTAATTATAG
GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATA
TATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTA
TAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTG
GAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGAT
CCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGC
TTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:295912 original size:23 final size:23
Alignment explanation
Indices: 295886--295958 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
295876 TCAAGTAAAA
* *
295886 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
295909 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
295932 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
295955 ATAT
1 ATAT
295959 TGTAAATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:298418 original size:23 final size:23
Alignment explanation
Indices: 298392--298436 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
298382 TTAAGCGAAT
*
298392 ATGTTCACGAA-AGTTAAATAAAC
1 ATGTTAACGAATA-TTAAATAAAC
298415 ATGTTAACGAATATTAAATAAA
1 ATGTTAACGAATATTAAATAAA
298437 TATATTCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (23 bp):
ATGTTAACGAATATTAAATAAAC
Found at i:300282 original size:20 final size:20
Alignment explanation
Indices: 300253--300297 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
300243 GACCTATATA
* *
300253 GTTAAATGCTTACTTGACCG
1 GTTAAATGCTTACATGACCC
* *
300273 GTTAATTGCTTCCATGACCC
1 GTTAAATGCTTACATGACCC
300293 GTTAA
1 GTTAA
300298 CCAATCACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (20 bp):
GTTAAATGCTTACATGACCC
Found at i:300460 original size:29 final size:29
Alignment explanation
Indices: 300418--300499 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
300408 AAACTAAATT
* *
300418 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
* *
300447 GATGTTATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
300476 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
300500 GTTAGGTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 42 0.89
30 5 0.11
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:308328 original size:21 final size:21
Alignment explanation
Indices: 308302--308341 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
308292 CAGAACCCCA
*
308302 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
308323 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
308342 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:314709 original size:29 final size:29
Alignment explanation
Indices: 314674--314755 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
314664 AAACTAAATT
* *
314674 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
314703 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
314732 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
314756 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:318643 original size:106 final size:106
Alignment explanation
Indices: 318456--318647 Score: 287
Period size: 106 Copynumber: 1.8 Consensus size: 106
318446 GACGAAGGGG
* * * *
318456 CTTCCCAATTTTAGAGCCAATTTCAACTTCATAGCGAAGGATATTAAACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAAACCCAAGACAACACAAGC
318521 TCAACTTCACAGCGAAGGGGCGGCTGATTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGATTGTCAACAAACAA
* * * **
318562 CTTCCCAATTTCAGAGTCAATTTTAACTTCCCAGCGAAGGATATTGGACCCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAAACCCAAGACAACACAAGC
318627 TCAACTTCAC-GACGAAGGGGC
66 TCAACTTCACAG-CGAAGGGGC
318648 CACCCGCGGT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
105 1 0.01
106 75 0.99
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (106 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAAACCCAAGACAACACAAGC
TCAACTTCACAGCGAAGGGGCGGCTGATTGTCAACAAACAA
Found at i:318992 original size:36 final size:37
Alignment explanation
Indices: 318945--319049 Score: 185
Period size: 37 Copynumber: 2.9 Consensus size: 37
318935 ATGCTCACCA
*
318945 TTGTCTCTCTTGAGACACTTTCTCTTGAAACAAA-TT
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTT
*
318981 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTT
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTT
319018 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
319050 CCAATCTTCG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
36 32 0.49
37 33 0.51
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTT
Found at i:319138 original size:34 final size:34
Alignment explanation
Indices: 319055--319152 Score: 119
Period size: 33 Copynumber: 2.9 Consensus size: 34
319045 AAACACCAAT
*
319055 CTTCGAAATTGTTTCTCTTGAAAC-ACAAAAAAC
1 CTTCGAAATTGTTTCTCTTGAAACAAAAAAAAAC
* ** *
319088 CTTCGAGACAG-CTCTCTTGAAACAAAAAAAAAC
1 CTTCGAAATTGTTTCTCTTGAAACAAAAAAAAAC
* *
319121 CTTTGAAATTGTTTCTCTTGAAACACAAAAAA
1 CTTCGAAATTGTTTCTCTTGAAACAAAAAAAA
319153 GAAAAATCAT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
32 11 0.21
33 23 0.44
34 18 0.35
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (34 bp):
CTTCGAAATTGTTTCTCTTGAAACAAAAAAAAAC
Found at i:324466 original size:21 final size:21
Alignment explanation
