Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004322.1 Hibiscus syriacus cultivar Beakdansim tig00009473_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: 85451
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:1567 original size:18 final size:19
Alignment explanation
Indices: 1544--1580 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
1534 AGGGGTTTGG
1544 TAAAAAGAGA-TTAAATAA
1 TAAAAAGAGATTTAAATAA
1562 TAAAAAGAGATTTAAATAA
1 TAAAAAGAGATTTAAATAA
1581 AAATAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (19 bp):
TAAAAAGAGATTTAAATAA
Found at i:5533 original size:55 final size:55
Alignment explanation
Indices: 5461--5772 Score: 484
Period size: 55 Copynumber: 5.7 Consensus size: 55
5451 ATTACCAAAT
* * *
5461 GGCACTATCTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
5516 GGCACTATGTCTACAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
5571 GGCACTATATGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* **
5626 GGCA-T-TGTGTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTTTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
*
5679 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * *
5734 GGAATTGTGTGTGCAAAACTAAGAAATTCATAGTAAGTT
1 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTT
5773 GTGGATTACC
Statistics
Matches: 237, Mismatches: 18, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
53 48 0.20
54 2 0.01
55 187 0.79
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:5692 original size:108 final size:110
Alignment explanation
Indices: 5461--5772 Score: 484
Period size: 108 Copynumber: 2.9 Consensus size: 110
5451 ATTACCAAAT
* * *
5461 GGCACTATCTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTATGT
1 GGCACTATATGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTATGT
* *
5526 CTACAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
66 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
5571 GGCACTATATGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCA-T-TGT
1 GGCACTATATGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTATGT
* **
5634 GTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTTTGTATG
66 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * * *
5679 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAATTGTGT
1 GGCACTATATGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTATGT
*
5744 GTGCAAAACTAAGAAATTCATAGTAAGTT
66 GTGCAAAACTAAGAAATTCATAATAAGTT
5773 GTGGATTACC
Statistics
Matches: 187, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
108 99 0.53
109 2 0.01
110 86 0.46
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (110 bp):
GGCACTATATGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTATGT
GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:5749 original size:163 final size:163
Alignment explanation
Indices: 5470--5772 Score: 507
Period size: 163 Copynumber: 1.9 Consensus size: 163
5460 TGGCACTATC
5470 TGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTATGTCTACAAAAC
1 TGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTATGTCTACAAAAC
*
5535 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTATATGTGCAAAACTAAGAAATTC
66 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTATATGTGCAAAACTAAGAAATTC
5600 ATAATAAGTTTATGAATTTCCGTATGGGCATTG
131 ATAATAAGTTTATGAATTTCCGTATGGGCATTG
* ** * * *
5633 TGTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTTTGTATGGGCACTGTGTGTGCAAAAC
1 TGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTATGTCTACAAAAC
* * *
5698 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAATTGTGTGTGCAAAACTAAGAAATTC
66 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTATATGTGCAAAACTAAGAAATTC
*
5763 ATAGTAAGTT
131 ATAATAAGTT
5773 GTGGATTACC
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
163 129 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (163 bp):
TGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTATGTCTACAAAAC
TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTATATGTGCAAAACTAAGAAATTC
ATAATAAGTTTATGAATTTCCGTATGGGCATTG
Found at i:5806 original size:108 final size:107
Alignment explanation
Indices: 5471--5820 Score: 445
Period size: 108 Copynumber: 3.2 Consensus size: 107
5461 GGCACTATCT
* * * *
5471 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTATGTCTACAAAACT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCA-T-TGTGTGCAAAACT
*
5536 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTATA
64 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTAGA
5580 TGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGTGTGCAAAACTA
1 -GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGTGTGCAAAACTA
* ** * *
5645 AGAAATTTATAATAAGTTTATGAATTTTTGTATGGGCACTGTGT
65 AGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACT-AGA
*
5689 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAATTGTGTGTGCAAAACT
1 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCA-T-TGTGTGCAAAACT
* * * * * *
5754 AAGAAATTCATAGTAAG-TTGTGGATTACCGTATTGACACTACGA
64 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTA-GA
*
5798 GTGC-AAACTATAG-AATTTATAAT
1 GTGCAAAACTA-AGAAATTCATAAT
5821 GAAATTAAAT
Statistics
Matches: 212, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
108 112 0.53
109 25 0.12
110 75 0.35
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (107 bp):
GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCATTGTGTGCAAAACTAA
GAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTAGA
Found at i:5817 original size:163 final size:163
Alignment explanation
Indices: 5471--5820 Score: 490
Period size: 163 Copynumber: 2.1 Consensus size: 163
5461 GGCACTATCT
*
5471 GTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATGGGCACTATGTCTACAAAACT
1 GTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCATATGGGCACTATGTCTACAAAACT
*
5536 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTATATGTGCAAAACTAAGAAATTCA
66 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTATATGTGCAAAACTAAGAAATTCA
* * * *
5601 TAATAAGTTTATGAATTTCCGTATGGGCATTGT
131 TAATAAGTTTATGAATTACCGTATGGACATCGA
** * * *
5634 GTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTTTGTATGGGCACTGTGTGTGCAAAACT
1 GTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCATATGGGCACTATGTCTACAAAACT
* * *
5699 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAATTGTGTGTGCAAAACTAAGAAATTCA
66 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTATATGTGCAAAACTAAGAAATTCA
* * * *
5764 TAGTAAG-TTGTGGATTACCGTATTGACACTACGA
131 TAATAAGTTTATGAATTACCGTATGGACA-T-CGA
5798 GTGC-AAACTATAG-AATTTATAAT
1 GTGCAAAACTA-AGAAATTTATAAT
5821 GAAATTAAAT
Statistics
Matches: 166, Mismatches: 18, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
162 16 0.10
163 143 0.86
164 7 0.04
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (163 bp):
GTGCAAAACTAAGAAATTTATAATAAGTTTATGAATTTTCATATGGGCACTATGTCTACAAAACT
AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGAACTATATGTGCAAAACTAAGAAATTCA
TAATAAGTTTATGAATTACCGTATGGACATCGA
Found at i:6087 original size:81 final size:81
Alignment explanation
Indices: 5880--6531 Score: 909
Period size: 81 Copynumber: 8.1 Consensus size: 81
5870 GTTCTAAAAC
* * *
5880 AAAAGATTAATGGT-TTAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAG
1 AAAAGATTAAT-GTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
5944 GTTAAATACCTTTGAGT
65 GTTAAATACCTTTGAGT
* * *
5961 AAAATA-TAATGTCCTAGTTGTGCATTTCACAGAAATGTGTCAATCATGCCAGTTAGATGAAAGG
1 AAAAGATTAATGTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
6025 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
*
6041 AAAAGATTAATGTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGAAGAAAGG
1 AAAAGATTAATGTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
6106 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * *
6122 AAAAGATTAATGGT-CTAGTTGTGCATTTGACATAAAGGTATCAATCATGCTAGTTAGATGAAAA
1 AAAAGATTAAT-GTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
6186 GTTAAATACCTTTGAGT
65 GTTAAATACCTTTGAGT
* * * *
6203 AAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATCATTCTAGTTAGATGAAAGG
1 AAAAGATTAATGTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
*
6268 TTAAATACCTTTGAGC
66 TTAAATACCTTTGAGT
* * * *
6284 AAAAGATTAATGGCCTAGTCGTGCATTTGACATAAAGGTGTAAATCATGCCAGTTAGATGAAAGG
1 AAAAGATTAATGTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
6349 TTAAATACCTTTGAGT
66 TTAAATACCTTTGAGT
* * * *
6365 AAAAGATTAATGGCCTAGCTGTGTATTTGACATAAAGGTGTCAATCATG-CAGTTAGATGAAAGG
