Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008798.1 Hibiscus syriacus cultivar Beakdansim tig00111947_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: 1825372
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 9
Found at i:9509 original size:3 final size:3
Alignment explanation
Indices: 9501--9592 Score: 127
Period size: 3 Copynumber: 31.3 Consensus size: 3
9491 TTTAATATAT
* *
9501 TAA TAA TAA TAA T-A TAA TAA TGA T-A TAA TAA TAA TAA TGA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
*
9548 TAA T-A TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9593 GATGGGTAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
2 6 0.08
3 71 0.89
4 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:10678 original size:113 final size:113
Alignment explanation
Indices: 9900--10677 Score: 1187
Period size: 113 Copynumber: 7.0 Consensus size: 113
9890 TAGAATATGC
* * *
9900 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * **
9964 TATGAAC-TTCTC-GGAAAA--TAATCCATCAATTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
10008 AAAAGGTTGAACAAATTCTTCTCATTATGAA---CTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
10070 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
10118 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
10183 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
*
10231 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
10296 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
10344 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** * **
10409 TATGAACTCGAACTGGAAAAGATGATCCATTAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
10457 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
** * * * * *
10522 TATGAACTTTCTCTGGAAAAATTTATCCATCAAGTGATGGATTTGA-AC
66 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGA-TTCATAT
* *
10570 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** * * *
10635 TATGAACTCGAACTGGAAAAGTTGATCCATTGAATAATGGATT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATT
10678 TAAATCTTTG
Statistics
Matches: 619, Mismatches: 42, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
106 37 0.06
107 5 0.01
108 10 0.02
109 24 0.04
110 51 0.08
112 2 0.00
113 487 0.79
114 3 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCATTAAATGATGGATTCATAT
Found at i:11642 original size:83 final size:83
Alignment explanation
Indices: 11437--12042 Score: 1025
Period size: 83 Copynumber: 7.4 Consensus size: 83
11427 CATACCAAAC
* *
11437 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAACTCAATGATT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
* *
11502 G-TTCTGTCCAACCAAAT
66 GATTCTGTCCAATCAGAT
11519 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
11584 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
* * * *
11602 CAGATAACTCAAAGAACACTTCCAGAAGATGTTATTGGCAAATTCATCTTCCAAATTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
11667 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
* * *
11685 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
11750 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
11768 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
11833 GATTCTGTCCAATCAGAT
66 GATTCTGTCCAATCAGAT
11851 C--ATAACTCAAAGAACACTTCCAG-AGATGCTATTGGCAAA-TTATCTTCTAAACTC-ATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
11911 GATTCTGT---ATCAGAT
66 GATTCTGTCCAATCAGAT
11926 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
* *
11991 G-TTCTGTCTAACCAGAT
66 GATTCTGTCCAATCAGAT
12008 CAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 CAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
12043 GAACACAATC
Statistics
Matches: 502, Mismatches: 13, Indels: 18
0.94 0.02 0.03
Matches are distributed among these distances:
75 8 0.02
77 22 0.04
78 30 0.06
79 36 0.07
80 23 0.05
81 22 0.04
82 105 0.21
83 256 0.51
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (83 bp):
CAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTTATCTTCTAAACTCAATGCTT
GATTCTGTCCAATCAGAT
Found at i:13191 original size:11 final size:11
Alignment explanation
Indices: 13175--13228 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
13165 CCCCCTTTCT
13175 TTTTCTTCTTC
1 TTTTCTTCTTC
13186 TTTTCTTTCTT-
1 TTTTC-TTCTTC
*
13197 TTTTCTTTTTTC
1 TTTTC-TTCTTC
13209 TTTT-TT-TTC
1 TTTTCTTCTTC
13218 TATTTCTTCTT
1 T-TTTCTTCTT
13229 TTCTCTTAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
9 4 0.11
10 5 0.14
11 17 0.46
12 11 0.30
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTCTTC
Found at i:13194 original size:15 final size:13
Alignment explanation
Indices: 13169--13218 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
13159 TTGACCCCCC
13169 CTTTCTTTTTC-TT
1 CTTT-TTTTTCTTT
*
13182 C-TTCTTTTCTTT
1 CTTTTTTTTCTTT
*
13194 CTTTTTTCTTTTTT
1 CTTTTTT-TTCTTT
13208 CTTTTTTTTCT
1 CTTTTTTTTCT
13219 ATTTCTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 5 0.17
12 5 0.17
13 8 0.27
14 12 0.40
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTTTTTCTTT
Found at i:13195 original size:9 final size:9
Alignment explanation
Indices: 13170--13232 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
13160 TGACCCCCCC
13170 TTTCTTT-T
1 TTTCTTTCT
13178 TCTTC-TTCT
1 T-TTCTTTCT
13187 TTTCTTTC-
1 TTTCTTTCT
13195 TTT-TTTC-
1 TTTCTTTCT
13202 TTT-TTTCT
1 TTTCTTTCT
*
13210 TTTTTTTCT
1 TTTCTTTCT
13219 ATTTC-TTCT
1 -TTTCTTTCT
13228 TTTCT
1 TTTCT
13233 CTTAAGCATA
Statistics
Matches: 47, Mismatches: 1, Indels: 13
0.77 0.02 0.21
Matches are distributed among these distances:
7 11 0.23
8 16 0.34
9 17 0.36
10 3 0.06
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:13202 original size:16 final size:16
Alignment explanation
Indices: 13170--13235 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
13160 TGACCCCCCC
13170 TTTCTTT-TTCTTCTTCT
1 TTTCTTTCTT-TT-TTCT
13187 TTTCTTTCTTTTTTCT
1 TTTCTTTCTTTTTTCT
*
13203 TTT-TTCTTTTTTTTCT
1 TTTCTT-TCTTTTTTCT
*
13219 ATTTC-TTCTTTTCTCT
1 -TTTCTTTCTTTTTTCT
13235 T
1 T
13236 AAGCATATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
15 3 0.07
16 24 0.57
17 13 0.31
18 2 0.05
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTTTCTTTTTTCT
Found at i:13209 original size:23 final size:23
Alignment explanation
Indices: 13169--13235 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 23
13159 TTGACCCCCC
*
13169 CTTTC-TTTTTC-TTCTTCTTTT
1 CTTTCTTTTTTCTTTTTTCTTTT
13190 CTTTCTTTTTTCTTTTTTCTTTT
1 CTTTCTTTTTTCTTTTTTCTTTT
* *
13213 TTTTCTATTTCTTCTTTTCTCTT
1 CTTTCT-TTT-TTCTTTTTTCTT
13236 AAGCATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 5 0.13
22 6 0.15
23 14 0.36
24 3 0.08
25 11 0.28
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (23 bp):
CTTTCTTTTTTCTTTTTTCTTTT
Found at i:16775 original size:10 final size:9
Alignment explanation
Indices: 16751--16784 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
16741 TGAAATAAAT
16751 AAAATGTAA
1 AAAATGTAA
16760 AAAATGTAA
1 AAAATGTAA
16769 GAAAATGTAA
1 -AAAATGTAA
*
16779 AGAATG
1 AAAATG
16785 ATTGCCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.21
Consensus pattern (9 bp):
AAAATGTAA
Found at i:26074 original size:3 final size:3
Alignment explanation
Indices: 26066--26183 Score: 200
Period size: 3 Copynumber: 39.3 Consensus size: 3
26056 TTAATATATT
* *
26066 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
26114 TAA TAA TGA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
26162 TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
26184 GATATGGGTA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 107 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:26402 original size:14 final size:14
Alignment explanation
Indices: 26383--26412 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
26373 ATCTCATAAT
26383 TTATAAAAAAATTA
1 TTATAAAAAAATTA
26397 TTATAAAAAAATTA
1 TTATAAAAAAATTA
26411 TT
1 TT
26413 CTAATCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTATAAAAAAATTA
Found at i:28239 original size:15 final size:16
Alignment explanation
Indices: 28205--28242 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
28195 TATATATATA
28205 TATATATATGAATTATT
1 TATAT-TATGAATTATT
*
28222 TATATTATGGATTA-T
1 TATATTATGAATTATT
28237 TATATT
1 TATATT
28243 TTGTATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 8 0.40
17 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (16 bp):
TATATTATGAATTATT
Found at i:31643 original size:21 final size:20
Alignment explanation
Indices: 31617--31664 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
31607 TAACAATAAA
31617 AAAAATCTA-TAATTTACCTTT
1 AAAAAT-TATTAATTT-CCTTT
*
31638 AAAAATTATTTAATTTTCTTT
1 AAAAATTA-TTAATTTCCTTT
31659 AAAAAT
1 AAAAAT
31665 AGAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.08
21 16 0.67
22 6 0.25
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAATTATTAATTTCCTTT
Found at i:35700 original size:478 final size:478
Alignment explanation
Indices: 34433--35866 Score: 2431
Period size: 478 Copynumber: 3.0 Consensus size: 478
34423 CCATTTGGAG
* *
34433 ATAGGTTTTGGGAGTAATGATTTAGATAAATTTGTTGGTTTCATTACTGCCGCGCTGGTTTTAAT
1 ATAGGTTTTGGGAGTAATGATTTAGATAAATTTGTTGGTTTCATTACTGCCGCACTAGTTTTAAT
* ** *
34498 CCAGTAGCATGCGGAATTTGAATATTGTTGCTGTAATGTTTTATATTTGTCTTTATATCATCTAC
66 CCAGTAGCATGTGGAATTTGAATGCTGTTGCTGTAATGTTTTATATTTGTCTTTATATCATCGAC
* *
34563 TTGAAGAATGCTAATTCTGGGTTTAAATCATCATATGGTTACTGAAATTGTATGGATGCTTCTTC
131 TTGAAGAATGCTAATTCTGGGTTTAAATCATCATATGGTTGCTGAACTTGTATGGATGCTTCTTC
*
34628 ATCCCAGTAGACCTTATCTGGTTATTTTTGTTCGAATAGTGTCTTTTCTCTATTCCAAAAGGTAC
196 ATCCTAGTAGACC-TATCTGGTTATTTTTGTTCGAATAGTGTCTTTTCTCTATTCCAAAAGGTAC
*
34693 ATCTGATGTGCATTAACTTTTGATAGAATTGCAAATGATTACCAAAAATA-GAAAAAATATATCC
260 ATCTGATGTGCATTAACTTTTGATAGAAGTGCAAATGATTACCAAAAATAGGAAAAAATATATCC