Indices: 324440--324508 Score: 138
Period size: 21 Copynumber: 3.3 Consensus size: 21
324430 TCATGTTGCA
324440 TGCATCTTAGACATACTTAGG
1 TGCATCTTAGACATACTTAGG
324461 TGCATCTTAGACATACTTAGG
1 TGCATCTTAGACATACTTAGG
324482 TGCATCTTAGACATACTTAGG
1 TGCATCTTAGACATACTTAGG
324503 TGCATC
1 TGCATC
324509 ACATTCATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (21 bp):
TGCATCTTAGACATACTTAGG
Found at i:325432 original size:106 final size:106
Alignment explanation
Indices: 325243--325539 Score: 443
Period size: 106 Copynumber: 2.8 Consensus size: 106
325233 AAGAAGGAGC
* * * *
325243 TTCCCAATTTCAGAGCCAATTTCAACTTCATAGCGAAGAATATTGGACTCAAAACAGCACAAGCT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGCT
325308 CAACTTCACAGCGAAGGGGCAGCTGACTATCAACAAACAAA
66 CAACTTCACAGCGAAGGGGCAGCTGACTATCAACAAACAAA
*
325349 TTCTCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGCT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGCT
* * *
325414 CAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAAC
66 CAACTTCACAGCGAAGGGGCAGCTGACTATCAACAAACAAA
* * * * * * *
325455 TTCCCAATTTTAGAGTCAATTTTAACTTCCCAATGAAGGATATTGGACCCAAGACAACACAAGCT
1 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGCT
325520 CAACTTCAC-GACGAAGGGGC
66 CAACTTCACAG-CGAAGGGGC
325540 CACCCGCGGT
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
105 1 0.01
106 173 0.99
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (106 bp):
TTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAGCACAAGCT
CAACTTCACAGCGAAGGGGCAGCTGACTATCAACAAACAAA
Found at i:325884 original size:36 final size:37
Alignment explanation
Indices: 325837--325941 Score: 167
Period size: 37 Copynumber: 2.9 Consensus size: 37
325827 ATGCTCACAA
* *
325837 TTGTCTCTCTTGAGAAACTTTCTCTTGAAACAAA-TT
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTT
*
325873 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTT
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTT
*
325910 TTATCTCTCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
325942 CCAATCTTCG
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
36 31 0.49
37 32 0.51
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTT
Found at i:326029 original size:33 final size:33
Alignment explanation
Indices: 325951--326076 Score: 108
Period size: 33 Copynumber: 3.6 Consensus size: 33
325941 ACCAATCTTC
* ** *
325951 GAAATTGTTTCTCTTGAAACACAAAAAATGTTC
1 GAAATTGTTTCTCTTGAAACAAAAAAAACCTTT
* ****
325984 GAGACAACTTCTCTTGAAACAAAAAAAACCTTT
1 GAAATTGTTTCTCTTGAAACAAAAAAAACCTTT
326017 GAAATTGTTTCTCTTGAAACACAAAAAATAAAAACCTTT
1 GAAATTGTTTCTCTTG-AA-AC---AAA-AAAAACCTTT
*
326056 GAAAATGTTTCTCTTGAAACA
1 GAAATTGTTTCTCTTGAAACA
326077 CAAAGACCTT
Statistics
Matches: 72, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
33 35 0.49
34 3 0.04
35 2 0.03
37 2 0.03
38 5 0.07
39 25 0.35
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (33 bp):
GAAATTGTTTCTCTTGAAACAAAAAAAACCTTT
Found at i:329076 original size:106 final size:106
Alignment explanation
Indices: 328889--329186 Score: 481
Period size: 106 Copynumber: 2.8 Consensus size: 106
328879 GAAGAAGGGG
* * *
328889 CTTCCCAATTTCAGAGCCAAATTCAACTTCATAGCGAAGGATATTTGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
*
328954 TCAACTTCACATCGAAGGGGCGGCTGACTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAA
*
328995 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
*
329060 TCAATTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAA
66 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAA
* * * * *
329101 CTTCCCAATTTCAGAGTCAATTTTAACTTCCCAGCGAAGGATATTGGACCCAAGACAACACAAGC
1 CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
329166 TCAACTTCA-AGACGAAGGGGC
66 TCAACTTCACAG-CGAAGGGGC
329187 CACCCGCAGT
Statistics
Matches: 178, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
105 2 0.01
106 176 0.99
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (106 bp):
CTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAGCACAAGC
TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAA
Found at i:329529 original size:21 final size:21
Alignment explanation
Indices: 329504--329569 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
329494 TGAGACACTT
329504 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
329525 TCTCTTGAGAC--A-GTT-T-
1 TCTCTTGAAACAAATTTTGTC
329541 TC-CTTGAAACAAAGTTTTGTC
1 TCTCTTGAAACAAA-TTTTGTC
329562 TCTCTTGA
1 TCTCTTGA
329570 GACAGTTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
15 7 0.21
16 2 0.06
17 2 0.06
18 2 0.06
19 3 0.09
20 1 0.03
21 12 0.35
22 5 0.15
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:329531 original size:36 final size:37
Alignment explanation
Indices: 329484--329588 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
329474 ATGCTCACCA
*
329484 TTGTCTCTCTTGAGACACTTTCTCTTGAAACAAA-TT
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTT
329520 TTGTCTCTCTTGAGACAGTTT-TCCTTGAAACAAAGTT
1 TTGTCTCTCTTGAGACAGTTTCT-CTTGAAACAAAGTT
329557 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
329589 CCAATCTTTG
Statistics
Matches: 65, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
