Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_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: 2253222
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 12
Found at i:719386 original size:67 final size:67
Alignment explanation
Indices: 719224--719397 Score: 201
Period size: 67 Copynumber: 2.6 Consensus size: 67
719214 TTTTTCTCAT
* * *
719224 GGGGGAATCGGTTCCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATATG
1 GGGGGTATCGGTT--CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATATG
719289 ATGA
64 ATGA
* * * *
719293 GGGGGTATCGGTTCCCCCCTGGGGGTACTGATTCCCCTCTAGCATTCTGGAAATTCAT-T-TCGT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATAT-GA
719356 TGA
65 TGA
* *
719359 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
719398 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
65 7 0.08
66 18 0.20
67 55 0.60
69 12 0.13
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATATGAT
GA
Found at i:725630 original size:17 final size:19
Alignment explanation
Indices: 725608--725643 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
725598 GATTTACGTG
725608 AATACATGT-ATAT-ATAT
1 AATACATGTGATATGATAT
725625 AATACATGTGATATGATAT
1 AATACATGTGATATGATAT
725644 GAGATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 4 0.24
19 4 0.24
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (19 bp):
AATACATGTGATATGATAT
Found at i:725818 original size:32 final size:31
Alignment explanation
Indices: 725778--725877 Score: 121
Period size: 31 Copynumber: 3.2 Consensus size: 31
725768 GTCGAGGGTT
*
725778 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTACGGAACATATGGACAGTA
* * *
725809 TTACCTATG-TCTTTCGGGACATATGGATAGTA
1 -TACCTATGTTC-TACGGAACATATGGACAGTA
* *
725841 TACCTATGTTCTAAGGAATATATGGACAGTA
1 TACCTATGTTCTACGGAACATATGGACAGTA
725872 TACCTA
1 TACCTA
725878 GGTTTTTGGG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
31 31 0.54
32 26 0.46
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTA
Found at i:728444 original size:32 final size:31
Alignment explanation
Indices: 728404--728503 Score: 121
Period size: 31 Copynumber: 3.2 Consensus size: 31
728394 GTCGAGGGTT
*
728404 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTACGGAACATATGGACAGTA
* * *
728435 TTACCTATG-TCTTTCGGGACATATGGATAGTA
1 -TACCTATGTTC-TACGGAACATATGGACAGTA
* *
728467 TACCTATGTTCTAAGGAATATATGGACAGTA
1 TACCTATGTTCTACGGAACATATGGACAGTA
728498 TACCTA
1 TACCTA
728504 GGTTTTTGGG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
31 31 0.54
32 26 0.46
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTA
Found at i:737293 original size:10 final size:10
Alignment explanation
Indices: 737274--737330 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
737264 TGTTGTTGTG
737274 GTTTATGTTC
1 GTTTATGTTC
*
737284 GTTTACGTTC
1 GTTTATGTTC
*
737294 TTTTATTGTGTTC
1 GTTTA---TGTTC
*
737307 GTTTATGTTT
1 GTTTATGTTC
*
737317 GTTTACGTTC
1 GTTTATGTTC
737327 GTTT
1 GTTT
737331 GTTTGTATTC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 29 0.78
13 8 0.22
ACGTcount: A:0.09, C:0.11, G:0.19, T:0.61
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:737313 original size:33 final size:34
Alignment explanation
Indices: 737274--737346 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 34
737264 TGTTGTTGTG
*
737274 GTTTATGTTCGTTTACGTTC-TTT-TATTGTGTTC
1 GTTTATGTTCGTTTACGTTCGTTTGT-TTGTATTC
*
737307 GTTTATGTTTGTTTACGTTCGTTTGTTTGTATTC
1 GTTTATGTTCGTTTACGTTCGTTTGTTTGTATTC
737341 GTTTAT
1 GTTTAT
737347 CATTTAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 19 0.53
34 16 0.44
35 1 0.03
ACGTcount: A:0.10, C:0.10, G:0.19, T:0.62
Consensus pattern (34 bp):
GTTTATGTTCGTTTACGTTCGTTTGTTTGTATTC
Found at i:739803 original size:13 final size:13
Alignment explanation
Indices: 739785--739811 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
739775 GCTTATATTT
739785 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
739798 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
739811 T
1 T
739812 CTTATTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:742488 original size:21 final size:22
Alignment explanation
Indices: 742439--742498 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
742429 TGCATTATAT
*