34757 AAATAACTAACTGTTAACTTCCTAAAAACCTGGACTTTAGTG-A-A-GGACTCTGCCTGTAGTAC
325 AAATAACTAACTGTTAACTTCCTAAAAACCTGGACTTTAGTGAAGAGGGACTCTGCCTGTAGTAC
34819 CGAAGTTTATGAGGCACTGGAGTAAAGATGAATCCATTGAAGGAACAGTTACCAAATTTCAATTA
390 CGAAGTTTATGAGGCACTGGAGTAAAGATGAATCCATTGAAGGAACAGTTACCAAATTTCAATTA
34884 TTCCCTAACCTTCATTTATTTCAT
455 TTCCCTAACCTTCATTTATTTCAT
34908 ATAGGTTTTGGGAGTAATGATTTAGATAAATTTGTTGGTTTCATTACTGCCGCACTAGTTTTAAT
1 ATAGGTTTTGGGAGTAATGATTTAGATAAATTTGTTGGTTTCATTACTGCCGCACTAGTTTTAAT
*
34973 CCAGTAGCATGTGGAATTTGAATGCTGTTGCTGTTGCTGTAATGTTTTATGTTTGTCTTTATATC
66 CCAGTAGCATGTGGAATTTGAA------TGCTGTTGCTGTAATGTTTTATATTTGTCTTTATATC
* *
35038 ATCGATTTGAAGAATGCTAATTCTGGGTTTAAATCATCGTATGGTTGCTGAACTTGTATGGATGC
125 ATCGACTTGAAGAATGCTAATTCTGGGTTTAAATCATCATATGGTTGCTGAACTTGTATGGATGC
* * *
35103 TTCTTCATCATAGTAGACCTATATGGTTATTTTTGTTCGAATAGTGTATTTTCTCTATTCCAAAA
190 TTCTTCATCCTAGTAGACCTATCTGGTTATTTTTGTTCGAATAGTGTCTTTTCTCTATTCCAAAA
35168 GGTACATCTGATGTGCATTAACTTTTGATAGAAGTGCAAATGATTACCAAAAATAGGAAAAAATA
255 GGTACATCTGATGTGCATTAACTTTTGATAGAAGTGCAAATGATTACCAAAAATAGGAAAAAATA
*
35233 TATCCAAATAACTAACTGTTAACTTCCTAAAAACCTGGACTTTAGTGAAGAGGGACACAT-CCTG
320 TATCCAAATAACTAACTGTTAACTTCCTAAAAACCTGGACTTTAGTGAAGAGGGACTC-TGCCTG
*
35297 TAGTACCAAAGTTTATGAGGCACTGGAGTAAAGATGAATCCATTGAAGGAACAGTTACCAAATTT
384 TAGTACCGAAGTTTATGAGGCACTGGAGTAAAGATGAATCCATTGAAGGAACAGTTACCAAATTT
35362 CAATTATTCCCTAACCTTCATTTATTTCAT
449 CAATTATTCCCTAACCTTCATTTATTTCAT
35392 ATAGGTTTTGGGAGTAATGATTTAGATAAATTTGTTGGTTTCATTACTGCCGCACTAGTTTTAAT
1 ATAGGTTTTGGGAGTAATGATTTAGATAAATTTGTTGGTTTCATTACTGCCGCACTAGTTTTAAT
*
35457 CCAGTAGCATGTGGAATTTGAATGCTGTTGCTGTAATGTTTTATATTTGTCTTTATATCATCGAG
66 CCAGTAGCATGTGGAATTTGAATGCTGTTGCTGTAATGTTTTATATTTGTCTTTATATCATCGAC
35522 TTGAAGAATGCTAATTCTGGGTTTAAATCATCATATGGTTGCTGAACTTGTATGGATGCTTCTTC
131 TTGAAGAATGCTAATTCTGGGTTTAAATCATCATATGGTTGCTGAACTTGTATGGATGCTTCTTC
*
35587 ATCCTAGTAGGCCTATCTGGTTATTTTTGTTCGAATAGTGTCTTTTCTCTATTCCAAAAGGTACA
196 ATCCTAGTAGACCTATCTGGTTATTTTTGTTCGAATAGTGTCTTTTCTCTATTCCAAAAGGTACA
*
35652 TCTGATGTGCATTAACTTTTGATAGAAGTGCAAATGATTACTAAAAATAGG-AAAAATATATCCA
261 TCTGATGTGCATTAACTTTTGATAGAAGTGCAAATGATTACCAAAAATAGGAAAAAATATATCCA
* * * * * *
35716 AAT-CCTAACTTTTAATTTCCTAAAAAACTGGACTTTAGTGAAGAGAGACTCTGCCTGCAGTACC
326 AATAACTAACTGTTAACTTCCTAAAAACCTGGACTTTAGTGAAGAGGGACTCTGCCTGTAGTACC
* *
35780 GAAGTTTATGAGGCACTGGAGTAAAGATGAATTCATT----GAACAGTTAGCAAATTTCAATTAT
391 GAAGTTTATGAGGCACTGGAGTAAAGATGAATCCATTGAAGGAACAGTTACCAAATTTCAATTAT
* **
35841 TCCCTAGCCTTTGTTTATTTCAT
456 TCCCTAACCTTCATTTATTTCAT
35864 ATA
1 ATA
35867 ATCTTTGAGA
Statistics
Matches: 908, Mismatches: 39, Indels: 27
0.93 0.04 0.03
Matches are distributed among these distances:
472 46 0.05
475 85 0.09
476 87 0.10
477 16 0.02
478 216 0.24
480 98 0.11
481 167 0.18
482 1 0.00
483 1 0.00
484 190 0.21
485 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (478 bp):
ATAGGTTTTGGGAGTAATGATTTAGATAAATTTGTTGGTTTCATTACTGCCGCACTAGTTTTAAT
CCAGTAGCATGTGGAATTTGAATGCTGTTGCTGTAATGTTTTATATTTGTCTTTATATCATCGAC
TTGAAGAATGCTAATTCTGGGTTTAAATCATCATATGGTTGCTGAACTTGTATGGATGCTTCTTC
ATCCTAGTAGACCTATCTGGTTATTTTTGTTCGAATAGTGTCTTTTCTCTATTCCAAAAGGTACA
TCTGATGTGCATTAACTTTTGATAGAAGTGCAAATGATTACCAAAAATAGGAAAAAATATATCCA
AATAACTAACTGTTAACTTCCTAAAAACCTGGACTTTAGTGAAGAGGGACTCTGCCTGTAGTACC
GAAGTTTATGAGGCACTGGAGTAAAGATGAATCCATTGAAGGAACAGTTACCAAATTTCAATTAT
TCCCTAACCTTCATTTATTTCAT
Found at i:36582 original size:9 final size:9
Alignment explanation
Indices: 36556--36595 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
36546 TATTATTATC
*
36556 ATCATCATC
1 ATCATCATT
36565 ATCATCATT
1 ATCATCATT
36574 ATCATCATT
1 ATCATCATT
* *
36583 ATTATTATT
1 ATCATCATT
36592 ATCA
1 ATCA
36596 ATTCTCCTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (9 bp):
ATCATCATT
Found at i:42386 original size:23 final size:24
Alignment explanation
Indices: 42354--42401 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
42344 TTAAACCCAG
*
42354 ACCGGTTTTTTTTTCCGGATAAAA
1 ACCGGTTTTTTTATCCGGATAAAA
*
42378 ACCGG-TTTTTTATCCGGTTAAAA
1 ACCGGTTTTTTTATCCGGATAAAA
42401 A
1 A
42402 ATCGGTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (24 bp):
ACCGGTTTTTTTATCCGGATAAAA
Found at i:43424 original size:3 final size:3
Alignment explanation
Indices: 43416--43440 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43406 GGAAGTTGGG
43416 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
43441 CATTGTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:44989 original size:2 final size:2
Alignment explanation
Indices: 44982--45016 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
44972 AGTATTTATT
44982 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45017 TAAATTCAAC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46796 original size:31 final size:31
Alignment explanation
Indices: 46754--46880 Score: 175
Period size: 31 Copynumber: 4.1 Consensus size: 31
46744 AGACTCGAGG
46754 GTTTACCTATGTTCTTCGGGACATATGGACA
1 GTTTACCTATGTTCTTCGGGACATATGGACA
* *
46785 GTTTACATATG-TCTTTCGAGACATATGGACA
1 GTTTACCTATGTTC-TTCGGGACATATGGACA
** *
46816 GTTTACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTTCGGGACATATGGACA
* *
46847 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTTCGGGACATATGGACA
46878 GTT
1 GTT
46881 GCCGAGGTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
30 2 0.02
31 78 0.95
32 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACA
Found at i:47712 original size:11 final size:11
Alignment explanation
Indices: 47692--47725 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
47682 TTTTGCCGAG
47692 GTACTGTAGCA
1 GTACTGTAGCA
*
47703 GTATTGTAGCA
1 GTACTGTAGCA
47714 GTACTGTAGCA
1 GTACTGTAGCA
47725 G
1 G
47726 GGTATTAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (11 bp):
GTACTGTAGCA
Found at i:50505 original size:29 final size:28
Alignment explanation
Indices: 50473--50537 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 28
50463 TGAATATATA
*
50473 TGTTTTCTTGATTTT-GACACTTTAGTTTC
1 TGTTTT-TT-ATTTTAGACACTTAAGTTTC
*
50502 TGTTATTTTATTTTAGTCACTTAAGTTTC
1 TGTT-TTTTATTTTAGACACTTAAGTTTC
50531 TGTTTTT
1 TGTTTTT
50538 GCTATTTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 8 0.25
29 22 0.69
30 2 0.06
ACGTcount: A:0.15, C:0.11, G:0.12, T:0.62
Consensus pattern (28 bp):
TGTTTTTTATTTTAGACACTTAAGTTTC
Found at i:50545 original size:29 final size:30
Alignment explanation
Indices: 50490--50574 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
50480 TTGATTTTGA
*
50490 CACTTTAGTTTCTGTTATTT--TATTT-TAGT
1 CACTTAAGTTTCTGTT-TTTGCTATTTAT-GT
50519 CACTTAAGTTTCTGTTTTTGCTATTTATGT
1 CACTTAAGTTTCTGTTTTTGCTATTTATGT
* * * *
50549 CATTTAAATTTCTGGTTTAGCTATTT
1 CACTTAAGTTTCTGTTTTTGCTATTT
50575 TAGCCTTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.06
29 15 0.31
30 29 0.60
31 1 0.02
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.58
Consensus pattern (30 bp):
CACTTAAGTTTCTGTTTTTGCTATTTATGT
Found at i:52876 original size:17 final size:19
Alignment explanation
Indices: 52848--52896 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
52838 TATTTTAAAT
52848 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
52866 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
52885 CACCGATGCACT
1 CATCGATGCACT
52897 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:58662 original size:24 final size:24
Alignment explanation
Indices: 58635--58714 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
58625 CACTTAACAA
58635 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCATCCCTTTGAATG
* *
58659 TGCATCGATTCAT-CATGTTG-A--
1 TGCATCGATGCATCCCT-TTGAATG
*
58680 TGCACCGATGCA-CGCC-TTGAATG
1 TGCATCGATGCATC-CCTTTGAATG
58703 TGCATCGATGCA
1 TGCATCGATGCA
58715 CAGGGTCATG
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
20 3 0.07
21 11 0.25
22 1 0.02
23 14 0.32
24 15 0.34
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
TGCATCGATGCATCCCTTTGAATG
Found at i:58728 original size:20 final size:20
Alignment explanation
Indices: 58703--58754 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
58693 GCCTTGAATG
58703 TGCATCGATGCACAGGGTCA
1 TGCATCGATGCACAGGGTCA
58723 TGCATCGATGCACAGGGTCA
1 TGCATCGATGCACAGGGTCA
58743 TGCATCGATGCA
1 TGCATCGATGCA
58755 TCCGTCGGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (20 bp):
TGCATCGATGCACAGGGTCA
Found at i:60612 original size:64 final size:64
Alignment explanation
Indices: 60514--60723 Score: 196
Period size: 65 Copynumber: 3.2 Consensus size: 64
60504 TTTTTCAGAG
* * *
60514 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGAATTAAATTGAACATCGAATGCATT
1 TGATGCATCGATGCACCAAT-CATGCACCGATGCACCATGAATTATATTGAACATCGAATGCATT
* *
60579 TCATGCATCGATGCA-CATATCATGCACCGATGCA-C-TGAGGATTTTA-TGAAAACATCGAATG
1 TGATGCATCGATGCACCA-ATCATGCACCGATGCACCATGA--ATTATATTG--AACATCGAATG
60640 CATT
61 CATT
** * * ** * * *
60644 TGATGCATCGATGCACCAGCCATGCATCGATGCACTATG-GCTATTTTAAATCATCGAATGCACT
1 TGATGCATCGATGCACCAATCATGCACCGATGCACCATGAATTATATTGAA-CATCGAATGCATT
60708 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
60724 TCTTAGTGCA
Statistics
Matches: 119, Mismatches: 16, Indels: 21
0.76 0.10 0.13
Matches are distributed among these distances:
62 3 0.03
63 5 0.04
64 49 0.41
65 58 0.49
66 2 0.02
67 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (64 bp):
TGATGCATCGATGCACCAATCATGCACCGATGCACCATGAATTATATTGAACATCGAATGCATT
Found at i:60633 original size:65 final size:64
Alignment explanation
Indices: 60564--60744 Score: 208
Period size: 65 Copynumber: 2.8 Consensus size: 64
60554 AATTAAATTG
*
60564 AACATCGAATGCATTTCATGCATCGATGCACATATCATGCACCGATGCACTGA-GGAT-TTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACATATCATGCACCGATGCACT-ATGGATATTT-T-