35 1 0.02
36 31 0.48
37 32 0.49
38 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTT
Found at i:329673 original size:67 final size:71
Alignment explanation
Indices: 329594--329772 Score: 224
Period size: 73 Copynumber: 2.6 Consensus size: 71
329584 AAACACCAAT
*
329594 CTTTGAAATTGTTTCTCTTGAAATACAAAAAACCTTCGAGACAGCTTCTCTTG-AA-ACAAAAAA
1 CTTTGAAATTGTTTCTCTTGAAACACAAAAAACCTTCGAGACAGCTTCTCTTGAAACACAAAAAA
329657 -A-AAC
66 GACAAC
* * ** *
329661 CTTTGAAATTGTTTCTCTTGAAACACAAAAAAAACCTTTGAAATTGTTTCTCTTGAAACACAAAA
1 CTTTGAAATTGTTTCTCTTGAAACAC--AAAAAACCTTCGAGACAGCTTCTCTTGAAACACAAAA
329726 AAGACAAC
64 AAGACAAC
* * *
329734 CTTTGAAAATGTTTCTCATGAAACAC-AAAGACCTTCGAG
1 CTTTGAAATTGTTTCTCTTGAAACACAAAAAACCTTCGAG
329773 TTCGACTAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 9
0.83 0.10 0.08
Matches are distributed among these distances:
67 25 0.26
69 22 0.23
70 12 0.13
71 8 0.08
72 1 0.01
73 27 0.28
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (71 bp):
CTTTGAAATTGTTTCTCTTGAAACACAAAAAACCTTCGAGACAGCTTCTCTTGAAACACAAAAAA
GACAAC
Found at i:329691 original size:35 final size:35
Alignment explanation
Indices: 329594--329762 Score: 218
Period size: 35 Copynumber: 4.8 Consensus size: 35
329584 AAACACCAAT
*
329594 CTTTGAAATTGTTTCTCTTGAAATAC--AAAAAAC
1 CTTTGAAATTGTTTCTCTTGAAACACAAAAAAAAC
* * ** *
329627 CTTCGAGACAGCTTCTCTTGAAACA-AAAAAAAAC
1 CTTTGAAATTGTTTCTCTTGAAACACAAAAAAAAC
329661 CTTTGAAATTGTTTCTCTTGAAACACAAAAAAAAC
1 CTTTGAAATTGTTTCTCTTGAAACACAAAAAAAAC
329696 CTTTGAAATTGTTTCTCTTGAAACACAAAAAAGACAAC
1 CTTTGAAATTGTTTCTCTTGAAACAC-AAAAA-A-AAC
* *
329734 CTTTGAAAATGTTTCTCATGAAACACAAA
1 CTTTGAAATTGTTTCTCTTGAAACACAAA
329763 GACCTTCGAG
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
33 19 0.16
34 27 0.23
35 35 0.30
36 5 0.04
37 4 0.03
38 27 0.23
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (35 bp):
CTTTGAAATTGTTTCTCTTGAAACACAAAAAAAAC
Found at i:331536 original size:7 final size:7
Alignment explanation
Indices: 331487--331518 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
331477 GCTTTTTGTT
331487 ATTTT-A
1 ATTTTAA
331493 ATTTTAA
1 ATTTTAA
331500 ATTTTAA
1 ATTTTAA
331507 ATTTTAA
1 ATTTTAA
331514 ATTTT
1 ATTTT
331519 TTTGTTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTAA
Found at i:332385 original size:15 final size:16
Alignment explanation
Indices: 332362--332396 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
332352 TTGTACCCAA
332362 TATTCATTTTTAA-AT
1 TATTCATTTTTAATAT
*
332377 TATTTATTTTTAATAT
1 TATTCATTTTTAATAT
332393 TATT
1 TATT
332397 AGTTTAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTCATTTTTAATAT
Found at i:333332 original size:16 final size:16
Alignment explanation
Indices: 333313--333347 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
333303 AGAACTAATG
*
333313 AAATAAGGAAAATAAA
1 AAATAAAGAAAATAAA
*
333329 AAATAAAGAAGATAAA
1 AAATAAAGAAAATAAA
333345 AAA
1 AAA
333348 AGTGAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAATAAAGAAAATAAA
Found at i:334867 original size:2 final size:2
Alignment explanation
Indices: 334860--334884 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
334850 CCTGTACACA
334860 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 A
334885 AGTATGTATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:335647 original size:106 final size:104
Alignment explanation
Indices: 335436--336632 Score: 1673
Period size: 106 Copynumber: 11.3 Consensus size: 104
335426 TGTTTCGAGG
* * * *
335436 CCAATATCCTTCG-TCGTGAAGTTGAAATTGACTCTGAAACTGGTGATGGTCTGTTGACAACCAG
1 CCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGG-GAAGGTTTGTTGACAACCAG
* * *
335500 TC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
64 -CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * *
335541 CCAATATCCTTCGCTGTGAAGTTGAGATTGGCTCTGAAACTGGGTAACGGTTTATTGACAACCAA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AA-GGTTTGTTGACAACCAG
* *
335606 CGGTCCATTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGT
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
335647 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGG-AGTTGTTTGTTGACAACCA
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GGAAG--GTTTGTTGACAACCA
* * *
335711 GCGGTCCCTTCGTCGTGAAGTTGAACTTTCATTGTCTTGAGT
63 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
335753 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAGCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG--GTTTGTTGACAACCAG
* *
335818 TGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGT
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * *
335859 CCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG--GTTTGTTGACAACCAG
* *
335924 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGC
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * *
335965 CCAATATCCTTCGATGTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AA-GGTTTGTTGACAACCAG
* ** * *
336030 TGGTCCCTTCGTCGTGAAAATGAACTTGTGTTGTCTCGAGT
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
336071 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGC
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGGT-TTGTTGACAACCAGC
336136 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAGGT
65 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA-GT
* * *
336176 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGC
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGGT-TTGTTGACAACCAGC
* *
336241 GATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGT
65 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
336281 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG--GTTTGTTGACAACCAG
* *
336346 CGTTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGT
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
336387 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG-AA-GGTTTGTTGACAACCAG
* * *
336452 CGGTCCCTTCATCATGAAGTTGAACTTGCGTTGTCTTGAGT
64 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
336493 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGTTGTTGTTGACAACCAGC
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGGT-TTGTTGACAACCAGC
*
336558 GGTCCCTTCGTCGTGAAGTTTAACTTGCGTTGTCTGGAGT
65 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
336598 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
336633 AGGTAAAACC
Statistics
Matches: 993, Mismatches: 81, Indels: 36
0.89 0.07 0.03
Matches are distributed among these distances:
104 6 0.01
105 327 0.33
106 652 0.66
107 8 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (104 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGGTTTGTTGACAACCAGCG
GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
Found at i:336375 original size:422 final size:422
Alignment explanation
Indices: 335436--336632 Score: 1884
Period size: 422 Copynumber: 2.8 Consensus size: 422
335426 TGTTTCGAGG
* * * * ** *
335436 CCAATATCCTTCGTCGTGAAGTTGAAATTGACTCTGAAACTG-G-TGATGGTCTGTTGACAACCA
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG-TTTTTTGTTGACAACCA
* * * *
335499 GTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTT
65 G-CGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGATGTGAAGTT
* * * ** * * *
335564 GAGATTGGCTCTGAAACTGGGTAACGGTTTATTGACAACCAACGGTCCATTCGTCGTGAAGTTGA
129 GAAATTGGCTCCGAAACTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
* * *
335629 ACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGG-A
194 ACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GGAA
* *
335693 GTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTTCATTGTCTTGA-GTCCAA
258 GTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGAGGTCCAA
* * * *
335757 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAGCAGTGGT
321 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGAT
335822 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGT
386 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGT
*
335859 CCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAACCAG
*
335924 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGCCCAATATCCTTCGATGTGAAGTTG
66 C-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGATGTGAAGTTG
* **
335989 AAATTGGCTCCGAAACTGGGAAATTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAAATGAA
130 AAATTGGCTCCGAAACTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
336054 CTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
195 CTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
336119 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGGTCCAATATC
260 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGGTCCAATATC
*
336184 CTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACCAGCGATCCCT
325 CTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGATCCCT
336248 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGT
390 TCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGT
336281 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAACCAG
1 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAACCAG
* * *
336346 CGTTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CG-TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGATGTGAAGTTG
* * *
336411 AAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCATCATGAAGTTGAA
130 AAATTGGCTCCGAAACTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
336476 CTTGCGTTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAGT
195 CTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
*
336541 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTTAACTTGCGTTGTCTG-GAGTCCAATAT
260 TGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAG-GTCCAATAT
336605 CCTTCGCTGTGAAGTTGAAATTGGCTCT
324 CCTTCGCTGTGAAGTTGAAATTGGCTCT
336633 AGGTAAAACC
Statistics
Matches: 716, Mismatches: 51, Indels: 15
0.92 0.07 0.02
Matches are distributed among these distances:
421 2 0.00
422 387 0.54
423 138 0.19
424 188 0.26
425 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (422 bp):
CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTTTGTTGACAACCAG
CGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGTCCAATATCCTTCGATGTGAAGTTGA
AATTGGCTCCGAAACTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
GTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGGTCCAATATCC
TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGATCCCTT
CGTCGTGAAGTTGAACTTGCGTTGTCTGGGGT
Found at i:337468 original size:16 final size:16
Alignment explanation
Indices: 337449--337479 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
337439 ACCCTAAACG
337449 TTTTTCTCTTTTTTCT
1 TTTTTCTCTTTTTTCT
*
337465 TTTTTCTTTTTTTTC
1 TTTTTCTCTTTTTTC
337480 AACTTAGGAT
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTCTCTTTTTTCT
Found at i:347837 original size:16 final size:16
Alignment explanation
Indices: 347816--347865 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
347806 AGAACTAATG
347816 AAATAAGGAAAATAAA
1 AAATAAGGAAAATAAA
* *
347832 AAATAAAGAAGATAAA
1 AAATAAGGAAAATAAA
*
347848 AAA-AAGTGAATATAAA
1 AAATAAG-GAAAATAAA
347864 AA
1 AA
347866 TGAATAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 2 0.07
16 27 0.93
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (16 bp):
AAATAAGGAAAATAAA
Found at i:348133 original size:2 final size:2
Alignment explanation
Indices: 348079--348113 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
348069 CCGAAAGTAA
348079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
348114 AGAAAAAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:349252 original size:20 final size:20
Alignment explanation
Indices: 349227--349264 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
349217 GAATGCTAGA
*
349227 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
349247 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
349265 TAATGGAAAA
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:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:349953 original size:30 final size:30
Alignment explanation
Indices: 349919--350197 Score: 497
Period size: 30 Copynumber: 9.3 Consensus size: 30
349909 GGTTCTTCGG
349919 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
349949 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
349979 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
350009 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
350039 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
350069 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
350099 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* *
350129 GACCTATGGACAGTTACTGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* * * *
350159 GACCTCTAGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
350188 GACCTCTGGA
1 GACCTCTGGA
350198 TAGGTCCTTC
Statistics
Matches: 240, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
29 17 0.07
30 223 0.93
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:350482 original size:2 final size:2
Alignment explanation
Indices: 350470--350537 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
350460 GTATGCGTGG
*
350470 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
350512 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
350538 GAAAGGTGCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:354883 original size:2 final size:2
Alignment explanation
Indices: 354876--354911 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
354866 TTATGCAATC
354876 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
354912 ACATTCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:355413 original size:21 final size:23
Alignment explanation
Indices: 355382--355436 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
355372 CAATGTTCCC
*
355382 TGGTATTGATACCCTC-TACATA
1 TGGTATCGATACCCTCTTACATA
*
355404 -GGTATCGATA-CCTCTTCCATA
1 TGGTATCGATACCCTCTTACATA
355425 TGGTATCGATAC
1 TGGTATCGATAC
355437 TATTCATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 4 0.14
21 14 0.50
22 10 0.36
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (23 bp):
TGGTATCGATACCCTCTTACATA
Found at i:358560 original size:15 final size:15
Alignment explanation
Indices: 358540--358570 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
358530 GTAATATGTT
358540 TATTTTATCTCTTTG
1 TATTTTATCTCTTTG
358555 TATTTTATCTCTTTG
1 TATTTTATCTCTTTG
358570 T
1 T
358571 TAACCCATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (15 bp):
TATTTTATCTCTTTG
Found at i:361466 original size:35 final size:35
Alignment explanation
Indices: 361420--361488 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
361410 TTTATTTCAG
361420 AACGATAAAGATCCTCTAATTCTATAGTTTCCAAA
1 AACGATAAAGATCCTCTAATTCTATAGTTTCCAAA
361455 AACGATAAAGATCCTCTAATTCTATAGTTTCCAA
1 AACGATAAAGATCCTCTAATTCTATAGTTTCCAA
361489 TCTTACTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (35 bp):
AACGATAAAGATCCTCTAATTCTATAGTTTCCAAA
Found at i:365280 original size:18 final size:18
Alignment explanation
Indices: 365253--365287 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
365243 CCACGTAGAA
*
365253 ATGTCTCGAATGACCACT
1 ATGTCCCGAATGACCACT
365271 ATGTCCCGAATGACCAC
1 ATGTCCCGAATGACCAC
365288 ATAGAACCCT
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:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (18 bp):
ATGTCCCGAATGACCACT
Found at i:365393 original size:19 final size:19
Alignment explanation
