Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007936.1 Hibiscus syriacus cultivar Beakdansim tig00110346_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: 2869312
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:2335479 original size:22 final size:21
Alignment explanation
Indices: 2335356--2335652 Score: 99
Period size: 21 Copynumber: 14.3 Consensus size: 21
2335346 CAGTTTCCAA
*
2335356 TGCGATAGTCCAAATTCGCAT
1 TGCGATAGTCAAAATTCGCAT
** * * *
2335377 TGCGATTTTC-CATTTCGCGT
1 TGCGATAGTCAAAATTCGCAT
*
2335397 TGCGAAAGTCCAAAA-TCGCAT
1 TGCGATAGT-CAAAATTCGCAT
** * * * *
2335418 TGCGATTTTC-CATTTCACGTT
1 TGCGATAGTCAAAATTCGC-AT
2335439 TGCGATAGTCTAAAA-TCGCATT
1 TGCGATAGTC-AAAATTCGCA-T
*
2335461 TGCGATAGTCAAAATTCGCGT
1 TGCGATAGTCAAAATTCGCAT
** * * *
2335482 TGCGATTTTC-CATTTCTCAT
1 TGCGATAGTCAAAATTCGCAT
*
2335502 TGCGATAGTCCAAATTCGCAT
1 TGCGATAGTCAAAATTCGCAT
** * * *
2335523 TGCGATTTTC-CATTTCGCGT
1 TGCGATAGTCAAAATTCGCAT
** * * **
2335543 TGCGATTTTC-CATTTCGGGT
1 TGCGATAGTCAAAATTCGCAT
2335563 TGCGATAGTCTAAAA-TCGCATT
1 TGCGATAGTC-AAAATTCGCA-T
* ***
2335585 TGCGATAGTCGAAATTCATGT
1 TGCGATAGTCAAAATTCGCAT
** * * *
2335606 TGCGATTTTC-CATTTGGCAT
1 TGCGATAGTCAAAATTCGCAT
* *
2335626 TGCGATAGTCCAAATTCACAT
1 TGCGATAGTCAAAATTCGCAT
2335647 TGCGAT
1 TGCGAT
2335653 TTTCCATTTC
Statistics
Matches: 196, Mismatches: 66, Indels: 28
0.68 0.23 0.10
Matches are distributed among these distances:
19 1 0.01
20 77 0.39
21 84 0.43
22 33 0.17
23 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (21 bp):
TGCGATAGTCAAAATTCGCAT
Found at i:2335485 original size:105 final size:104
Alignment explanation
Indices: 2335356--2335548 Score: 314
Period size: 105 Copynumber: 1.8 Consensus size: 104
2335346 CAGTTTCCAA
* *
2335356 TGCGATAGTCCAAATTCGCATTGCGATTTTCCATTTCGCGTTGCGAAAGTCCAAAATCGCATTGC
1 TGCGATAGTCAAAATTCGCATTGCGATTTTCCATTTCGCATTGCGAAAGTCCAAAATCGCATTGC
2335421 GATTTTCCATTTCACGTTTGCGATAGTCTAAAATCGCATT
66 GATTTTCCATTTCACG-TTGCGATAGTCTAAAATCGCATT
* * * *
2335461 TGCGATAGTCAAAATTCGCGTTGCGATTTTCCATTTCTCATTGCGATAGTCCAAATTCGCATTGC
1 TGCGATAGTCAAAATTCGCATTGCGATTTTCCATTTCGCATTGCGAAAGTCCAAAATCGCATTGC
*
2335526 GATTTTCCATTTCGCGTTGCGAT
66 GATTTTCCATTTCACGTTGCGAT
2335549 TTTCCATTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
104 7 0.09
105 74 0.91
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (104 bp):
TGCGATAGTCAAAATTCGCATTGCGATTTTCCATTTCGCATTGCGAAAGTCCAAAATCGCATTGC
GATTTTCCATTTCACGTTGCGATAGTCTAAAATCGCATT
Found at i:2335521 original size:63 final size:62
Alignment explanation
Indices: 2335391--2335652 Score: 285
Period size: 63 Copynumber: 4.2 Consensus size: 62
2335381 ATTTTCCATT
* * * * * *
2335391 TCGCGTTGCGAAAGTCCAAAA-TCGCATTGCGATTTTCCATTTCACGTTTGCGATAGTCTAAAA
1 TCGCATTGCGATAGT-CAAAATTCGCGTTGCGATTTTCCATTTCGC-ATTGCGATAGTCCAAAA
* *
2335454 TCGCATTTGCGATAGTCAAAATTCGCGTTGCGATTTTCCATTTCTCATTGCGATAGTCCAAAT
1 TCGCA-TTGCGATAGTCAAAATTCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTCCAAAA
** * * ** *
2335517 TCGCATTGCGATTTTC-CATTTCGCGTTGCGATTTTCCATTTCGGGTTGCGATAGTCTAAAA
1 TCGCATTGCGATAGTCAAAATTCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTCCAAAA
* ** * *
2335578 TCGCATTTGCGATAGTCGAAATTCATGTTGCGATTTTCCATTTGGCATTGCGATAGTCCAAAT
1 TCGCA-TTGCGATAGTCAAAATTCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTCCAAAA
*
2335641 TCACATTGCGAT
1 TCGCATTGCGAT
2335653 TTTCCATTTC
Statistics
Matches: 167, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
61 43 0.26
62 25 0.15
63 68 0.41
64 31 0.19
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (62 bp):
TCGCATTGCGATAGTCAAAATTCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTCCAAAA
Found at i:2335587 original size:124 final size:125
Alignment explanation
Indices: 2335412--2335669 Score: 419
Period size: 124 Copynumber: 2.1 Consensus size: 125
2335402 AAGTCCAAAA
* *
2335412 TCGCATTGCGATTTTCCATTTCACGTTTGCGATAGTCTAAAATCGCATTTGCGATAGTCAAAATT
1 TCGCGTTGCGATTTTCCATTTCACGGTTGCGATAGTCTAAAATCGCATTTGCGATAGTCAAAATT
* * *
2335477 CGCGTTGCGATTTTCCATTTCTCATTGCGATAGTCCAAATTCGCATTGCGATTTTCCATT
66 CACGTTGCGATTTTCCATTTCGCATTGCGATAGTCCAAATTCACATTGCGATTTTCCATT
* *
2335537 TCGCGTTGCGATTTTCCATTTC-GGGTTGCGATAGTCTAAAATCGCATTTGCGATAGTCGAAATT
1 TCGCGTTGCGATTTTCCATTTCACGGTTGCGATAGTCTAAAATCGCATTTGCGATAGTCAAAATT
* *
2335601 CATGTTGCGATTTTCCATTTGGCATTGCGATAGTCCAAATTCACATTGCGATTTTCCATT
66 CACGTTGCGATTTTCCATTTCGCATTGCGATAGTCCAAATTCACATTGCGATTTTCCATT
*
2335661 TCACGTTGC
1 TCGCGTTGC
2335670 AATAGTCCAA
Statistics
Matches: 123, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 102 0.83
125 21 0.17
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (125 bp):
TCGCGTTGCGATTTTCCATTTCACGGTTGCGATAGTCTAAAATCGCATTTGCGATAGTCAAAATT
CACGTTGCGATTTTCCATTTCGCATTGCGATAGTCCAAATTCACATTGCGATTTTCCATT
Found at i:2335641 original size:41 final size:41
Alignment explanation
Indices: 2335454--2335679 Score: 220
Period size: 41 Copynumber: 5.5 Consensus size: 41
2335444 TAGTCTAAAA
*
2335454 TCGCATTTGCGATAGTCAAAATTCGCGTTGCGATTTTCCATT
1 TCGCA-TTGCGATAGTCCAAATTCGCGTTGCGATTTTCCATT
* *
2335496 TCTCATTGCGATAGTCCAAATTCGCATTGCGATTTTCCATT
1 TCGCATTGCGATAGTCCAAATTCGCGTTGCGATTTTCCATT
* ** * * ** * **
2335537 TCGCGTTGCGATTTTCC-ATTTCGGGTTGCGATAGTCTAAAA
1 TCGCATTGCGATAGTCCAAATTCGCGTTGCGATTTTC-CATT
* **
2335578 TCGCATTTGCGATAGTCGAAATTCATGTTGCGATTTTCCATT
1 TCGCA-TTGCGATAGTCCAAATTCGCGTTGCGATTTTCCATT
* * *
2335620 TGGCATTGCGATAGTCCAAATTCACATTGCGATTTTCCATT
1 TCGCATTGCGATAGTCCAAATTCGCGTTGCGATTTTCCATT
* * *
2335661 TCACGTTGCAATAGTCCAA
1 TCGCATTGCGATAGTCCAA
2335680 GCGATTTTCC
Statistics
Matches: 146, Mismatches: 35, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
40 14 0.10
41 100 0.68
42 18 0.12
43 14 0.10
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.37
Consensus pattern (41 bp):
TCGCATTGCGATAGTCCAAATTCGCGTTGCGATTTTCCATT
Found at i:2335669 original size:20 final size:20
Alignment explanation
Indices: 2335605--2335669 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
2335595 GAAATTCATG
**
2335605 TTGCGATTTTCCATTTGGCA
1 TTGCGATTTTCCATTTCACA
** *
2335625 TTGCGATAGTCCAAATTCACA
1 TTGCGATTTTCC-ATTTCACA
*
2335646 TTGCGATTTTCCATTTCACG
1 TTGCGATTTTCCATTTCACA
2335666 TTGC
1 TTGC
2335670 AATAGTCCAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 20 0.57
21 15 0.43
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (20 bp):
TTGCGATTTTCCATTTCACA
Found at i:2335774 original size:6 final size:6
Alignment explanation
Indices: 2335760--2335843 Score: 127
Period size: 6 Copynumber: 14.3 Consensus size: 6
2335750 GATACGTATT
* * *
2335760 ACCACG ACCATG ACCACG ACCACG ACCACG ACCACA ACCACG ACCATG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
2335808 ACCACG ACCACG ACC-CG ACCACG ACCACG ACC-CG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG AC
2335844 TCGAGATGAG
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
5 9 0.13
6 62 0.87
ACGTcount: A:0.33, C:0.49, G:0.15, T:0.02
Consensus pattern (6 bp):
ACCACG
Found at i:2336251 original size:41 final size:41
Alignment explanation
Indices: 2336012--2336232 Score: 397
Period size: 41 Copynumber: 5.4 Consensus size: 41
2336002 CAAGAGCAAG
* * *
2336012 ACTATCGCAACGCGAAATGGAAAATCGCATTGCGAATTTGG
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGC
2336053 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGC
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGC
2336094 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGC
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGC
2336135 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGC
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGC
*
2336176 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGG
1 ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGC
*
2336217 ACTATTGCAACGCGAA
1 ACTATCGCAACGCGAA
2336233 TTTGGAAACT
Statistics
Matches: 175, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 175 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAATGCGATTTTGC
Found at i:2336991 original size:19 final size:19
Alignment explanation
Indices: 2336953--2336991 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2336943 TTGATATTTA
*
2336953 GATGATTTTCATTCTCTTG
1 GATGATTTTCATACTCTTG
2336972 GATGATTTTTCATACT-TTG
1 GATGA-TTTTCATACTCTTG
2336991 G
1 G
2336992 TTGTGGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (19 bp):
GATGATTTTCATACTCTTG
Found at i:2339680 original size:590 final size:591
Alignment explanation
Indices: 2338561--2339742 Score: 2082
Period size: 590 Copynumber: 2.0 Consensus size: 591
2338551 GAGGCGCCAT
2338561 GAAGATTCCAAACTTATACGAGTATTTTTCAATACCTAGGGGCATGTATTCACTGACACCTCACT
1 GAAGATTCCAAACTTATACGAGTATTTTTCAATACCTAGGGGCATGTATTCACTGACACCTCACT
*
2338626 ATAACTAACCACTGGCTCTTAGGACCGACTCAACCTGACGTTCTGATACCATTAAATATAACACC
66 ATAACTAACCACTGGCTCTTAGGACCGACTCAACCTGACGTTCTGATACCACTAAATATAACACC
2338691 CTAAACCTGATTGGGCCTAAAGTGCCACATTAGGCTACTATGGTAAACCTTTTATTCAAAAACAT
131 CTAAACCTGATTGGGCCTAAAGTGCCACATTAGGCTACTATGGTAAACCTTTTATTCAAAAACAT
2338756 GCCTATTCTCATTTCAAAACATACTACGTGGTACCAAAATAAATATATAGAACAATTATGAAAAT
196 GCCTATTCTCATTTCAAAACATACTACGTGGTACCAAAATAAATATATAGAACAATTATGAAAAT
2338821 TCTTTTATAAAACTGGAGCTTTGTAAACCTAATTTAAATCAAATAATACAACTCAAAATTTATAA
261 TCTTTTATAAAACTGGAGCTTTGTAAACCTAATTTAAATCAAATAATACAACTCAAAATTTATAA
*
2338886 ATCCCAATACGCAAGTAAGGGCCCTATGAATACACATGCCCACTACAAGTAACCAACTAGTACTC
326 ATCCCAATACGCAAGTAAGGGCCCTATGAATACACATGCCCACTACAAGTAACCAACCAGTACTC
* * *
2338951 TACGATAAATACTGGAAATCCTGCTGCGACGTTGCTACTCGAACATCTCAACATACTAACCTACA
391 TACGAGAAATACTGGAAATCCTACTGCAACGTTGCTACTCGAACATCTCAACATACTAACCTACA
2339016 AACAGAAACATATGAACGTTGAGATTACAAAGCCCATTAGTATAATCTCTAATCTAGAACAATAT
456 AACAGAAACATATGAACGTTGAGATTACAAAGCCCATTAGTATAATCTCTAATCTAGAACAATAT
*
2339081 AAGAATCTCATATCATAAACATGCTAGAGGATAAGGTATTAAGCAATAGGTACATGCATGATCAT
521 AAGAATCTCATATCATAAACATGCTAGAGGATAAGGTATTAAGCAATAGGTACATACATGATCAT
2339146 AATCAA
586 AATCAA
* *
2339152 GAAGATTCCAAACTTATACGAGTA-TTTTCAATACGTAGGGGCATGTATTCACTGACACCTTACT
1 GAAGATTCCAAACTTATACGAGTATTTTTCAATACCTAGGGGCATGTATTCACTGACACCTCACT
* * *
2339216 ATAACTACCCACTGGCTCTTAGGACTGACTCAACCTGATGTTCTGATACCACTAAATATAACACC
66 ATAACTAACCACTGGCTCTTAGGACCGACTCAACCTGACGTTCTGATACCACTAAATATAACACC
* * *
2339281 CTAAACCTGATTGGGCCTAAAGTGCCACATTAGGCTACTATGGTAAACTTTTTTTTTCAAAAACC
131 CTAAACCTGATTGGGCCTAAAGTGCCACATTAGGCTACTATGGTAAAC-CTTTTATTCAAAAACA
* *
2339346 TGCTTATTCTCATTTCAAAACATACTATGTGGTACCAAAATAAATATATAGAACAATTATGAAAA
195 TGCCTATTCTCATTTCAAAACATACTACGTGGTACCAAAATAAATATATAGAACAATTATGAAAA
*
2339411 TTCTTTTATAAAACTGGAGCTTTGTAAACCTAATTTAAATCAAATAATACAACTCGAAATTTATA
260 TTCTTTTATAAAACTGGAGCTTTGTAAACCTAATTTAAATCAAATAATACAACTCAAAATTTATA
*
2339476 AATCCTAATACGCAAGTAAGGGCCCTATGAATACACATGCCCACTACAAGT-ACCAACCAGTACT
325 AATCCCAATACGCAAGTAAGGGCCCTATGAATACACATGCCCACTACAAGTAACCAACCAGTACT
*
2339540 CTACGAGAAATACTGGAAATCCTACTGCAACGTTTCTACTCGAACATCTCAACATACTAACCTAC
390 CTACGAGAAATACTGGAAATCCTACTGCAACGTTGCTACTCGAACATCTCAACATACTAACCTAC
* * * * **
2339605 AAACATAAATATATGAACGTTGAGATTATAAAGCCCATTAGTATAAT-TGCTAATCTATAGTAAT
455 AAACAGAAACATATGAACGTTGAGATTACAAAGCCCATTAGTATAATCT-CTAATCTAGAACAAT
* *
2339669 ATAAGAATCTCATATCATAAACATGCTAGAGGATAAGGTATTAAGCAGTATGTACATACATGATC
519 ATAAGAATCTCATATCATAAACATGCTAGAGGATAAGGTATTAAGCAATAGGTACATACATGATC
2339734 ATAATCAA
584 ATAATCAA
2339742 G
1 G
2339743 TGCTACCTAC
Statistics
Matches: 562, Mismatches: 27, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
589 1 0.00
590 347 0.62
591 214 0.38
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (591 bp):
GAAGATTCCAAACTTATACGAGTATTTTTCAATACCTAGGGGCATGTATTCACTGACACCTCACT
ATAACTAACCACTGGCTCTTAGGACCGACTCAACCTGACGTTCTGATACCACTAAATATAACACC
CTAAACCTGATTGGGCCTAAAGTGCCACATTAGGCTACTATGGTAAACCTTTTATTCAAAAACAT
GCCTATTCTCATTTCAAAACATACTACGTGGTACCAAAATAAATATATAGAACAATTATGAAAAT
TCTTTTATAAAACTGGAGCTTTGTAAACCTAATTTAAATCAAATAATACAACTCAAAATTTATAA
ATCCCAATACGCAAGTAAGGGCCCTATGAATACACATGCCCACTACAAGTAACCAACCAGTACTC
TACGAGAAATACTGGAAATCCTACTGCAACGTTGCTACTCGAACATCTCAACATACTAACCTACA
AACAGAAACATATGAACGTTGAGATTACAAAGCCCATTAGTATAATCTCTAATCTAGAACAATAT
AAGAATCTCATATCATAAACATGCTAGAGGATAAGGTATTAAGCAATAGGTACATACATGATCAT
AATCAA
Found at i:2344606 original size:20 final size:21