60627 AA
63 AA
** * *
60629 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTATGGCTATTTTAA
1 AACATCGAATGCATTTGATGCATCGATGCA-CATATCATGCACCGATGCACTATGGATATTTTAA
* * * *
60693 ATCATCGAATGCACTTGATGCATCGATGCAC-TCTTAGTGCACCGATGCACTA
1 AACATCGAATGCATTTGATGCATCGATGCACATATCA-TGCACCGATGCACTA
60745 AGGGTCCAAC
Statistics
Matches: 100, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
63 2 0.02
64 45 0.45
65 48 0.48
66 5 0.05
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACATATCATGCACCGATGCACTATGGATATTTTAA
Found at i:60723 original size:17 final size:19
Alignment explanation
Indices: 60695--60743 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
60685 TATTTTAAAT
60695 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
60713 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
60732 CACCGATGCACT
1 CATCGATGCACT
60744 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:62763 original size:13 final size:13
Alignment explanation
Indices: 62745--62775 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
62735 CAATTCATCA
62745 TTTTTATACATAT
1 TTTTTATACATAT
62758 TTTTTATACATAT
1 TTTTTATACATAT
62771 TTTTT
1 TTTTT
62776 GCATCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTATACATAT
Found at i:63317 original size:43 final size:43
Alignment explanation
Indices: 63268--63377 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 43
63258 ACGAAGAGTC
*
63268 CATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACG
1 CATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACA
* * * *
63311 GATCCACGATTTTAACTCCACGACGGAGGATATCGTGCCCACA
1 CATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACA
* * *
63354 CAACCACGGTTTCAACTTCACGAC
1 CATCCACGATTTCAACTCCACGAC
63378 GAAGGGAATC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACA
Found at i:63389 original size:43 final size:43
Alignment explanation
Indices: 63271--63390 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
63261 AAGAGTCCAT
* ** *
63271 CCACGATTTCAACTCCACGAC-AGAGGATATCGTACCCACGGAT
1 CCACGATTTCAACTCCACGACGAG-GGATATCGTGCCCACACAA
*
63314 CCACGATTTTAACTCCACGACG-GAGGATATCGTGCCCACACAA
1 CCACGATTTCAACTCCACGACGAG-GGATATCGTGCCCACACAA
* *
63357 CCACGGTTTCAACTTCACGACGAAGGGA-ATCGTG
1 CCACGATTTCAACTCCACGACG-AGGGATATCGTG
63391 TTCACCGGCA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 62 0.94
44 3 0.05
45 1 0.02
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (43 bp):
CCACGATTTCAACTCCACGACGAGGGATATCGTGCCCACACAA
Found at i:63548 original size:206 final size:206
Alignment explanation
Indices: 63194--63593 Score: 656
Period size: 206 Copynumber: 1.9 Consensus size: 206
63184 TTGGACTCGA
* *
63194 AACATACAATACTTGGATTTTAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCAAGA
1 AACATACAATACCTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCAAGA
* * * *
63259 CGAAGAGTCCATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACGGATCCACGATTTT
66 CAAAAAGGCCATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACGGATCCACGATTTC
*
63324 AACTCCACGACGGAGGATATCGTGCCCACACAACCACGGTTTCAACTTCACGACGAAGGGAATCG
131 AACTCCACGACGGAGGATATCATGCCCACACAACCACGGTTTCAACTTCACGACGAAGGGAATCG
63389 TGTTCACCGGC
196 TGTTCACCGGC
*
63400 AACATACAATACCTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCACGA
1 AACATACAATACCTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCAAGA
* ** *
63465 TAAAAAGGCCATCCACGATTTCAACTCCACGATGGAGGATATCGTACCCACGGATCTACGATTTC
66 CAAAAAGGCCATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACGGATCCACGATTTC
* * * *
63530 AACTCCACGATGGAGGATATCATGCCCACACATCCACGGTTTCAACTTCATGATGAAGGGAATC
131 AACTCCACGACGGAGGATATCATGCCCACACAACCACGGTTTCAACTTCACGACGAAGGGAATC
63594 ATACACACAA
Statistics
Matches: 178, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
206 178 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (206 bp):
AACATACAATACCTGGATTTCAACTTCACGACGAAGGATATTCAAGTCAAGGCTCAACTTCAAGA
CAAAAAGGCCATCCACGATTTCAACTCCACGACAGAGGATATCGTACCCACGGATCCACGATTTC
AACTCCACGACGGAGGATATCATGCCCACACAACCACGGTTTCAACTTCACGACGAAGGGAATCG
TGTTCACCGGC
Found at i:63558 original size:43 final size:43
Alignment explanation
Indices: 63474--63602 Score: 152
Period size: 43 Copynumber: 3.0 Consensus size: 43
63464 ATAAAAAGGC
* *
63474 CATCCACGATTTCAACTCCACGATGGAGGATATCGTACCCACG
1 CATCCACGATTTCAACTCCACGATGGAGGATATCATACCCACA
* * *
63517 GATCTACGATTTCAACTCCACGATGGAGGATATCATGCCCACA
1 CATCCACGATTTCAACTCCACGATGGAGGATATCATACCCACA
* * * * *
63560 CATCCACGGTTTCAACTTCATGATGAAGGGA-ATCATACACACA
1 CATCCACGATTTCAACTCCACGATGGA-GGATATCATACCCACA
63603 AGCAGCGTCA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 69 0.96
44 3 0.04
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
CATCCACGATTTCAACTCCACGATGGAGGATATCATACCCACA
Found at i:64089 original size:3 final size:3
Alignment explanation
Indices: 64083--64123 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
64073 TCCAAAAAAA
64083 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
64124 AGAATACAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:65111 original size:144 final size:145
Alignment explanation
Indices: 64828--65149 Score: 448
Period size: 144 Copynumber: 2.2 Consensus size: 145
64818 TTGGATTCTC
* * * *
64828 GCCGGTGATTGGAATCTCCGATCAACATTCCAAACGGTCAAAAGTTGCACAAGAGCATCACAAAC
1 GCCGGCGATTGGGATCTCCGATCAACATTCCAAACAGTCAAAAGTTGCACAAGACCATCACAAAC
** *
64893 AACATACTGAAAATTCAGGACGATCGGACAGTGGACCACGATGGATCAAAGAAAATAATCCGAAC
66 AACATACTGAAAATTCAGGACGATCGGACAGTGGACCACGACAGATCAAAGAAAATAAGCCGAAC
64958 GGTTTTTGGCCTCTT
131 GGTTTTTGGCCTCTT
** * *
64973 GCCGGCGATTGGGATCTCCGAT-AACATTCTGAACATTCAAAAGTTGCGCAAGACCATCACAAAC
1 GCCGGCGATTGGGATCTCCGATCAACATTCCAAACAGTCAAAAGTTGCACAAGACCATCACAAAC
* *** ** *
65037 AACATACTGAAAATTCAGGACGATCGGACGGTGGGTGACGACAGATCGGAGAAAATAAGCCGAAT
66 AACATACTGAAAATTCAGGACGATCGGACAGTGGACCACGACAGATCAAAGAAAATAAGCCGAAC
*
65102 GGTTTTTGGCTTCTT
131 GGTTTTTGGCCTCTT
* *
65117 GCCGGCAATCGGGATCTCCGATCAACATTCCAA
1 GCCGGCGATTGGGATCTCCGATCAACATTCCAA
65150 GTGGCGAGAA
Statistics
Matches: 153, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
144 125 0.82
145 28 0.18
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (145 bp):
GCCGGCGATTGGGATCTCCGATCAACATTCCAAACAGTCAAAAGTTGCACAAGACCATCACAAAC
AACATACTGAAAATTCAGGACGATCGGACAGTGGACCACGACAGATCAAAGAAAATAAGCCGAAC
GGTTTTTGGCCTCTT
Found at i:65194 original size:144 final size:144
Alignment explanation
Indices: 64841--65217 Score: 388
Period size: 144 Copynumber: 2.6 Consensus size: 144
64831 GGTGATTGGA
* * * *
64841 ATCTCCGATCAACATTC-CAA-ACGGTCAAAAGTTGCACAAGAGCATCACAAACAACATACTGAA
1 ATCTCCGAT-AACATTCTCAACA-TG-CAAAAGTTGCGCAAGACCAACACAAACAACATACTGAA
* ** *
64904 AATTCAGGACGATCGGACAGTGGACCACGATGGATCAAAGAAAATAATCCGAACGGTTTTTGGCC
63 AATTCAGGACGATCGGACGGTGGACCACGACAGATCAAAGAAAATAAGCCGAACGGTTTTTGGCC
* *
64969 TCTTGCCGGCGATTGGG
128 TCTTGCCGGCAATCGGG
* * *
64986 ATCTCCGATAACATTCTGAACATTCAAAAGTTGCGCAAGACCATCACAAACAACATACTGAAAAT
1 ATCTCCGATAACATTCTCAACATGCAAAAGTTGCGCAAGACCAACACAAACAACATACTGAAAAT
*** ** * *
65051 TCAGGACGATCGGACGGTGGGTGACGACAGATCGGAGAAAATAAGCCGAATGGTTTTTGGCTTCT
66 TCAGGACGATCGGACGGTGGACCACGACAGATCAAAGAAAATAAGCCGAACGGTTTTTGGCCTCT
65116 TGCCGGCAATCGGG
131 TGCCGGCAATCGGG
* * * * * * *
65130 ATCTCCGATCAACATTC-CAA-GTGGCGAGAAGTTGTGTCATG-TCAACACGAACACCATACT-A
1 ATCTCCGAT-AACATTCTCAACAT-GC-AAAAGTTGCG-CAAGACCAACACAAACAACATACTGA
*
65191 AAATTTCAGAACGATCGGACGGTGGAC
62 AAA-TTCAGGACGATCGGACGGTGGAC
65218 GGTGGTGAAT
Statistics
Matches: 194, Mismatches: 31, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
143 1 0.01
144 128 0.66
145 61 0.31
146 4 0.02
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (144 bp):
ATCTCCGATAACATTCTCAACATGCAAAAGTTGCGCAAGACCAACACAAACAACATACTGAAAAT
TCAGGACGATCGGACGGTGGACCACGACAGATCAAAGAAAATAAGCCGAACGGTTTTTGGCCTCT
TGCCGGCAATCGGG
Found at i:65574 original size:30 final size:29
Alignment explanation
Indices: 65526--65587 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
65516 GTTATTTTAT
*
65526 TTTAGTCACTTAAGTTTCTACTTTT-GCTA
1 TTTAGTCACTTAAATTTCT-CTTTTAGCTA
* *
65555 TTTATGTCATTTAAATTTCTGTTTTAGCTA
1 TTTA-GTCACTTAAATTTCTCTTTTAGCTA
65585 TTT
1 TTT
65588 TAGCCTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.56
Consensus pattern (29 bp):
TTTAGTCACTTAAATTTCTCTTTTAGCTA
Found at i:73798 original size:42 final size:42
Alignment explanation
Indices: 73748--73854 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
73738 TTTTTCAAAA
*
73748 TCTCGTATTTGTTTAATATAATTCGTTTTTTGAAAAATATTT
1 TCTCGTATTTGTTTAACATAATTCGTTTTTTGAAAAATATTT
* * *
73790 T-TCCGTATTTTTTTCACGTAATTCGTTTTTTGAAAAATATTT
1 TCT-CGTATTTGTTTAACATAATTCGTTTTTTGAAAAATATTT
* * *
73832 TCTCGTGTTTGTTTCACGTAATT
1 TCTCGTATTTGTTTAACATAATT
73855 TATTTTCCGA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
41 1 0.02
42 55 0.96
43 1 0.02
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (42 bp):
TCTCGTATTTGTTTAACATAATTCGTTTTTTGAAAAATATTT
Found at i:73867 original size:42 final size:42
Alignment explanation
Indices: 73779--73884 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
73769 TTCGTTTTTT
* * * **
73779 GAAAAATATTTT-TCCGTATTTTTTTCACGTAATTCGTTTTTT
1 GAAAAATATTTTCT-CGTGTTTGTTTCACGTAATTCATTTTCC
*
73821 GAAAAATATTTTCTCGTGTTTGTTTCACGTAATTTATTTTCC
1 GAAAAATATTTTCTCGTGTTTGTTTCACGTAATTCATTTTCC
*
73863 GAAAAATGTTTTC-CAGTGTTTG
1 GAAAAATATTTTCTC-GTGTTTG
73885 GTTAGAGGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 53 0.96
43 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (42 bp):
GAAAAATATTTTCTCGTGTTTGTTTCACGTAATTCATTTTCC
Found at i:74143 original size:26 final size:24
Alignment explanation
Indices: 74081--74144 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 24
74071 CATTTTCATC
74081 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