1 AAAAGATTAATGTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
* *
6429 CTAAATGCCTTTGAGT
66 TTAAATACCTTTGAGT
* * * * ** * *
6445 TAAAGATTTAATG-GCTAGCTGGGCATTTGGTAGAAAGGTGTCAATCATGCAATTTAGATGAAAG
1 AAAAGA-TTAATGTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* * *
6509 GCTAAATGCCTTTGGGT
65 GTTAAATACCTTTGAGT
6526 AAAAGA
1 AAAAGA
6532 CTAAATGATT
Statistics
Matches: 519, Mismatches: 46, Indels: 12
0.90 0.08 0.02
Matches are distributed among these distances:
79 2 0.00
80 136 0.26
81 379 0.73
82 2 0.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (81 bp):
AAAAGATTAATGTCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
TTAAATACCTTTGAGT
Found at i:11404 original size:55 final size:55
Alignment explanation
Indices: 11263--11463 Score: 350
Period size: 55 Copynumber: 3.7 Consensus size: 55
11253 TACCAAATGA
*
11263 CACTATGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCTGTAT-GG
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
* *
11317 CAATATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGG
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
11372 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
* *
11427 CACTGTGTGTGCAAAACTAAGAAATTCATAGTAAGTT
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTT
11464 GTGGATTACC
Statistics
Matches: 139, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
54 49 0.35
55 90 0.65
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (55 bp):
CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGG
Found at i:11405 original size:109 final size:110
Alignment explanation
Indices: 11263--11463 Score: 359
Period size: 109 Copynumber: 1.8 Consensus size: 110
11253 TACCAAATGA
11263 CACTATGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCTGTAT-GGCAATATGTGT
1 CACTATGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCTGTATGGGCAATATGTGT
11327 GCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGG
66 GCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGG
* * *
11372 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTGTGTGT
1 CACTATGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCTGTATGGGCAATATGTGT
*
11437 GCAAAACTAAGAAATTCATAGTAAGTT
66 GCAAAACTAAGAAATTCATAATAAGTT
11464 GTGGATTACC
Statistics
Matches: 87, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
109 51 0.59
110 36 0.41
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.34
Consensus pattern (110 bp):
CACTATGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCTGTATGGGCAATATGTGT
GCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGG
Found at i:11484 original size:109 final size:109
Alignment explanation
Indices: 11263--11511 Score: 315
Period size: 109 Copynumber: 2.3 Consensus size: 109
11253 TACCAAATGA
*
11263 CACTATGTGTGCAAAACTAAAAAATTCATAATAAGTTTATGAATTTCTGTATGGCAATATGTGTG
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGCAATATGTGTG
*****
11328 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGG
66 CAAAACTAAGAAATTCATAATAAGTTTATGAATTACCACATGGG
* *
11372 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTGTGTGT
1 CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTAT-GGCAATATGTGT
* * * **
11437 GCAAAACTAAGAAATTCATAGTAAG-TTGTGGATTACCACATTTG
65 GCAAAACTAAGAAATTCATAATAAGTTTATGAATTACCACATGGG
* * *
11481 CACTACGGGTGC-AAACTATAG-AATTTATAAT
1 CACTATGTGTGCAAAACTA-AGAAATTCATAAT
11512 GAAATTAAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
108 15 0.12
109 73 0.60
110 34 0.28
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.34
Consensus pattern (109 bp):
CACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGCAATATGTGTG
CAAAACTAAGAAATTCATAATAAGTTTATGAATTACCACATGGG
Found at i:11704 original size:81 final size:81
Alignment explanation
Indices: 11567--11976 Score: 520
Period size: 81 Copynumber: 5.1 Consensus size: 81
11557 TGTTCTAAAA
* * * * * * *
11567 TAAAAGATTAATGGCCTAGCTATGTATTTTACAGAAAGGTTTCAATTATGCCAGTTAGATGAAAT
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
11632 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
11648 TAAAAGATTAATGGCCTTGTTGTGCATTTGACAGAAAGGTGTCAAGT-ATGCTAGTTAGATGAAA
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAA-TCATGCCAGTTAGATGAAA
11712 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * *
11729 TAAAAGATTCATGGACTAGTTCTGCATTCGACATAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
11794 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
** * *
11810 CGAAAGATTAATGGCCTAGTTGTGAATTTAACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
1 TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
* *
11875 GCTAAATGCCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
11891 TTAAAGATTTAAT-GCCTAGCTGTGCATTTGGA-AGAAATGTGTCAATCATGCAAGTTTGATGAA
1 TAAAAGA-TTAATGGCCTAGTTGTGCATTT-GACAGAAAGGTGTCAATCATGCCAGTTAGATGAA
* * *
11954 AGGATAAATGCCTTTGGG
64 AGGTTAAATACCTTTGAG
11972 TAAAA
1 TAAAA
11977 CACTAAATGA
Statistics
Matches: 288, Mismatches: 37, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
80 1 0.00
81 280 0.97
82 7 0.02
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (81 bp):
TAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:21025 original size:21 final size:21
Alignment explanation
Indices: 21001--21054 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
20991 TCTATGGTGG
*
21001 CATCTTCTTCATTTTCATATT
1 CATCATCTTCATTTTCATATT
21022 CATCATCTTCATTTTCATATT
1 CATCATCTTCATTTTCATATT
21043 CATCATCTTCAT
1 CATCATCTTCAT
21055 CAGCTTCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (21 bp):
CATCATCTTCATTTTCATATT
Found at i:23595 original size:23 final size:23
Alignment explanation
Indices: 23569--23621 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
23559 TGAATTATTT
*
23569 AGCACTGTTTTGCTGAATCAGTC
1 AGCACTGTTTTGCTGAATCAATC
*
23592 AGCACTGTTTTGCTGAATCAATT
1 AGCACTGTTTTGCTGAATCAATC
23615 AGCACTG
1 AGCACTG
23622 AATCATTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (23 bp):
AGCACTGTTTTGCTGAATCAATC
Found at i:26021 original size:3 final size:3
Alignment explanation
Indices: 26008--26066 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
25998 AATCAAAATA
*
26008 TAT TA- TAT TAT TAT TAT TAT TAT TA- TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
26054 TAT TAAT TAT TAT
1 TAT T-AT TAT TAT
26067 ATTTTTACAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:26033 original size:20 final size:20
Alignment explanation
Indices: 26008--26066 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
25998 AATCAAAATA
26008 TATTATATTATTATTATTAT
1 TATTATATTATTATTATTAT
*
26028 TATTATATTATTGTTATTAT
1 TATTATATTATTATTATTAT
26048 TATTATTATTAATTATTAT
1 TATTA-TATT-ATTATTAT
26067 ATTTTTACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 24 0.69
21 4 0.11
22 7 0.20
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATATTATTATTATTAT
Found at i:26698 original size:28 final size:28
Alignment explanation
Indices: 26656--26718 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
26646 AGAAATTGAG
26656 CCTTC-GGGGGTTTCTTGATTTTTAAGC
1 CCTTCGGGGGGTTTCTTGATTTTTAAGC
26683 CCTTCGGGGGGTTTCTTGATTTTTAAGC
1 CCTTCGGGGGGTTTCTTGATTTTTAAGC
26711 CCTTCGGG
1 CCTTCGGG
26719 CCATCCATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.10, C:0.21, G:0.29, T:0.41
Consensus pattern (28 bp):
CCTTCGGGGGGTTTCTTGATTTTTAAGC
Found at i:26842 original size:90 final size:90
Alignment explanation
Indices: 26683--27112 Score: 641
Period size: 90 Copynumber: 4.8 Consensus size: 90
26673 ATTTTTAAGC
*
26683 CCTTCGGGGGGTTTCTTGATTTTTAAGCCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGT
1 CCTTC-GGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGT
26748 TTTCAAATGAGATCTAAGAAACTGAG
65 TTTCAAATGAGATCTAAGAAACTGAG
* * *
26774 CCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCATTTCAGGATGTT
1 CCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTT
*
26839 TTCAAATGAGATTTAAGAAACTGAG
66 TTCAAATGAGATCTAAGAAACTGAG
* *
26864 CCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTTCAGTGCAGGATGT
1 CCTTCGGGGGTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGT
*
26929 TTTCAAATGAGATCTAAGAAACTAAG
65 TTTCAAATGAGATCTAAGAAACTGAG
* * * * *
26955 CCTTCAGGGGTTTCTTGAGTTCTAAGTCCTTCAGGCCATCCATAAGACCTTCAGTGCATGATGTT
1 CCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTT
*
27020 TTCAAATGAGATTTAAGAAACTGAG
66 TTCAAATGAGATCTAAGAAACTGAG
* ** * *
27045 CCTTCAGGGGTTTCTTGATTGTTTAAGTCCTTTAGGCCA-CCATAAGACCTTC-G-GCAAGATGC