Alignment explanation
Indices: 2344564--2344607 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
2344554 ATTTTTACAA
*
2344564 AGAAATCATCCCCAAATGGCT
1 AGAAATCATCCCCAAACGGCT
2344585 AGAAATCATCCCC-AACGGCT
1 AGAAATCATCCCCAAACGGCT
2344605 AGA
1 AGA
2344608 TACGACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.39, C:0.30, G:0.16, T:0.16
Consensus pattern (21 bp):
AGAAATCATCCCCAAACGGCT
Found at i:2345708 original size:83 final size:83
Alignment explanation
Indices: 2345569--2345738 Score: 252
Period size: 83 Copynumber: 2.0 Consensus size: 83
2345559 CAAGTAAACC
* * * * * *
2345569 AGAAACTATTAGCCTAGAATTTGGGATGTTATATGTGAAGTATGATTGTCCCTAATTTAAGAAAA
1 AGAAACTATTAGCCTAAAATTTGGGATATTACAAGTGAAGTATGATAGTCCCTAATTGAAGAAAA
2345634 ATGGATCAAGTAAGCCAA
66 ATGGATCAAGTAAGCCAA
* *
2345652 AGAAACTATTGGCCTAAAATTTAGGG-TATTACAAGTGAAGTATGATAGTCCCTAATTGAAGAAG
1 AGAAACTATTAGCCTAAAATTT-GGGATATTACAAGTGAAGTATGATAGTCCCTAATTGAAGAAA
2345716 AATGGATCAAGTAAGCCAA
65 AATGGATCAAGTAAGCCAA
2345735 AGAA
1 AGAA
2345739 GAAGACTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 75 0.96
84 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (83 bp):
AGAAACTATTAGCCTAAAATTTGGGATATTACAAGTGAAGTATGATAGTCCCTAATTGAAGAAAA
ATGGATCAAGTAAGCCAA
Found at i:2347290 original size:30 final size:30
Alignment explanation
Indices: 2347256--2347367 Score: 100
Period size: 30 Copynumber: 3.5 Consensus size: 30
2347246 GCTTGAGACA
*
2347256 GTTTCTCTTGAAGCATAAACCTTTGAGATT
1 GTTTCTCTTGAAACATAAACCTTTGAGATT
* **
2347286 GTTTCTCTTGAAACCA-AATTTCATCTTGCTTGAGACA
1 GTTTCTCTTGAAA-CATAA----A-CCT--TTGAGATT
2347323 GTTTCTCTTGAAACATAAACCTTTGAGATT
1 GTTTCTCTTGAAACATAAACCTTTGAGATT
*
2347353 GTTTCACTTGAAACA
1 GTTTCTCTTGAAACA
2347368 AAATTTTGTC
Statistics
Matches: 65, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
30 34 0.52
31 2 0.03
32 2 0.03
33 1 0.02
34 1 0.02
35 2 0.03
36 2 0.03
37 21 0.32
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (30 bp):
GTTTCTCTTGAAACATAAACCTTTGAGATT
Found at i:2347320 original size:67 final size:67
Alignment explanation
Indices: 2347221--2347373 Score: 254
Period size: 67 Copynumber: 2.3 Consensus size: 67
2347211 CTTGAGACAA
** *
2347221 TTTCTCTTGAAA-CAAATTTTGTCTTGCTTGAGACAGTTTCTCTTGAAGCATAAACCTTTGAGAT
1 TTTCTCTTGAAACCAAATTTCATCTTGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGAT
2347285 TG
66 TG
2347287 TTTCTCTTGAAACCAAATTTCATCTTGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGAT
1 TTTCTCTTGAAACCAAATTTCATCTTGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGAT
2347352 TG
66 TG
* *
2347354 TTTCACTTGAAACAAAATTT
1 TTTCTCTTGAAACCAAATTT
2347374 TGTCTCACCG
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
66 12 0.15
67 69 0.85
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.40
Consensus pattern (67 bp):
TTTCTCTTGAAACCAAATTTCATCTTGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGAT
TG
Found at i:2353530 original size:21 final size:20
Alignment explanation
Indices: 2353496--2353553 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 20
2353486 ATCCCATAAC
* *
2353496 AAAATGATCAATCCCTTTGA
1 AAAAGGATCGATCCCTTTGA
* *
2353516 CCAAAGGATCGATCCCCTTGA
1 -AAAAGGATCGATCCCTTTGA
*
2353537 AAAAGAATCGATCCCTT
1 AAAAGGATCGATCCCTT
2353554 GGATTCCAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (20 bp):
AAAAGGATCGATCCCTTTGA
Found at i:2353601 original size:20 final size:21
Alignment explanation
Indices: 2353576--2353623 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2353566 GTATTGGATC
*
2353576 GATCCCTTTA-CAAAACG-ATT
1 GATCCCTTCACCAAAA-GTATT
2353596 GATCCCTTCACCAAAAGTATT
1 GATCCCTTCACCAAAAGTATT
2353617 GATCCCT
1 GATCCCT
2353624 CGACGAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.29
Consensus pattern (21 bp):
GATCCCTTCACCAAAAGTATT
Found at i:2355432 original size:29 final size:30
Alignment explanation
Indices: 2355397--2355460 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
2355387 TAGTCCCCCA
2355397 ACTATAGGGCACTACTTTATCTAGTC-CCG
1 ACTATAGGGCACTACTTTATCTAGTCTCCG
* * *
2355426 ACTATAGGGCACTATTTTATTTAGTCTCTG
1 ACTATAGGGCACTACTTTATCTAGTCTCCG
2355456 ACTAT
1 ACTAT
2355461 TAAAGGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (30 bp):
ACTATAGGGCACTACTTTATCTAGTCTCCG
Found at i:2356659 original size:13 final size:13
Alignment explanation
Indices: 2356608--2356651 Score: 79
Period size: 13 Copynumber: 3.4 Consensus size: 13
2356598 GTCATAAATC
*
2356608 TATGACACGCATT
1 TATGACACTCATT
2356621 TATGACACTCATT
1 TATGACACTCATT
2356634 TATGACACTCATT
1 TATGACACTCATT
2356647 TATGA
1 TATGA
2356652 TGCTCATTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.36
Consensus pattern (13 bp):
TATGACACTCATT
Found at i:2356745 original size:85 final size:84
Alignment explanation
Indices: 2356631--2356796 Score: 217
Period size: 85 Copynumber: 2.0 Consensus size: 84
2356621 TATGACACTC
* * * * * *
2356631 ATTTATGACACTCATTTATGATGCTCATTGCGCGTCATTGAAGCTCCCGTCATAAATGAATATGA
1 ATTTATGACACGCATTTACGAT-CTCATTGCGCGTCATTGAAGCACACGTCAGAAATGAAGATGA
*
2356696 CACACATTTGTGTGTCATAA
65 CACACATTCGTGTGTCATAA
* *
2356716 ATTTATGACACGCATTTACGA-CTTACATTGCGTGTCATTGAAGCACACGTTAGAAATGAAGATG
1 ATTTATGACACGCATTTACGATC-T-CATTGCGCGTCATTGAAGCACACGTCAGAAATGAAGATG
2356780 ACACACATTCGTGTGTC
64 ACACACATTCGTGTGTC
2356797 GTGATTGTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 1 0.01
84 1 0.01
85 68 0.97
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (84 bp):
ATTTATGACACGCATTTACGATCTCATTGCGCGTCATTGAAGCACACGTCAGAAATGAAGATGAC
ACACATTCGTGTGTCATAA
Found at i:2364029 original size:22 final size:21
Alignment explanation
Indices: 2364001--2364041 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2363991 TATAAAAAAC
2364001 TATTTTTATTAAATGTTTTTTA
1 TATTTTTATTAAAT-TTTTTTA
*
2364023 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
2364042 AAATAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTTA
Found at i:2364140 original size:27 final size:27
Alignment explanation
Indices: 2364109--2364163 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2364099 TCGGTTGAAC
2364109 CAGTGAACCGGTAGCACAGCCGGTTCG
1 CAGTGAACCGGTAGCACAGCCGGTTCG
2364136 CAGTGAACCGGTAGCACAGCCGGTTCG
1 CAGTGAACCGGTAGCACAGCCGGTTCG
2364163 C
1 C
2364164 TGACCGGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.33, T:0.15
Consensus pattern (27 bp):
CAGTGAACCGGTAGCACAGCCGGTTCG
Found at i:2364920 original size:112 final size:112
Alignment explanation
Indices: 2364792--2364995 Score: 329
Period size: 112 Copynumber: 1.8 Consensus size: 112
2364782 ATATTGATAT
* * * *
2364792 ATTGATATTGAACTAGTTATCTTATGTGTTCTATCAACAAATAATTTAAAAATTTATAAA-AGAA
1 ATTGATATTGAACTAGTTATCTTATATCTTCTATCAACAAATAACTCAAAAATTTATAAAGA-AA
*
2364856 TATTTTAAAATTAATATGAAATATACATCAACTTTCATGAGGAAGTAC
65 TATTTTAAAATTAAAATGAAATATACATCAACTTTCATGAGGAAGTAC
*
2364904 ATTGATATTGAACTAGTTATCTTATATCTTCTATCAACAAATAACTCAAAATTTTATAAAGAAAT
1 ATTGATATTGAACTAGTTATCTTATATCTTCTATCAACAAATAACTCAAAAATTTATAAAGAAAT
*
2364969 ATTTTAGAATTAAAATGAAATATACAT
66 ATTTTAAAATTAAAATGAAATATACAT
2364996 TAATTATCAC
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 83 0.99
113 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (112 bp):
ATTGATATTGAACTAGTTATCTTATATCTTCTATCAACAAATAACTCAAAAATTTATAAAGAAAT
ATTTTAAAATTAAAATGAAATATACATCAACTTTCATGAGGAAGTAC
Found at i:2365195 original size:18 final size:20
Alignment explanation
Indices: 2365150--2365191 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 20
2365140 CCATTTAAAT
2365150 TTAAATTAATAAAAAGATAAGGA
1 TTAAATTAATAAAAAGAT-A--A
2365173 TTAAATTAATAAAAAGATA
1 TTAAATTAATAAAAAGATA
2365192 TAAAATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (20 bp):
TTAAATTAATAAAAAGATAA
Found at i:2366983 original size:23 final size:23
Alignment explanation
Indices: 2366957--2367005 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
2366947 AATTATGCAT
*
2366957 TTTCTTATCAGTACTATGTGTAC
1 TTTCGTATCAGTACTATGTGTAC
2366980 TTTCGTATCAGTACTATGTGTAC
1 TTTCGTATCAGTACTATGTGTAC
2367003 TTT
1 TTT
2367006 TGGCGCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (23 bp):
TTTCGTATCAGTACTATGTGTAC
Found at i:2377912 original size:26 final size:26
Alignment explanation
Indices: 2377870--2377949 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
2377860 ACTAAGTGCA
* *
2377870 TATGGTGGGCGTGACCTTATGTGTAT
1 TATGTTGGGCATGACCTTATGTGTAT
2377896 TATAG-TGGGCAAT-ACCTTATGTGTAT
1 TAT-GTTGGGC-ATGACCTTATGTGTAT
*
2377922 GATGTTGGGCATGACCTTATGTGTAT
1 TATGTTGGGCATGACCTTATGTGTAT
2377948 TA
1 TA
2377950 GCACTTCAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
25 3 0.06
26 42 0.89
27 2 0.04
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (26 bp):
TATGTTGGGCATGACCTTATGTGTAT
Found at i:2385777 original size:18 final size:20
Alignment explanation
Indices: 2385756--2385800 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
2385746 ATTTTGGTAC
*
2385756 CGATACTCTAG-GG-AGTAT
1 CGATACTCAAGAGGCAGTAT
2385774 CGATACT-AAGAGGCAGTAT
1 CGATACTCAAGAGGCAGTAT
2385793 CGATACTC
1 CGATACTC
2385801 CCTATAGGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 9 0.39
19 12 0.52
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (20 bp):
CGATACTCAAGAGGCAGTAT
Found at i:2392102 original size:35 final size:35
Alignment explanation
Indices: 2392063--2392129 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
2392053 GAAACGTAGA
*
2392063 ACTGAACGAAAGAAAATTGACTTCAAAAGAAAAGT
1 ACTGAACGAAAGAAAATTGACTTAAAAAGAAAAGT
* *
2392098 ACTGAATGAAAGAAAATTGAGTTAAAAAGAAA
1 ACTGAACGAAAGAAAATTGACTTAAAAAGAAA
2392130 TAAGAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (35 bp):
ACTGAACGAAAGAAAATTGACTTAAAAAGAAAAGT
Found at i:2397003 original size:14 final size:15
Alignment explanation
Indices: 2396970--2397006 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
2396960 TACTAAAATT
2396970 AAAAT-AAAAAAGAG
1 AAAATAAAAAAAGAG
*
2396984 ATAATAAAAAAAGA-
1 AAAATAAAAAAAGAG
2396998 AAAATAAAA
1 AAAATAAAA
2397007 GAACGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (15 bp):
AAAATAAAAAAAGAG
Found at i:2398358 original size:39 final size:37
Alignment explanation
Indices: 2398267--2398406 Score: 181
Period size: 37 Copynumber: 3.7 Consensus size: 37
2398257 TTTAAATTTT
* * * *
2398267 TTTTCAAAAATTAAATATTATATAGATTTTCAAAATG
1 TTTTCAAAAACTATATATTATATATATTTTCAAAATA
* *
2398304 TTTTCAAAAACTATATATTATATATATATTCATAATA
1 TTTTCAAAAACTATATATTATATATATTTTCAAAATA
* * *
2398341 TTTTCAAAAATTGTATATTATATACATATTTTTAAAATA
1 TTTTCAAAAACTATATATTATAT--ATATTTTCAAAATA
2398380 TTTTCAAAAACTATATATTATATATAT
1 TTTTCAAAAACTATATATTATATATAT
2398407 GTTTTCTAAA
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 56 0.64
39 32 0.36
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (37 bp):
TTTTCAAAAACTATATATTATATATATTTTCAAAATA
Found at i:2398420 original size:76 final size:74
Alignment explanation
Indices: 2398267--2398406 Score: 217
Period size: 76 Copynumber: 1.9 Consensus size: 74
2398257 TTTAAATTTT
*
2398267 TTTTCAAAAATTAAATATTATATAGATTTTCAAAATGTTTTCAAAAACTATATATTATATATATA
1 TTTTCAAAAATTAAATATTATATAGATTTTCAAAATATTTTCAAAAACTATATATTATATATATA
2398332 TTCATAATA
66 TTCATAATA
** * *
2398341 TTTTCAAAAATTGTATATTATATACATATTTTTAAAATATTTTCAAAAACTATATATTATATATA
1 TTTTCAAAAATTAAATATTATAT--AGATTTTCAAAATATTTTCAAAAACTATATATTATATATA
2398406 T
64 T
2398407 GTTTTCTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 21 0.36
76 38 0.64
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (74 bp):
TTTTCAAAAATTAAATATTATATAGATTTTCAAAATATTTTCAAAAACTATATATTATATATATA
TTCATAATA
Found at i:2398428 original size:39 final size:38
Alignment explanation
Indices: 2398267--2398443 Score: 157
Period size: 37 Copynumber: 4.6 Consensus size: 38
2398257 TTTAAATTTT
* * * * *
2398267 TTTTCAAAAATTAAATATTATATAGA-TTTTCAAAATG
1 TTTTCAAAAACTATATATTATATATATTTTTCTAAATA
*
2398304 TTTTCAAAAACTATATATTATATATA-TATTC-ATAATA
1 TTTTCAAAAACTATATATTATATATATTTTTCTA-AATA
* * *
2398341 TTTTCAAAAATTGTATATTATATACATATTTTT-AAAATA
1 TTTTCAAAAACTATATATTATAT--ATATTTTTCTAAATA
2398380 TTTTCAAAAACTATATATTATATATATGTTTTCTAAAT-
1 TTTTCAAAAACTATATATTATATATAT-TTTTCTAAATA
* *
2398418 TTTATAAAAAAAACTATATACTATAT
1 TTT-T--CAAAAACTATATATTATAT
2398444 CTTATATATA