74105 AAAATATAT-TTATTAATAT-TTAT
1 AAAATATATATTATTAAAATATT-T
74128 AATAATATAATATTATT
1 AA-AATAT-ATATTATT
74145 TTTTTAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.35
24 12 0.35
25 3 0.09
26 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:74206 original size:26 final size:25
Alignment explanation
Indices: 74177--74229 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
74167 ATCAATTATA
*
74177 TTATAATAATAAAAGATATTATATTT
1 TTATAATAAT-AAAGATATAATATTT
** *
74203 TTATTTTAATAAATATATAATATTT
1 TTATAATAATAAAGATATAATATTT
74228 TT
1 TT
74230 CTATATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
TTATAATAATAAAGATATAATATTT
Found at i:74257 original size:82 final size:80
Alignment explanation
Indices: 74081--74262 Score: 185
Period size: 82 Copynumber: 2.2 Consensus size: 80
74071 CATTTTCATC
* * * * *
74081 AAAATATTAATTA-TTAAAATATTTAAAATATATTTATTAATATTTATAATAATATAATATTATT
1 AAAATAATAATTATTTATAATA-ATAAAAGATATTTATTAATATTTATAATAATATAATAATATT
*
74145 TTTTTAATATTATAAT
65 TTTCTAATATTATAAT
**
74161 AAAATAATCAATTATATTATAATAATAAAAGATATTATATTTTTATTT-TAATAA-ATATATAAT
1 AAAATAAT-AATTAT-TTATAATAATAAAAGATATT-TATTAATATTTATAATAATATA-ATAAT
74224 ATTTTTCTATATATT-TAAT
62 ATTTTTCTA-ATATTATAAT
74243 AATGAATAAT-ATTATTTATA
1 AA--AATAATAATTATTTATA
74263 TATTTAATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
80 7 0.08
81 13 0.15
82 39 0.45
83 21 0.24
84 6 0.07
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (80 bp):
AAAATAATAATTATTTATAATAATAAAAGATATTTATTAATATTTATAATAATATAATAATATTT
TTCTAATATTATAAT
Found at i:74323 original size:23 final size:23
Alignment explanation
Indices: 74297--74341 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
74287 AATAATATTT
74297 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
74320 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
74342 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:74455 original size:18 final size:20
Alignment explanation
Indices: 74428--74465 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
74418 TAATAAAATT
74428 ATAAAAAAA-TA-TTTAATA
1 ATAAAAAAATTATTTTAATA
*
74446 ATAAATAAATTATTTTAATA
1 ATAAAAAAATTATTTTAATA
74466 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAAAAATTATTTTAATA
Found at i:74683 original size:15 final size:15
Alignment explanation
Indices: 74663--74734 Score: 83
Period size: 15 Copynumber: 4.8 Consensus size: 15
74653 TTCCAAAAAT
74663 GTAATTCATTTTTCA
1 GTAATTCATTTTTCA
** *
74678 GTAATTCAAATTCCA
1 GTAATTCATTTTTCA
74693 GTAATTCATTTTTCA
1 GTAATTCATTTTTCA
**
74708 GTAATTCA-AATTCTA
1 GTAATTCATTTTTC-A
74723 GTAATTCATTTT
1 GTAATTCATTTT
74735 CCAAAAAACC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
14 3 0.07
15 41 0.91
16 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (15 bp):
GTAATTCATTTTTCA
Found at i:74697 original size:30 final size:30
Alignment explanation
Indices: 74663--74734 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
74653 TTCCAAAAAT
74663 GTAATTCATTTTTCAGTAATTCAAATTCCA
1 GTAATTCATTTTTCAGTAATTCAAATTCCA
*
74693 GTAATTCATTTTTCAGTAATTCAAATTCTA
1 GTAATTCATTTTTCAGTAATTCAAATTCCA
74723 GTAATTCATTTT
1 GTAATTCATTTT
74735 CCAAAAAACC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (30 bp):
GTAATTCATTTTTCAGTAATTCAAATTCCA
Found at i:96598 original size:24 final size:24
Alignment explanation
Indices: 96571--96616 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
96561 TGCATGACAT
96571 TGTACATAGATGTTTTATACATAA
1 TGTACATAGATGTTTTATACATAA
* *
96595 TGTATATATATGTTTTATACAT
1 TGTACATAGATGTTTTATACAT
96617 CACTAGGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.48
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATAA
Found at i:96959 original size:40 final size:40
Alignment explanation
Indices: 96915--97024 Score: 166
Period size: 40 Copynumber: 2.8 Consensus size: 40
96905 AGGATACTAA
* * *
96915 GTGTATATGATGGGCACGACTTTATGTGTAATACACTTTG
1 GTGTATATGGTGGGCACGACATTATGTGTAATACACTTCG
* *
96955 GTGTATATGGTGGGCACGACCTTATGTGTAATGCACTTCG
1 GTGTATATGGTGGGCACGACATTATGTGTAATACACTTCG
*
96995 GTGTATATGGTGGACACGACATTATGTGTA
1 GTGTATATGGTGGGCACGACATTATGTGTA
97025 GAACTATGGT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.35
Consensus pattern (40 bp):
GTGTATATGGTGGGCACGACATTATGTGTAATACACTTCG
Found at i:97157 original size:45 final size:45
Alignment explanation
Indices: 97099--97197 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 45
97089 TATGGTTTAT
* * *
97099 AGTATATTGGTAAATTAAGCTTATGAGCTTATGGGATAAATGGTA
1 AGTATATTGGTAAAATAAGCTTACGAGCTTATGAGATAAATGGTA
97144 AGTATATTGGTAAAATAAGCTTACGAGCTTATGAGATAAATGGTA
1 AGTATATTGGTAAAATAAGCTTACGAGCTTATGAGATAAATGGTA
97189 AGTATATTG
1 AGTATATTG
97198 ATAAGAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.34
Consensus pattern (45 bp):
AGTATATTGGTAAAATAAGCTTACGAGCTTATGAGATAAATGGTA
Found at i:100754 original size:60 final size:60
Alignment explanation
Indices: 100676--100968 Score: 389
Period size: 60 Copynumber: 4.9 Consensus size: 60
100666 TTTTGCCTGT
* *
100676 TCTG-ATCTTCCATATTGGACTCCTAGATCATACTGGTCTAGGGTAAGTCCTTATGGATG
1 TCTGTATCTTCCATATTGGACTCTTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATG
* * *
100735 TCTGTATCTTTCATATTGGACTCTTAAATCTTAGTGGTCTAGGGTAAGTCCTTATGGATG
1 TCTGTATCTTCCATATTGGACTCTTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATG
* * *
100795 -CATGTATCTTCCATATTGGACTAC-TAGATCCTAGTGGTTTAGGGTAAGTCATTATGGATG
1 TC-TGTATCTTCCATATTGGACT-CTTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATG
* * *
100855 -CATGTATATTCCATATTGGACTCTTAGATCACAGTGGTCAAGGGTAAGTCCTTATGGATG
1 TC-TGTATCTTCCATATTGGACTCTTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATG
* * *
100915 TCTGTATCTTCCATATTAGACTCTTAGATCCTAAG-GGTCTAGGTTAAGTCCTTA
1 TCTGTATCTTCCATATTGGACTCTTAGATCAT-AGTGGTCTAGGGTAAGTCCTTA
100969 CGAATTTTTG
Statistics
Matches: 206, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
59 6 0.03
60 196 0.95
61 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (60 bp):
TCTGTATCTTCCATATTGGACTCTTAGATCATAGTGGTCTAGGGTAAGTCCTTATGGATG
Found at i:102898 original size:80 final size:80
Alignment explanation
Indices: 102810--102957 Score: 233
Period size: 80 Copynumber: 1.9 Consensus size: 80
102800 GGTAAAAAAT
** *
102810 AACATTTTAGTTAGCACTCAATATTAACATTTAAGGTAGAAAAAAATAATGTTTTAGGTAGCGAT
1 AACATTTTAAATAGCACCCAATATTAACATTTAAGGTAGAAAAAAATAATGTTTTAGGTAGCGAT
102875 TTACCAGAAACGATA
66 TTACCAGAAACGATA
* ** *
102890 AACATTTTAAATAGCGCCCAATATTAACATTTCCGGTAGAAAAAAATAATGTTTTAGGTAGCGCT
1 AACATTTTAAATAGCACCCAATATTAACATTTAAGGTAGAAAAAAATAATGTTTTAGGTAGCGAT
102955 TTA
66 TTA
102958 TCAAAAATGT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.32
Consensus pattern (80 bp):
AACATTTTAAATAGCACCCAATATTAACATTTAAGGTAGAAAAAAATAATGTTTTAGGTAGCGAT
TTACCAGAAACGATA
Found at i:103521 original size:18 final size:18
Alignment explanation
Indices: 103498--103533 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
103488 CTTATACACA
103498 AATTAACACCATTAAGCT
1 AATTAACACCATTAAGCT
103516 AATTAACACCATTAAGCT
1 AATTAACACCATTAAGCT
103534 TTTCAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (18 bp):
AATTAACACCATTAAGCT
Found at i:105280 original size:19 final size:19
Alignment explanation
Indices: 105256--105293 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
105246 ATGTTTCTCG
* *
105256 TATATCATATATATATATA
1 TATATCACATATACATATA
105275 TATATCACATATACATATA
1 TATATCACATATACATATA
105294 GATCATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (19 bp):
TATATCACATATACATATA
Found at i:107029 original size:18 final size:18
Alignment explanation
Indices: 106999--107033 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
106989 TTAGCATTAC
106999 TTGCATAAACCTTATTCT
1 TTGCATAAACCTTATTCT
107017 TTGCA-AAATCCTTATTC
1 TTGCATAAA-CCTTATTC
107034 AGGTCACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.43
Consensus pattern (18 bp):
TTGCATAAACCTTATTCT
Found at i:116523 original size:20 final size:20
Alignment explanation
Indices: 116494--116532 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
116484 AGAGCTCATA
*
116494 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
116514 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
116533 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:120946 original size:2 final size:2
Alignment explanation
Indices: 120933--120974 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
120923 ATGTTTCCCG
120933 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
120975 CACATATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:122977 original size:35 final size:35
Alignment explanation
Indices: 122931--123005 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
122921 AAAATACTTT
* *
122931 AATTTAGGGTTTAGAATATAATTAAAGTATTTTGG
1 AATTTAGGGTTTAAAATATAATTAAAGTATTTTAG
* *
122966 AATTTAGGGTTTAAAATGTAATTAAAGTGTTTTAG
1 AATTTAGGGTTTAAAATATAATTAAAGTATTTTAG
123001 AATTT
1 AATTT
123006 TGAACATGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (35 bp):
AATTTAGGGTTTAAAATATAATTAAAGTATTTTAG
Found at i:128840 original size:35 final size:35
Alignment explanation
Indices: 128801--128916 Score: 160
Period size: 35 Copynumber: 3.3 Consensus size: 35
128791 CCAATTTTGA
128801 AAAAATGATTTTCAAAGTTTGGTAAATGTTTCTTT
1 AAAAATGATTTTCAAAGTTTGGTAAATGTTTCTTT
* *
128836 AAAAATGATTTTTAAAATTTGGTAAATGTTTCTTT
1 AAAAATGATTTTCAAAGTTTGGTAAATGTTTCTTT
* * * *
128871 GAAAAATAGTTTTTCAAAGTTTGGTAGATGTTTGTTG
1 -AAAAAT-GATTTTCAAAGTTTGGTAAATGTTTCTTT
128908 AAAAATGAT
1 AAAAATGAT
128917 AATGAGATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
35 35 0.50
36 12 0.17
37 23 0.33
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.44
Consensus pattern (35 bp):
AAAAATGATTTTCAAAGTTTGGTAAATGTTTCTTT