1 CCTTCGGGGGTTTCTTGATT-TTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGT
27107 TTTCAA
65 TTTCAA
27113 CATTTTCGTT
Statistics
Matches: 311, Mismatches: 26, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
88 13 0.04
89 1 0.00
90 194 0.62
91 103 0.33
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (90 bp):
CCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTT
TTCAAATGAGATCTAAGAAACTGAG
Found at i:27006 original size:181 final size:181
Alignment explanation
Indices: 26690--27112 Score: 685
Period size: 181 Copynumber: 2.4 Consensus size: 181
26680 AGCCCTTCGG
* *
26690 GGGGTTTCTTGA-TTTTTAAGCCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAA
1 GGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAA
* * * *
26754 ATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAA
66 ATGAGATCTAAGAAACTAAGCCTTCAGGGGTTTCTTGAGTTCTAAGTCCTTCAGGCCATCCATAA
* *
26819 GACCTTCATTTCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTC-
131 GACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCA
26869 GAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
1 G-GGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCA
26934 AATGAGATCTAAGAAACTAAGCCTTCAGGGGTTTCTTGAGTTCTAAGTCCTTCAGGCCATCCATA
65 AATGAGATCTAAGAAACTAAGCCTTCAGGGGTTTCTTGAGTTCTAAGTCCTTCAGGCCATCCATA
*
26999 AGACCTTCAGTGCATGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCA
130 AGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCA
* * * *
27051 GGGGTTTCTTGATTGTTTAAGTCCTTTAGGCCA-CCATAAGACCTTC-G-GCAAGATGCTTTCAA
1 GGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAA
27113 CATTTTCGTT
Statistics
Matches: 228, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
178 13 0.06
179 2 0.01
180 24 0.11
181 188 0.82
182 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (181 bp):
GGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAA
ATGAGATCTAAGAAACTAAGCCTTCAGGGGTTTCTTGAGTTCTAAGTCCTTCAGGCCATCCATAA
GACCTTCAGTGCAGGATGTTTTCAAATGAGATTTAAGAAACTGAGCCTTCA
Found at i:27371 original size:136 final size:136
Alignment explanation
Indices: 27125--27479 Score: 554
Period size: 136 Copynumber: 2.6 Consensus size: 136
27115 TTTTCGTTGC
* *
27125 TCGATTCACGGCATTTCGAATCAGTGACGCCTCGCTTGAGGAATTGACATTTCCAATGGAGAGTT
1 TCGATTCACGGCATTTCGAATCAGTGAAGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
27190 CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
66 CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
27255 TATCACT
131 TATCA-T
* *
27262 T-GATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGAATTGGCATTTCCAATGAAGAGTT
1 TCGATTCACGGCATTTCGAATCAGTGAAGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
* *
27326 CATAATGAGAATAACTCATCCGACAGAGGTAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
66 CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
*
27391 TGTCAT
131 TATCAT
* ** * * *
27397 TCGATTTAATGCATTTCGAATCAGTGAAGCCTCACTTGAGGAATTAACATTT-CTA-GAAGAGTT
1 TCGATTCACGGCATTTCGAATCAGTGAAGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
*
27460 CATAATGAGTAGAACTCATC
66 CATAATGAGAAGAACTCATC
27480 TTAAAGAAGA
Statistics
Matches: 201, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
134 26 0.13
135 4 0.02
136 170 0.85
137 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (136 bp):
TCGATTCACGGCATTTCGAATCAGTGAAGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
TATCAT
Found at i:31560 original size:3 final size:3
Alignment explanation
Indices: 31547--31604 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
31537 TCAAAATATA
*
31547 TAT TA- TAT TAT TAT TAT TAT TAT TA- TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
31593 TAT TAAT TAT TA
1 TAT T-AT TAT TA
31605 CATTTTTACA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:31572 original size:20 final size:20
Alignment explanation
Indices: 31547--31604 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 20
31537 TCAAAATATA
31547 TATTATATTATTATTATTAT
1 TATTATATTATTATTATTAT
*
31567 TATTATATTATTGTTATTAT
1 TATTATATTATTATTATTAT
31587 TATTATTATTAATTATTA
1 TATTA-TATT-ATTATTA
31605 CATTTTTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 24 0.71
21 4 0.12
22 6 0.18
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATATTATTATTATTAT
Found at i:35292 original size:3 final size:3
Alignment explanation
Indices: 35279--35337 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
35269 TCAAAATATA
*
35279 TAT TA- TAT TAT TAT TAT TAT TAT TA- TAT TAT TTT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35325 TAT TAAT TAT TAT
1 TAT T-AT TAT TAT
35338 ATTTTTACAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.86
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:35304 original size:20 final size:20
Alignment explanation
Indices: 35279--35337 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 20
35269 TCAAAATATA
35279 TATTATATTATTATTATTAT
1 TATTATATTATTATTATTAT
*
35299 TATTATATTATTTTTATTAT
1 TATTATATTATTATTATTAT
35319 TATTATTATTAATTATTAT
1 TATTA-TATT-ATTATTAT
35338 ATTTTTACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 24 0.69
21 4 0.11
22 7 0.20
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTATATTATTATTATTAT
Found at i:36027 original size:90 final size:90
Alignment explanation
Indices: 35915--36355 Score: 672
Period size: 90 Copynumber: 4.9 Consensus size: 90
35905 TGGTGACAAT
* * *
35915 TAAGAAATTGAGCCTTCGGGGGTTTCTTGATTTTTAAGCCCTTCGGGCCATCTATAAGACCTTCA
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
35980 GTGCAGGATGTTTTCAAATGAGATC
66 GTGCAGGATGTTTTCAAATGAGATC
*
36005 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCA
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
* *
36070 GTTCAGGATGTTTTCAAATGAGATT
66 GTGCAGGATGTTTTCAAATGAGATC
* *
36095 TAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTTC
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTC
36160 AGTGCAGGATGTTTTCAAATGAGATC
65 AGTGCAGGATGTTTTCAAATGAGATC
* * *
36186 TAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCA
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
* * *
36251 CTGCATGATGTTTTCAAATGAGATT
66 GTGCAGGATGTTTTCAAATGAGATC
* **
36276 TAAGAAACTGAGCCTTCAGGGGTTTCTTGATTGTTTAAGTCCTTTAGGCCA-CCATAAGACCTTC
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATT-TTTAAGTCCTTCGGGCCATCCATAAGACCTTC
* *
36340 -G-GCAAGATGCTTTCAA
65 AGTGCAGGATGTTTTCAA
36356 CATTTTCGTT
Statistics
Matches: 321, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
88 13 0.04
90 209 0.65
91 99 0.31
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (90 bp):
TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
GTGCAGGATGTTTTCAAATGAGATC
Found at i:36223 original size:181 final size:181
Alignment explanation
Indices: 35914--36355 Score: 714
Period size: 181 Copynumber: 2.5 Consensus size: 181
35904 TTGGTGACAA
* * * * *
35914 TTAAGAAATTGAGCCTTCGGGGGTTTCTTGA-TTTTTAAGCCCTTCGGGCCATCTATAAGACCTT
1 TTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTT
* *
35978 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTCTAAG
66 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAG
* *
36043 TCCTTCGGGCCATCCATAAGACCTTCAGTTCAGGATGTTTTCAAATGAGAT
131 TCCTTCGGGCCATCCATAAGACCTTCACTGCAGGATGTTTTCAAATGAGAT
36094 TTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTT
1 TTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTT
36159 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAG
66 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAG
*
36224 TCCTTCGGGCCATCCATAAGACCTTCACTGCATGATGTTTTCAAATGAGAT
131 TCCTTCGGGCCATCCATAAGACCTTCACTGCAGGATGTTTTCAAATGAGAT
* *
36275 TTAAGAAACTGAGCCTTC-AGGGGTTTCTTGATTGTTTAAGTCCTTTAGGCCA-CCATAAGACCT
1 TTAAGAAACTGAGCCTTCGA-GGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCT
* *
36338 TC-G-GCAAGATGCTTTCAA
65 TCAGTGCAGGATGTTTTCAA
36356 CATTTTCGTT
Statistics
Matches: 246, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
178 13 0.05
179 1 0.00
180 43 0.17
181 189 0.77
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (181 bp):
TTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTT
CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAG
TCCTTCGGGCCATCCATAAGACCTTCACTGCAGGATGTTTTCAAATGAGAT
Found at i:36614 original size:136 final size:136
Alignment explanation
Indices: 36368--36722 Score: 563
Period size: 136 Copynumber: 2.6 Consensus size: 136
36358 TTTTCGTTGC
*
36368 TCGATTCACGGCATTTCGAATCAGTGACGCCTCGCTTGAGGAATTGACATTTCCAATGGAGAGTT