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
36 1 0.01
37 55 0.47
38 7 0.06
39 33 0.28
40 4 0.03
41 17 0.15
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.46
Consensus pattern (38 bp):
TTTTCAAAAACTATATATTATATATATTTTTCTAAATA
Found at i:2405034 original size:156 final size:150
Alignment explanation
Indices: 2404718--2405036 Score: 370
Period size: 164 Copynumber: 2.0 Consensus size: 150
2404708 GGCCATCTCT
* *
2404718 TCATCTTTTTCATCCACCTCTTCACTTGAATCTTCTTTATCTTATTAGTGGACTTGATAGCGATG
1 TCATCTTCTTCATCCACCTCTTCACTTGAATCTTATTTATCTTATTAGTGGACTTGATAGCGATG
* ** *
2404783 CCAATATCATTTATCTTCTTCTTCTTTTTTCTTGCTCGTCTTCTTTTACTATCAACTCACAAGTG
66 CCAACATCATTTATCTTCTTCTTCTTTTTTCTTAATCCTCTTCTTTTACTATCAACTCACAAGTG
2404848 AGCAAGGAACCAATAAGCTCATCAAA
131 AGCAAGGAACCAATAAG--C--C--A
*
2404874 TCATCTTCTTCATCCACCTCTTCACTTGAATCTTATTTATCTTTATTGGTGGACTTGATAGCGAT
1 TCATCTTCTTCATCCACCTCTTCACTTGAATCTTATTTATC-TTATTAGTGGACTTGATAGCGAT
* * *
2404939 GCCAACCTCCTTTATTTTCTTCTCTTTCCTTTCTTATTCTTAATCCTCTTCTTTTA-TCATCAAC
65 GCCAACATCATTTATCTTC-T-TC-TT-C-TT-TT-TTCTTAATCCTCTTCTTTTACT-ATCAAC
** *
2405003 TCATGAGTGAGCACGGAACCAATAAGCTCA
122 TCACAAGTGAGCAAGGAACCAATAAGC-CA
2405033 TCAT
1 TCAT
2405037 GAGTGAGAGA
Statistics
Matches: 141, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
156 39 0.28
157 37 0.26
158 1 0.01
159 7 0.05
160 2 0.01
161 3 0.02
162 3 0.02
163 3 0.02
164 46 0.33
ACGTcount: A:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (150 bp):
TCATCTTCTTCATCCACCTCTTCACTTGAATCTTATTTATCTTATTAGTGGACTTGATAGCGATG
CCAACATCATTTATCTTCTTCTTCTTTTTTCTTAATCCTCTTCTTTTACTATCAACTCACAAGTG
AGCAAGGAACCAATAAGCCA
Found at i:2410651 original size:33 final size:32
Alignment explanation
Indices: 2410589--2410652 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
2410579 ACAAAAATTA
*
2410589 AAGAAAGAAATGATTAAAATAGAATATGAAAG
1 AAGAAAGAAATGATGAAAATAGAATATGAAAG
2410621 AAGAAAGGAAATGATAAGAAAAT-GAA-ATGAAA
1 AAGAAA-GAAATGAT--GAAAATAGAATATGAAA
2410653 TGGATAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 6 0.21
33 14 0.50
34 3 0.11
35 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.20, T:0.16
Consensus pattern (32 bp):
AAGAAAGAAATGATGAAAATAGAATATGAAAG
Found at i:2410652 original size:21 final size:21
Alignment explanation
Indices: 2410623--2410662 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2410613 TATGAAAGAA
2410623 GAAAGGAAAT-GATAAGAAAAT
1 GAAAGGAAATGGAT-AGAAAAT
*
2410644 GAAATGAAATGGATAGAAA
1 GAAAGGAAATGGATAGAAA
2410663 TGTTATCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.15
Consensus pattern (21 bp):
GAAAGGAAATGGATAGAAAAT
Found at i:2410850 original size:35 final size:36
Alignment explanation
Indices: 2410803--2410870 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 36
2410793 ATTTAGAAGT
2410803 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGAATA
*
2410838 TGGTGATGATATAGGCGTGATAATGGTGATGGA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGA
2410871 CAGATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 20 0.65
36 11 0.35
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.31
Consensus pattern (36 bp):
TGGTGATAATATAGGCGTGATAATGGTGATGGAATA
Found at i:2415985 original size:16 final size:15
Alignment explanation
Indices: 2415965--2416003 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
2415955 AAATTTTATC
2415965 TTTTTTTGCCATTTT
1 TTTTTTTGCCATTTT
**
2415980 TGTTTTTTTTCATTTT
1 T-TTTTTTGCCATTTT
2415996 TTTTTTTG
1 TTTTTTTG
2416004 AAAAAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.05, C:0.08, G:0.08, T:0.79
Consensus pattern (15 bp):
TTTTTTTGCCATTTT
Found at i:2422228 original size:20 final size:21
Alignment explanation
Indices: 2422183--2422231 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
2422173 TAATGAACAA
2422183 TATCGATAGTGATTGAAGAAG
1 TATCGATAGTGATTGAAGAAG
* * *
2422204 TATCGATATTGA-TGTAGAGG
1 TATCGATAGTGATTGAAGAAG
2422224 TATCGATA
1 TATCGATA
2422232 CCATGAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (21 bp):
TATCGATAGTGATTGAAGAAG
Found at i:2422740 original size:15 final size:15
Alignment explanation
Indices: 2422713--2422770 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
2422703 TTTTATTAAC
2422713 ATATGAATA-TGTTTT
1 ATATGAA-AGTGTTTT
* *
2422728 ATGTGAAAGTGTTAT
1 ATATGAAAGTGTTTT
*
2422743 ATATGAATGTGTTTT
1 ATATGAAAGTGTTTT
*
2422758 ATATGAAAATGTT
1 ATATGAAAGTGTT
2422771 CTATGTGAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
14 1 0.03
15 34 0.97
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (15 bp):
ATATGAAAGTGTTTT
Found at i:2422747 original size:30 final size:30
Alignment explanation
Indices: 2422713--2422807 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 30
2422703 TTTTATTAAC
2422713 ATATGAATATGTTTTATGTGAAAGTGTTAT
1 ATATGAATATGTTTTATGTGAAAGTGTTAT
* * * *
2422743 ATATGAATGTGTTTTATATGAAAATGTTCT
1 ATATGAATATGTTTTATGTGAAAGTGTTAT
* ** *
2422773 ATGTGAATATAG-GCTATGTGAATGTGTTAT
1 ATATGAATAT-GTTTTATGTGAAAGTGTTAT
2422803 ATATG
1 ATATG
2422808 GGTAAAGAAT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
30 50 0.98
31 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (30 bp):
ATATGAATATGTTTTATGTGAAAGTGTTAT
Found at i:2424936 original size:15 final size:16
Alignment explanation
Indices: 2424905--2424941 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
2424895 AAATGATTTC
*
2424905 TTTTGAAAATTGAAAA
1 TTTTGAAAATAGAAAA
2424921 TTTTGAAAA-AGAAAA
1 TTTTGAAAATAGAAAA
2424936 TTTTGA
1 TTTTGA
2424942 TTTAAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (16 bp):
TTTTGAAAATAGAAAA
Found at i:2426711 original size:20 final size:20
Alignment explanation
Indices: 2426660--2426730 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
2426650 ACCTAAAGGT
* *
2426660 CAGTATCGA-ACTACAGGCA
1 CAGTATTGATACTGCAGGCA
* * * *
2426679 CAATATCGTTACTGTAGGCA
1 CAGTATTGATACTGCAGGCA
*
2426699 TAGTATTGATACTGCAGGCA
1 CAGTATTGATACTGCAGGCA
2426719 CAGTATTGATAC
1 CAGTATTGATAC
2426731 CATCGTCCTT
Statistics
Matches: 41, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 7 0.17
20 34 0.83
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (20 bp):
CAGTATTGATACTGCAGGCA
Found at i:2436872 original size:65 final size:63
Alignment explanation
Indices: 2436680--2436883 Score: 193
Period size: 65 Copynumber: 3.2 Consensus size: 63
2436670 AAGAGTGTAC
* * * *
2436680 CGATGCATCAAGTGCATTCGATGATTT-A-AAATAGCTAGAGTGCATCGATGCATGGCTGGTGCA
1 CGATGCATCAAATGCATTCGATG-TTTCATAAA-ATCT-CAGTGCATCGATGCATGGATGGTGCA
2436743 T
63 T
* *
2436744 CGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATTGTAT-GTGCA
1 CGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCA-TGGATGGTGCA
2436808 T
63 T
* **
2436809 CGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGATCGGTGC
1 CGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGGAT-GGTGC
2436872 AT
62 AT
*
2436874 CGGTGCATCA
1 CGATGCATCA
2436884 CTCTGAAAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
62 3 0.03
63 7 0.06
64 42 0.36
65 57 0.49
66 8 0.07
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (63 bp):
CGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGATGGTGCAT
Found at i:2438734 original size:12 final size:12
Alignment explanation
Indices: 2438702--2438726 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2438692 AATCACTACT
2438702 TGACATTGTTCA
1 TGACATTGTTCA
2438714 TGACATTGTTCA
1 TGACATTGTTCA
2438726 T
1 T
2438727 ACACTTGTAC
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:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TGACATTGTTCA
Found at i:2442110 original size:15 final size:15
Alignment explanation
Indices: 2442092--2442169 Score: 156
Period size: 15 Copynumber: 5.2 Consensus size: 15
2442082 CGAGGGTATT
2442092 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
2442107 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
2442122 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
2442137 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
2442152 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
2442167 GTA
1 GTA
2442170 ATGGTCCTAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 63 1.00
ACGTcount: A:0.14, C:0.26, G:0.33, T:0.27
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:2442204 original size:22 final size:19
Alignment explanation
Indices: 2442154--2442206 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
2442144 TTCGGGACGT
*
2442154 AGTCCTTCGGGACGTAATG
1 AGTCCTTCGGGACATAATG
*
2442173 -GTCCTACGGGACATATATAG
1 AGTCCTTCGGGACATA-AT-G
2442193 CAGTCCTTCGGGAC
1 -AGTCCTTCGGGAC
2442207 GAATACTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 1 0.04
22 11 0.41
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (19 bp):
AGTCCTTCGGGACATAATG
Found at i:2448402 original size:36 final size:36
Alignment explanation
Indices: 2448355--2448426 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
2448345 TATATGCAGG
2448355 GGGAACAGATTCCCCCAT-GGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCC-TGGGGGGGTATCGATTCCCC
2448391 GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
2448427 CTAAATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.18, C:0.31, G:0.32, T:0.19
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
Found at i:2449051 original size:15 final size:15
Alignment explanation
Indices: 2449033--2449067 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2449023 CGAGGGTATT
2449033 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
2449048 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
*
2449063 ATAGT
1 GTAGT
2449068 GGTCCTACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.23, G:0.31, T:0.29
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:2451516 original size:55 final size:54
Alignment explanation
Indices: 2451452--2451965 Score: 532
Period size: 55 Copynumber: 9.4 Consensus size: 54
2451442 AGACGAGTCC
* *
2451452 GCTCTTTCTTCTTTCAAGGAGGATAGGACTCGAACAATCTTC-AGAAAATGGGTAT
1 GCTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGA-AAAATGGGT-T
* * * * **
2451507 GCTCCTTCTTCTTTTAAGGAGTATAGGAATCAAAAAATCTTCGGCAAATGGGTAT
1 GCTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAATGGGT-T
* * * * **
2451562 GCTTCC-TCTTTTTTCAGGGAGTATAGGACTCGAACAATTTTTGAAAAATGAGGCC
1 GC-TCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAATG-GGTT
* * * * *
2451617 ACTCCTTCTTCTTCCAAGGAGTATAAGACTCGAACAATCTTCGATAAATGTGTCT
1 GCTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAATGGGT-T
* * * *
2451672 GTTCCATCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTTGAAAAATGGGTT
1 GCTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAATGGGTT
* * *
2451726 CGCTCCTTCTTCTTTCAAGGAGTATAAGACTTGAACAATCTTCGAAAAACTGGTTT
1 -GCTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAA-TGGGTT
* * * *
2451782 GCTCCCTT-TTCTTTCATGGAGTGTAGGACTTGAACAATCTTCGTAAAATGGGTT
1 GCT-CCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAATGGGTT
* * * *
2451836 CGGTCCTTCTCCTTTCAAGGAGTATAAGACTTGAACAATCTTCGAAAAATGGGTT
1 -GCTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAATGGGTT
* * * *
2451891 CGCTCATTCTTCTTTCAAGGAGTATAGGACTTGAACAATCTTC-AGAACATGGGTCC
1 -GCTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGA-AAAATGGGT-T
*
2451947 GCTCCCTCTTCTTTCAAGG
1 GCTCCTTCTTCTTTCAAGG
2451966 TTTTGGAACT
Statistics
Matches: 381, Mismatches: 66, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
54 15 0.04
55 352 0.92
56 14 0.04
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (54 bp):
GCTCCTTCTTCTTTCAAGGAGTATAGGACTCGAACAATCTTCGAAAAATGGGTT
Found at i:2453072 original size:5 final size:5
Alignment explanation
Indices: 2453064--2453106 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
2453054 TTTTTTATTC
*
2453064 TTCTT TTCTT TTCTT TTCTT CTTCATT TTCTT TT-TC TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT -TTC-TT TTCTT TTCTT TTCTT TT
2453107 TCAATCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 3 0.09
5 22 0.67
6 6 0.18
7 2 0.06
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (5 bp):
TTCTT
Found at i:2453082 original size:18 final size:18
Alignment explanation
Indices: 2453047--2453106 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
2453037 CTTGAACCCC