Found at i:131585 original size:133 final size:135
Alignment explanation
Indices: 131347--131614 Score: 522
Period size: 133 Copynumber: 2.0 Consensus size: 135
131337 CTGCTGAAAG
131347 AAGTAAACTTGATTCTAAGTCCAACAAATATGCCTTTGTTGGTTACGGCGGTGATAAGTTCGGTT
1 AAGTAAACTTGATTCTAAGTCCAACAAATATGCCTTTGTTGGTTACGGCGGTGATAAGTTCGGTT
131412 ACTGGTTTTGGGACTATGAAAATCGGAAGATCATTAGAAGTAGAGATGTCA-TTTC-ATGAGAAT
66 ACTGGTTTTGGGACTATGAAAATCGGAAGATCATTAGAAGTAGAGATGTCATTTTCAATGAGAAT
131475 GTGAT
131 GTGAT
131480 AAGTAAACTTGATTCTAAGTCCAACAAATATGCCTTTGTTGGTTACGGCGGTGATAAGTTCGGTT
1 AAGTAAACTTGATTCTAAGTCCAACAAATATGCCTTTGTTGGTTACGGCGGTGATAAGTTCGGTT
131545 ACTGGTTTTGGGACTATGAAAATCGGAAGATCATTAGAAGTAGAGATGTCATTTTCAATGAGAAT
66 ACTGGTTTTGGGACTATGAAAATCGGAAGATCATTAGAAGTAGAGATGTCATTTTCAATGAGAAT
131610 GTGAT
131 GTGAT
131615 GTACAAAGAT
Statistics
Matches: 133, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
133 116 0.87
134 4 0.03
135 13 0.10
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (135 bp):
AAGTAAACTTGATTCTAAGTCCAACAAATATGCCTTTGTTGGTTACGGCGGTGATAAGTTCGGTT
ACTGGTTTTGGGACTATGAAAATCGGAAGATCATTAGAAGTAGAGATGTCATTTTCAATGAGAAT
GTGAT
Found at i:145601 original size:21 final size:20
Alignment explanation
Indices: 145577--145640 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
145567 AACTTTGAAA
145577 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
145598 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
145612 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
145633 AAATGTTT
1 AAATGTTT
145641 ATTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 7 0.21
21 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:145683 original size:36 final size:36
Alignment explanation
Indices: 145570--145690 Score: 156
Period size: 35 Copynumber: 3.4 Consensus size: 36
145560 GGTAACCAAC
*
145570 TTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTTC
1 TTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTTA
*
145607 TTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTTA
1 TTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTTA
* * *
145642 TTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT-
1 TTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTTA
*
145678 GTTGAAAAATGAT
1 TTTGAAAAATGAT
145691 AATGGGATAA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
35 35 0.47
36 14 0.19
37 26 0.35
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (36 bp):
TTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTTA
Found at i:157051 original size:17 final size:17
Alignment explanation
Indices: 157029--157064 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
157019 TGGCAAGTCA
157029 AATTTAACTTCAAATTC
1 AATTTAACTTCAAATTC
157046 AATTTAACTTCAAATTC
1 AATTTAACTTCAAATTC
157063 AA
1 AA
157065 CTTATCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTTAACTTCAAATTC
Found at i:158609 original size:21 final size:21
Alignment explanation
Indices: 158566--158610 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
158556 GATTTCTGGG
* *
158566 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
158587 CAAGGGGAACCGATACTCC-TT
1 CAAGGGGAACCGATAC-CCATT
158608 CAA
1 CAA
158611 ACGAACAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:159476 original size:2 final size:2
Alignment explanation
Indices: 159469--159516 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
159459 AATCTTGAGA
159469 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
159511 AT AT AT
1 AT AT AT
159517 GAAATGAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:160037 original size:14 final size:14
Alignment explanation
Indices: 160018--160045 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
160008 GAAAAGAAGC
160018 TATGTGATACGTGA
1 TATGTGATACGTGA
160032 TATGTGATACGTGA
1 TATGTGATACGTGA
160046 ATTACAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:160452 original size:145 final size:143
Alignment explanation
Indices: 160145--160453 Score: 521
Period size: 145 Copynumber: 2.1 Consensus size: 143
160135 GAGTCGAGGG
*
160145 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGAAGTCTTGAAAGACACATAC
1 TCTACGCGGTCCTTCGGG--ATA--TATATTCTGTGGAACATGTGAAGTCTTGAAAGACACATAC
160210 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTATA
62 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTATA
160275 TGGCACTACGGTGCAAT
127 TGGCACTACGGTGCAAT
160292 TCTACGCGGTCCTTCGGGATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACATACTT
1 TCTACGCGGTCCTTCGGGATATATATTCTGTGGAACA--TGTGAAGTCTTGAAAGACACATACTT
**
160357 GATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTTTTATATG
64 GATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTATATG
160422 GCACTACGGTGCAAT
129 GCACTACGGTGCAAT
160437 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
160454 TGCAATTATA
Statistics
Matches: 156, Mismatches: 3, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
143 15 0.10
144 1 0.01
145 122 0.78
147 18 0.12
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (143 bp):
TCTACGCGGTCCTTCGGGATATATATTCTGTGGAACATGTGAAGTCTTGAAAGACACATACTTGA
TCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTATATGGC
ACTACGGTGCAAT
Found at i:160454 original size:23 final size:23
Alignment explanation
Indices: 160421--160465 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
160411 ATTTTTATAT
*
160421 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
160444 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
160466 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:162350 original size:21 final size:21
Alignment explanation
Indices: 162308--162350 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
162298 TTTCTGGGTT
* * *
162308 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
162329 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
162350 A
1 A
162351 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:162416 original size:67 final size:67
Alignment explanation
Indices: 162330--162480 Score: 214
Period size: 67 Copynumber: 2.3 Consensus size: 67
162320 ACCCATTCAA
* **
162330 GGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATGCTAGAGGGGAATCGGTACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCAATACCCCCA
162394 GGG
66 -GG
* * * *
162397 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCAATACCCCCA
1 GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCAATACCCCCA
162462 GG
66 GG
*
162464 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
162481 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
67 40 0.53
68 35 0.47
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.17
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCTAGAGGGGAATCAATACCCCCA
GG
Found at i:162880 original size:30 final size:31
Alignment explanation
Indices: 162838--162897 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
162828 AGAAAAAGTT
*
162838 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
162869 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
162898 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:163191 original size:22 final size:22
Alignment explanation
Indices: 163117--163183 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
163107 TTATGGACAT
163117 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
163139 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
163161 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
163183 A
1 A
163184 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:165941 original size:21 final size:21
Alignment explanation
Indices: 165915--165959 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
165905 GATTTTTGGG
* *
165915 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
165936 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
165957 CAA
1 CAA
165960 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:166914 original size:2 final size:2
Alignment explanation
Indices: 166907--166952 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
166897 GAACGTGTGA
166907 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
166949 AT AT
1 AT AT
166953 GTCTAAGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:167769 original size:149 final size:149
Alignment explanation
Indices: 167499--167813 Score: 569
Period size: 149 Copynumber: 2.1 Consensus size: 149
167489 GAGTCGAGGG
* * *
167499 TCTACGCGGTCCTTCAGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
167564 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
167629 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
167648 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
167713 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTTTTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
167778 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
167797 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
167814 TGCAATTATA
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.01
149 159 0.99
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:167814 original size:23 final size:23
Alignment explanation
Indices: 167781--167825 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
167771 ATTTTTATAT
*
167781 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
167804 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
167826 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:189524 original size:135 final size:135
Alignment explanation
Indices: 189343--189739 Score: 668
Period size: 135 Copynumber: 2.9 Consensus size: 135
189333 TAAATAATGG
189343 AATGTGTTTCAAATAAAACATACATTATTAAGATTAAAATGAAGAAAAATAATTGATTTTCATAA
1 AATGTGTTTCAAATAAAACATACATTATTAAGATTAAAATGAAGAAAAATAATTGATTTTCATAA
*
189408 AAATAATAGTAAAGTACAAAAATAGTCCTCCGATTATAAAATATTATTTTGTTGAATGAAATGTG