Indices: 365369--365407 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
365359 TTATGTTATT
365369 TCACATATACACATTCATA
1 TCACATATACACATTCATA
* *
365388 TCACATATTCATATTCATA
1 TCACATATACACATTCATA
365407 T
1 T
365408 AAGCTCATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (19 bp):
TCACATATACACATTCATA
Found at i:372958 original size:15 final size:15
Alignment explanation
Indices: 372919--372974 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
372909 CGGCGGTTAC
* *
372919 GGTGGCGGTGGATAC
1 GGTGGTGGTGGATAT
* * *
372934 GGTAGCGGTGGCTAT
1 GGTGGTGGTGGATAT
372949 GGTGGTGGTGGATAT
1 GGTGGTGGTGGATAT
*
372964 GGTGGTAGTGG
1 GGTGGTGGTGG
372975 TGGATCTGGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.12, C:0.07, G:0.54, T:0.27
Consensus pattern (15 bp):
GGTGGTGGTGGATAT
Found at i:372993 original size:18 final size:18
Alignment explanation
Indices: 372953--372996 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
372943 GGCTATGGTG
*
372953 GTGGTGGATATGGTGGTA
1 GTGGTGGATATGGAGGTA
*
372971 GTGGTGGATCTGGAGGCTA
1 GTGGTGGATATGGAGG-TA
372990 -TGGTGGA
1 GTGGTGGA
372997 GGTGGTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.16, C:0.05, G:0.50, T:0.30
Consensus pattern (18 bp):
GTGGTGGATATGGAGGTA
Found at i:373124 original size:21 final size:21
Alignment explanation
Indices: 373099--373151 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
373089 TTGTGGACAG
373099 GGTGGCGGCGGAGACAGATAT
1 GGTGGCGGCGGAGACAGATAT
* * * *
373120 GGTGGTGGCGGTGGCGGATAT
1 GGTGGCGGCGGAGACAGATAT
*
373141 GGCGGCGGCGG
1 GGTGGCGGCGG
373152 TGGAGGAGGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.15, G:0.57, T:0.15
Consensus pattern (21 bp):
GGTGGCGGCGGAGACAGATAT
Found at i:373152 original size:21 final size:21
Alignment explanation
Indices: 373115--373154 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
373105 GGCGGAGACA
* *
373115 GATATGGTGGTGGCGGTGGCG
1 GATATGGCGGCGGCGGTGGCG
373136 GATATGGCGGCGGCGGTGG
1 GATATGGCGGCGGCGGTGG
373155 AGGAGGTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.12, G:0.57, T:0.20
Consensus pattern (21 bp):
GATATGGCGGCGGCGGTGGCG
Found at i:390259 original size:3 final size:3
Alignment explanation
Indices: 390134--390243 Score: 147
Period size: 3 Copynumber: 37.0 Consensus size: 3
390124 CATTTGTTTT
* *
390134 TTA TTA TTT TTA TTA TTA TATA TTA TTA TTA GTA TTA TT- TTA TT-
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
390178 TATA TTA TTA TTA TTA TT- TTA TTA TT- TTA TTTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
390223 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
390244 ATAAAAAATA
Statistics
Matches: 96, Mismatches: 4, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
2 7 0.07
3 82 0.85
4 7 0.07
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:391765 original size:23 final size:22
Alignment explanation
Indices: 391684--391771 Score: 70
Period size: 23 Copynumber: 3.8 Consensus size: 22
391674 TATTTTGATC
*
391684 ATTATTTATTTGCAATATTATTTT
1 ATTA-TTATTTTC-ATATTATTTT
* *
391708 ATTATTACTTTTGACA-TATTTT
1 ATTATTA-TTTTCATATTATTTT
*
391730 AATTATTACTTTCATTATTATTTT
1 -ATTATTATTTTCA-TATTATTTT
* *
391754 ATTATCATTTTCGTATTA
1 ATTATTATTTTCATATTA
391772 GTCATATAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
22 15 0.29
23 23 0.45
24 13 0.25
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.60
Consensus pattern (22 bp):
ATTATTATTTTCATATTATTTT
Found at i:391788 original size:2 final size:2
Alignment explanation
Indices: 391775--391806 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
391765 CGTATTAGTC
*
391775 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
391807 TTGTTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:392020 original size:147 final size:147
Alignment explanation
Indices: 391819--392198 Score: 615
Period size: 147 Copynumber: 2.6 Consensus size: 147
391809 GTTTAAATGA
* * * * *
391819 TAATA-TTATTTATTTTT--AATATTAAGAAATGGCACTCTTAATATAACTAGATGTCCTATTCT
1 TAATATTTATTTATTTTTCAAATATTAAGAAAAGGCAGTCTTAAAACAACTAGATGTCTTATTCT
* *
391881 GATATTTTAAATAAATAAATATTATTAAAATTATATATTTAATTTTATTTAAATATTATTTTTTA
66 GATATTTTAAATAAATAAATATTATTAAAATTATATATTTAATTTTATTTAAACATTATTTTGTA
391946 GGAAAAATTATTATTTT
131 GGAAAAATTATTATTTT
* *
391963 TATTATTTATTTATTTTTCAAATATTAAGAAAAGGGAGTCTTAAAACAACTAGATGTCTTATTCT
1 TAATATTTATTTATTTTTCAAATATTAAGAAAAGGCAGTCTTAAAACAACTAGATGTCTTATTCT
392028 GATATTTTAAATAAATAAATATTATTAAAATTATATATTTAATTTTATTTAAACATTATTTTGTA
66 GATATTTTAAATAAATAAATATTATTAAAATTATATATTTAATTTTATTTAAACATTATTTTGTA
392093 GGAAAAATTATTATTTT
131 GGAAAAATTATTATTTT
*
392110 TAATATTTATTTATTTTTCAAATATTAAGAAAATGCAGTCTTAAAACAACTAGATGTCTTATTCT
1 TAATATTTATTTATTTTTCAAATATTAAGAAAAGGCAGTCTTAAAACAACTAGATGTCTTATTCT
392175 -AGTATTTTAAAAATAAATAAATAT
66 GA-TATTTT--AAATAAATAAATAT
392199 CCTGTTTATA
Statistics
Matches: 218, Mismatches: 12, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
144 4 0.02
145 12 0.06
146 1 0.00
147 187 0.86
149 14 0.06
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.47
Consensus pattern (147 bp):
TAATATTTATTTATTTTTCAAATATTAAGAAAAGGCAGTCTTAAAACAACTAGATGTCTTATTCT