* *
2453047 CTTTTATTTTTTTATTCTT
1 CTTTTCTTTTCTT-TTCTT
2453066 CTTTTCTTTTCTTTTCTT
1 CTTTTCTTTTCTTTTCTT
2453084 C--TTCATTTTCTTTTTCTT
1 CTTTTC-TTTTC-TTTTCTT
2453102 CTTTT
1 CTTTT
2453107 TCAATCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 3 0.09
17 5 0.14
18 14 0.40
19 11 0.31
20 2 0.06
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (18 bp):
CTTTTCTTTTCTTTTCTT
Found at i:2453085 original size:21 final size:22
Alignment explanation
Indices: 2453056--2453097 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
2453046 CCTTTTATTT
2453056 TTTTATTCTTC-TTTTCTTTTC
1 TTTTATTCTTCATTTTCTTTTC
*
2453077 TTTTCTTCTTCATTTTCTTTT
1 TTTTATTCTTCATTTTCTTTT
2453098 TCTTCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATTCTTCATTTTCTTTTC
Found at i:2453103 original size:21 final size:20
Alignment explanation
Indices: 2453048--2453109 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
2453038 TTGAACCCCC
* *
2453048 TTTTATTTTTTTATTCTTC-
1 TTTTCTTTTTTTCTTCTTCA
2453067 TTTTCTTTTCTTTTCTTCTTCA
1 TTTTC-TTT-TTTTCTTCTTCA
*
2453089 TTTTCTTTTTCTTCTTTTTCA
1 TTTTCTTTTT-TTCTTCTTCA
2453110 ATCAAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 22 0.61
22 5 0.14
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTCTTTTTTTCTTCTTCA
Found at i:2465765 original size:2 final size:2
Alignment explanation
Indices: 2465758--2465787 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2465748 TAAATTACTA
*
2465758 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2465788 TAACTAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2466626 original size:4 final size:4
Alignment explanation
Indices: 2466617--2466647 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
2466607 ATGAACCAAT
2466617 CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CAT
2466648 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:2469831 original size:47 final size:47
Alignment explanation
Indices: 2469765--2469859 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
2469755 TGAGAAGTCA
*
2469765 ATGTTTTTTGCCTAATCACAAATGATTTTCTGAAATTTAGAGAAGAT
1 ATGTTTTTTGCCTAATCACAAATGATTTTCTAAAATTTAGAGAAGAT
* *
2469812 ATGTTTTTTGCCTAGTCACAATTGATTTTCTAAAATTTAGAGAAGAT
1 ATGTTTTTTGCCTAATCACAAATGATTTTCTAAAATTTAGAGAAGAT
2469859 A
1 A
2469860 CGAAATGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (47 bp):
ATGTTTTTTGCCTAATCACAAATGATTTTCTAAAATTTAGAGAAGAT
Found at i:2474947 original size:21 final size:20
Alignment explanation
Indices: 2474894--2474941 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
2474884 ACCCCAAATT
2474894 CTTTTTCGATCTCAAATTTC
1 CTTTTTCGATCTCAAATTTC
2474914 CTTTTTCGATCTCAAATTTC
1 CTTTTTCGATCTCAAATTTC
2474934 CTTTTTCG
1 CTTTTTCG
2474942 CTTCTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.25, G:0.06, T:0.52
Consensus pattern (20 bp):
CTTTTTCGATCTCAAATTTC
Found at i:2478374 original size:20 final size:20
Alignment explanation
Indices: 2478349--2478416 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
2478339 ACCCCAAATT
*
2478349 CTTTTTCAATCTCAAATTTC
1 CTTTTTCGATCTCAAATTTC
2478369 CTTTTTCGATCTCAAATTTC
1 CTTTTTCGATCTCAAATTTC
2478389 CTTTTTCGATCTCAAATTTC
1 CTTTTTCGATCTCAAATTTC
2478409 CTTTTTCG
1 CTTTTTCG
2478417 CTTCTCTCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.19, C:0.25, G:0.04, T:0.51
Consensus pattern (20 bp):
CTTTTTCGATCTCAAATTTC
Found at i:2482072 original size:23 final size:22
Alignment explanation
Indices: 2482045--2482170 Score: 112
Period size: 23 Copynumber: 5.6 Consensus size: 22
2482035 GCATGGCCTT
*
2482045 GTGCATCAATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
2482067 AGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
* *
2482089 GTGTATCGATGCACATTTAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
2482111 AGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
2482133 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
2482156 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
2482171 TGTTAAGTGT
Statistics
Matches: 79, Mismatches: 19, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
21 29 0.37
22 6 0.08
23 32 0.41
24 12 0.15
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:2482101 original size:21 final size:21
Alignment explanation
Indices: 2482072--2482151 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
2482062 CAAGGAGTGC
*
2482072 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACCTTCATGGTGT
* * * *
2482093 ATCGATGCACATTTAAGGAGTGC
1 ATCGATGCAC-CTTCATG-GTGT
*
2482116 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACCTTCATGGTGT
*
2482137 ATCGATGCACATTCA
1 ATCGATGCACCTTCA
2482152 AAGGGATGCA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
21 25 0.56
22 8 0.18
23 12 0.27
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (21 bp):
ATCGATGCACCTTCATGGTGT
Found at i:2482103 original size:44 final size:44
Alignment explanation
Indices: 2482053--2482170 Score: 193
Period size: 44 Copynumber: 2.7 Consensus size: 44
2482043 TTGTGCATCA
2482053 ATGCACATTCAAGGAGTGCATCGGTGCACCTTCATGGTGTATCG
1 ATGCACATTCAAGGAGTGCATCGGTGCACCTTCATGGTGTATCG
*
2482097 ATGCACATTTAAGGAGTGCATCGGTGCACCTTCATGGTGTATCG
1 ATGCACATTCAAGGAGTGCATCGGTGCACCTTCATGGTGTATCG
*
2482141 ATGCACATTCAAAGG-GATGCATCGATGCAC
1 ATGCACATTC-AAGGAG-TGCATCGGTGCAC
2482171 TGTTAAGTGT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
44 53 0.77
45 16 0.23
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (44 bp):
ATGCACATTCAAGGAGTGCATCGGTGCACCTTCATGGTGTATCG
Found at i:2482181 original size:44 final size:44
Alignment explanation
Indices: 2482053--2482188 Score: 161
Period size: 44 Copynumber: 3.1 Consensus size: 44
2482043 TTGTGCATCA
* * *
2482053 ATGCACATTCAAGGAGTGCATCGGTGCACCTTCATGGTGTATCG
1 ATGCACATTAAAGGAGTGCATCGATGCACCTTCATAGTGTATCG
* * *
2482097 ATGCACATTTAAGGAGTGCATCGGTGCACCTTCATGGTGTATCG
1 ATGCACATTAAAGGAGTGCATCGATGCACCTTCATAGTGTATCG
*
2482141 ATGCACATTCAAAGG-GATGCATCGATGCA-CTGTTA-AGTGTATCG
1 ATGCACATT-AAAGGAG-TGCATCGATGCACCT-TCATAGTGTATCG
2482185 ATGC
1 ATGC
2482189 TTTAAGCAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
44 67 0.80
45 17 0.20
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (44 bp):
ATGCACATTAAAGGAGTGCATCGATGCACCTTCATAGTGTATCG
Found at i:2488029 original size:64 final size:65
Alignment explanation
Indices: 2487958--2488120 Score: 229
Period size: 65 Copynumber: 2.5 Consensus size: 65
2487948 TGGTGCACTA
* *
2487958 AGTGTGCATCGATGCATAAAATACATTCGATGTTTTGAAT-AAGCCTAAGTACATCGATGCATGG
1 AGTGTGCATCGATGCATAAAATACATTCGATGTTTTCAATAAAACCTAAGTACATCGATGCATGG
* * * * **
2488022 TGTGTGCATCGATGCATAAAATGCATTCGATGTTTTCATTAAAACCTGAGTGGATCGATGCATGG
1 AGTGTGCATCGATGCATAAAATACATTCGATGTTTTCAATAAAACCTAAGTACATCGATGCATGG
* *
2488087 AGAGTGCATCGATGCATAAACTACATTCGATGTT
1 AGTGTGCATCGATGCATAAAATACATTCGATGTT
2488121 CAATTTATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
64 36 0.42
65 50 0.58
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (65 bp):
AGTGTGCATCGATGCATAAAATACATTCGATGTTTTCAATAAAACCTAAGTACATCGATGCATGG
Found at i:2488156 original size:20 final size:20
Alignment explanation
Indices: 2488131--2488168 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2488121 CAATTTATTC
2488131 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
* *
2488151 ATTGGTTCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
2488169 CCCTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.16, G:0.32, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:2491004 original size:159 final size:159
Alignment explanation
Indices: 2490711--2491003 Score: 419
Period size: 159 Copynumber: 1.9 Consensus size: 159
2490701 AATCACAAAT
* * *
2490711 TGAAGGAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATAAAAAAAAATCTTATCA
1 TGAAGAAATAAGGAGATTATAAAAAATTAAAGGACTAAATTGAAAAATAAAAAAAAATCTTATCA
* * * *
2490776 AAAAGTGGAATTGAAAGTAAACAAGCATTCTACTATGGTTTAGGAGCATGTAGCTCAAATTTGGT
66 AAAAGAGGAATTGAAAGTAAACAAGCATTCTACTATGGTTAAGGAACACGTAGCTCAAATTTGGT
2490841 AAAAAACGAACTAAAAATAAATGATGAAG
131 AAAAAACGAACTAAAAATAAATGATGAAG
* * ** *
2490870 TGAAGAAATAAGGAGATTATAAAAAATTAAAGGACTGAATTGAAAAAT-AAAATATTTGTTATCA
1 TGAAGAAATAAGGAGATTATAAAAAATTAAAGGACTAAATTGAAAAATAAAAAAAAATCTTATCA
* * * * *
2490934 AAAAGAGGAATTGAAAGTACACATGTA-TCTATTATGGTTAAGGAACACGTAGTTCAAATTTGGT
66 AAAAGAGGAATTGAAAGTAAACAAGCATTCTACTATGGTTAAGGAACACGTAGCTCAAATTTGGT
2490998 AAAAAA
131 AAAAAA
2491004 AGACTTAAAA
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
157 38 0.32
158 35 0.30
159 44 0.38
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (159 bp):
TGAAGAAATAAGGAGATTATAAAAAATTAAAGGACTAAATTGAAAAATAAAAAAAAATCTTATCA
AAAAGAGGAATTGAAAGTAAACAAGCATTCTACTATGGTTAAGGAACACGTAGCTCAAATTTGGT
AAAAAACGAACTAAAAATAAATGATGAAG
Found at i:2491354 original size:32 final size:32
Alignment explanation
Indices: 2491310--2491386 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 32
2491300 TTCCAAAAAG
* * *
2491310 ATTATAAGATGAT-CATTAAAATTTATCAAATT
1 ATTATAAAATGATCCA-TAAAACTTATCAAACT
* *
2491342 ATTATAAAATGATCCATCAAACTTATTAAACT
1 ATTATAAAATGATCCATAAAACTTATCAAACT
*
2491374 ATTACAAAATGAT
1 ATTATAAAATGAT
2491387 TTTTAGGTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 36 0.95
33 2 0.05
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.36
Consensus pattern (32 bp):
ATTATAAAATGATCCATAAAACTTATCAAACT
Found at i:2494939 original size:3 final size:3
Alignment explanation
Indices: 2494933--2494993 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
2494923 AAAAAATATG
* * **
2494933 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2494977 TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA
2494994 CGATAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 5 0.10
3 42 0.84
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:2494970 original size:29 final size:30
Alignment explanation
Indices: 2494938--2495000 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
2494928 ATATGTAATA
* *
2494938 ATAAATAATAATAA-AATAATAAGATGACG
1 ATAAATAATAATAATAATAATAAAATAACG
2494967 AT-AATAATAATAATAATAATAAAATAACG
1 ATAAATAATAATAATAATAATAAAATAACG
2494996 ATAAA
1 ATAAA
2495001 AAAAACCCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 11 0.37
29 17 0.57
30 2 0.07
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (30 bp):
ATAAATAATAATAATAATAATAAAATAACG
Found at i:2495218 original size:43 final size:43
Alignment explanation
Indices: 2495154--2495569 Score: 268
Period size: 43 Copynumber: 9.8 Consensus size: 43
2495144 TGGTGGGGAC
* **
2495154 GACACTGCTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGT
* *** *
2495197 GACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGAA--AT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGT
* **
2495237 GACACGACTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGT
* ****
2495280 GACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAA---T
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGT
* *
2495320 GACACGACTCATACGTGATGAAGAGTTCTGG-CTATCTAAAGGTGAT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTC-ATCT-AAGG-G-T
* * * * *
2495366 AACACGGTTCCTACGTGATGAGGACGG-CTGGTTATCT-AGGGT
1 GACACGGCTCATACGTGATGAAGA-GGTCTGGTCATCTAAGGGT
* * *
2495408 GACACGACTCATACGTGATGAAGAGATCTGG---TCT-GGGGAT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGG-T
* * * * *
2495448 GACACGGTTCCTACATGATGAGGACGG-CTGGCCATCTAAAGGTGAT
1 GACACGGCTCATACGTGATGAAGA-GGTCTGGTCATCT-AAGG-G-T
* * * * * * *
2495494 AACACGGTTCCTACGTGATGAGGACGG-CTGGTTATCTATGGTT
1 GACACGGCTCATACGTGATGAAGA-GGTCTGGTCATCTAAGGGT
* *
2495537 GACACGGCTCCTACGTGATGAAGAGATCTGGTC
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTC
2495570 GGGAAATGAC
Statistics
Matches: 289, Mismatches: 62, Indels: 44
0.73 0.16 0.11
Matches are distributed among these distances:
39 7 0.02
40 84 0.29
41 6 0.02
42 27 0.09
43 92 0.32
44 3 0.01
45 5 0.02
46 64 0.22
47 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (43 bp):
GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGT
Found at i:2495256 original size:83 final size:83
Alignment explanation
Indices: 2495161--2495640 Score: 370
Period size: 83 Copynumber: 5.7 Consensus size: 83
2495151 GACGACACTG
*
2495161 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