66 AAATAATAGTAAAGTACAAAAATAGTCTTCCGATTATAAAATATTATTTTGTTGAATGAAATGTG
189473 TCTTT
131 TCTTT
*
189478 AATGTGTTTCAAATAAAACATACATTATTAGGATTAAAATGAAGAAAAATAATTGATTTTCATAA
1 AATGTGTTTCAAATAAAACATACATTATTAAGATTAAAATGAAGAAAAATAATTGATTTTCATAA
* *
189543 AAATATTAGTAAAGTACAAAAATAGTCTTCCGATTATAAAATATTATTTTGTTGAATGGAATGTG
66 AAATAATAGTAAAGTACAAAAATAGTCTTCCGATTATAAAATATTATTTTGTTGAATGAAATGTG
189608 TCTTT
131 TCTTT
189613 AATGTGTTTCAAATAAAACATACATTATTAAGATTAAAATGAAGAAAAATAATTGATTTTCATAA
1 AATGTGTTTCAAATAAAACATACATTATTAAGATTAAAATGAAGAAAAATAATTGATTTTCAT--
* * * * *
189678 AATAATAATAATAATAAAGTACACAAATAGTCTTTCGATTATAATATGTTATTTTGTTGAAT
64 -A-AA-AATAATAGTAAAGTACAAAAATAGTCTTCCGATTATAAAATATTATTTTGTTGAAT
189740 TCCTCAACTA
Statistics
Matches: 246, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
135 193 0.78
138 1 0.00
139 2 0.01
140 50 0.20
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.37
Consensus pattern (135 bp):
AATGTGTTTCAAATAAAACATACATTATTAAGATTAAAATGAAGAAAAATAATTGATTTTCATAA
AAATAATAGTAAAGTACAAAAATAGTCTTCCGATTATAAAATATTATTTTGTTGAATGAAATGTG
TCTTT
Found at i:189890 original size:2 final size:2
Alignment explanation
Indices: 189883--189917 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
189873 CTTTTTCTTT
189883 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
189918 TCTTTTTTCC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:191554 original size:15 final size:15
Alignment explanation
Indices: 191534--191566 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
191524 CGTAGGACCC
191534 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
191549 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
191564 CTA
1 CTA
191567 TTATACCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:191715 original size:23 final size:26
Alignment explanation
Indices: 191678--191746 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
191668 TTCTCTTGTG
191678 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
191702 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
191727 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
191747 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:191728 original size:12 final size:12
Alignment explanation
Indices: 191711--191746 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
191701 TATCATGTTC
191711 TCATATCACATG
1 TCATATCACATG
*
191723 TCATATCACATA
1 TCATATCACATG
191735 TCATATCACATG
1 TCATATCACATG
191747 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:192186 original size:64 final size:64
Alignment explanation
Indices: 192118--192260 Score: 191
Period size: 64 Copynumber: 2.2 Consensus size: 64
192108 TATTATTGGG
* *
192118 ATGCATCGATGCACCAATTGCATTCGATG-TTTCATTATT-AATGGGATGCATCGATGCACTACT
1 ATGCATCGATGCACCAATTGCATTCGATGTTTTCATT-TTAAAAGAG-TGCATCGATGCACTACT
*
192181 T
64 A
** *
192182 ATGCATCGATGCATGAATTGCATTCGATGTTTTTATTTTAAAAGAGTGCATCGATGCACTACTA
1 ATGCATCGATGCACCAATTGCATTCGATGTTTTCATTTTAAAAGAGTGCATCGATGCACTACTA
*
192246 ATGCATCGATACACC
1 ATGCATCGATGCACC
192261 TTCAAACAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 58 0.85
65 10 0.15
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACCAATTGCATTCGATGTTTTCATTTTAAAAGAGTGCATCGATGCACTACTA
Found at i:202996 original size:15 final size:15
Alignment explanation
Indices: 202976--203008 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
202966 CGTAGGACCT
*
202976 CTACATCCCGAAGGA
1 CTACATCCCAAAGGA
202991 CTACATCCCAAAGGA
1 CTACATCCCAAAGGA
203006 CTA
1 CTA
203009 TTATACCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.33, G:0.15, T:0.15
Consensus pattern (15 bp):
CTACATCCCAAAGGA
Found at i:203580 original size:64 final size:62
Alignment explanation
Indices: 203472--203697 Score: 213
Period size: 64 Copynumber: 3.5 Consensus size: 62
203462 TAATGAAGGT
** ** * *
203472 ATGCATCGATGCACTACTGATGCATCTG-TGCATAAAAGGTATTCGATGTATTATTATTGTTCGG
1 ATGCATCGATGCACTACTGATGCATC-GATGCACCAATTGCATTCGATGT-TTATTATT-TTAGG
* * * *
203536 ATGCATCGATGCACTCCTTATGCATCGATGCACCAATTGCATTCGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTGATGCATCGATGCACCAATTGCATTCGATGTTT-ATTATT-TTAGG
* * * ** *
203600 ATGCATCGATGCACTAATTATGCATCGATGAATGAATTGCATTCGATGTTT-TTATTTTAAAAG
1 ATGCATCGATGCACTACTGATGCATCGATGCACCAATTGCATTCGATGTTTATTATTTT--AGG
*
203663 AGTGCATCGATGCACTACTGATGCATCGATACACC
1 A-TGCATCGATGCACTACTGATGCATCGATGCACC
203698 TTCAAATAAT
Statistics
Matches: 133, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
61 1 0.01
62 5 0.04
63 5 0.04
64 122 0.92
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCACTACTGATGCATCGATGCACCAATTGCATTCGATGTTTATTATTTTAGG
Found at i:205077 original size:2 final size:2
Alignment explanation
Indices: 205070--205095 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
205060 GGTAGCAAAC
205070 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
205096 GATTACAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:206388 original size:14 final size:16
Alignment explanation
Indices: 206365--206401 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
206355 AGATACGTAT
206365 TAATATATATCATTGA
1 TAATATATATCATTGA
206381 TAATATATATCATTGA
1 TAATATATATCATTGA
206397 TAATA
1 TAATA
206402 CACAGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (16 bp):
TAATATATATCATTGA
Found at i:213706 original size:24 final size:24
Alignment explanation
Indices: 213667--213712 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
213657 TCCAGATCCT
*
213667 CCTCCTCCACCTCCACCTCCACTC
1 CCTCCTCCACCGCCACCTCCACTC
*
213691 CCTCCTCCTCCGCCACCTCCAC
1 CCTCCTCCACCGCCACCTCCAC
213713 CGCCCCCTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.67, G:0.02, T:0.20
Consensus pattern (24 bp):
CCTCCTCCACCGCCACCTCCACTC
Found at i:213715 original size:12 final size:12
Alignment explanation
Indices: 213670--213722 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
213660 AGATCCTCCT
*
213670 CCTCCACCTCCA
1 CCTCCACCGCCA
*
213682 CCTCCACTC-CCT
1 CCTCCAC-CGCCA
*
213694 CCTCCTCCGCCA
1 CCTCCACCGCCA
*
213706 CCTCCACCGCCC
1 CCTCCACCGCCA
213718 CCTCC
1 CCTCC
213723 GGCCCCAGCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
11 1 0.03
12 32 0.94
13 1 0.03
ACGTcount: A:0.09, C:0.70, G:0.04, T:0.17
Consensus pattern (12 bp):
CCTCCACCGCCA
Found at i:213721 original size:24 final size:24
Alignment explanation
Indices: 213670--213722 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
213660 AGATCCTCCT
* *
213670 CCTCCACCTCCACCTCCACTCCCT
1 CCTCCACCGCCACCTCCACTCCCC
*
213694 CCTCCTCCGCCACCTCCAC-CGCCC
1 CCTCCACCGCCACCTCCACTC-CCC
213718 CCTCC
1 CCTCC
213723 GGCCCCAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.09, C:0.70, G:0.04, T:0.17
Consensus pattern (24 bp):
CCTCCACCGCCACCTCCACTCCCC
Found at i:222282 original size:20 final size:20
Alignment explanation
Indices: 222254--222296 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
222244 CATCTCGATC
* *
222254 TGAATCGAGTCAACCCGACT
1 TGAACCGAGTCAACCCAACT
222274 TGAACCGAGTCAACCCAACT
1 TGAACCGAGTCAACCCAACT
222294 TGA
1 TGA
222297 CATGTTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (20 bp):
TGAACCGAGTCAACCCAACT
Found at i:222336 original size:19 final size:19
Alignment explanation
Indices: 222300--222343 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
222290 AACTTGACAT
222300 GTTGACTTTGACTAGACCC
1 GTTGACTTTGACTAGACCC
* *
222319 GTTGGCTTTGACCT-GACCT
1 GTTGACTTTGA-CTAGACCC
222338 GTTGAC
1 GTTGAC
222344 CATTGACTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (19 bp):
GTTGACTTTGACTAGACCC
Found at i:224336 original size:58 final size:58
Alignment explanation
Indices: 224264--224392 Score: 222
Period size: 58 Copynumber: 2.2 Consensus size: 58
224254 TGTTTGCATT
*
224264 GGGTAAGTCCTTAGGGGCCTGAAGGCACTCCTCTCAGGTGGCACCTACGCTTATGCTA
1 GGGTAAGTCCTTAGGAGCCTGAAGGCACTCCTCTCAGGTGGCACCTACGCTTATGCTA
*
224322 GGGTAAGTCCTTAGGAGCCTGAAGGCACTCCTCTTAGGTGGCACCTACGCTTATGCTA
1 GGGTAAGTCCTTAGGAGCCTGAAGGCACTCCTCTCAGGTGGCACCTACGCTTATGCTA
* *
224380 AGGTAAGACCTTA
1 GGGTAAGTCCTTA
224393 TGGACCCAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.25
Consensus pattern (58 bp):
GGGTAAGTCCTTAGGAGCCTGAAGGCACTCCTCTCAGGTGGCACCTACGCTTATGCTA
Found at i:234173 original size:19 final size:19
Alignment explanation
Indices: 234149--234195 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
234139 CATAAATCAT
234149 CAACAATAAATCGGTGTAC
1 CAACAATAAATCGGTGTAC
234168 CAACAATAAATCGGTGTAC
1 CAACAATAAATCGGTGTAC
*
234187 CATCAATAA
1 CAACAATAA
234196 TAATCCATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (19 bp):
CAACAATAAATCGGTGTAC
Found at i:234920 original size:9 final size:9
Alignment explanation
Indices: 234906--234931 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
234896 CGGGTCAACG
234906 GTCGGGTCA
1 GTCGGGTCA
234915 GTCGGGTCA
1 GTCGGGTCA
234924 GTCGGGTC
1 GTCGGGTC
234932 GTGTCTGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.23, G:0.46, T:0.23
Consensus pattern (9 bp):
GTCGGGTCA
Found at i:234983 original size:20 final size:19
Alignment explanation
Indices: 234946--235003 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
234936 CTGACCGGTC
* *
234946 AAACCGATCAAACCGGTTCG
1 AAACCGGTCAAACTGGTT-G
234966 -AACCGGTCAAAACTGGTTG
1 AAACCGGTC-AAACTGGTTG
234985 AAAACCGGTCAAACTGGTT
1 -AAACCGGTCAAACTGGTT
235004 TTCCAGCAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 8 0.24
20 17 0.52
21 8 0.24
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (19 bp):
AAACCGGTCAAACTGGTTG
Found at i:242243 original size:5 final size:5
Alignment explanation
Indices: 242233--242265 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
242223 CACGGTCAAC
*
242233 GGTCG GGTCG GGTC- AGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