1 TCGATTCACGGCATTTCGAATCAGTGACGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
36433 CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
66 CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
36498 TATCACT
131 TATCA-T
* *
36505 T-GATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGAATTGGCATTTCCAATGAAGAGTT
1 TCGATTCACGGCATTTCGAATCAGTGACGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
* *
36569 CATAATGAGAATAACTCATCCGACAGAGGTAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
66 CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
*
36634 TGTCAT
131 TATCAT
* ** * * *
36640 TCGATTTAATGCATTTCGAATCAGTGACGCCTCACTTGAGGAATTAACATTT-CTA-GAAGAGTT
1 TCGATTCACGGCATTTCGAATCAGTGACGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
*
36703 CATAATGAGTAGAACTCATC
66 CATAATGAGAAGAACTCATC
36723 TTAAAGAAGA
Statistics
Matches: 201, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
134 26 0.13
135 4 0.02
136 170 0.85
137 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (136 bp):
TCGATTCACGGCATTTCGAATCAGTGACGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
TATCAT
Found at i:37081 original size:3 final size:3
Alignment explanation
Indices: 37068--37105 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
37058 TCAAAATATA
37068 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA
37106 CATTTTTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:40664 original size:3 final size:3
Alignment explanation
Indices: 40651--40714 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
40641 TCAAAATATA
*
40651 TAT TA- TAT TAT TAT TAT TAT TAT TA- TAT TA- TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
40696 TAT TAT TAT TAAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT
40715 ATTTTTACAA
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 6 0.11
3 46 0.84
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:40712 original size:28 final size:25
Alignment explanation
Indices: 40649--40714 Score: 107
Period size: 25 Copynumber: 2.6 Consensus size: 25
40639 AATCAAAATA
40649 TATATTATATTATTATTATTATTAT
1 TATATTATATTATTATTATTATTAT
*
40674 TATATTATATTATTGTTATTATTAT
1 TATATTATATTATTATTATTATTAT
40699 TATTATTA-ATTATTAT
1 TA-TATTATATTATTAT
40715 ATTTTTACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 33 0.87
26 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TATATTATATTATTATTATTATTAT
Found at i:41404 original size:90 final size:90
Alignment explanation
Indices: 41292--41732 Score: 672
Period size: 90 Copynumber: 4.9 Consensus size: 90
41282 TGGTGACAAT
* *
41292 TAAGAAATTGAGCCTTCGGGGGTTTCTTGATTTTTAAGCCCTTCGGGCCATCCATAAGACCTTCA
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
41357 GTGCAGGATGTTTTCAAATGAGATC
66 GTGCAGGATGTTTTCAAATGAGATC
*
41382 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCTTCA
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
* * *
41447 TTTCAGGATGTTTTCAAATGAGATT
66 GTGCAGGATGTTTTCAAATGAGATC
* *
41472 TAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTTC
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGA-TTTTTAAGTCCTTCGGGCCATCCATAAGACCTTC
41537 AGTGCAGGATGTTTTCAAATGAGATC
65 AGTGCAGGATGTTTTCAAATGAGATC
* * * *
41563 TAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAGTCCTTCAGGCCATCCATAAGACCTTCA
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
* *
41628 GTGCATGATGTTTTCAAATGAGATT
66 GTGCAGGATGTTTTCAAATGAGATC
* **
41653 TAAGAAACTGAGCCTTCAGGGGTTTCTTGATTGTTTAAGTCCTTTAGGCCA-CCATAAGACCTTC
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATT-TTTAAGTCCTTCGGGCCATCCATAAGACCTTC
* *
41717 -G-GCAAGATGCTTTCAA
65 AGTGCAGGATGTTTTCAA
41733 CATTTTCGTT
Statistics
Matches: 322, Mismatches: 27, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
88 13 0.04
89 1 0.00
90 209 0.65
91 99 0.31
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (90 bp):
TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
GTGCAGGATGTTTTCAAATGAGATC
Found at i:41600 original size:181 final size:181
Alignment explanation
Indices: 41291--41732 Score: 714
Period size: 181 Copynumber: 2.5 Consensus size: 181
41281 TTGGTGACAA
* * * *
41291 TTAAGAAATTGAGCCTTCGGGGGTTTCTTGA-TTTTTAAGCCCTTCGGGCCATCCATAAGACCTT
1 TTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTT
* *
41355 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTCTAAG
66 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAG
* * *
41420 TCCTTCGGGCCATCCATAAGACCTTCATTTCAGGATGTTTTCAAATGAGAT
131 TCCTTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGAT
41471 TTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTT
1 TTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTT
41536 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAG
66 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAG
*
41601 TCCTTCAGGCCATCCATAAGACCTTCAGTGCATGATGTTTTCAAATGAGAT
131 TCCTTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGAT
* *
41652 TTAAGAAACTGAGCCTTC-AGGGGTTTCTTGATTGTTTAAGTCCTTTAGGCCA-CCATAAGACCT
1 TTAAGAAACTGAGCCTTCGA-GGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCT
* *
41715 TC-G-GCAAGATGCTTTCAA
65 TCAGTGCAGGATGTTTTCAA
41733 CATTTTCGTT
Statistics
Matches: 246, Mismatches: 14, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
178 13 0.05
179 1 0.00
180 43 0.17
181 189 0.77
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (181 bp):
TTAAGAAACTGAGCCTTCGAGGGTTTCTTGATTTTTTAAGTCCTTTGGGCCATCCATAAGACCTT
CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTAAGCCTTCGGGGGTTTCTTGAGTTCTAAG
TCCTTCAGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGAT
Found at i:41991 original size:136 final size:136
Alignment explanation
Indices: 41745--42099 Score: 563
Period size: 136 Copynumber: 2.6 Consensus size: 136
41735 TTTTCGTTGC
*
41745 TCGATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGAATTGACATTTCCAATGGAGAGTT
1 TCGATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
41810 CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
66 CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
41875 TATCACT
131 TATCA-T
*
41882 T-GATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGAATTGGCATTTCCAATGAAGAGTT
1 TCGATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
* *
41946 CATAATGAGAATAACTCATCCGACAGAGGTAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
66 CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
*
42011 TGTCAT
131 TATCAT
* ** * * * *
42017 TCGATTTAATGCATTTCGAATCAGTGACGCCTCACTTGAGGAATTAACATTT-CTA-GAAGAGTT
1 TCGATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
*
42080 CATAATGAGTAGAACTCATC
66 CATAATGAGAAGAACTCATC
42100 TTAAAGAAGA
Statistics
Matches: 202, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
134 26 0.13
135 4 0.02
136 171 0.85
137 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (136 bp):
TCGATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGAATTGACATTTCCAATGAAGAGTT
CATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACC
TATCAT
Found at i:42458 original size:3 final size:3
Alignment explanation
Indices: 42445--42488 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
42435 TCAAAATATA
42445 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA
42489 CATTTTTACA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:45493 original size:27 final size:28
Alignment explanation
Indices: 45446--45498 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
45436 ACATGTACTA
*
45446 ACTAATTTATTTTCTTTTGTTTGTGTAC
1 ACTAACTTATTTTCTTTTGTTTGTGTAC
45474 ACTAACTTA-TTTCTTTTGTTTGTGT
1 ACTAACTTATTTTCTTTTGTTTGTGT
45499 TATTTTTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.60
Consensus pattern (28 bp):
ACTAACTTATTTTCTTTTGTTTGTGTAC
Found at i:46767 original size:12 final size:12
Alignment explanation
Indices: 46752--46838 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
46742 GATCAACATT
46752 TTTGCATCTACA
1 TTTGCATCTACA
46764 TTTGCATCTACA
1 TTTGCATCTACA
*
46776 TTTGCATCTTTGCA
1 TTTGCATC--TACA
* * *
46790 TTTTGTATATGCA
1 -TTTGCATCTACA
*
46803 TTTGCATCTTTGCA
1 TTTGCATC--TACA
46817 TTTGGCATCTACA
1 TTT-GCATCTACA
46830 TTTGCATCT
1 TTTGCATCT
46839 TTGCATTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
12 32 0.51
13 10 0.16
14 10 0.16
15 11 0.17
ACGTcount: A:0.20, C:0.21, G:0.13, T:0.47
Consensus pattern (12 bp):
TTTGCATCTACA
Found at i:46804 original size:27 final size:27
Alignment explanation
Indices: 46764--46847 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
46754 TGCATCTACA
*