1 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCT
2495226 GGTCGGGAAATGACACGA
66 GGTCGGGAAATGACACGA
*
2495244 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
1 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCT
*
2495309 GGTCGGGGAATGACACGA
66 GGTCGGGAAATGACACGA
** * * * *
2495327 CTCATACGTGATGAAGAGTTCTGG-CTATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
1 CTCATACGCAATGAAGAGGTCTGGTC-ATCT-AAGG-G-TGACACGGCTCCTACGTGATGAAGA-
*
2495391 G-GCTGGTTATCTAGGG---TGACACGA
61 GATCTGG---TC--GGGAAATGACACGA
** * * * * * *
2495415 CTCATACGTGATGAAGAGATCTGG---TCT-GGGGATGACACGGTTCCTACATGATGAGGACG-G
1 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGG-TGACACGGCTCCTACGTGATGAAGA-GAT
* ** * *
2495475 CTGGCCATCTAAAGGTGATAACACGG
64 CTGG---TC---GGGAAATGACACGA
* * ** * * * *
2495501 TTCCTACGTGATGAGGACGG-CTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATC
1 CTCATACGCAATGAAGA-GGTCTGGTCATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATC
2495565 TGGTCGGGAAATGACACGA
65 TGGTCGGGAAATGACACGA
* * * *
2495584 CTCATACGCAATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 CTCATACGCAATGAAGAGGTCTGGTCATCT-AAGG-G-TGACACGGCTCCTACGTGA
2495641 CGAGGACGGC
Statistics
Matches: 327, Mismatches: 46, Indels: 45
0.78 0.11 0.11
Matches are distributed among these distances:
82 37 0.11
83 141 0.43
84 7 0.02
85 4 0.01
86 68 0.21
87 2 0.01
88 32 0.10
89 31 0.09
90 2 0.01
91 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (83 bp):
CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCT
GGTCGGGAAATGACACGA
Found at i:2495402 original size:46 final size:45
Alignment explanation
Indices: 2495347--2495557 Score: 192
Period size: 46 Copynumber: 4.9 Consensus size: 45
2495337 ATGAAGAGTT
*
2495347 CTGGCTATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
1 CTGGCTATCT-AAGGTGATGACACGGTTCCTACGTGATGAGGACGG
* ** * * *
2495393 CTGGTTATCT-AGG-G-TGACACGACTCATACGTGATGAAGA-GAT
1 CTGGCTATCTAAGGTGATGACACGGTTCCTACGTGATGAGGACG-G
* *
2495435 CTGG---TCT--GGGGATGACACGGTTCCTACATGATGAGGACGG
1 CTGGCTATCTAAGGTGATGACACGGTTCCTACGTGATGAGGACGG
* *
2495475 CTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
1 CTGGCTATCT-AAGGTGATGACACGGTTCCTACGTGATGAGGACGG
* * *
2495521 CTGGTTATCTATGGT--TGACACGGCTCCTACGTGATGA
1 CTGGCTATCTAAGGTGATGACACGGTTCCTACGTGATGA
2495558 AGAGATCTGG
Statistics
Matches: 134, Mismatches: 21, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
38 2 0.01
39 4 0.03
40 24 0.18
41 2 0.01
42 24 0.18
43 24 0.18
44 3 0.02
45 4 0.03
46 47 0.35
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (45 bp):
CTGGCTATCTAAGGTGATGACACGGTTCCTACGTGATGAGGACGG
Found at i:2495433 original size:128 final size:128
Alignment explanation
Indices: 2495264--2495659 Score: 607
Period size: 129 Copynumber: 3.1 Consensus size: 128
2495254 ATGAAGAGGT
*
2495264 CTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGACT
1 CTGGTTATCT-AGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGACT
*
2495329 CATACGTGATGAAGAGTTCTGGCTATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
65 CATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
* **
2495393 CTGGTTATCTAGGGTGACACGACTCATACGTGATGAAGAGATCTGGTCTGGGG-ATGACACGGTT
1 CTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGGAATGACACGACT
* * * *
2495457 CCTACATGATGAGGACG-GCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
65 CATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
* * *
2495521 CTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGAAATGACACGACT
1 CTGGTTATCTA-GGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGACT
** *
2495586 CATACGCAATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGACGG
65 CATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
2495650 CTGGTTATCT
1 CTGGTTATCT
2495660 CTAGGATAAT
Statistics
Matches: 240, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
128 118 0.49
129 122 0.51
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (128 bp):
CTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGACTC
ATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
Found at i:2495467 original size:40 final size:41
Alignment explanation
Indices: 2495147--2495468 Score: 212
Period size: 40 Copynumber: 7.7 Consensus size: 41
2495137 GTTCTGTTGG
* * ** *
2495147 TGGGGACGACACTGCTCATACGCAATGAAGAGGTCTGGTCATC
1 TGGGGATGACACGGCTCATACGTGATGAAGAGATCTGGT--TC
*
2495190 TAAGGG-TGACACGGCTCATACGTGATGAAGAGATCTGG-TC
1 T-GGGGATGACACGGCTCATACGTGATGAAGAGATCTGGTTC
* * ** *
2495230 -GGGAAATGACACGACTCATACGCAATGAAGAGGTCTGGTCATC
1 TGGG-GATGACACGGCTCATACGTGATGAAGAGATCTGGT--TC
*
2495273 TAAGGG-TGACACGGCTCATACGTGATGAAGAGATCTGG-TC
1 T-GGGGATGACACGGCTCATACGTGATGAAGAGATCTGGTTC
* *
2495313 -GGGGAATGACACGACTCATACGTGATGAAGAGTTCTGGCTATC
1 TGGGG-ATGACACGGCTCATACGTGATGAAGAGATCTGG-T-TC
* * * * * *
2495356 TAAAGGTGATAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATC
1 T---GGGGATGACACGGCTCATACGTGATGAAGA-GATCTGG-T-TC
* *
2495402 TAGGG-TGACACGACTCATACGTGATGAAGAGATCTGG-TC
1 TGGGGATGACACGGCTCATACGTGATGAAGAGATCTGGTTC
* * *
2495441 TGGGGATGACACGGTTCCTACATGATGA
1 TGGGGATGACACGGCTCATACGTGATGA
2495469 GGACGGCTGG
Statistics
Matches: 217, Mismatches: 42, Indels: 43
0.72 0.14 0.14
Matches are distributed among these distances:
38 5 0.02
39 6 0.03
40 80 0.37
41 1 0.00
42 24 0.11
43 62 0.29
44 3 0.01
45 2 0.01
46 30 0.14
47 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (41 bp):
TGGGGATGACACGGCTCATACGTGATGAAGAGATCTGGTTC
Found at i:2495485 original size:82 final size:84
Alignment explanation
Indices: 2495319--2495485 Score: 230
Period size: 82 Copynumber: 2.0 Consensus size: 84
2495309 GGTCGGGGAA
* * *
2495319 TGACACGACTCATACGTGATGAAGAGTTCTGGCTATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGACTCATACGTGATGAAGAGATCTGG--ATCT--AGGGGATAACACGGTTCCTACATGA
**
2495384 TGAGGACGGCTGGTTATCTAGGG
62 TGAGGACGGCTGGCCATCTAGGG
*
2495407 TGACACGACTCATACGTGATGAAGAGATCTGG-TCT-GGGGATGACACGGTTCCTACATGATGAG
1 TGACACGACTCATACGTGATGAAGAGATCTGGATCTAGGGGATAACACGGTTCCTACATGATGAG
2495470 GACGGCTGGCCATCTA
66 GACGGCTGGCCATCTA
2495486 AAGGTGATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
82 39 0.53
85 3 0.04
88 31 0.42
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.25
Consensus pattern (84 bp):
TGACACGACTCATACGTGATGAAGAGATCTGGATCTAGGGGATAACACGGTTCCTACATGATGAG
GACGGCTGGCCATCTAGGG
Found at i:2495617 original size:129 final size:127
Alignment explanation
Indices: 2495264--2495659 Score: 596
Period size: 128 Copynumber: 3.1 Consensus size: 127
2495254 ATGAAGAGGT
*
2495264 CTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGGAATGACACGACT
1 CTGGTTATCT-AGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGAATGACACGACT
*
2495329 CATACGTGATGAAGAGTTCTGGCTATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
64 CATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
* * **
2495393 CTGGTTATCTAGGGTGACACGACTCATACGTGATGAAGAGATCTGGTCTGGGGATGACACGGTTC
1 CTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGAATGACACGACTC
* * * *
2495458 CTACATGATGAGGACG-GCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
65 ATACGTGATGAAGA-GTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
* *
2495521 CTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGAAATGACACGACT
1 CTGGTTATCTA-GGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGG-AATGACACGACT
** *
2495586 CATACGCAATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGACGG
64 CATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
2495650 CTGGTTATCT
1 CTGGTTATCT
2495660 CTAGGATAAT
Statistics
Matches: 239, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
128 121 0.51
129 118 0.49
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (127 bp):
CTGGTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGAATGACACGACTCA
TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGG
Found at i:2496044 original size:35 final size:36
Alignment explanation
Indices: 2495997--2496079 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 36
2495987 ACAAAATTCA
**
2495997 TTTCAAGAGAAAC-GATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGAGAAACAGAT-TCAAAGATGGTAAATTTTG
*
2496032 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
2496068 TTTCCAA-AGAAA
1 TTT-CAAGAGAAA
2496080 TAAACTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 20 0.49
36 18 0.44
37 3 0.07
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (36 bp):
TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
Found at i:2496371 original size:67 final size:64
Alignment explanation
Indices: 2496227--2496411 Score: 205
Period size: 67 Copynumber: 2.9 Consensus size: 64
2496217 GTATCTTAGT
* * *
2496227 GAGACAAAATTTTGTTTCCAAAGAAACAGACTC--AGATTTTTCTTCAAAAGAAATTGTTTTAA
1 GAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAAATGTTTCAA
* * ** * * *
2496289 GGGATAAAACCTTGTTTCCAGAGAAACAAACTCAAAGATGATCTTGT-TTTAAGAGAAAATGTTT
1 GAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGAT--T-TT-TCTTCAAAAGAAAATGTTT
2496353 CAA
62 CAA
*
2496356 GAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAA
1 GAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTT-CTTCAAAAGAAA
2496412 CAATCTCAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 27 0.28
63 1 0.01
64 6 0.06
65 10 0.10
66 1 0.01
67 52 0.53
68 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (64 bp):
GAGACAAAATTTTGTTTCCAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAAATGTTTCAA
Found at i:2496406 original size:29 final size:28
Alignment explanation
Indices: 2496360--2496649 Score: 133
Period size: 29 Copynumber: 9.8 Consensus size: 28
2496350 TTTCAAGAGA
*
2496360 CAAA-ATTTTGTTTCCAAAGAAACAAACT
1 CAAAGATTTT-TTTTCAAAGAAACAAACT
*
2496388 CAAAGATTTTTGTTTCAAAAGAAACAATCT
1 CAAAGATTTTT-TTTC-AAAGAAACAAACT
* * * * **
2496418 CAAAGATTTTTTTCACACAATTGTCTCAAGAGAGA
1 CAAAGATTTTTTT-TCA-AA--G---AAACAAACT
* * * *
2496453 CAAA-ACTTTGTTTCAAAGTAAATAGACT
1 CAAAGATTTTTTTTCAAAG-AAACAAACT
*
2496481 CGAAGA-TTTTTTTCAAACGAAAC-AACT
1 CAAAGATTTTTTTTCAAA-GAAACAAACT
* * *
2496508 CACAGATTTTTATTCCAAAGGAACAAACT
1 CAAAGATTTTT-TTTCAAAGAAACAAACT
* * *
2496537 CCAAGATTTTTATTCAAAAGGAACAAACT
1 CAAAGATTTTTTTTC-AAAGAAACAAACT
*
2496566 CAAAGATTTTTTTTTTTTAAAGAGGAACAAACT
1 CAAAGA---TTTTTTTTCAAAGA--AACAAACT
* * *
2496599 CAAAGA--CTTTTTCAAGAGGAGCAAACT
1 CAAAGATTTTTTTTCAA-AGAAACAAACT
2496626 CAAAGATTTTTTTCTCAAAAGAAA
1 CAAAGATTTTTTT-TC-AAAGAAA
2496650 TTGTCTTTAA
Statistics
Matches: 197, Mismatches: 39, Indels: 50
0.69 0.14 0.17
Matches are distributed among these distances:
27 20 0.10
28 44 0.22
29 56 0.28
30 32 0.16
31 6 0.03
32 10 0.05
33 16 0.08
34 6 0.03
35 7 0.04
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (28 bp):
CAAAGATTTTTTTTCAAAGAAACAAACT
Found at i:2496609 original size:27 final size:27
Alignment explanation
Indices: 2496579--2496637 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
2496569 AGATTTTTTT
2496579 TTTTTAAAGAGGAACAAACTCAAAGAC
1 TTTTTAAAGAGGAACAAACTCAAAGAC
* * *
2496606 TTTTTCAAGAGGAGCAAACTCAAAGAT
1 TTTTTAAAGAGGAACAAACTCAAAGAC
2496633 TTTTT
1 TTTTT
2496638 TCTCAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.31
Consensus pattern (27 bp):
TTTTTAAAGAGGAACAAACTCAAAGAC
Found at i:2497003 original size:36 final size:36
Alignment explanation
Indices: 2496892--2497010 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 36
2496882 AGAAAATGAT
** * *
2496892 GTCTCAAGCGAGATGAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGA-AAAC
** **
2496926 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
2496962 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
*
2496997 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
2497011 TCAACTTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
34 18 0.26
35 12 0.18
36 38 0.56
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:2497022 original size:36 final size:36
Alignment explanation
Indices: 2496926--2497010 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
2496916 TTAAGATATA
* **
2496926 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
2496962 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
2496997 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