742439 GGTGCATCGATGCACTAGTGGCA
1 GGTGCATCGATGCACTAGAGG-A
742462 GGTGCATCGATGCACT-GCAGG-
1 GGTGCATCGATGCACTAG-AGGA
*
742483 GGTGCATAGATGCACT
1 GGTGCATCGATGCACT
742499 TTGACACCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.44
22 1 0.03
23 18 0.53
ACGTcount: A:0.22, C:0.22, G:0.35, T:0.22
Consensus pattern (22 bp):
GGTGCATCGATGCACTAGAGGA
Found at i:742745 original size:21 final size:21
Alignment explanation
Indices: 742721--742760 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
742711 ATGTTTAATG
742721 AAAAAGATATCAATTGTTAAC
1 AAAAAGATATCAATTGTTAAC
*
742742 AAAATGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
742761 CCAATTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGATATCAATTGTTAAC
Found at i:745866 original size:20 final size:20
Alignment explanation
Indices: 745841--745910 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
745831 TGCAGCCTTT
*
745841 ATGCATTGATGCACAGAAGG
1 ATGCATCGATGCACAGAAGG
*
745861 ATGCATCGATGCACAGCAGG
1 ATGCATCGATGCACAGAAGG
* *
745881 ATGTATCGATGCACAGTAGG
1 ATGCATCGATGCACAGAAGG
*
745901 ATACATCGAT
1 ATGCATCGAT
745911 ACACTAATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
ATGCATCGATGCACAGAAGG
Found at i:752672 original size:40 final size:39
Alignment explanation
Indices: 752612--752687 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 39
752602 CTAGGGCTTC
752612 AGAAACATGCAAGCATAAGTATCATTTGTAGTTTAATTA
1 AGAAACATGCAAGCATAAGTATCATTTGTAGTTTAATTA
*
752651 AGAAACATGTAAGGCATAAGTATCATTTGTAGTTTAA
1 AGAAACATGCAA-GCATAAGTATCATTTGTAGTTTAA
752688 ACAATTATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 11 0.31
40 24 0.69
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (39 bp):
AGAAACATGCAAGCATAAGTATCATTTGTAGTTTAATTA
Found at i:756408 original size:19 final size:20
Alignment explanation
Indices: 756368--756408 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
756358 ACCTTCGATT
756368 AATATTTTCTAAGGAGAGAA
1 AATATTTTCTAAGGAGAGAA
756388 AATATTTTC-AA-GAGAAGAA
1 AATATTTTCTAAGGAG-AGAA
756407 AA
1 AA
756409 CTTCTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 3 0.15
19 8 0.40
20 9 0.45
ACGTcount: A:0.51, C:0.05, G:0.17, T:0.27
Consensus pattern (20 bp):
AATATTTTCTAAGGAGAGAA
Found at i:758379 original size:117 final size:116
Alignment explanation
Indices: 758140--758383 Score: 276
Period size: 117 Copynumber: 2.1 Consensus size: 116
758130 ATGGTCATTG
* * * *
758140 TATGAATAGCTGTGATGAACTAGCGGAGTCCTAATGTTCCAGATCATTGATGGGTATATGTTTAT
1 TATGAAGAGGTGTGATGAACTAGCGGAGTCCTAATCTTCCAGATCATTGATGGGTATATATTTAT
* * * * *
758205 AAACGAAAGAGTCAGCTGTACAATTAAAACTCGATTACATGATTTTTATACT
66 AAAC-AAAAAGTCAGCTGTACAACTAAAACTAGATTACATGATTTTGACACT
* * * * *
758257 AATGAAGAGGTGTTATGAAGTAGCTGAGTCCTAATCTTTCAGATCATTGATGGGTATATATTTAT
1 TATGAAGAGGTGTGATGAACTAGCGGAGTCCTAATCTTCCAGATCATTGATGGGTATATATTTAT
* * * *
758322 ATAA-AAAAAGTGAGCTGTACAACTAACAA-TATATTTCATGATTTTGACGCAT
66 A-AACAAAAAGTCAGCTGTACAACTAA-AACTAGATTACATGATTTTGACAC-T
758374 TATGAAGAGG
1 TATGAAGAGG
758384 CCTTTGTTAG
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
116 34 0.32
117 69 0.66
118 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (116 bp):
TATGAAGAGGTGTGATGAACTAGCGGAGTCCTAATCTTCCAGATCATTGATGGGTATATATTTAT
AAACAAAAAGTCAGCTGTACAACTAAAACTAGATTACATGATTTTGACACT
Found at i:761106 original size:16 final size:16
Alignment explanation
Indices: 761064--761106 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
761054 AATAATAAAC
*
761064 TGCATACATACATGCA
1 TGCATACATATATGCA
761080 TGCATACATATATGCA
1 TGCATACATATATGCA
761096 TGCATACATAT
1 TGCATACATAT
761107 GTAATATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (16 bp):
TGCATACATATATGCA
Found at i:762571 original size:21 final size:21
Alignment explanation
Indices: 762542--762594 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
762532 ATTCTGACTA
762542 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
762563 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
762584 TCGCAATGCGA
1 TCGCATTGCGA
762595 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:762609 original size:20 final size:20
Alignment explanation
Indices: 762584--762710 Score: 157
Period size: 20 Copynumber: 6.3 Consensus size: 20
762574 TTTTCCTAAT