46764 TTTGCATCTACATTTGCATCTTTGCAT
1 TTTGCATATACATTTGCATCTTTGCAT
* *
46791 TTTGTATATGCATTTGCATCTTTGCAT
1 TTTGCATATACATTTGCATCTTTGCAT
* *
46818 TTGGCATCTACATTTGCATCTTTGCAT
1 TTTGCATATACATTTGCATCTTTGCAT
46845 TTT
1 TTT
46848 CATTTTATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.50
Consensus pattern (27 bp):
TTTGCATATACATTTGCATCTTTGCAT
Found at i:49303 original size:13 final size:12
Alignment explanation
Indices: 49285--49332 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
49275 GACATTTTGT
*
49285 AAAAAAAGTATA
1 AAAAAAAGTAAA
49297 AAAAAAAGTAAA
1 AAAAAAAGTAAA
*
49309 AAAAAGAAG-CAA
1 AAAAA-AAGTAAA
49321 AAAAAAAGTAAA
1 AAAAAAAGTAAA
49333 GATCAGATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 3 0.10
12 25 0.81
13 3 0.10
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.08
Consensus pattern (12 bp):
AAAAAAAGTAAA
Found at i:51224 original size:32 final size:32
Alignment explanation
Indices: 51179--51278 Score: 137
Period size: 32 Copynumber: 3.1 Consensus size: 32
51169 CAATAGAGGA
* *
51179 CATCTTTGAAGATTCAACATCAAATGTTGGGG
1 CATCTTTGGAGATTCAACATCAAATATTGGGG
51211 CATCTTTGGAGATTCAACATCAAAATATTGGGG
1 CATCTTTGGAGATTCAACATC-AAATATTGGGG
* * **
51244 CATATTTGGAGATTCAATATTGAATATTGGGG
1 CATCTTTGGAGATTCAACATCAAATATTGGGG
51276 CAT
1 CAT
51279 TCAATATCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
32 33 0.54
33 28 0.46
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (32 bp):
CATCTTTGGAGATTCAACATCAAATATTGGGG
Found at i:51280 original size:22 final size:22
Alignment explanation
Indices: 51255--51308 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
51245 ATATTTGGAG
*
51255 ATTCAATATTGAATATTGGGGC
1 ATTCAATATCGAATATTGGGGC
51277 ATTCAATATCGAATATTGGGGC
1 ATTCAATATCGAATATTGGGGC
51299 ATTCAATATC
1 ATTCAATATC
51309 CTGATGCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (22 bp):
ATTCAATATCGAATATTGGGGC
Found at i:51442 original size:34 final size:34
Alignment explanation
Indices: 51398--51489 Score: 112
Period size: 34 Copynumber: 2.7 Consensus size: 34
51388 GTTTCTCTTT
* * *
51398 AAAAAAAATTTTGTCTCACTTGAGATAATTTCTC
1 AAAACAAATTTCGTCTCACTTGAGAAAATTTCTC
* * **
51432 AAAACAAATTTCATATTGCTTGAGAAAATTTCTC
1 AAAACAAATTTCGTCTCACTTGAGAAAATTTCTC
*
51466 AAAACAAATTCCGTCTCACTTGAG
1 AAAACAAATTTCGTCTCACTTGAG
51490 GCAATTTTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (34 bp):
AAAACAAATTTCGTCTCACTTGAGAAAATTTCTC
Found at i:51917 original size:39 final size:38
Alignment explanation
Indices: 51867--52370 Score: 299
Period size: 36 Copynumber: 13.7 Consensus size: 38
51857 TTTAAAGAAA
* *
51867 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAAAAG
1 ATTTTATCTCGCTTGAGACAGTTTCCCTAGAAAC-AAAG
* * *
51906 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAAAAAAAG
1 ATTTTATCTCGCTTGAGACAGTTTCCCTAG-AAACAAAG
* * ** *
51945 ATTTTGTCTCACTTGAGACAGTTTTTGCTCGAAACAATAAG
1 ATTTTATCTCGCTTGAGACAG-TTTCCCTAGAAAC-A-AAG
* * ** * * *
51986 A-TTTATTTCACTCAAGATC-GTTTTTCATTGAAACATAAG
1 ATTTTATCTCGCTTGAGA-CAG-TTTCCCTAGAAACA-AAG
* *
52025 ATTTTATCTCGCTTGAGATAGTTTCCCTAGAAAC-GAG
1 ATTTTATCTCGCTTGAGACAGTTTCCCTAGAAACAAAG
* * *
52062 -TTTTGTCTCTCTTGAGACAGTTTCCCTAGAAAC-GAG
1 ATTTTATCTCGCTTGAGACAGTTTCCCTAGAAACAAAG
* *
52098 -TTTTGTCTCTCTTGAGACAGTTTCCCTAGAAAC-AAG
1 ATTTTATCTCGCTTGAGACAGTTTCCCTAGAAACAAAG
* * *
52134 -TTTTGTCTCTCTTGAGACAGTTTCCCTTG------AG
1 ATTTTATCTCGCTTGAGACAGTTTCCCTAGAAACAAAG
* * *
52165 A---TAGTCTCCCTTGATACAGTTTCCCTTGAAAC-AA-
1 ATTTTA-TCTCGCTTGAGACAGTTTCCCTAGAAACAAAG
* **
52199 ATTTTGTCTTC-CTTGAGACAGTTTCCCTTTAAAC-AA-
1 ATTTTATC-TCGCTTGAGACAGTTTCCCTAGAAACAAAG
* * * *
52235 ATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAAC-AA-
1 ATTTTATCTCGCTTGAGACAGTTTCCCTAGAAACAAAG
* * *
52271 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AA-
1 ATTTTATCTCGCTTGAGACAGTTTCCCTAGAAACAAAG
* * * *
52307 ATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAAC-AA-
1 ATTTTATCTCGCTTGAGACAGTTTCCCTAGAAACAAAG
** *
52343 ATTTTATCTCTATTGAGACAGTCTCCCT
1 ATTTTATCTCGCTTGAGACAGTTTCCCT
52371 TGAGACAATT
Statistics
Matches: 403, Mismatches: 43, Indels: 41
0.83 0.09 0.08
Matches are distributed among these distances:
29 1 0.00
30 22 0.05
31 2 0.00
34 1 0.00
35 3 0.01
36 245 0.61
37 5 0.01
39 71 0.18
40 48 0.12
41 5 0.01
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (38 bp):
ATTTTATCTCGCTTGAGACAGTTTCCCTAGAAACAAAG
Found at i:51997 original size:40 final size:40
Alignment explanation
Indices: 51867--52048 Score: 158
Period size: 39 Copynumber: 4.6 Consensus size: 40
51857 TTTAAAGAAA
* * **
51867 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAA-AAG
1 ATTTTATCTCACTTGAGACAGTTTTTCTCGAAACAATAAG
* * ** *
51906 ATTTTATCTCGCTTGAGATAGTTTCCCTCGAAA-AAAAAG
1 ATTTTATCTCACTTGAGACAGTTTTTCTCGAAACAATAAG
*
51945 ATTTTGTCTCACTTGAGACAGTTTTTGCTCGAAACAATAAG
1 ATTTTATCTCACTTGAGACAGTTTTT-CTCGAAACAATAAG
* ** *
51986 A-TTTATTTCACTCAAGATC-GTTTTTCATTGAAAC-ATAAG
1 ATTTTATCTCACTTGAGA-CAGTTTTTC-TCGAAACAATAAG
* *
52025 ATTTTATCTCGCTTGAGATAGTTT
1 ATTTTATCTCACTTGAGACAGTTT
52049 CCCTAGAAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 64 0.53
40 47 0.39
41 7 0.06
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (40 bp):
ATTTTATCTCACTTGAGACAGTTTTTCTCGAAACAATAAG
Found at i:52076 original size:36 final size:36
Alignment explanation
Indices: 52025--52378 Score: 425
Period size: 36 Copynumber: 10.0 Consensus size: 36
52015 GAAACATAAG
* * * * *
52025 ATTTTATCTCGCTTGAGATAGTTTCCCTAGAAACGA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
* * *
52061 GTTTTGTCTCTCTTGAGACAGTTTCCCTAGAAACGA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
* *
52097 GTTTTGTCTCTCTTGAGACAGTTTCCCTAGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
* *
52133 GTTTTGTCTCTCTTGAGACAGTTTCCCTTG----AG
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
* * *
52165 A--TAGTCTCCCTTGATACAGTTTCCCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
*
52199 ATTTTGTCT-TCCTTGAGACAGTTTCCCTTTAAACAA
1 ATTTTGTCTCT-CTTGAGACAGTTTCCCTTGAAACAA
* *
52235 ATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
*
52271 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
* *
52307 ATTTTGTCTCCCTTGAGACGGTTTCCCTTGAAACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
* * * *
52343 ATTTTATCTCTATTGAGACAGTCTCCCTTGAGACAA
1 ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
52379 TTTCACTTGA
Statistics
Matches: 283, Mismatches: 27, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
30 24 0.08
32 1 0.00
34 2 0.01
36 256 0.90
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (36 bp):
ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAA
Found at i:52164 original size:15 final size:15
Alignment explanation
Indices: 52144--52193 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
52134 TTTTGTCTCT
52144 CTTGAGACAGTTTCC
1 CTTGAGACAGTTTCC
* *
52159 CTTGAGATAGTCTCC
1 CTTGAGACAGTTTCC
*
52174 CTTGATACAGTTTCC
1 CTTGAGACAGTTTCC
52189 CTTGA
1 CTTGA
52194 AACAAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (15 bp):
CTTGAGACAGTTTCC
Found at i:52284 original size:21 final size:21
Alignment explanation
Indices: 52258--52322 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
52248 TGAGACGGTT
52258 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* *
52279 TCCCTTGAGAC--A----GTT
1 TCCCTTGAAACAAATTTTGTC
52294 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
52315 TCCCTTGA
1 TCCCTTGA
52323 GACGGTTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 12 0.35
17 1 0.03
19 1 0.03
21 20 0.59
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:52369 original size:51 final size:53
Alignment explanation
Indices: 52312--52414 Score: 140
Period size: 51 Copynumber: 2.0 Consensus size: 53
52302 AACAAATTTT
** *
52312 GTCTCCCTTGAGACGGTTTCCCTTGAAAC-AA-ATTTTATCTC-TATTGAGACA
1 GTCTCCCTTGAGACAATTTCACTTGAAACAAAGATTTTATCTCGT-TTGAGACA
52363 GTCTCCCTTGAGACAATTTCACTTGAAACAGAAGATTTTATCTCGTTTGAGA
1 GTCTCCCTTGAGACAATTTCACTTGAAACA-AAGATTTTATCTCGTTTGAGA
52415 TAGTTTCGCT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 26 0.58
53 2 0.04
54 16 0.36
55 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (53 bp):
GTCTCCCTTGAGACAATTTCACTTGAAACAAAGATTTTATCTCGTTTGAGACA
Found at i:52508 original size:43 final size:43
Alignment explanation
Indices: 52439--52835 Score: 381
Period size: 43 Copynumber: 8.9 Consensus size: 43
52429 ACACAATATT
* * * * *
52439 TTGAGAAACCATCGCGATATGCAGGGGTTTCTTGATGAAAAGC