2497011 TCAACTTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:2497141 original size:105 final size:104
Alignment explanation
Indices: 2496962--2497201 Score: 310
Period size: 105 Copynumber: 2.3 Consensus size: 104
2496952 TAGAGAAATT
* *
2496962 GTCTCAAGCGAGAC-AAAGTTTGTTTT-TGAG-AAAACGATCTCAAGTGAGATCAACTTTGTTTA
1 GTCTCAAGCGAGACGAAA-TTTGTTTTAAGAGAAAAACAATCTCAAGTGAGATCAACTTTGTTTA
* *
2497024 ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
65 ATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* * *
2497064 GTCTCAAGCGAGACGAAATTTGTTTTAAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAATTTGTTTTAAGAGAAA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
2497128 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
63 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
*
2497169 GTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAA
1 GTCTCAAGCGAGACGAAATTTGTTTTAAGAGAA
2497202 TTTGTCTCAA
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
102 22 0.18
103 5 0.04
104 4 0.03
105 84 0.70
106 5 0.04
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (104 bp):
GTCTCAAGCGAGACGAAATTTGTTTTAAGAGAAAAACAATCTCAAGTGAGATCAACTTTGTTTAA
TGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:2497208 original size:36 final size:36
Alignment explanation
Indices: 2497168--2497304 Score: 170
Period size: 36 Copynumber: 3.8 Consensus size: 36
2497158 AAAGGAAAAA
* * *
2497168 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATT
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
* * **
2497204 TGTCTCAAACGAGACAAAATTTGTTTTTAGA-AAGC
1 TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
*
2497239 TGTCTCAAGCGAGACAAAATTTGCTTTGAA-AGAAAT
1 TGTCTCAAGCGAGACAAAATTTG-TTTTAAGAGAAAT
2497275 TGTCTCAAGCGAGACAAAAATTTGTTTTAA
1 TGTCTCAAGCGAGAC-AAAATTTGTTTTAA
2497305 AATTCTCAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
35 25 0.29
36 53 0.62
37 8 0.09
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTAAGAGAAAT
Found at i:2497278 original size:71 final size:72
Alignment explanation
Indices: 2497168--2497302 Score: 202
Period size: 71 Copynumber: 1.9 Consensus size: 72
2497158 AAAGGAAAAA
* * * *
2497168 TGTCTCAAGCGAGACGAAGTTTGTTTTAAGAGAATTTGTCTCAAACGAGAC-AAAATTTGTTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTTT
2497232 AGAAAGC
66 AGAAAGC
*
2497239 TGTCTCAAGCGAGACAAAATTTGCTTTGAA-AGAAATTGTCTCAAGCGAGACAAAAATTTGTTTT
1 TGTCTCAAGCGAGACAAAATTTG-TTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTT
2497303 AAAATTCTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
71 40 0.70
72 17 0.30
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (72 bp):
TGTCTCAAGCGAGACAAAATTTGTTTGAAGAGAAATTGTCTCAAACGAGACAAAAATTTGTTTTT
AGAAAGC
Found at i:2497683 original size:16 final size:16
Alignment explanation
Indices: 2497662--2497737 Score: 60
Period size: 16 Copynumber: 5.2 Consensus size: 16
2497652 TGTAACATGC
2497662 ATGTATGTGTTGATGT
1 ATGTATGTGTTGATGT
*
2497678 ATGTA--T-AT-ATGT
1 ATGTATGTGTTGATGT
*
2497690 ATGTATGAGTTGATGT
1 ATGTATGTGTTGATGT
*
2497706 ATGTA--T-AT-ATGT
1 ATGTATGTGTTGATGT
*
2497718 ATGTATGAGTTGATGT
1 ATGTATGTGTTGATGT
2497734 ATGT
1 ATGT
2497738 TTCTCAATCT
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
12 18 0.40
13 2 0.04
14 1 0.02
15 2 0.04
16 22 0.49
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (16 bp):
ATGTATGTGTTGATGT
Found at i:2497694 original size:28 final size:28
Alignment explanation
Indices: 2497662--2497737 Score: 143
Period size: 28 Copynumber: 2.7 Consensus size: 28
2497652 TGTAACATGC
*
2497662 ATGTATGTGTTGATGTATGTATATATGT
1 ATGTATGAGTTGATGTATGTATATATGT
2497690 ATGTATGAGTTGATGTATGTATATATGT
1 ATGTATGAGTTGATGTATGTATATATGT
2497718 ATGTATGAGTTGATGTATGT
1 ATGTATGAGTTGATGTATGT
2497738 TTCTCAATCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (28 bp):
ATGTATGAGTTGATGTATGTATATATGT
Found at i:2497737 original size:4 final size:4
Alignment explanation
Indices: 2497674--2497724 Score: 56
Period size: 4 Copynumber: 13.8 Consensus size: 4
2497664 GTATGTGTTG
* *
2497674 ATGT ATGT ATAT ATGT ATGT ATG- A-GT -TG- ATGT ATGT ATAT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2497718 ATGT ATG
1 ATGT ATG
2497725 AGTTGATGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 1 0.03
3 4 0.10
4 34 0.87
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:2498954 original size:13 final size:13
Alignment explanation
Indices: 2498921--2498955 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
2498911 TGTTCTTTGC
2498921 TTTCTCTTTGATT
1 TTTCTCTTTGATT
*
2498934 TTT-GCTTTGATT
1 TTTCTCTTTGATT
2498946 TTTCTCTTTG
1 TTTCTCTTTG
2498956 CTCTTTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.06, C:0.14, G:0.11, T:0.69
Consensus pattern (13 bp):
TTTCTCTTTGATT
Found at i:2498955 original size:18 final size:17
Alignment explanation
Indices: 2498934--2498980 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
2498924 CTCTTTGATT
2498934 TTTGCTTTGATTTTTCTC
1 TTTGCTTTGATTTTT-TC
2498952 TTTGCTCTTTG-TTTTTTC
1 TTTG--CTTTGATTTTTTC
*
2498970 TTTGGTTTGAT
1 TTTGCTTTGAT
2498981 CTTTGCACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 4 0.16
17 1 0.04
18 10 0.40
19 5 0.20
20 5 0.20
ACGTcount: A:0.04, C:0.13, G:0.15, T:0.68
Consensus pattern (17 bp):
TTTGCTTTGATTTTTTC
Found at i:2499651 original size:26 final size:26
Alignment explanation
Indices: 2499573--2499652 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 26
2499563 TTTCAAGGTG
*
2499573 GAAAGAATATTTCAAAGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
** *
2499599 GAGGGAATGTTTCAAGG--TC---GA
1 GAAAGAATATTTCAAGGTCTCAAAGA
2499620 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATATTTCAAGGTCTCAAAGA
*
2499645 GATAGAAT
1 GAAAGAAT
2499653 GTCAAAAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 2 0.05
24 2 0.05
25 2 0.05
26 19 0.47
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.24
Consensus pattern (26 bp):
GAAAGAATATTTCAAGGTCTCAAAGA
Found at i:2499653 original size:46 final size:45
Alignment explanation
Indices: 2499561--2499654 Score: 143
Period size: 46 Copynumber: 2.1 Consensus size: 45
2499551 ATAAATACAG
* *
2499561 TGTTTCAAGGTGGAAAGAATATTTCAAAGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAAGTCTCAAAGAGAGAGAA
* *
2499606 TGTTTCAAGGTCGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATTTCAAAGTCTCAAAGAGAGAGAA
2499652 TGT
1 TGT
2499655 CAAAAATTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 11 0.25
46 33 0.75
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAAGTCTCAAAGAGAGAGAA
Found at i:2505746 original size:3 final size:3
Alignment explanation
Indices: 2505740--2505800 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
2505730 AAAAAATATG
* * **
2505740 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2505784 TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA
2505801 CGATAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 5 0.10
3 42 0.84
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:2505777 original size:29 final size:30
Alignment explanation
Indices: 2505745--2505807 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
2505735 ATATGTAATA
* *
2505745 ATAAATAATAATAA-AATAATAAGATGACG
1 ATAAATAATAATAATAATAATAAAATAACG
2505774 AT-AATAATAATAATAATAATAAAATAACG
1 ATAAATAATAATAATAATAATAAAATAACG
2505803 ATAAA
1 ATAAA
2505808 AAAAACCCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 11 0.37
29 17 0.57
30 2 0.07
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (30 bp):
ATAAATAATAATAATAATAATAAAATAACG
Found at i:2509328 original size:15 final size:15
Alignment explanation
Indices: 2509310--2509383 Score: 66
Period size: 15 Copynumber: 5.1 Consensus size: 15
2509300 GTGAAATTCT
2509310 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
2509325 AATTATTTATATAAA
1 AATTATTTAAATAAA
**
2509340 AATTCA--TCGAT-AA
1 AATT-ATTTAAATAAA
*
2509353 TA-TATTTAAATAAA
1 AATTATTTAAATAAA
*
2509367 AATTATTTATATAAA
1 AATTATTTAAATAAA
2509382 AA
1 AA
2509384 ATAATCGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
11 1 0.02
12 1 0.02
13 6 0.13
14 6 0.13
15 31 0.67
16 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:2509362 original size:42 final size:42
Alignment explanation
Indices: 2509309--2509400 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
2509299 TGTGAAATTC
* *
2509309 TAAT-TATTTAAATAAAAATTATTTATATAAAAATTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAAATAATCGA
2509350 TAATATATTTAAATAAAAATTATTTATATAAAAAATAATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAAATAATCGA
2509392 TAATATATT
1 TAATATATT
2509401 ATTTTATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.08
42 44 0.92
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATATAAAAAATAATCGA
Found at i:2509398 original size:21 final size:21
Alignment explanation
Indices: 2509332--2509399 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
2509322 AAAAATTATT
* *
2509332 TATATAAAAATTCATCGATAA
1 TATATAAAAAATAATCGATAA
* *
2509353 TATATTTAAATAAA-AAT-TAT-T
1 TATA--TAAA-AAATAATCGATAA
2509374 TATATAAAAAATAATCGATAA
1 TATATAAAAAATAATCGATAA
2509395 TATAT
1 TATAT
2509400 TATTTTATTA
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
18 3 0.09
19 7 0.20
20 2 0.06
21 13 0.37
22 2 0.06
23 6 0.17
24 2 0.06
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.38
Consensus pattern (21 bp):
TATATAAAAAATAATCGATAA
Found at i:2511897 original size:14 final size:16
Alignment explanation
Indices: 2511867--2511898 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
2511857 ATCAACCAAT
2511867 AAAATCATAGAAAATG
1 AAAATCATAGAAAATG
2511883 AAAAT-ATAG-AAATG
1 AAAATCATAGAAAATG
2511897 AA
1 AA
2511899 GAAAGACCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 4 0.25
16 5 0.31
ACGTcount: A:0.66, C:0.03, G:0.12, T:0.19
Consensus pattern (16 bp):
AAAATCATAGAAAATG
Found at i:2512030 original size:23 final size:23
Alignment explanation
Indices: 2512002--2512048 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
2511992 ATTGCCAAAC
*
2512002 ACAGAGATGAGAAGAACAGAAAA
1 ACAGAGATGAGAAGAACAAAAAA
*
2512025 ACAGAGATGAGAATAACAAAAAA
1 ACAGAGATGAGAAGAACAAAAAA
2512048 A
1 A
2512049 TTTGAATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.64, C:0.09, G:0.21, T:0.06
Consensus pattern (23 bp):
ACAGAGATGAGAAGAACAAAAAA
Found at i:2521789 original size:2 final size:2
Alignment explanation
Indices: 2521782--2521829 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
2521772 ACGATATTAC
2521782 TA TA TA TA TA TA T- TA TA TA TA -A TA TA -A TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2521820 TA TA TA TA TA
1 TA TA TA TA TA
2521830 ATAAACAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 4 0.10
2 38 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2526365 original size:134 final size:133
Alignment explanation
Indices: 2526200--2526898 Score: 811
Period size: 134 Copynumber: 5.2 Consensus size: 133
2526190 TGCTATCACT
* * * *
2526200 AAGGGAATATCATATATGGG-GTTGTTGATCCATTCCACTGTCACTCAGGGGAATATTGAATC-G
1 AAGGGAATATCAGATATGGGAG-AGTTGATCCATTCCGCTGTCACTCA-GGGAAGATTGAATCAG
* * * *
2526263 GGTAGACTTGTTACGCTGTTACTCATGGAAGATCAAATCTTGAAAGAGAGGGATATGTTCCACTT
64 GGTAGACTTGTTACGCTGTCACTCAGGGAATATCAAATCTTGAAA-AGAGGGATATGTTCCGCTT
*
2526328 CTTCTA
128 CTTCTG
* * *
2526334 AAGGGAATATCAGATATGGGAGTA-TTGATCCATTCCGTTGTCACTCAAGGAAGATTGAATCGGG
1 AAGGGAATATCAGATATGGGAG-AGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCAGG
* * *
2526398 GTAAACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTTGAAAAGAGAGACT-TGTTCCGCTT
65 GTAGACTTGTTACGCTGTCACTCAGGGAATATCAAATC-TTGAAAAGAGGGA-TATGTTCCGCTT
2526462 CTTCTG
128 CTTCTG
* * * * *
2526468 AATGGAATATCAGATCTGGGGGGAGTTGATCCATTCCGCTATCACTCATGGAAGATTGAATCAGG
1 AAGGGAATATCAGATAT-GGGAGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCAGG
** * * * * * *
2526533 ACAGACTTGTTATGCAGTCAGTCAGGGAATATCAAATCTTGGAAAAGAGGGACAAGTTCTGCTTC
65 GTAGACTTGTTACGCTGTCACTCAGGGAATATCAAATCTT-GAAAAGAGGGATATGTTCCGCTTC
2526598 TTCTG
129 TTCTG
* * * * * *
2526603 AAGGTAATATCAGATCT-AGAGGAGTTGATCCATTCCGTTGTCACTCAGGGAAGATTAAATCAGT
1 AAGGGAATATCAGATATGGGA-GAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCAGG
* * *