242266 TGACCGGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.03, C:0.21, G:0.55, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:242253 original size:14 final size:14
Alignment explanation
Indices: 242234--242260 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
242224 ACGGTCAACG
242234 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
242248 GTCGGGTCGGGTC
1 GTCGGGTCGGGTC
242261 GGGTCTGACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.22, G:0.52, T:0.22
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:242281 original size:19 final size:19
Alignment explanation
Indices: 242259--242296 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
242249 TCGGGTCGGG
*
242259 TCGGGTCTGACCGGTTAAA
1 TCGGGTCAGACCGGTTAAA
*
242278 TCGGTTCAGACCGGTTAAA
1 TCGGGTCAGACCGGTTAAA
242297 CTGGTTCGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (19 bp):
TCGGGTCAGACCGGTTAAA
Found at i:242319 original size:10 final size:9
Alignment explanation
Indices: 242302--242359 Score: 62
Period size: 10 Copynumber: 6.1 Consensus size: 9
242292 TTAAACTGGT
242302 TCGAACCGG
1 TCGAACCGG
242311 TCGGAACCGG
1 TC-GAACCGG
* *
242321 TCAAACTGG
1 TCGAACCGG
242330 TTCGAACCGG
1 -TCGAACCGG
242340 TCGGAACCGG
1 TC-GAACCGG
*
242350 TCAAACCGG
1 TCGAACCGG
242359 T
1 T
242360 TAAAACCGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 16 0.39
10 25 0.61
ACGTcount: A:0.24, C:0.29, G:0.31, T:0.16
Consensus pattern (9 bp):
TCGAACCGG
Found at i:242319 original size:29 final size:29
Alignment explanation
Indices: 242287--242369 Score: 130
Period size: 29 Copynumber: 2.9 Consensus size: 29
242277 ATCGGTTCAG
*
242287 ACCGGTTAAACTGGTTCGAACCGGTCGGA
1 ACCGGTCAAACTGGTTCGAACCGGTCGGA
242316 ACCGGTCAAACTGGTTCGAACCGGTCGGA
1 ACCGGTCAAACTGGTTCGAACCGGTCGGA
* **
242345 ACCGGTCAAACCGGTTAAAACCGGT
1 ACCGGTCAAACTGGTTCGAACCGGT
242370 TGAAAATCGG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.18
Consensus pattern (29 bp):
ACCGGTCAAACTGGTTCGAACCGGTCGGA
Found at i:242356 original size:19 final size:18
Alignment explanation
Indices: 242268--242389 Score: 55
Period size: 19 Copynumber: 6.3 Consensus size: 18
242258 GTCGGGTCTG
* * *
242268 ACCGGTTAAATCGGTTCAG
1 ACCGGTCAAACCGG-TCAA
* * *
242287 ACCGGTTAAACTGGTTCGA
1 ACCGGTCAAACCGG-TCAA
*
242306 ACCGGTCGGAACCGGTCAA
1 ACCGGTC-AAACCGGTCAA
* * *
242325 ACTGGTTCGAACCGGTCGGA
1 ACCGG-TCAAACCGGTC-AA
*
242345 ACCGGTCAAACCGGTTAAA
1 ACCGGTCAAACCGG-TCAA
* *
242364 ACCGGTTGAAAATCGGTCAA
1 ACCGG-T-CAAACCGGTCAA
242384 ACCGGT
1 ACCGGT
242390 TTCCAGCAGC
Statistics
Matches: 80, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
19 52 0.65
20 22 0.28
21 6 0.08
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.20
Consensus pattern (18 bp):
ACCGGTCAAACCGGTCAA
Found at i:243514 original size:17 final size:16
Alignment explanation
Indices: 243475--243542 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 16
243465 ATGTAAAAAA
*
243475 ATTAATTAAA-TACAAT
1 ATTAAATAAATTA-AAT
*
243491 ATTAAATAATTTAAAT
1 ATTAAATAAATTAAAT
243507 ACTTAAATAAATTAAAT
1 A-TTAAATAAATTAAAT
*
243524 ATTAAATATAATAAAAT
1 ATTAAATA-AATTAAAT
243541 AT
1 AT
243543 ACCTTAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
16 19 0.42
17 26 0.58
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:245741 original size:38 final size:37
Alignment explanation
Indices: 245660--245787 Score: 122
Period size: 38 Copynumber: 3.5 Consensus size: 37
245650 TATATACACA
* * * * *
245660 TATATATTATATAGTTTGCAAATTGTTTTTGAAAATACA
1 TATATAATATATAGTTT-AAAAATATTTTTGAAAATA-T
245699 TATATAATATATAGTTTAAAACAT-TTTTTGAAAATAT
1 TATATAATATATAGTTTAAAA-ATATTTTTGAAAATAT
*
245736 GTATAT--TATATAGTTTTTAAAATATTTTTG-AAA-AT
1 -TATATAATATATAG-TTTAAAAATATTTTTGAAAATAT
245771 TATATAATATATAGTTT
1 TATATAATATATAGTTT
245788 TTGAAAACGT
Statistics
Matches: 78, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
34 5 0.06
35 5 0.06
36 19 0.24
37 12 0.15
38 20 0.26
39 17 0.22
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.48
Consensus pattern (37 bp):
TATATAATATATAGTTTAAAAATATTTTTGAAAATAT
Found at i:245782 original size:36 final size:37
Alignment explanation
Indices: 245685--246070 Score: 193
Period size: 36 Copynumber: 10.0 Consensus size: 37
245675 TTGCAAATTG
245685 TTTTTGAAAATACATATATAATATATAG--TTTAAAACA
1 TTTTTGAAAAT--ATATATAATATATAGTTTTTAAAACA
* * *
245722 TTTTTTGAAAATATGTATATTATATAGTTTTTAAAATA
1 -TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
*
245760 TTTTTGAAAAT-TATATAATATATAGTTTTTGAAAACG
1 TTTTTGAAAATATATATAATATATAGTTTTT-AAAACA
* * *
245797 TTTTT-AAAATATATATAATGTATACTTTTGAAAAC-
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* * * *
245832 GTTATGAAAACATTTATATAATATATAATTTTTTAAAAACCA
1 TTTTTG-AAA-ATATATATAATATAT-AGTTTTT-AAAA-CA
* * * *
245874 -TTTTGAAAATATATTTTTTGAAAATTATATAATACATAGTTTTTGAAAACG
1 TTTTTGAAAATATA-----T-ATAA-TATATAGT---T--TTTA--AA-ACA
* * *
245925 TTTTT-AAAATATATATAATAGATACTTTTGAAAACA
1 TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
* ** * *
245961 TTATAAAAACATTTATATAATATATAATTTTTAAAA-A
1 TTTTTGAAA-ATATATATAATATATAGTTTTTAAAACA
245998 TCATTTTGAAAATATATAT-A-ATATAGTTTTTAAAAACA
1 T--TTTTGAAAATATATATAATATATAGTTTTT-AAAACA
* * *
246036 -TTTTAAAAATTTATATATTATAT-GTTTTTGAAAAC
1 TTTTTGAAAATATATATAATATATAGTTTTT-AAAAC
246071 GTTTATATAT
Statistics
Matches: 270, Mismatches: 43, Indels: 72
0.70 0.11 0.19
Matches are distributed among these distances:
35 17 0.06
36 66 0.24
37 55 0.20
38 62 0.23
39 16 0.06
40 7 0.03
41 6 0.02
44 7 0.03
45 8 0.03
46 6 0.02
48 1 0.00
50 3 0.01
51 11 0.04
52 5 0.02
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTTAAAACA
Found at i:245893 original size:128 final size:127
Alignment explanation
Indices: 245760--246014 Score: 449
Period size: 128 Copynumber: 2.0 Consensus size: 127
245750 TTTTAAAATA
*
245760 TTTTTGAAAATTATATAATATATAGTTTTTGAAAACGTTTTTAAAATATATATAAT-GTATACTT
1 TTTTTGAAAATTATATAATACATAGTTTTTGAAAACGTTTTTAAAATATATATAATAG-ATACTT
* *
245824 TTGAAAACGTTATGAAAACATTTATATAATATATAATTTTTTAAAAACCATTTTGAAAATATAT
65 TTGAAAACATTATAAAAACATTTATATAATATATAA-TTTTTAAAAACCATTTTGAAAATATAT
245888 TTTTTGAAAATTATATAATACATAGTTTTTGAAAACGTTTTTAAAATATATATAATAGATACTTT
1 TTTTTGAAAATTATATAATACATAGTTTTTGAAAACGTTTTTAAAATATATATAATAGATACTTT
*
245953 TGAAAACATTATAAAAACATTTATATAATATATAATTTTTAAAAATCATTTTGAAAATATAT
66 TGAAAACATTATAAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
246015 ATAATATAGT
Statistics
Matches: 122, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
127 26 0.21
128 95 0.78
129 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (127 bp):
TTTTTGAAAATTATATAATACATAGTTTTTGAAAACGTTTTTAAAATATATATAATAGATACTTT
TGAAAACATTATAAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
Found at i:245894 original size:15 final size:16
Alignment explanation
Indices: 245874--245903 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
245864 TTAAAAACCA
245874 TTTTGAAAA-TATATT
1 TTTTGAAAATTATATT
245889 TTTTGAAAATTATAT
1 TTTTGAAAATTATAT
245904 AATACATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTGAAAATTATATT
Found at i:245992 original size:75 final size:72
Alignment explanation
Indices: 245894--246074 Score: 215
Period size: 75 Copynumber: 2.5 Consensus size: 72
245884 ATATTTTTTG
* * *
245894 AAAA-TTATATAATACATAGTTTTTGAAAACGTTTTTAAAATATATATAATAGATA-CTTTTGAA
1 AAAATTTATATAATATATAGTTTTTGAAAACGTTTTGAAAATATATATAAT--ATAGCTTTTAAA
245957 AACATTATAA
64 AACATT-TAA
* * * *
245967 AAACATTTATATAATATATAATTTTTAAAAATCATTTTGAAAATATATATAATATAGTTTTTAAA
1 AAA-ATTTATATAATATATAGTTTTTGAAAA-CGTTTTGAAAATATATATAATATAGCTTTTAAA
*
246032 AACATTTTA
64 AACATTTAA
*
246041 AAAATTTATATATTATAT-GTTTTTGAAAACGTTT
1 AAAATTTATATAATATATAGTTTTTGAAAACGTTT
246075 ATATATATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
71 4 0.04
72 9 0.10
73 17 0.18
74 9 0.10
75 34 0.37
76 19 0.21
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (72 bp):
AAAATTTATATAATATATAGTTTTTGAAAACGTTTTGAAAATATATATAATATAGCTTTTAAAAA
CATTTAA
Found at i:246090 original size:3 final size:3
Alignment explanation
Indices: 246082--246139 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
246072 TTTATATATA
* * *
246082 TAT TAT TAT TAT TAT TAT CAT TATT TAT TAT TAT TTT TAT CACT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA-T TAT
246129 T-T TAT T-T TAT T
1 TAT TAT TAT TAT T
246140 TTTTCCCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.09
3 36 0.80
4 5 0.11
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:246109 original size:22 final size:24
Alignment explanation
Indices: 246084--246139 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 24
246074 TATATATATA
246084 TTATTATTATTATTATCA-TTA-T
1 TTATTATTATTATTATCACTTATT
*
246106 TTATTATTATTTTTATCACTTATT
1 TTATTATTATTATTATCACTTATT
246130 TTATT-TTATT
1 TTATTATTATT
246140 TTTTCCCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 17 0.55
23 8 0.26
24 6 0.19
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATTATTATTATTATCACTTATT
Found at i:246128 original size:19 final size:19
Alignment explanation
Indices: 246087--246136 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
246077 ATATATATTA
* * *
246087 TTATTATTATTATCATTAT
1 TTATTATTATTTTCATCAC
*
246106 TTATTATTATTTTTATCAC
1 TTATTATTATTTTCATCAC
246125 TTATT-TTATTTT
1 TTATTATTATTTT
246137 ATTTTTTCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATTATTTTCATCAC
Found at i:252697 original size:84 final size:83
Alignment explanation
Indices: 252602--253119 Score: 625
Period size: 84 Copynumber: 6.2 Consensus size: 83
252592 TCAAGGCCAT
* * * * *
252602 AAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTATGCTCAGCTTCGAGGGCACATCATTTG
1 AAGGGTTATCTGCCAACCAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTG
252667 CAGCATAACTTAAGTCGAG
65 CAGCATAACTTAAGTCGAG