1 TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACATGC
* * * **
52482 TT-AAAGGACCATCG-GTATATGTAGGGGTTCCTTTGATAACAAAC
1 TTGAGA-GACCATCGTG-ATATGTAGGGGTTTC-TTGATGACATGC
* * *
52526 TTAAAAGACCATCATGATATGTAGGGG-TTCTTTGATGACATGC
1 TTGAGAGACCATCGTGATATGTAGGGGTTTC-TTGATGACATGC
*
52569 TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACATGT
1 TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACATGC
52612 TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACATGC
1 TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACATGC
52655 TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACAAACTTGATGACAAGC
1 TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATG----AC---AT-----GC
* *
52710 TTGA-AGGACCATCGTGATATGTAGGGGTTTTTTGATGACAAGC
1 TTGAGA-GACCATCGTGATATGTAGGGGTTTCTTGATGACATGC
* * * *
52753 TTGAGTA-ACCATCGTGATATGTAGGGGATTCTTGATAAAACGC
1 TTGAG-AGACCATCGTGATATGTAGGGGTTTCTTGATGACATGC
* * * *
52796 TTGAGGGGCCATCGTGATATATAGGGGTTACTTGATGACA
1 TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACA
52836 AACTTGATGA
Statistics
Matches: 301, Mismatches: 31, Indels: 44
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.01
43 217 0.72
44 32 0.11
45 5 0.02
47 2 0.01
48 1 0.00
50 2 0.01
51 2 0.01
54 1 0.00
55 36 0.12
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (43 bp):
TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACATGC
Found at i:52712 original size:55 final size:55
Alignment explanation
Indices: 52642--52756 Score: 187
Period size: 55 Copynumber: 2.1 Consensus size: 55
52632 GTAGGGGTTT
*
52642 CTTGATGACATGCTTG-AGAGACCATCGTGATATGTAGGGGTTTCTTGATGACAAA
1 CTTGATGACAAGCTTGAAG-GACCATCGTGATATGTAGGGGTTTCTTGATGACAAA
* *
52697 CTTGATGACAAGCTTGAAGGACCATCGTGATATGTAGGGGTTTTTTGATGACAAG
1 CTTGATGACAAGCTTGAAGGACCATCGTGATATGTAGGGGTTTCTTGATGACAAA
52752 CTTGA
1 CTTGA
52757 GTAACCATCG
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 54 0.96
56 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
CTTGATGACAAGCTTGAAGGACCATCGTGATATGTAGGGGTTTCTTGATGACAAA
Found at i:52799 original size:98 final size:98
Alignment explanation
Indices: 52599--52788 Score: 303
Period size: 98 Copynumber: 1.9 Consensus size: 98
52589 GTAGGGGTTT
* * *
52599 CTTGATGACATGTTTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACATGCTTGAGAGAC
1 CTTGATGACAAGCTTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACAAGCTTGAGAGAC
*
52664 CATCGTGATATGTAGGGGTTTCTTGATGACAAA
66 CATCGTGATATGTAGGGGATTCTTGATGACAAA
*
52697 CTTGATGACAAGCTTGA-AGGACCATCGTGATATGTAGGGGTTTTTTGATGACAAGCTTGAGTA-
1 CTTGATGACAAGCTTGAGA-GACCATCGTGATATGTAGGGGTTTCTTGATGACAAGCTTGAG-AG
52760 ACCATCGTGATATGTAGGGGATTCTTGAT
64 ACCATCGTGATATGTAGGGGATTCTTGAT
52789 AAAACGCTTG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
97 1 0.01
98 83 0.98
99 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (98 bp):
CTTGATGACAAGCTTGAGAGACCATCGTGATATGTAGGGGTTTCTTGATGACAAGCTTGAGAGAC
CATCGTGATATGTAGGGGATTCTTGATGACAAA
Found at i:52811 original size:141 final size:141
Alignment explanation
Indices: 52557--52883 Score: 464
Period size: 141 Copynumber: 2.3 Consensus size: 141
52547 TAGGGGTTCT
* * *
52557 TTGATGACATGCTTG-AGAGACCATCGTGATATGTAGGGGTTTCTTGATGACATGTTTGAGAGAC
1 TTGATGACAAGCTTGAAG-GACCATCGTGATATGTAGGGGTTTCTTGATGACAAGCTTGAGAGAC
* * * * * *
52621 CATCGTGATATGTAGGGGTTTCTTGATGACATGCTTGAGAGACCATCGTGATATGTAGGGGTTTC
65 CATCGTGATATGTAGGGGATTCTTGATAAAACGCTTGAGAGACCATCGTGATATATAGGGGTTAC
52686 TTGATGACAAAC
130 TTGATGACAAAC
*
52698 TTGATGACAAGCTTGAAGGACCATCGTGATATGTAGGGGTTTTTTGATGACAAGCTTGAGTA-AC
1 TTGATGACAAGCTTGAAGGACCATCGTGATATGTAGGGGTTTCTTGATGACAAGCTTGAG-AGAC
* *
52762 CATCGTGATATGTAGGGGATTCTTGATAAAACGCTTGAGGGGCCATCGTGATATATAGGGGTTAC
65 CATCGTGATATGTAGGGGATTCTTGATAAAACGCTTGAGAGACCATCGTGATATATAGGGGTTAC
52827 TTGATGACAAAC
130 TTGATGACAAAC
* * *
52839 TTGATGA-ACA-CTTGAGGGACTATCGTGATATGTAGGGGTTCCTTG
1 TTGATGACA-AGCTTGAAGGACCATCGTGATATGTAGGGGTTTCTTG
52884 GTGATAATTA
Statistics
Matches: 167, Mismatches: 16, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
140 32 0.19
141 132 0.79
142 3 0.02
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.31
Consensus pattern (141 bp):
TTGATGACAAGCTTGAAGGACCATCGTGATATGTAGGGGTTTCTTGATGACAAGCTTGAGAGACC
ATCGTGATATGTAGGGGATTCTTGATAAAACGCTTGAGAGACCATCGTGATATATAGGGGTTACT
TGATGACAAAC
Found at i:53003 original size:90 final size:90
Alignment explanation
Indices: 52892--53332 Score: 672
Period size: 90 Copynumber: 4.9 Consensus size: 90
52882 TGGTGATAAT
*
52892 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGCCCTTCGGGCCATCCATAAGACCTTCA
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
52957 GTGCAGGATGTTTTCAAATGAGATC
66 GTGCAGGATGTTTTCAAATGAGATC
* * *
52982 TAAGAAACTGAGCCTTCGGGGGTTTATTGATTTCTAAGTCCTTCGGGCCATCCATAAGACCATCA
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
*
53047 GTGCAGGATGTTTTCAAATGAGATT
66 GTGCAGGATGTTTTCAAATGAGATC
53072 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTATAAGTCCTTCGGGCCATCCATAAGACCTTC
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTT-TAAGTCCTTCGGGCCATCCATAAGACCTTC
53137 AGTGCAGGATGTTTTCAAATGAGATC
65 AGTGCAGGATGTTTTCAAATGAGATC
* * * *** *
53163 TAAGAAATTGATCCTTCGGGGGTTTCTTGATTTCTAAGTCCTTCAATCCATCCATAAGTCCTTCA
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
* * *
53228 ATGCATGATGTTTTCAAATGAGATT
66 GTGCAGGATGTTTTCAAATGAGATC
**
53253 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTGTTTAAGTCCTTTAGGCCA-CCATAAGACCTTC
1 TAAGAAACTGAGCCTTCGGGGGTTTCTTGATT-TTTAAGTCCTTCGGGCCATCCATAAGACCTTC
* *
53317 -G-GCAAGATGCTTTCAA
65 AGTGCAGGATGTTTTCAA
53333 CATTTTCGTT
Statistics
Matches: 320, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
88 13 0.04
90 208 0.65
91 99 0.31
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (90 bp):
TAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTCA
GTGCAGGATGTTTTCAAATGAGATC
Found at i:53195 original size:181 final size:180
Alignment explanation
Indices: 52891--53332 Score: 710
Period size: 181 Copynumber: 2.5 Consensus size: 180
52881 TTGGTGATAA
*
52891 TTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGCCCTTCGGGCCATCCATAAGACCTTC
1 TTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTC
52956 AGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTATTGATTTCTAAGT
66 AGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTATTGATTTCTAAGT
** *
53021 CCTTCGGGCCATCCATAAGACCATCAGTGCAGGATGTTTTCAAATGAGAT
131 CCTTCAAGCCATCCATAAGACCATCAATGCAGGATGTTTTCAAATGAGAT
53071 TTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTATAAGTCCTTCGGGCCATCCATAAGACCTT
1 TTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTT-TAAGTCCTTCGGGCCATCCATAAGACCTT
* * *
53136 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAATTGATCCTTCGGGGGTTTCTTGATTTCTAAG
65 CAGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTATTGATTTCTAAG
* * * *
53201 TCCTTCAATCCATCCATAAGTCCTTCAATGCATGATGTTTTCAAATGAGAT
130 TCCTTCAAGCCATCCATAAGACCATCAATGCAGGATGTTTTCAAATGAGAT
**
53252 TTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTGTTTAAGTCCTTTAGGCCA-CCATAAGACCTT
1 TTAAGAAACTGAGCCTTCGGGGGTTTCTTGATT-TTTAAGTCCTTCGGGCCATCCATAAGACCTT
* *
53316 C-G-GCAAGATGCTTTCAA
65 CAGTGCAGGATGTTTTCAA
53333 CATTTTCGTT
Statistics
Matches: 245, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
178 13 0.05
179 1 0.00
180 48 0.20
181 181 0.74
182 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (180 bp):
TTAAGAAACTGAGCCTTCGGGGGTTTCTTGATTTTTAAGTCCTTCGGGCCATCCATAAGACCTTC
AGTGCAGGATGTTTTCAAATGAGATCTAAGAAACTGAGCCTTCGGGGGTTTATTGATTTCTAAGT
CCTTCAAGCCATCCATAAGACCATCAATGCAGGATGTTTTCAAATGAGAT
Found at i:53591 original size:136 final size:136
Alignment explanation
Indices: 53344--53699 Score: 572
Period size: 136 Copynumber: 2.6 Consensus size: 136
53334 ATTTTCGTTG
* * *
53344 CTCGATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGAATTGACATTTCTAATGGAGAGT
1 CTCGATTCACGGCATTTCGAATCAGTGATGCCTTGCTTGAGGAATTGACATTTCCAATGAAGAGT
*
53409 TCATAATGAGAAGAACTCATCCGATAGAGGGAGAAAAAGTTCATAATGAGAAGAGATTGTTCGAC
66 TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATGAGAAGAGATTGTTCGAC
53474 CTATCA
131 CTATCA
*
53480 CTTGATTCACGGCATTTCGAATCAGTGATGCCTTGCTTGAGGAATTGACATTTCCAATGAAGAGT
1 CTCGATTCACGGCATTTCGAATCAGTGATGCCTTGCTTGAGGAATTGACATTTCCAATGAAGAGT
* * *
53545 TCATAATGAGAATAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGAC
66 TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATGAGAAGAGATTGTTCGAC
53610 CTATCA
131 CTATCA
* * * *