2526667 GCAGACTTGTT-CTGCTGTCACTCAGGGAATATCAAATCTT-TAAAGAGGG-TCATGTTTCGCTT
65 GTAGACTTGTTAC-GCTGTCACTCAGGGAATATCAAATCTTGAAAAGAGGGAT-ATGTTCCGCTT
2526729 CTTCTG
128 CTTCTG
* * *
2526735 AAGGGAATATCAGATATGGGGGATTTGATCCATTCCGCTGTCACTCAGGGAAGATTGGATCAGGG
1 AAGGGAATATCAGATATGGGAGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCAGGG
* * * * * *
2526800 TAGACTTGTTCCACTGTTATTCAGGGAATATCAAATCTTGGAAAAAAGGGACATGTTCCGCTTCT
66 TAGACTTGTTACGCTGTCACTCAGGGAATATCAAATCTT-GAAAAGAGGGATATGTTCCGCTTCT
2526865 TCTG
130 TCTG
*
2526869 AAGGGAATATCAGATCTGGGAGAGTTGATC
1 AAGGGAATATCAGATATGGGAGAGTTGATC
2526899 TGTAATACCC
Statistics
Matches: 479, Mismatches: 70, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
132 109 0.23
133 15 0.03
134 236 0.49
135 119 0.25
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (133 bp):
AAGGGAATATCAGATATGGGAGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCAGGG
TAGACTTGTTACGCTGTCACTCAGGGAATATCAAATCTTGAAAAGAGGGATATGTTCCGCTTCTT
CTG
Found at i:2526702 original size:269 final size:264
Alignment explanation
Indices: 2526200--2526890 Score: 918
Period size: 269 Copynumber: 2.6 Consensus size: 264
2526190 TGCTATCACT
* ** * *
2526200 AAGGGAATATCATATATGGGGTTGTTGATCCATTCCACTGTCACTCAGGGGAATATTGAATC-GG
1 AAGGGAATATCAGATATGGGGGAGTTGATCCATTCCGCTGTCACTCA-GGGAAGATTGAATCAGG
* * * *
2526264 GTAGACTTGTTACGCTGTTACTCATGGAAGATCAAATCTT-GAAAGAGAGGGATATGTTCCACTT
65 GTAGACTTGTTACGCTGTTACTCAGGGAATATCAAATCTTGGAAA-AGAGGGACATGTTCCGCTT
* * *
2526328 CTTCTAAAGGGAATATCAGATATGGGAGTATTGATCCATTCCGTTGTCACTCAAGGAAGATTGAA
129 CTTCTGAAGGGAATATCAGATCTGGGAG--TTGATCCATTCCGTTGTCACTCAAGGAAGATTAAA
* * *
2526393 TCGGGGTAAACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTTGAAAAGAGAGACTTGTTCC
192 TCAGGGCAAACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTT--AAAGAGAGACATGTTCC
2526458 GCTTCTTCTG
255 GCTTCTTCTG
* * * *
2526468 AATGGAATATCAGATCTGGGGGGAGTTGATCCATTCCGCTATCACTCATGGAAGATTGAATCAGG
1 AAGGGAATATCAGATAT-GGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCAGG
** * * * * * *
2526533 ACAGACTTGTTATGCAGTCAGTCAGGGAATATCAAATCTTGGAAAAGAGGGACAAGTTCTGCTTC
65 GTAGACTTGTTACGCTGTTACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCCGCTTC
* *
2526598 TTCTGAAGGTAATATCAGATCTAGAGGAGTTGATCCATTCCGTTGTCACTCAGGGAAGATTAAAT
130 TTCTGAAGGGAATATCAGATCT-G-GGAGTTGATCCATTCCGTTGTCACTCAAGGAAGATTAAAT
* * * * * *
2526663 CAGTGCAGACTTGTTCTGCTGTCACTCAGGGAATATCAAATCTTTAAAGAGGGTCATGTTTCGCT
193 CAGGGCAAACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTTAAAGAGAGACATGTTCCGCT
2526728 TCTTCTG
258 TCTTCTG
* *
2526735 AAGGGAATATCAGATATGGGGGATTTGATCCATTCCGCTGTCACTCAGGGAAGATTGGATCAGGG
1 AAGGGAATATCAGATATGGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCAGGG
* * * *
2526800 TAGACTTGTTCCACTGTTATTCAGGGAATATCAAATCTTGGAAAAAAGGGACATGTTCCGCTTCT
66 TAGACTTGTTACGCTGTTACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCCGCTTCT
2526865 TCTGAAGGGAATATCAGATCTGGGAG
131 TCTGAAGGGAATATCAGATCTGGGAG
2526891 AGTTGATCTG
Statistics
Matches: 365, Mismatches: 53, Indels: 14
0.84 0.12 0.03
Matches are distributed among these distances:
264 4 0.01
265 1 0.00
266 118 0.32
267 38 0.10
268 26 0.07
269 169 0.46
270 5 0.01
271 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (264 bp):
AAGGGAATATCAGATATGGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCAGGG
TAGACTTGTTACGCTGTTACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCCGCTTCT
TCTGAAGGGAATATCAGATCTGGGAGTTGATCCATTCCGTTGTCACTCAAGGAAGATTAAATCAG
GGCAAACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTTAAAGAGAGACATGTTCCGCTTCT
TCTG
Found at i:2528862 original size:40 final size:40
Alignment explanation
Indices: 2528807--2528966 Score: 293
Period size: 40 Copynumber: 4.0 Consensus size: 40
2528797 TGCAGGTTTA
*
2528807 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
2528847 TAATACACTTCGGTGTATATGGTGGGCACGACTTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2528887 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
2528927 TAATACACTTCGGTGTATATAGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2528967 CAGTACTACG
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:2537653 original size:134 final size:134
Alignment explanation
Indices: 2537401--2538014 Score: 659
Period size: 134 Copynumber: 4.6 Consensus size: 134
2537391 GGGTGTTACA
** * * * * *
2537401 TGATCCATTCCACTATCACTTAGGGAATATTGAATCGGGGCAGACTTGTTCCGCTGTCAGTCAGG
1 TGATCCATTCTGCTGTCACTCAGGGAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGG
* * * * * *
2537466 GAATATCAAAT-TTTGAAAGAGAGGGATATGTTCCACTTGTTTTGGAGGAAATATCAGATCTG-G
66 GAATATCAAATCTTGGAAA-AGAGGGATATGTTCCACTTCTTCTGAAGGGAATATCAGATATGAG
2537529 GGATAT
130 GGA-AT
* ** *
2537535 TGATTCATTCTAATGCCACTCAGGGAAGATTGAATCGGGGCAGACTTGTTCCAC-GATCACTCAG
1 TGATCCATTCTGCTGTCACTCAGGGAAGATTGAATCGGGGCAGACTTGTTCCACTG-TCACTCAG
* * ** *
2537599 CGAATATTAAATCTTGGAAAAGAGGGACT-TGTTCTGCTTCTTCTAAAGGGAATATCAGATATGA
65 GGAATATCAAATCTTGGAAAAGAGGGA-TATGTTCCACTTCTTCTGAAGGGAATATCAGATATGA
* *
2537663 AGGAGT
129 GGGAAT
* * *
2537669 TGATCCATT-TCGCTGTCACTCAGGGAGGATTGAATCGGGGAAAACTTGTTCCACTGTCACTCAG
1 TGATCCATTCT-GCTGTCACTCAGGGAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAG
* * * * * *
2537733 GGAATATCAAATCTTGGAAAAGAGGGATCTGTTTCACTTTTTTTGAAGGGAATATCAAATTTG-G
65 GGAATATCAAATCTTGGAAAAGAGGGATATGTTCCACTTCTTCTGAAGGGAATATCAGATATGAG
* *
2537797 ATGAGT
130 -GGAAT
* * * * * * *
2537803 TGATCCATTCCGCTATCACTTAGGAAAGATTGAATCAGGGCAGACTTGTTCCGCTGTCACTCTGG
1 TGATCCATTCTGCTGTCACTCAGGGAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGG
**
2537868 GAATATCAAATCTTGGAAAAGAGGGACCTGTTCCACTTCTTCTGAAGGGAATATCAGATATGAGG
66 GAATATCAAATCTTGGAAAAGAGGGATATGTTCCACTTCTTCTGAAGGGAATATCAGATATGAGG
*
2537933 GAGT
131 GAAT
* * * *
2537937 TGATCCATT-TCGTTGTCACTCAGGAAAGATTGAATCGGGGTAGACTTGTTCCGA-TGTCACTTA
1 TGATCCATTCT-GCTGTCACTCAGGGAAGATTGAATCGGGGCAGACTTGTTCC-ACTGTCACTCA
2538000 GGGAATATCAAATCT
64 GGGAATATCAAATCT
2538015 GCAAATTAAA
Statistics
Matches: 401, Mismatches: 67, Indels: 24
0.82 0.14 0.05
Matches are distributed among these distances:
133 3 0.01
134 386 0.96
135 12 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (134 bp):
TGATCCATTCTGCTGTCACTCAGGGAAGATTGAATCGGGGCAGACTTGTTCCACTGTCACTCAGG
GAATATCAAATCTTGGAAAAGAGGGATATGTTCCACTTCTTCTGAAGGGAATATCAGATATGAGG
GAAT
Found at i:2537881 original size:268 final size:269
Alignment explanation
Indices: 2537401--2538014 Score: 790
Period size: 268 Copynumber: 2.3 Consensus size: 269
2537391 GGGTGTTACA
* * * * * * * *
2537401 TGATCCATTCCACTATCACTTAGGGAATATTGAATCGGGGCAGACTTGTTCCGCTGTCAGTCAGG
1 TGATCCATTTCGCTGTCACTCAGGGAAGATTGAATCGGGGAAGACTTGTTCCACTGTCACTCAGG
* * *
2537466 GAATATCAAAT-TTTGAAAGAGAGGGATATGTTCCACTTGTTTTGGAGGAAATATCAGATCTGGG
66 GAATATCAAATCTTGGAAAGAGAGGGATATGTTCCACTTGTTTTGAAGGAAATATCAAATCTGGG
* * * * *
2537530 GATATTGATTCATTCTAATGCCACTCAGGGAAGATTGAATCGGGGCAGACTTGTTCCACGATCAC
131 GATATTGATCCATTCCAATACCACTCAGGAAAGATTGAATCAGGGCAGACTTGTTCCACGATCAC
* * **
2537595 TCAGCGAATATTAAATCTTGGAAAAGAGGGACTTGTTCTGCTTCTTCTAAAGGGAATATCAGATA
196 TCAGCGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCACTTCTTCTAAAGGGAATATCAGATA
2537660 TGAAGGAGT
261 TGAAGGAGT
* *
2537669 TGATCCATTTCGCTGTCACTCAGGGAGGATTGAATCGGGGAAAACTTGTTCCACTGTCACTCAGG
1 TGATCCATTTCGCTGTCACTCAGGGAAGATTGAATCGGGGAAGACTTGTTCCACTGTCACTCAGG
* * * * *
2537734 GAATATCAAATCTTGGAAA-AGAGGGATCTGTTTCACTTTTTTTGAAGGGAATATCAAAT-T-TG
66 GAATATCAAATCTTGGAAAGAGAGGGATATGTTCCACTTGTTTTGAAGGAAATATCAAATCTGGG
** * * *
2537796 GATGAGTTGATCCATTCCGCTATCACTTAGGAAAGATTGAATCAGGGCAGACTTGTTCCGCTG-T
131 GAT-A-TTGATCCATTCCAATACCACTCAGGAAAGATTGAATCAGGGCAGACTTGTTCCAC-GAT
* * *
2537860 CACTCTGGGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCACTTCTTCTGAAGGGAATATCAG
193 CACTCAGCGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCACTTCTTCTAAAGGGAATATCAG
*
2537925 ATATGAGGGAGT
258 ATATGAAGGAGT
* * * *
2537937 TGATCCATTTCGTTGTCACTCAGGAAAGATTGAATCGGGGTAGACTTGTTCCGA-TGTCACTTAG
1 TGATCCATTTCGCTGTCACTCAGGGAAGATTGAATCGGGGAAGACTTGTTCC-ACTGTCACTCAG
2538001 GGAATATCAAATCT
65 GGAATATCAAATCT
2538015 GCAAATTAAA
Statistics
Matches: 299, Mismatches: 42, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
266 4 0.01
267 2 0.01
268 285 0.95
269 8 0.03
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (269 bp):
TGATCCATTTCGCTGTCACTCAGGGAAGATTGAATCGGGGAAGACTTGTTCCACTGTCACTCAGG
GAATATCAAATCTTGGAAAGAGAGGGATATGTTCCACTTGTTTTGAAGGAAATATCAAATCTGGG
GATATTGATCCATTCCAATACCACTCAGGAAAGATTGAATCAGGGCAGACTTGTTCCACGATCAC
TCAGCGAATATCAAATCTTGGAAAAGAGGGACCTGTTCCACTTCTTCTAAAGGGAATATCAGATA
TGAAGGAGT
Found at i:2539654 original size:2 final size:2
Alignment explanation
Indices: 2539647--2539740 Score: 170
Period size: 2 Copynumber: 47.0 Consensus size: 2
2539637 TCAGCTTTAT
* *
2539647 TA TA TA TA TA TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2539689 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2539731 TA TA TA TA TA
1 TA TA TA TA TA
2539741 CCTTTATCGG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2545755 original size:16 final size:16
Alignment explanation
Indices: 2545727--2545768 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
2545717 TCTATCAGAA
* *
2545727 AAAACATAC-AAAAGT
1 AAAACAAACAAAAAGC
2545742 AAAACAAACAAAAAGC
1 AAAACAAACAAAAAGC
*
2545758 ATAACAAACAA
1 AAAACAAACAA
2545769 GGAATTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.71, C:0.17, G:0.05, T:0.07
Consensus pattern (16 bp):
AAAACAAACAAAAAGC
Found at i:2547841 original size:15 final size:15
Alignment explanation
Indices: 2547817--2547857 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
2547807 TTTGTCTTTA
2547817 TTAATCTTTATCATT-
1 TTAATCTTTATC-TTC
*
2547832 TTAGTCTTTATCTTC
1 TTAATCTTTATCTTC
2547847 TTAATCTTTAT
1 TTAATCTTTAT
2547858 TCTTGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.22, C:0.15, G:0.02, T:0.61
Consensus pattern (15 bp):
TTAATCTTTATCTTC
Found at i:2549027 original size:50 final size:50
Alignment explanation
Indices: 2548952--2549169 Score: 312
Period size: 50 Copynumber: 4.4 Consensus size: 50
2548942 TTAGGTCTGG
* * * *
2548952 ATGATTGACTCATCTACACAAGAAAGTCAAGTTGAGGA-AAACATTACTGA
1 ATGATTGACTCCTCTACACGAGAAAGTCAAGTTGAGGATGAA-ATTACTAA
* * *
2549002 ATGATTGACTTCTCTACACGGGAAAGTCAAGTTGAGGATGGAATTACTAA
1 ATGATTGACTCCTCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTAA
*
2549052 ATGATTGACTCCTCTACACGAGAAAGTCAAGTTGAGGATGATATTACTAA
1 ATGATTGACTCCTCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTAA
* *
2549102 ATGATCGACTCCTCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTGA
1 ATGATTGACTCCTCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTAA
**
2549152 ATGATCAACTCCTCTACA
1 ATGATTGACTCCTCTACA
2549170 TGAGGAAGAC
Statistics
Matches: 152, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 151 0.99
51 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (50 bp):
ATGATTGACTCCTCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTAA
Found at i:2549246 original size:50 final size:50
Alignment explanation
Indices: 2549170--2549484 Score: 348
Period size: 50 Copynumber: 6.3 Consensus size: 50
2549160 CTCCTCTACA
* * *
2549170 TGAGGA-AGACATTATTGAATGCTTGACTCATCTACACGAGAAATTCAGGT
1 TGAGGATA-ACATTACTGAATGCTTGACTCCTCTACACGAGAAAGTCAGGT
* * *
2549220 TGAGGGTAACATTACTGAATGATTGACTCCTCTACACGAGAGAGTCAGGT
1 TGAGGATAACATTACTGAATGCTTGACTCCTCTACACGAGAAAGTCAGGT
* * * * * *
2549270 TAAGGATGACATTATTGAATGCTTGACTCCTCTACAGGAGAGAGTTAGGT
1 TGAGGATAACATTACTGAATGCTTGACTCCTCTACACGAGAAAGTCAGGT
* * * *
2549320 TGAGGATGAA-ATTATTGAATGCTTGGCTCCTCTACACGATAAAGTTAGGT
1 TGAGGAT-AACATTACTGAATGCTTGACTCCTCTACACGAGAAAGTCAGGT
** * * * *
2549370 TGAGGGCAACTTTACTGAATGATTGA-TTCTCTACACGAGAAAGTCAAGT
1 TGAGGATAACATTACTGAATGCTTGACTCCTCTACACGAGAAAGTCAGGT
* * *
2549419 TGAGGATGACATTACTGAATGCTTGATTCCTTTACACGAGAAAGTCAGGT
1 TGAGGATAACATTACTGAATGCTTGACTCCTCTACACGAGAAAGTCAGGT
* *
2549469 TAAGGACAACATTACT
1 TGAGGATAACATTACT
2549485 CATTCTCTTA
Statistics
Matches: 221, Mismatches: 40, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
49 42 0.19
50 177 0.80
51 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (50 bp):
TGAGGATAACATTACTGAATGCTTGACTCCTCTACACGAGAAAGTCAGGT
Found at i:2549300 original size:186 final size:186