GATATTTTAAATAAATAAATATTATTAAAATTATATATTTAATTTTATTTAAACATTATTTTGTA
GGAAAAATTATTATTTT
Found at i:392232 original size:147 final size:144
Alignment explanation
Indices: 391819--392271 Score: 519
Period size: 147 Copynumber: 3.1 Consensus size: 144
391809 GTTTAAATGA
* * * * *
391819 TAATA-TTATTTATTTTT--AATATTAAGAAATGGCACTCTTAATATAACTAGATGTCCTATTCT
1 TAATATTTATTTATTTTTCAAATATTAAGAAAAGGCAGTCTTAAAACAACTAGATGTCTTATTCT
* * * * * *
391881 GATATTTTAAATAAATAAATATTATTAAAATTATATATTTAATTTTATTTAAATATTATTTTTTA
66 GATATTTTAAATAAATAAATATTATTAAAATAACATATATAATTTCACTT--ACATTA-TTTTTA
391946 GGAAAAATTATTATTTT
128 GGAAAAATTATTATTTT
* *
391963 TATTATTTATTTATTTTTCAAATATTAAGAAAAGGGAGTCTTAAAACAACTAGATGTCTTATTCT
1 TAATATTTATTTATTTTTCAAATATTAAGAAAAGGCAGTCTTAAAACAACTAGATGTCTTATTCT
* * * * *
392028 GATATTTTAAATAAATAAATATTATTAAAATTATATATTTAATTTTATTTAAACATTATTTTGTA
66 GATATTTTAAATAAATAAATATTATTAAAATAACATATATAATTTCACTT--ACATTATTTT-TA
392093 GGAAAAATTATTATTTT
128 GGAAAAATTATTATTTT
*
392110 TAATATTTATTTATTTTTCAAATATTAAGAAAATGCAGTCTTAAAACAACTAGATGTCTTATTCT
1 TAATATTTATTTATTTTTCAAATATTAAGAAAAGGCAGTCTTAAAACAACTAGATGTCTTATTCT
*
392175 -AGTATTTTAAAAATAAATAAATATCCTGTTTATAAA-AACATATAT-A-TTCACTT-CATTATT
66 GA-TATTTT--AAATAAATAAATAT--T-ATTA-AAATAACATATATAATTTCACTTACATTATT
392235 TTTAGG-AAAATTATTATATTT
124 TTTAGGAAAAATTATTAT-TTT
* *
392256 TCATATATATTTATTT
1 TAATATTTATTTATTT
392272 ATTTACTAAT
Statistics
Matches: 278, Mismatches: 19, Indels: 22
0.87 0.06 0.07
Matches are distributed among these distances:
144 4 0.01
145 23 0.08
146 26 0.09
147 192 0.69
149 14 0.05
150 5 0.02
151 2 0.01
152 9 0.03
153 3 0.01
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (144 bp):
TAATATTTATTTATTTTTCAAATATTAAGAAAAGGCAGTCTTAAAACAACTAGATGTCTTATTCT
GATATTTTAAATAAATAAATATTATTAAAATAACATATATAATTTCACTTACATTATTTTTAGGA
AAAATTATTATTTT
Found at i:392324 original size:18 final size:18
Alignment explanation
Indices: 392279--392315 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
392269 TTTATTTACT
392279 AATATTAAAGAAAAAGAC
1 AATATTAAAGAAAAAGAC
392297 AATATTAAAGAAAAAGAC
1 AATATTAAAGAAAAAGAC
392315 A
1 A
392316 GTCTTAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.16
Consensus pattern (18 bp):
AATATTAAAGAAAAAGAC
Found at i:394324 original size:43 final size:43
Alignment explanation
Indices: 394258--394339 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
394248 GGCTTTAAAT
*
394258 AAGTTAGGAGAGAAAGTTATCCCCTATATGTAAAGTTTTGTTG
1 AAGTTAGGACAGAAAGTTATCCCCTATATGTAAAGTTTTGTTG
* *
394301 AAGTTAGGACTGAAAGTTGTCCCCTATATGTAAAGTTTT
1 AAGTTAGGACAGAAAGTTATCCCCTATATGTAAAGTTTT
394340 ATTTGATGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (43 bp):
AAGTTAGGACAGAAAGTTATCCCCTATATGTAAAGTTTTGTTG
Found at i:394527 original size:14 final size:14
Alignment explanation
Indices: 394490--394530 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
394480 GCATTCTTAT
* *
394490 TTTGCATCGTTGTA
1 TTTGCATCTTTGCA
394504 TTTGCA--TTTGCA
1 TTTGCATCTTTGCA
394516 TTTGCATCTTTGCA
1 TTTGCATCTTTGCA
394530 T
1 T
394531 AGTTACATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (14 bp):
TTTGCATCTTTGCA
Found at i:402006 original size:91 final size:90
Alignment explanation
Indices: 401851--402032 Score: 226
Period size: 91 Copynumber: 2.0 Consensus size: 90
401841 ATTTTCAAAG
*
401851 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGGAATTAATTGAACATCGAATGCATT
1 TGATGCACCGATGCACCAAACCATGCATCGATGCACCATGGAATTAA-T-AACATCGAATGCATT
*
401916 TTATACATCGATGCA-CTTAGTGCATT
64 TCATACATCGATGCACCTTAGTGCATT
* * *
401942 TGATGCATCGATGCA-CAAGACCATGCATCGATGCACTCATGCTATTTCAA-AACATCGAATGCA
1 TGATGCACCGATGCACCAA-ACCATGCATCGATGCAC-CATG-GAATT-AATAACATCGAATGCA
*
402005 TTTCATGCATCGATGCACTCTTAGTGCA
62 TTTCATACATCGATGCAC-CTTAGTGCA
402033 CCGATGCACT
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
90 3 0.04
91 58 0.73
92 4 0.05
93 12 0.15
94 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (90 bp):
TGATGCACCGATGCACCAAACCATGCATCGATGCACCATGGAATTAATAACATCGAATGCATTTC
ATACATCGATGCACCTTAGTGCATT
Found at i:407864 original size:24 final size:24
Alignment explanation
Indices: 407837--407917 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
407827 ACACTTAACA
407837 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
407861 GTGCATCGATTCAT-CATGTTG-AT
1 GTGCATCGATGCATCCCT-TTGAAT
*
407884 -T-CACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
407905 GTGCATCGATGCA
1 GTGCATCGATGCA
407918 CAGGGTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 10 0.22
22 3 0.07
23 13 0.29
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:410030 original size:24 final size:22
Alignment explanation
Indices: 409990--410066 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 22
409980 ATGCAATTAA
409990 TGCATCGATGCA---TAAGGAG
1 TGCATCGATGCACTGTAAGGAG
*
410009 TGCATCGATGCACATGTTAAGGGG
1 TGCATCGATGCAC-TG-TAAGGAG
* *
410033 TGCATCGATACACTGTAA--AA
1 TGCATCGATGCACTGTAAGGAG
410053 TGCATCGATGCACT
1 TGCATCGATGCACT
410067 TCAAGGGAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
19 12 0.25
20 13 0.27
22 3 0.06
23 2 0.04