53616 CTCGATTCACGGTATTTCGAATTAGTGATGCCTTGCTTGAGGAATTAACATTT-CTA-GAAGAGT
1 CTCGATTCACGGCATTTCGAATCAGTGATGCCTTGCTTGAGGAATTGACATTTCCAATGAAGAGT
**
53679 TCATAATGATTAGAACTCATC
66 TCATAATGAGAAGAACTCATC
53700 TTAAAGAAGA
Statistics
Matches: 204, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
134 25 0.12
135 2 0.01
136 177 0.87
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (136 bp):
CTCGATTCACGGCATTTCGAATCAGTGATGCCTTGCTTGAGGAATTGACATTTCCAATGAAGAGT
TCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATGAGAAGAGATTGTTCGAC
CTATCA
Found at i:54083 original size:3 final size:3
Alignment explanation
Indices: 54033--54065 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
54023 TATATATATA
54033 TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA
54066 CATTTTTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:55968 original size:16 final size:16
Alignment explanation
Indices: 55932--55968 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
55922 CGCATACCAC
55932 TTTTTTCTTAAAAATG
1 TTTTTTCTTAAAAATG
* *
55948 ATTTTTCTTAAAATTG
1 TTTTTTCTTAAAAATG
55964 TTTTT
1 TTTTT
55969 AAAAGACGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (16 bp):
TTTTTTCTTAAAAATG
Found at i:57117 original size:27 final size:26
Alignment explanation
Indices: 57074--57126 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
57064 AAGGTTTTTT
*
57074 AAAAAATAATAATATAATAATGAATA
1 AAAAAATAATAATATAAAAATGAATA
*
57100 AAAAAATGAA-AATAATAAAAATTAATA
1 AAAAAAT-AATAAT-ATAAAAATGAATA
57127 TAAATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (26 bp):
AAAAAATAATAATATAAAAATGAATA
Found at i:57396 original size:17 final size:17
Alignment explanation
Indices: 57374--57415 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
57364 ATATATATAT
57374 ATAATAATAATAACA-GA
1 ATAATAATAATAA-ATGA
*
57391 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
57408 ATAA-AATA
1 ATAATAATA
57416 TCCATATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:57820 original size:37 final size:36
Alignment explanation
Indices: 57770--57907 Score: 163
Period size: 37 Copynumber: 3.8 Consensus size: 36
57760 GTGCTTGTGG
* * * * *
57770 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA-AAATCT
* *
57807 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAAT-CT
*
57844 ATCCTATTTTTAGGAGTTTGAATCCTA--AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
*
57878 ATCATATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
57908 GGACGAAAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
34 27 0.31
35 4 0.05
36 4 0.05
37 53 0.60
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATCT
Found at i:57886 original size:34 final size:35
Alignment explanation
Indices: 57804--57904 Score: 152
Period size: 34 Copynumber: 2.9 Consensus size: 35
57794 TTAGTAGAAC
57804 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
57842 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
*
57875 TCTATCATATTTTTAGGAGTTTGAATCCTA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTA
57905 GTAGGACGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
33 1 0.02
34 32 0.52
37 27 0.44
38 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:58752 original size:105 final size:105
Alignment explanation
Indices: 58453--59384 Score: 1425
Period size: 105 Copynumber: 9.0 Consensus size: 105
58443 CATTGTTCCA
* * * ** * * *
58453 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * * *
58518 CAGCCGTCCCTTCGTTGTGACGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
58559 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
58619 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
58659 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
58724 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTTTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
58764 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG--CTGAGATTGGGAAGTTGTTGTTGACAAGA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
58827 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
58867 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
58932 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
58972 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
59037 AGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
59077 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA---GTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
59139 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
59179 AGTCCAATATCCTTCATTGCGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
59244 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
59284 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
** * *
59349 CAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
59385 CCTCGAGTGC
Statistics
Matches: 770, Mismatches: 45, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
100 82 0.11
101 1 0.00
102 102 0.13
103 102 0.13
104 3 0.00
105 403 0.52
106 77 0.10
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:59083 original size:313 final size:313
Alignment explanation
Indices: 58452--59384 Score: 1436
Period size: 313 Copynumber: 3.0 Consensus size: 313
58442 GCATTGTTCC
* * **
58452 AAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-TCTGAG-ATTGGG-AATTG-TTGTTGACA
* * * * *
58516 ACCAGCCGTCCCTTCGTTGTGACGTTGAACTTGTGTTGTCTCG-AGTCCAATATCCTTCGTTGTG
62 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATCCTTCGTTGTG
**
58580 AAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAG
126 AAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAG
* * *
58640 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTTTGAGATTGG
191 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
* * *
58705 GAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTTTCTG
256 GAAGTTGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
58763 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-CTGAGATTGGGAAGTTGTTGTTGACAAGA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTCTGAGATTGGGAA-TTGTTGTTGACAAGC
58827 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGT
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGT
58892 TGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
130 TGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
58957 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
195 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
59022 TTGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
260 TTGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
59076 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA--GTTGTTGACAGGC
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-TCTGAGATTGGGAATTGTTGTTGACAAGC
* *
59139 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGCGAAGT
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGT
* *
59204 TGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTTGTGAAGTTGA
130 TGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
59269 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
195 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
* ** * *
59334 TTGTTTGTTGACAACCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
260 TTG-TTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
59385 CCTCGAGTGC
Statistics
Matches: 577, Mismatches: 34, Indels: 20
0.91 0.05 0.03
Matches are distributed among these distances:
307 1 0.00
308 83 0.14
309 12 0.02
310 4 0.01
311 34 0.06
312 207 0.36
313 225 0.39
315 11 0.02
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (313 bp):
AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGTCTGAGATTGGGAATTGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGT
TGTTGTTGACAAGCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:60118 original size:68 final size:63
Alignment explanation
Indices: 60027--60181 Score: 195
Period size: 68 Copynumber: 2.4 Consensus size: 63
60017 AAGATATATG
* * * *
60027 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAAC-AAATT-TGTTTTAAGGGAAATAAA-TTCAAG-G
60092 TT
62 TT
* * *
60094 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGACAAATTTGTTTTAGGGGAAATAAATTCAAGGTT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAATTTGTTTTAAGGGAAATAAATTCAAGGTT
60158 TTGTTTCAAG-GAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
60182 ATAGATGAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
62 13 0.16
63 9 0.11
64 3 0.04
65 5 0.06
66 17 0.22
67 6 0.08
68 26 0.33