762584 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * ** *
762604 TCGCAACGCAAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
762625 TAGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
762645 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
762665 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
762685 TCGCAATGCGAAT-CTATAAA
1 TCGCAATGCGAATAC-GTAAA
762705 TCGCAA
1 TCGCAA
762711 CGAGATTCTG
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
19 1 0.01
20 76 0.84
21 13 0.14
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:763599 original size:24 final size:24
Alignment explanation
Indices: 763572--763625 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
763562 GTATTCGAAA
763572 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
763596 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
763620 TTTGAT
1 TTTGAT
763626 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:766103 original size:20 final size:20
Alignment explanation
Indices: 766040--766098 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
766030 GCGAAAATCG
766040 CAACGC-GAATATGACTATCA
1 CAACGCGGAAT-TGACTATCA
* *
766060 CAACACGGAAATGACTATCA
1 CAACGCGGAATTGACTATCA
*
766080 CAATGCGGAATTGACTATC
1 CAACGCGGAATTGACTATC
766099 GCAATAGTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (20 bp):
CAACGCGGAATTGACTATCA
Found at i:766244 original size:14 final size:14
Alignment explanation
Indices: 766225--766261 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
766215 CATCAATTAA
766225 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
766239 ACAAATCATCTTTT
1 ACAAATCAACATTT
766253 ACAAATCAA
1 ACAAATCAA
766262 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:767670 original size:21 final size:22
Alignment explanation
Indices: 767646--767697 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
767636 TGACAATGGC
*
767646 CTCTTGAACGG-TGGGAGGGGA
1 CTCTTGAACGGATGAGAGGGGA
* *
767667 CTCTTGAA-GGATGATAGGGGC
1 CTCTTGAACGGATGAGAGGGGA
767688 CTCTTGAACG
1 CTCTTGAACG
767698 ATAGGGGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 23 0.88
22 1 0.04
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.23
Consensus pattern (22 bp):
CTCTTGAACGGATGAGAGGGGA
Found at i:767680 original size:42 final size:42
Alignment explanation
Indices: 767615--767697 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
767605 TCTAGAATGT
*
767615 TGGGAGGGACCTCTTCAACGATGACAATGGCCTCTTGAACGG
1 TGGGAGGGACCTCTTCAACGATGACAAGGGCCTCTTGAACGG
* * * *
767657 TGGGAGGGGA-CTCTTGAAGGATGATAGGGGCCTCTTGAACG
1 TGGGA-GGGACCTCTTCAACGATGACAAGGGCCTCTTGAACG
767698 ATAGGGGAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (42 bp):
TGGGAGGGACCTCTTCAACGATGACAAGGGCCTCTTGAACGG
Found at i:768237 original size:20 final size:20
Alignment explanation
Indices: 768206--768272 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
768196 GAAACTTAAA
*
768206 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* *
768226 ATCTCAATGCGAAAATAACT
1 ATCGCAATGCGAAAATGACT
**
768246 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
768266 ATCGCAA
1 ATCGCAA
768273 CGAGAGAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.22
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:768344 original size:20 final size:20
Alignment explanation
Indices: 768319--768442 Score: 152
Period size: 20 Copynumber: 6.5 Consensus size: 20
768309 GATTCTCTCG
**
768319 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
768339 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
768359 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
* *
768373 TTGCGATTGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
768393 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
768413 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
768433 TTGCGATAGT
1 TTGCGATAGT
768443 AAACTATTAT
Statistics
Matches: 92, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
14 7 0.08
16 6 0.07
18 6 0.07
20 73 0.79
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:768368 original size:54 final size:54
Alignment explanation
Indices: 768281--768419 Score: 199
Period size: 54 Copynumber: 2.6 Consensus size: 54
768271 AACGAGAGAA
* **
768281 TCGCAATGCGATTTTCA-TTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