252686 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
1 AAGGGTTATCTGCCAACC-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
*
252751 CAGCATAGCTTAAGTCGAG
65 CAGCATAACTTAAGTCGAG
* ** * * * * *
252770 AAGGGCTATCTGCC-A--AAGACCCCCAAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
1 AAGGGTTATCTGCCAACCAAGACCTTC-GAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTT
252832 GCAGCATAACTTAAGTCGAG
64 GCAGCATAACTTAAGTCGAG
*
252852 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
1 AAGGGTTATCTGCCAACC-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
** * *
252917 CAATACAACTTAAGTCTAG
65 CAGCATAACTTAAGTCGAG
* * * *
252936 AAGGGTTGTTTGCCAACAAAGACCTTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTT
1 AAGGGTTATCTGCCAACCAAGACC-TTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTT
* * * *
253000 ACAGCATAACTCAAGGCTAG
64 GCAGCATAACTTAAGTCGAG
* *
253020 AAGGGTTATCTGTGACCAA--AAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCAAT
1 AAGGGTTATC--TG-CCAACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
253083 TGCAGCATAGCTTAAGTCAAG
63 TGCAGCATAACTTAAGTCGAG
253104 AAGGGTTATCTGCCAA
1 AAGGGTTATCTGCCAA
253120 AGACTCACGA
Statistics
Matches: 372, Mismatches: 49, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
80 7 0.02
81 20 0.05
82 49 0.13
83 11 0.03
84 220 0.59
85 52 0.14
86 9 0.02
87 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (83 bp):
AAGGGTTATCTGCCAACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
AGCATAACTTAAGTCGAG
Found at i:252854 original size:166 final size:165
Alignment explanation
Indices: 252578--253175 Score: 705
Period size: 168 Copynumber: 3.6 Consensus size: 165
252568 TAAACAAACT
* * * * * * ** * **
252578 ATTTGCAGCTTAGCTCAAGGCCATAAGGGCTATCTGCCCACCAAGACCTTCGAGTTCGACTATGC
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTG-CCA--AAGACCCACGAGTTCGATTACAC
*
252643 TCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
63 TCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
252708 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
128 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
252746 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAAGTTCGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCAC-GAGTTCGATTACACTC
*
252811 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGAC
65 AGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGAC
*
252876 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
** * * * * * *** * *
252912 ATTTGCAATACAACTTAAGTCTAGAAGGGTTGTTTGCCAACAAAGACCTTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTG-C--CAAAGACC-CACGAGTTCGATTACA
* * * * * **
252977 CTCAGC-TCAACGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAA
62 CTCAGCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AA
*
253040 AGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATC
126 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
253080 AATTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGACTCACGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCACGAGTTCGATTACACTCA
* * * *
253145 ACTTCGAGGTCATATCATTTACAACATAACT
66 GCTTCGAGGGCACATCATTTACAGCATAACT
253176 CATGGCAAGA
Statistics
Matches: 367, Mismatches: 56, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
164 16 0.04
165 37 0.10
166 140 0.38
167 8 0.02
168 142 0.39
169 24 0.07
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAAAGACCCACGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:253851 original size:34 final size:35
Alignment explanation
Indices: 253756--253882 Score: 143
Period size: 35 Copynumber: 3.6 Consensus size: 35
253746 TTGCAAATTG
*
253756 TTTTTGAAAATACATATATAATATA-TAGTTTAAAACA
1 TTTTTGAAAAT--ATATATAATATAGT-TTTTAAAACA
* * *
253793 TTTTTTGAAAATATGTATATTATAGTTTTTAAAATA
1 -TTTTTGAAAATATATATAATATAGTTTTTAAAACA
*
253829 TTTTTGAAAAT-TATATAATATAGTTTTTGAAAACG
1 TTTTTGAAAATATATATAATATAGTTTTT-AAAACA
253864 TTTTT-AAAATATATATAAT
1 TTTTTGAAAATATATATAAT
253883 GTATACTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
34 20 0.26
35 28 0.36
36 18 0.23
37 1 0.01
38 11 0.14
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.47
Consensus pattern (35 bp):
TTTTTGAAAATATATATAATATAGTTTTTAAAACA
Found at i:253900 original size:36 final size:35
Alignment explanation
Indices: 253755--253954 Score: 124
Period size: 35 Copynumber: 5.5 Consensus size: 35
253745 TTTGCAAATT
*
253755 GTTTTTGAAAATACATATATAATATATAGTTT-AAAAC
1 GTTTTTGAAAAT--ATATATAAT-TATATTTTGAAAAC
* * * *
253792 ATTTTTTGAAAATATGTAT-ATTATAGTTTTTAAAAT
1 -GTTTTTGAAAATATATATAATTATA-TTTTGAAAAC
*
253828 ATTTTTGAAAAT-TATATAA-TATAGTTTTTGAAAAC
1 GTTTTTGAAAATATATATAATTATA--TTTTGAAAAC
253863 GTTTTT-AAAATATATATAATGTATACTTTTGAAAAC
1 GTTTTTGAAAATATATATAAT-TATA-TTTTGAAAAC
* * *
253899 G-TTATGAAAACATTTATATAATATATAATTTTTTAAAAAC
1 GTTTTTG-AAA-ATATATATAAT-TAT-A--TTTTGAAAAC
**
253939 CATTTTGAAAATATAT
1 GTTTTTGAAAATATAT
253955 TTTTTGAAAA
Statistics
Matches: 130, Mismatches: 19, Indels: 25
0.75 0.11 0.14
Matches are distributed among these distances:
34 17 0.13
35 40 0.31
36 20 0.15
37 7 0.05
38 24 0.18
39 6 0.05
40 12 0.09
41 4 0.03
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (35 bp):
GTTTTTGAAAATATATATAATTATATTTTGAAAAC
Found at i:253961 original size:15 final size:16
Alignment explanation
Indices: 253941--253970 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
253931 TTAAAAACCA
253941 TTTTGAAAA-TATATT
1 TTTTGAAAATTATATT
253956 TTTTGAAAATTATAT
1 TTTTGAAAATTATAT
253971 AATACATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTGAAAATTATATT
Found at i:253962 original size:126 final size:126
Alignment explanation
Indices: 253829--254081 Score: 438
Period size: 128 Copynumber: 2.0 Consensus size: 126
253819 TTTTAAAATA
253829 TTTTTGAAAATTATATAAT-ATAGTTTTTGAAAACGTTTTTAAAATATATATAAT-GTATACTTT
1 TTTTTGAAAATTATATAATAATAGTTTTTGAAAACGTTTTTAAAATATATATAATAG-ATACTTT
* *
253892 TGAAAACGTTATGAAAACATTTATATAATATATAATTTTTTAAAAACCATTTTGAAAATATAT
65 TGAAAACATTATAAAAACATTTATATAATATATAA-TTTTTAAAAACCATTTTGAAAATATAT
253955 TTTTTGAAAATTATATAATACATAGTTTTTGAAAACGTTTTTAAAATATATATAATAGATACTTT
1 TTTTTGAAAATTATATAATA-ATAGTTTTTGAAAACGTTTTTAAAATATATATAATAGATACTTT
*
254020 TGAAAACATTATAAAAACATTTATATAATATATAATTTTTAAAAATCATTTTGAAAATATAT
65 TGAAAACATTATAAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
254082 ATAATATATA
Statistics
Matches: 121, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
126 19 0.16
127 26 0.21
128 75 0.62
129 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (126 bp):
TTTTTGAAAATTATATAATAATAGTTTTTGAAAACGTTTTTAAAATATATATAATAGATACTTTT
GAAAACATTATAAAAACATTTATATAATATATAATTTTTAAAAACCATTTTGAAAATATAT
Found at i:254007 original size:37 final size:37
Alignment explanation
Indices: 253956--254141 Score: 171
Period size: 39 Copynumber: 5.0 Consensus size: 37
253946 AAAATATATT
* * *
253956 TTTTGAAAAT-TATATAATACATAGTTTTTGAAAACG
1 TTTTAAAAATATATATAATATATAGTTTTTGAAAACA
* * *
253992 TTTTTAAAATATATATAATAGATA-CTTTTGAAAACA
1 TTTTAAAAATATATATAATATATAGTTTTTGAAAACA
* * * *
254028 TTATAAAAACATTTATATAATATATAATTTTTAAAAATCA
1 TT-TTAAAA-ATATATATAATATATAGTTTTTGAAAA-CA
* *
254068 TTTTGAAAATATATATAATATATAGTTTTTTAAAAACA
1 TTTTAAAAATATATATAATATATAG-TTTTTGAAAACA
* * *
254106 TTTTAAAAAATTTATATATTATAT-GTTTTTGGAAAC
1 TTTT-AAAAATATATATAATATATAGTTTTTGAAAAC
254142 GTTTATATAT
Statistics
Matches: 124, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
36 21 0.17
37 25 0.20
38 36 0.29
39 38 0.31
40 4 0.03
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
TTTTAAAAATATATATAATATATAGTTTTTGAAAACA
Found at i:254134 original size:38 final size:38
Alignment explanation
Indices: 253961--254135 Score: 144
Period size: 38 Copynumber: 4.6 Consensus size: 38
253951 ATATTTTTTG
* * * *
253961 AAAA-TTATATAATACATAG-TTTTTGAAAACGTTTT-T
1 AAAATTTATATAATATAT-GTTTTTTAAAAACATTTTAA
* * ** * *
253997 AAAATATATATAATAGAT-ACTTTTGAAAACATTATAA
1 AAAATTTATATAATATATGTTTTTTAAAAACATTTTAA
** *
254034 AAACATTTATATAATATATAATTTTTAAAAATCATTTT-G
1 AAA-ATTTATATAATATATGTTTTTTAAAAA-CATTTTAA
*
254073 AAAATATATATAATATATAGTTTTTTAAAAACATTTTAA
1 AAAATTTATATAATATAT-GTTTTTTAAAAACATTTTAA
*
254112 AAAATTTATATATTATATGTTTTT
1 AAAATTTATATAATATATGTTTTT
254136 GGAAACGTTT
Statistics
Matches: 113, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
36 17 0.15
37 14 0.12
38 39 0.35
39 38 0.34
40 5 0.04
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
AAAATTTATATAATATATGTTTTTTAAAAACATTTTAA
Found at i:254161 original size:3 final size:3
Alignment explanation
Indices: 254153--254207 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
254143 TTTATATATA
* * *
254153 TAT TAT TAT TAT TAT CAT TATT TAT TAT TAT TTT TAT CACT TAT T-T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT
254199 TAT T-T TAT T
1 TAT TAT TAT T
254208 TTTTCCCATG
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.10
3 33 0.79
4 5 0.12
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:254181 original size:22 final size:24
Alignment explanation
Indices: 254153--254207 Score: 80
Period size: 22 Copynumber: 2.4 Consensus size: 24
254143 TTTATATATA
254153 TATTATTATTATTATCA-TTA-TT
1 TATTATTATTATTATCACTTATTT
*
254175 TATTATTATTTTTATCACTTATTT
1 TATTATTATTATTATCACTTATTT
254199 TATT-TTATT
1 TATTATTATT
254208 TTTTCCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 16 0.53
23 8 0.27
24 6 0.20
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTATTATTATTATCACTTATTT
Found at i:254189 original size:16 final size:16
Alignment explanation
Indices: 254154--254183 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
254144 TTATATATAT
254154 ATTA-TTATTATTATC
1 ATTATTTATTATTATC
254169 ATTATTTATTATTAT
1 ATTATTTATTATTAT
254184 TTTTATCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATTTATTATTATC
Done.