Alignment explanation
Indices: 2548984--2549484 Score: 513
Period size: 186 Copynumber: 2.6 Consensus size: 186
2548974 AAAGTCAAGT
* *
2548984 TGAGGAAAACATTACTGAATGATTGACTTCTCTACACGGGAAAGTCAAGTTGAGGATGGAATTAC
1 TGAGGAAAACATTACTGAATGATTGACTTCTCTACACGAGAAAGTCAAGTTGAGGATGAAATTAC
* *
2549049 TAAATGATTGACTCCTCTACACGAGAAAGTCAAGTTGAGGATGATATTACTAAATGATCGACTCC
66 TAAATGATTGACTCCTCTACACGAGAAAGTCAAGTTAAGGATGACATTACTAAATGATCGACTCC
2549114 TCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTGAATGATCAACTCCTCTACA
131 TCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTGAATGATCAACTCCTCTACA
* * * * * *
2549170 TGAGGAAGACATTATTGAATGCTTGAC-TCATCTACACGAGAAATTCAGGTTGAGGGT-AACATT
1 TGAGGAAAACATTACTGAATGATTGACTTC-TCTACACGAGAAAGTCAAGTTGAGGATGAA-ATT
* * * * * * *
2549233 ACTGAATGATTGACTCCTCTACACGAGAGAGTCAGGTTAAGGATGACATTATTGAATGCTTGACT
64 ACTAAATGATTGACTCCTCTACACGAGAAAGTCAAGTTAAGGATGACATTACTAAATGATCGACT
* * * * * * ***
2549298 CCTCTACAGGAGAGAGTTAGGTTGAGGATGAAATTATTGAATGCTTGGCTCCTCTACACGA
129 CCTCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTGAATGATCAACTCCTCT--AC-A
* *
2549359 TAAAGTTAGGTTGAGGGCAACTTTACTGAATGATTGA-TTCTCTACACGAGAAAGTCAAGTTGAG
1 T---G--A-G--GA---AAACATTACTGAATGATTGACTTCTCTACACGAGAAAGTCAAGTTGAG
* * * * * * **
2549423 GATGACATTACTGAATGCTTGATTCCTTTACACGAGAAAGTCAGGTTAAGGACAACATTACT
55 GATGAAATTACTAAATGATTGACTCCTCTACACGAGAAAGTCAAGTTAAGGATGACATTACT
2549485 CATTCTCTTA
Statistics
Matches: 255, Mismatches: 42, Indels: 23
0.80 0.13 0.07
Matches are distributed among these distances:
185 3 0.01
186 152 0.60
188 2 0.01
189 2 0.01
192 1 0.00
194 1 0.00
195 1 0.00
197 2 0.01
199 73 0.29
200 18 0.07
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (186 bp):
TGAGGAAAACATTACTGAATGATTGACTTCTCTACACGAGAAAGTCAAGTTGAGGATGAAATTAC
TAAATGATTGACTCCTCTACACGAGAAAGTCAAGTTAAGGATGACATTACTAAATGATCGACTCC
TCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTGAATGATCAACTCCTCTACA
Found at i:2549387 original size:236 final size:235
Alignment explanation
Indices: 2548956--2549392 Score: 581
Period size: 236 Copynumber: 1.9 Consensus size: 235
2548946 GTCTGGATGA
*
2548956 TTGACTCATCTACACAAGAAAGTCAAGTTGAGGAAAACATTACTGAATGATTGACTTCTCTACAC
1 TTGACTCATCTACACAAGAAAGTCAAGTTGAGGAAAACATTACTGAATGATTGACTCCTCTACAC
* *
2549021 GGGAAAGTCAAGTTGAGGATGGAATTACTAAATGATTGACTCCTCTACACGAGAAAGTCAAGTTG
66 GAGAAAGTCAAGTTAAGGATGGAATTACTAAATGATTGACTCCTCTACACGAGAAAGTCAAGTTG
*
2549086 AGGATGATATTACTAAATGATCGACTCCTCTACACGAGAAAGTCAAGTTGAGGATGAAATTACTG
131 AGGATGAAATTACTAAATGATCGACTCCTCTACACGAGAAAGTCAAGTTGAGGA-GAAATTACTG
2549151 AATGATCAACTCCTCTACATGAGGAAGACATTATTGAATGC
195 AATGATCAACTCCTCTACATGAGGAAGACATTATTGAATGC
* * * **
2549192 TTGACTCATCTACACGAGAAATTCAGGTTGAGGGTAACATTACTGAATGATTGACTCCTCTACAC
1 TTGACTCATCTACACAAGAAAGTCAAGTTGAGGAAAACATTACTGAATGATTGACTCCTCTACAC
* * * * * * * * *
2549257 GAGAGAGTCAGGTTAAGGAT-GACATTATTGAATGCTTGACTCCTCTACAGGAGAGAGTTAGGTT
66 GAGAAAGTCAAGTTAAGGATGGA-ATTACTAAATGATTGACTCCTCTACACGAGAAAGTCAAGTT
* * * * * * * * *
2549321 GAGGATGAAATTATTGAATGCTTGGCTCCTCTACACGATAAAGTTAGGTTGAGG-GCAACTTTAC
130 GAGGATGAAATTACTAAATGATCGACTCCTCTACACGAGAAAGTCAAGTTGAGGAG-AA-ATTAC
2549385 TGAATGAT
193 TGAATGAT
2549393 TGATTCTCTA
Statistics
Matches: 171, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
234 1 0.01
235 4 0.02
236 166 0.97
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (235 bp):
TTGACTCATCTACACAAGAAAGTCAAGTTGAGGAAAACATTACTGAATGATTGACTCCTCTACAC
GAGAAAGTCAAGTTAAGGATGGAATTACTAAATGATTGACTCCTCTACACGAGAAAGTCAAGTTG
AGGATGAAATTACTAAATGATCGACTCCTCTACACGAGAAAGTCAAGTTGAGGAGAAATTACTGA
ATGATCAACTCCTCTACATGAGGAAGACATTATTGAATGC
Found at i:2557980 original size:21 final size:22
Alignment explanation
Indices: 2557954--2557997 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
2557944 ATCACTTCAT
*
2557954 TGAAAAGCCTTGGCA-TGGTAC
1 TGAAAAGCCTTAGCATTGGTAC
2557975 TGAAAAGCCTTAGCATTGGTAC
1 TGAAAAGCCTTAGCATTGGTAC
2557997 T
1 T
2557998 AAAGTGCCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (22 bp):
TGAAAAGCCTTAGCATTGGTAC
Found at i:2558931 original size:54 final size:54
Alignment explanation
Indices: 2558854--2559215 Score: 510
Period size: 54 Copynumber: 6.7 Consensus size: 54
2558844 ATTTCAAATC
* * * * *
2558854 ATTAT-AAGTTCTTTGGGGTGCACACGTAGTGTCAATACGGTCGTTCATAAACTT
1 ATTATGAA-TTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * *
2558908 ATTATGAATTCCGTGGGTTGCACACTTAGTGTCTATACGGTCGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
*
2558962 ATTATGAATTCTGTGGGTTGCACACTTAGTGCTGATACGGTCGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * * *
2559016 ATTATGAATTCTGTGGATTGCACACATAGTGCCAATACGGTTGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
** * *
2559070 ATTATGAATTCCATGGGTTGCACACTTAGTGCCGATACGGTTGTTCATAAACAT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
* * * *
2559124 ATTATAAATTCTGTGGGTTGCACACTTATTACCGATACGGTTGTTCATAAACTT
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
*
2559178 ATTATGAATTTTGTGGGTTGCACACTTAGTGCCGATAC
1 ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATAC
2559216 ATAAAAATGA
Statistics
Matches: 277, Mismatches: 30, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
54 275 0.99
55 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (54 bp):
ATTATGAATTCTGTGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACTT
Found at i:2560709 original size:54 final size:54
Alignment explanation
Indices: 2560651--2561252 Score: 828
Period size: 54 Copynumber: 11.1 Consensus size: 54
2560641 TTTATTAAGA
* * * * **
2560651 TGCACACGTAGTGCCTATATGGTCT-TTCATCAACACATGATGAATTCTATGGAT
1 TGCACACATAGTGCCTGTACGGT-TGTTCATCAACTCATGATGAATTCCGTGGAT
* * *
2560705 TGCACACATAGTGCCTGTACAGTTGTTCATCATCTCATGATGAATTCCGTGGGT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * *
2560759 TGCACACATAATGCCTTTACGGTTGTTCATCAACTCATGATGAATTCTGTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
*
2560813 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGACGAATTCCGTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
** * * * *
2560867 TGCACATTTAGTACCTATACGGTTGTTCATCAACTCATGACGAATTCCGTAGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * *
2560921 TGCATACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCCATGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
** * * *
2560975 TTTACACATAGTGCATGTACGGTTTTTCATCAACTCATGATGAATTCAGTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* *
2561029 TGCACACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTCCGTTGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
** * * *
2561083 TGCACACATAGTGTATGTATGATTGTTCATCAACTCATGATGAATTCCATGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * *
2561137 TGCACACATAGTGCCTATACGATTTTTCATCAACTCATGATGAATTCCGTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * *
2561191 TGCATACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTTCGTGGAG
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
2561245 TGCACACA
1 TGCACACA
2561253 AAGTCCATGT
Statistics
Matches: 485, Mismatches: 62, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
53 1 0.00
54 484 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
Found at i:2564465 original size:2 final size:2
Alignment explanation
Indices: 2564458--2564488 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2564448 CCACAAAAGC
2564458 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 T
2564489 TTCTGACATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2566654 original size:54 final size:54
Alignment explanation
Indices: 2566579--2567026 Score: 581
Period size: 54 Copynumber: 8.3 Consensus size: 54
2566569 TTTATTTAGA
* * * * *
2566579 TGCACACGTAGTGCCTATACGGTCGTTCATCAACACATGATGAATTCCGTGGGT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * * * * *
2566633 TGCACACATAGTTCCTGTACGGTTGTTCATCATCTTATGATAAATTTCGTGGGT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * * * *
2566687 TACACACATAGTGCCTGTATGGTTGTTCATCAACTCATGTTGAATTTCATGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * **
2566741 TGCACACATAGTGCATGTACAGTTGTTCATCAACTCATGATGAATTCTATGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* *
2566795 TGCACACATAGTGCTTGTACGGTTGTTCATCAACTCATAATGAATTCCGTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
** * *
2566849 TGCACACATAGTGAATGTATGGTTGTTCACCAACTCATGATGAATTCCGTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * * *
2566903 TGCAGACATAGTGCATGTACGGTTGTTCATCAACTCATGATGAATTTCATGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
* * * *
2566957 TGCACACATAGTGCCTGTACAGTTGTTAAGCAACTCATGATGAATTCTGTGGAT
1 TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
*
2567011 TGCACATATAGTGCCT
1 TGCACACATAGTGCCT
2567027 ATTTGGTAAT
Statistics
Matches: 344, Mismatches: 50, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 344 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCTGTACGGTTGTTCATCAACTCATGATGAATTCCGTGGAT
Found at i:2575460 original size:54 final size:54
Alignment explanation
Indices: 2575427--2575792 Score: 536
Period size: 54 Copynumber: 6.8 Consensus size: 54
2575417 AATACGATCA
* * * * **
2575427 TTCATAAGCTCATTATGAATTCCGTGGGTTGCACACTTAGTGACGATATGGTCA
1 TTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATATGGTTG
* *
2575481 TTCATAAACTTATTATGAATTTTGTGGGTAGCACACTTAGTGTCGATATGGTTG
1 TTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATATGGTTG
* **
2575535 TTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGTCGATACAGTTG
1 TTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATATGGTTG
* **
2575589 TTCATAAACTTATTATAAATTCTGTGGGTTGCACACTTAGTGTCGATACAGTTG
1 TTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATATGGTTG
* * *
2575643 TTCATAAACTTATTATAAATTATGTGGGTTGCACACTTAGTGTCGATATGGTTA
1 TTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATATGGTTG
* *
2575697 TTCATAAACTTATTATGAATTATGTGTGTTGCACACTTAGT-TCCGATATGGTTG
1 TTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTGT-CGATATGGTTG
*
2575751 TTCATAAACTTATTATGAATTTTGTGGGTTGCACACTTAGTG
1 TTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTG
2575793 CAGATACATA
Statistics
Matches: 286, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
53 1 0.00
54 285 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (54 bp):
TTCATAAACTTATTATGAATTCTGTGGGTTGCACACTTAGTGTCGATATGGTTG
Found at i:2575599 original size:27 final size:27
Alignment explanation
Indices: 2575569--2575654 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
2575559 TGGGTTGCAC
2575569 ACTTAGTGTCGATACAGTTGTTCATAA
1 ACTTAGTGTCGATACAGTTGTTCATAA
* * ** * * * *
2575596 ACTTATTATAAATTCTGTGGGTTGC--AC
1 ACTTAGTGTCGATACAGT-TGTT-CATAA
2575623 ACTTAGTGTCGATACAGTTGTTCATAA
1 ACTTAGTGTCGATACAGTTGTTCATAA
2575650 ACTTA
1 ACTTA
2575655 TTATAAATTA
Statistics
Matches: 39, Mismatches: 16, Indels: 8
0.62 0.25 0.13
Matches are distributed among these distances:
25 1 0.03
26 3 0.08
27 31 0.79
28 3 0.08
29 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (27 bp):
ACTTAGTGTCGATACAGTTGTTCATAA
Found at i:2577704 original size:21 final size:20
Alignment explanation
Indices: 2577658--2577709 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2577648 CCAAGTGAGT
**
2577658 AGTATCGATACTCTACTTCC
1 AGTATCGATACTCTACGGCC
*
2577678 AGTATCGATACTCTAGGGCC
1 AGTATCGATACTCTACGGCC
*
2577698 AAGTATCAATAC
1 -AGTATCGATAC
2577710 CCCTATGAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (20 bp):
AGTATCGATACTCTACGGCC
Found at i:2580099 original size:14 final size:13
Alignment explanation
Indices: 2580073--2580112 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
2580063 AGTAAGATGT
2580073 ATAATATAATTAA
1 ATAATATAATTAA
2580086 ATAATATAAATTAA
1 ATAATAT-AATTAA
*
2580100 ATAATTTAATTAA
1 ATAATATAATTAA
2580113 CTATTTACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATATAATTAA
Found at i:2580690 original size:24 final size:24
Alignment explanation
Indices: 2580640--2580690 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2580630 TACCAGTTGC
* *
2580640 TTTTTGGGTGAGAATTCCAATTGT
1 TTTTTGGGTGAGAATTCCAACTCT
* *
2580664 TTTTTGGGTGATAATTCTAACTCT
1 TTTTTGGGTGAGAATTCCAACTCT
2580688 TTT
1 TTT
2580691 AAGTTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (24 bp):
TTTTTGGGTGAGAATTCCAACTCT
Done.