* **
768334 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATTGTCATTT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
* *
768388 TCGCGTTGCGATAGTCATTTTCGCGTTGCGAT
1 TCGCATTGCGATAGTCATTTTCGCATTGCGAT
768420 AGTCATTTTC
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 14 0.18
54 63 0.82
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (54 bp):
TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTTGCGATAGTCAAAT
Found at i:770367 original size:20 final size:20
Alignment explanation
Indices: 770322--770389 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
770312 GAAACTTTAA
**
770322 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
*
770342 AGCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* ** *
770362 ATCGCAACGCGAATTTAACT
1 ATCGCAACACGAAAATGACT
770382 ATCGCAAC
1 ATCGCAAC
770390 GCAAGAATCG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.15
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:770460 original size:20 final size:20
Alignment explanation
Indices: 770435--770481 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
770425 GATTCTCTCG
770435 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
770455 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
770475 TTGCGAT
1 TTGCGAT
770482 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:771093 original size:20 final size:20
Alignment explanation
Indices: 771070--771202 Score: 185
Period size: 20 Copynumber: 6.7 Consensus size: 20
771060 CGATAGTCAG
771070 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
771090 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
771110 AATCGCATTGCTATTTACGT
1 ATTCGCATTGCGATTTACGT
**
771130 ATTCGCATTTTGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
771150 AATCACATTGCTATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
771170 ATTCGCGTTGAGATTTACGT
1 ATTCGCATTGCGATTTACGT
771190 ATTCGCATTGCGA
1 ATTCGCATTGCGA
771203 ATTAGGAAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 95 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:771223 original size:21 final size:21
Alignment explanation
Indices: 771199--771244 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
771189 TATTCGCATT
771199 GCGAA-TTAGGAAAATCGCAAC
1 GCGAATTTAGG-AAATCGCAAC
*
771220 GCGAATTTAGGAAATCGCAAT
1 GCGAATTTAGGAAATCGCAAC
771241 GCGA
1 GCGA
771245 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTTAGGAAATCGCAAC
Found at i:771430 original size:57 final size:57
Alignment explanation
Indices: 771363--771478 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
771353 AAAAATTGGT
771363 TAAAATCGTATATTATAAGGCATTTTTGGTCACTGAGGTTATTTTCTCATATATATA
1 TAAAATCGTATATTATAAGGCATTTTTGGTCACTGAGGTTATTTTCTCATATATATA
771420 TAAAATCGTATATTATAAGGCATTTTTGGTCACTGAGGTTATTTTCTCATATATATA
1 TAAAATCGTATATTATAAGGCATTTTTGGTCACTGAGGTTATTTTCTCATATATATA
771477 TA
1 TA
771479 TATATATATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (57 bp):
TAAAATCGTATATTATAAGGCATTTTTGGTCACTGAGGTTATTTTCTCATATATATA
Found at i:771475 original size:2 final size:2
Alignment explanation
Indices: 771468--771497 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
771458 TTATTTTCTC
771468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
771498 GAGAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:777037 original size:32 final size:32
Alignment explanation
Indices: 777000--777061 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
776990 ATTTCAATCT
*
777000 ATTCGGTTTACTTTCGGGTT-GGGTTAATTTCG
1 ATTCGGGTTACTTT-GGGTTCGGGTTAATTTCG
* *
777032 ATTCGGGTTGCTTTTGGTTCGGGTTAATTT
1 ATTCGGGTTACTTTGGGTTCGGGTTAATTT
777062 TAGTTTCGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 4 0.15
32 22 0.85
ACGTcount: A:0.11, C:0.11, G:0.29, T:0.48
Consensus pattern (32 bp):
ATTCGGGTTACTTTGGGTTCGGGTTAATTTCG
Found at i:777062 original size:16 final size:16
Alignment explanation
Indices: 777016--777062 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
777006 TTTACTTTCG
*
777016 GGTT-GGGTTAATTTC
1 GGTTCGGGTTAATTTT
* **
777031 GATTCGGGTTGCTTTT
1 GGTTCGGGTTAATTTT
777047 GGTTCGGGTTAATTTT
1 GGTTCGGGTTAATTTT
777063 AGTTTCGGTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 3 0.12
16 21 0.88