24 18 0.38
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACTGTAAGGAG
Found at i:413916 original size:45 final size:43
Alignment explanation
Indices: 413852--413936 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 43
413842 GAACATCGAA
*
413852 TGCATTTATGCATCGATGCACATA-CCATGCATCGATGCACTTAG
1 TGCATTTATGCATCGATGCACA-AGACATGCATC-ATGCACTTAG
413896 TGCATTTGATGCATCGATGCACAAGACATGCATCATGCACT
1 TGCATTT-ATGCATCGATGCACAAGACATGCATCATGCACT
413937 CAGGCTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
44 15 0.39
45 23 0.61
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
TGCATTTATGCATCGATGCACAAGACATGCATCATGCACTTAG
Found at i:415404 original size:21 final size:21
Alignment explanation
Indices: 415372--415426 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
415362 ACATCTACAT
415372 TCTTCAAAGATGATAGATTCTC
1 TCTTC-AAGATGATAGATTCTC
415394 TCTTCAAGATGATAGATTCTC
1 TCTTCAAGATGATAGATTCTC
* *
415415 TTTTAAAGATGA
1 TCTTCAAGATGA
415427 AAGCTTTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 26 0.84
22 5 0.16
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
TCTTCAAGATGATAGATTCTC
Found at i:416036 original size:108 final size:109
Alignment explanation
Indices: 415731--416304 Score: 510
Period size: 121 Copynumber: 5.1 Consensus size: 109
415721 GATTCAAATC
*
415731 CATCACTCAATGGATTAACATTTCCAGAAGAGTTCATAATGAGAAGAA-TCATCTGAAGAAGGAA
1 CATCACTC-ATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
415795 TAAGAAGTTCATAATGAGATGAACTTGTTCAACCTTTTGCTCGAATT
65 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTTGCTC-AATT
* *
415842 CATCACTC--GGATCAAACATTGCCATGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTCATGGATC-AACATTTCCA-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
415905 AGAAGAATTTCATAATGATAAGAA-TTGTTCAACCTTTGCTCAATT
64 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCAATT
* *
415950 CATCACTCGATGGATCAATATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAA
1 CATCACTC-ATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
416014 GAAGAAGTTCATAATGAGAAGAACTTGTTC-ACCTTTGCTCGATT
65 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCAATT
* ** * *
416058 CTATCCCAGAAGGAGATAAATCAACACCAACATTTCCAGAAGGAGTTCATAATGAAAAGAAC-CT
1 C-ATCAC-TCATG-G----AT------CAACATTTCCAGAA-GAGTTCATAATGAGAAGAACTC-
* **
416122 ATCTGAAGAATGAAGAAGAAGTTCATAAT--G-AGAACTTGTTCAACCTTTTGCTTGATT
51 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTTGCTCAATT
* *
416179 CTATCA-TAGAAGGAAATAGATCAGCATCAACATTTCCAGAAGAGTTTATAATGAGAAGAACTCA
1 C-ATCACT-------CAT-G----G-ATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCA
* * *
416243 TCT-AAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTCAACC-TTGCCTTAATT
52 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTG-CTCAATT
416299 CATCAC
1 CATCAC
416305 ATATGAAGCC
Statistics
Matches: 388, Mismatches: 33, Indels: 75
0.78 0.07 0.15
Matches are distributed among these distances:
108 56 0.14
109 59 0.15
110 40 0.10
111 48 0.12
114 2 0.01
118 15 0.04
119 24 0.06
120 48 0.12
121 70 0.18
122 19 0.05
126 2 0.01
127 3 0.01
130 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (109 bp):
CATCACTCATGGATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCAATT
Found at i:416118 original size:121 final size:122
Alignment explanation
Indices: 415969--416458 Score: 455
Period size: 121 Copynumber: 3.9 Consensus size: 122
415959 ATGGATCAAT
*
415969 ATTTCCAGAAGTGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGA
1 ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
416033 AGAACTTGTTC-ACCTTTGCTCGATTCTATCCCAGAAGGAGATAAATCAACACCAAC
66 AGAACTTGTTCAACCTTTGCTCGATTCTATCACAGAAGGAAATAAATCAACACCAAC
* *
416089 ATTTCCAGAAGGAGTTCATAATGAAAAGAAC-CTATCTGAAGAATGAAGAAGAAGTTCATAAT--
1 ATTTCCAGAA-GAGTTCATAATGAGAAGAACTC-ATCTGAAGAAGGAAGAAGAAGTTCATAATGA
* * * * *
416151 G-AGAACTTGTTCAACCTTTTGCTTGATTCTATCATAGAAGGAAATAGATCAGCATCAAC
64 GAAGAACTTGTTCAACC-TTTGCTCGATTCTATCACAGAAGGAAATAAATCAACACCAAC
* *
416210 ATTTCCAGAAGAGTTTATAATGAGAAGAACTCATCT-AAGAAGG-AGAAGAAATTCATAATGAGA
1 ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* ** *
416273 AGAATTTGTTCAACC-TTGCCTTAATTC-ATCACATATGAAGCCAAATTAACAACCCCTCTTTTT
66 AGAACTTGTTCAACCTTTG-CTCGATTCTATCAC--A-GAAG-GAAA-T-A-AA----TC-----
* *
416336 AAAGATCAAC
114 -AACACCAAC
* *
416346 ATTTCCAGAAGGAGTTCATAATGAGAAGAACTCATCTGAA-AAAGAAGAATAAGTTCATAATGAG
1 ATTTCCAGAA-GAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* * * * *
416410 AAGAATTTGTTCAACTTTTTGCTAGATTATATCACA-AAAGAATATAAAT
65 AAGAACTTGTTCAAC-CTTTGCTCGATTCTATCACAGAAGGAA-ATAAAT
416459 TGTCATCCCC
Statistics
Matches: 305, Mismatches: 31, Indels: 59
0.77 0.08 0.15
Matches are distributed among these distances:
118 15 0.05
119 24 0.08
120 45 0.15
121 87 0.29
122 23 0.08
123 3 0.01
124 1 0.00
125 1 0.00
126 1 0.00
129 1 0.00
130 2 0.01
133 2 0.01
134 1 0.00
135 3 0.01
136 20 0.07
137 28 0.09
138 35 0.11
139 5 0.02
140 8 0.03
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.27
Consensus pattern (122 bp):
ATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTGCTCGATTCTATCACAGAAGGAAATAAATCAACACCAAC
Done.