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (63 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAATTTGTTTTAAGGGAAATAAATTCAAGGTT
Found at i:60256 original size:37 final size:36
Alignment explanation
Indices: 60160--60280 Score: 131
Period size: 36 Copynumber: 3.4 Consensus size: 36
60150 TCAAGGTTTT
* *
60160 GTTTCAA-GGAAACTGTCTCAAGATAGATGAAAATT-
1 GTTTCAAGGGAAACTGTCTCAAGAGAGA-CAAAATTA
* *
60195 GTTTCAAGAGAAACTGTCTTAAGAGAGACAAAACTTA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTA
* * *
60232 GTTCCAAGGGAAACTATCTCAAGAGAGACGAAATTTA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTA
60269 -TTTCAAGGGAAA
1 GTTTCAAGGGAAA
60281 TGTTTTCAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
35 11 0.15
36 30 0.42
37 28 0.39
38 3 0.04
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (36 bp):
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTA
Found at i:61268 original size:22 final size:22
Alignment explanation
Indices: 61243--61286 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
61233 GCATTTTGTT
61243 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
61265 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
61287 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:61897 original size:7 final size:7
Alignment explanation
Indices: 61885--61930 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
61875 TTTTTGTCCC
61885 TTTTTCT
1 TTTTTCT
61892 TTTTTCTT
1 TTTTTC-T
61900 TTTGTTCT
1 TTT-TTCT
61908 TTTTT-T
1 TTTTTCT
*
61914 CTTTT-T
1 TTTTTCT
61920 TTTTTCT
1 TTTTTCT
61927 TTTT
1 TTTT
61931 GCCCTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 10 0.29
7 13 0.38
8 8 0.24
9 3 0.09
ACGTcount: A:0.00, C:0.11, G:0.02, T:0.87
Consensus pattern (7 bp):
TTTTTCT
Found at i:61930 original size:8 final size:8
Alignment explanation
Indices: 61885--61921 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
61875 TTTTTGTCCC
61885 TTTTTC-T
1 TTTTTCTT
61892 TTTTTCTT
1 TTTTTCTT
61900 TTTGTTCTT
1 TTT-TTCTT
61909 TTTTTCTT
1 TTTTTCTT
61917 TTTTT
1 TTTTT
61922 TTTCTTTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 6 0.21
8 14 0.50
9 8 0.29
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:61937 original size:28 final size:30
Alignment explanation
Indices: 61886--61944 Score: 86
Period size: 28 Copynumber: 2.0 Consensus size: 30
61876 TTTTGTCCCT
**
61886 TTTTCTTTTTTCTTTTTGTTCTTTTT-TTC
1 TTTTCTTTTTTCTTTTTGCCCTTTTTATTC
61915 TTTT-TTTTTTCTTTTTGCCCTTTTTATTC
1 TTTTCTTTTTTCTTTTTGCCCTTTTTATTC
61944 T
1 T
61945 GATTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (30 bp):
TTTTCTTTTTTCTTTTTGCCCTTTTTATTC
Found at i:66273 original size:18 final size:17
Alignment explanation
Indices: 66250--66293 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
66240 ATATACATAT
66250 AATAATAATAATAACATG
1 AATAATAATAATAA-ATG
*
66268 AATAATAAAAATAAATG
1 AATAATAATAATAAATG
66285 AATAA-AATA
1 AATAATAATA
66294 TCCATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 8 0.33
18 13 0.54
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (17 bp):
AATAATAATAATAAATG
Found at i:66726 original size:37 final size:36
Alignment explanation
Indices: 66683--66784 Score: 149
Period size: 34 Copynumber: 2.9 Consensus size: 36
66673 TTAGTAGAAC
66683 TCTATCCTATTTTTA-GAGGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGA-GTTTGAATCCTAG-AAAAT
66720 GT-TATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 -TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
66754 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
66785 TAGGACGAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
33 1 0.02
34 32 0.53
37 24 0.40
38 3 0.05
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:68663 original size:40 final size:41
Alignment explanation
Indices: 68519--68696 Score: 286
Period size: 41 Copynumber: 4.3 Consensus size: 41
68509 CATCGCTGAA
68519 ACAAACGCCGCTAAAGGTAATGATATTTAGCGGCATTTTTTTT
1 ACAAACGCCGCTAAAGGTAATGATATTTAGCGGCA--TTTTTT
* *
68562 ACAAGCGCCGCTAAAGGTAATGATATTTAGCAGCATTTTTT
1 ACAAACGCCGCTAAAGGTAATGATATTTAGCGGCATTTTTT
*
68603 ACAAACGCCGCTAAAGGTAATGATATTTATCGGCATTTTTT
1 ACAAACGCCGCTAAAGGTAATGATATTTAGCGGCATTTTTT
*
68644 ACAAACGCCGCTAAA-GTAATGATATTTAGCGACATTTTTT
1 ACAAACGCCGCTAAAGGTAATGATATTTAGCGGCATTTTTT
*
68684 ACAAACACCGCTA
1 ACAAACGCCGCTA
68697 TTTATATTTT
Statistics
Matches: 127, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
40 35 0.28
41 59 0.46
43 33 0.26
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (41 bp):
ACAAACGCCGCTAAAGGTAATGATATTTAGCGGCATTTTTT
Found at i:68782 original size:44 final size:43
Alignment explanation
Indices: 68719--68802 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 43
68709 TTTGTGGCGT
*
68719 TTTGTCCCAAAAAAACCGCTAAATGTTCTAG-CATATAGTGGTG
1 TTTGTCCCAAAAAAACCGCTAAATGTTAT-GTCATATAGTGGTG
*
68762 TTTGTTCCCAAAAATACCGCTAAATGTTATGTCATATAGTG
1 TTTG-TCCCAAAAAAACCGCTAAATGTTATGTCATATAGTG
68803 TCGTTAGTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 5 0.14
44 32 0.86
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (43 bp):
TTTGTCCCAAAAAAACCGCTAAATGTTATGTCATATAGTGGTG
Found at i:69641 original size:21 final size:21
Alignment explanation
Indices: 69617--69662 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
69607 CTTGACATAA
69617 ATAACAACAAACTTGAAATCC
1 ATAACAACAAACTTGAAATCC
* *
69638 ATAAGAAGAAACTTGAAATCC
1 ATAACAACAAACTTGAAATCC
69659 ATAA
1 ATAA
69663 TAATAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.54, C:0.17, G:0.09, T:0.20
Consensus pattern (21 bp):
ATAACAACAAACTTGAAATCC
Found at i:79696 original size:19 final size:20
Alignment explanation
Indices: 79672--79722 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
79662 CGTCCAAGAG
*
79672 CATGTATGTTCACT-AAAGT
1 CATGTATTTTCACTCAAAGT
* *
79691 CATGTATTTTCATTCAAATT
1 CATGTATTTTCACTCAAAGT
79711 CATGTATTTTCA
1 CATGTATTTTCA
79723 AAGGCATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (20 bp):
CATGTATTTTCACTCAAAGT
Found at i:81814 original size:12 final size:12
Alignment explanation
Indices: 81797--81821 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81787 TTTAGCGGCG
81797 TTTGTATAAAAA
1 TTTGTATAAAAA
81809 TTTGTATAAAAA
1 TTTGTATAAAAA
81821 T
1 T
81822 GCCACTAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTGTATAAAAA
Found at i:81814 original size:53 final size:53
Alignment explanation
Indices: 81756--81862 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
81746 ACTTGCGGCG
*
81756 TTTGTA-AACAAACGCCACTAAAGTATGAGTATTTAGCGGCGTTTGTATAAAAA
1 TTTGTATAA-AAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTATAAAAA
* *
81809 TTTGTATAAAAATGCCACTAAAGTACGAGTTTTTAGCGGCGTTTGTATAAAAA
1 TTTGTATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTATAAAAA
81862 T
1 T
81863 GCCACTAAAG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
53 48 0.96
54 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (53 bp):
TTTGTATAAAAACGCCACTAAAGTACGAGTATTTAGCGGCGTTTGTATAAAAA
Found at i:81866 original size:41 final size:41
Alignment explanation
Indices: 81809--82020 Score: 282
Period size: 41 Copynumber: 5.2 Consensus size: 41
81799 TGTATAAAAA
* *
81809 TTTGTATAAAAATGCCACTAAAGTACGAGTTTTTAGCGGCG
1 TTTGTATAAAAATGCCACTAAAGTATGAGTCTTTAGCGGCG
* *
81850 TTTGTATAAAAATGCCACTAAAGTTTGAGTCTTTAGCGGCT
1 TTTGTATAAAAATGCCACTAAAGTATGAGTCTTTAGCGGCG
* **
81891 TTTGTATAAAAATTCCACTAAAGTATGAGT-TTATAGCGATG
1 TTTGTATAAAAATGCCACTAAAGTATGAGTCTT-TAGCGGCG
* * * * *
81932 TTTGTATAAAAACGCTACTAAAGTATAAGTCTATAGCGACG
1 TTTGTATAAAAATGCCACTAAAGTATGAGTCTTTAGCGGCG
* *
81973 TTTGTATAAAAACGCCACTAAAGTATGAGTCTTTAGTGGCG
1 TTTGTATAAAAATGCCACTAAAGTATGAGTCTTTAGCGGCG
82014 TTTGTAT
1 TTTGTAT
82021 GTATTGATAA
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
40 2 0.01
41 146 0.98
42 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (41 bp):
TTTGTATAAAAATGCCACTAAAGTATGAGTCTTTAGCGGCG
Found at i:82243 original size:41 final size:40
Alignment explanation
Indices: 82156--82244 Score: 99
Period size: 41 Copynumber: 2.2 Consensus size: 40
82146 ATACAAGTCG
* * * *
82156 TTAGTGGTGTTTGTATAAAGACATCATTAAAGTATGAGTT
1 TTAGCGGTGTTTGTATAAAGACACCACTAAAGTATGAATT
*
82196 TATAGCGGTGTTTGTATAAA-ACCGCCACTAAAGTATGAATAT
1 T-TAGCGGTGTTTGTATAAAGA-CACCACTAAAGTATGAAT-T
82238 TTAGCGG
1 TTAGCGG
82245 CATTTTTGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
40 2 0.05
41 37 0.90
42 2 0.05
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (40 bp):
TTAGCGGTGTTTGTATAAAGACACCACTAAAGTATGAATT
Done.