ACGTcount: A:0.11, C:0.09, G:0.32, T:0.49
Consensus pattern (16 bp):
GGTTCGGGTTAATTTT
Found at i:782063 original size:24 final size:24
Alignment explanation
Indices: 782036--782084 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
782026 AACATAGGTC
*
782036 TCGTTCGTGAACGTTCGGTTATGT
1 TCGTTCATGAACGTTCGGTTATGT
* **
782060 TCGTTTATGTTCGTTCGGTTATGT
1 TCGTTCATGAACGTTCGGTTATGT
782084 T
1 T
782085 TGTTTATGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.10, C:0.14, G:0.27, T:0.49
Consensus pattern (24 bp):
TCGTTCATGAACGTTCGGTTATGT
Found at i:782089 original size:24 final size:24
Alignment explanation
Indices: 782047--782109 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
782037 CGTTCGTGAA
*
782047 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTTATGTTTGTTTATGTT
782071 CGTTCGGTTATGTTTGTTTATGTT
1 CGTTCGGTTATGTTTGTTTATGTT
* **
782095 CATTCATTTATGTTT
1 CGTTCGGTTATGTTT
782110 AACCCAATCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.11, C:0.11, G:0.21, T:0.57
Consensus pattern (24 bp):
CGTTCGGTTATGTTTGTTTATGTT
Found at i:783202 original size:16 final size:16
Alignment explanation
Indices: 783181--783213 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
783171 GGGTCTCCAA
*
783181 CATTTATGTTCGTGTT
1 CATTTATGTTCATGTT
783197 CATTTATGTTCATGTT
1 CATTTATGTTCATGTT
783213 C
1 C
783214 GTTCATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (16 bp):
CATTTATGTTCATGTT
Found at i:789290 original size:64 final size:63
Alignment explanation
Indices: 789194--789316 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 63
789184 CGATGCATTC
* * * * *
789194 CTTAAGGTGTGCATCGATACACTGCTTTTGCATCGGTACACAAATTACATTCGATGTTTTCTT
1 CTTAAGGGGTGCATCGATACACTCCTTATGCATCGATACACAAATTACATTCAATGTTTTCTT
* * * *
789257 CTTAAGGGGGTGCATCGATGCACTCCTTATGCATCGATGCACTAATTGCATTCAATGTTT
1 CTTAA-GGGGTGCATCGATACACTCCTTATGCATCGATACACAAATTACATTCAATGTTT
789317 ATTTATTTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
63 5 0.10
64 45 0.90
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (63 bp):
CTTAAGGGGTGCATCGATACACTCCTTATGCATCGATACACAAATTACATTCAATGTTTTCTT
Found at i:801516 original size:11 final size:11
Alignment explanation
Indices: 801500--801530 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
801490 ACCCAACATT
*
801500 ATGTGCGTGAC
1 ATGTGCATGAC
801511 ATGTGCATGAC
1 ATGTGCATGAC
801522 ATGTGCATG
1 ATGTGCATG
801531 CGGTCGATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (11 bp):
ATGTGCATGAC
Found at i:804062 original size:2 final size:2
Alignment explanation
Indices: 804057--804110 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
804047 ACACACACAC
804057 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
804099 AT AT AT AT AT AT
1 AT AT AT AT AT AT
804111 TAAATTATAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:804358 original size:26 final size:26
Alignment explanation
Indices: 804329--804405 Score: 66
Period size: 26 Copynumber: 2.8 Consensus size: 26
804319 AAAAACGAGC
**
804329 ATAATATATATTAAATTATTTTTAAA
1 ATAATATATATTAAATTATTTAAAAA
* *
804355 ATAATA-ATGTATAAGTTATATTAAAAA
1 ATAATATATAT-TAAATTAT-TTAAAAA
*
804382 ATAAAATTATATTAAAATTATTTA
1 ATAATA-TATATT-AAATTATTTA
804406 GAGAATCCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
25 3 0.08
26 13 0.33
27 10 0.26
28 4 0.10
29 9 0.23
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
ATAATATATATTAAATTATTTAAAAA
Found at i:804505 original size:2 final size:2
Alignment explanation
Indices: 804498--804527 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
804488 CGGTAATTTA
804498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
804528 GAAATAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:807595 original size:22 final size:22
Alignment explanation
Indices: 807528--807606 Score: 108
Period size: 21 Copynumber: 3.7 Consensus size: 22
807518 TTCTAGGCTA
*
807528 GGGGAATTGGTACCCATTCAA-
1 GGGGAATCGGTACCCATTCAAG
*
807549 TGGGAATCGGTACCCATT-AAG
1 GGGGAATCGGTACCCATTCAAG
*
807570 GGGGAATCGGTACTCATTCAAG
1 GGGGAATCGGTACCCATTCAAG
*
807592 GGGGAATCGATACCC
1 GGGGAATCGGTACCC
807607 CCTCAACCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.04
21 32 0.64
22 16 0.32
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (22 bp):
GGGGAATCGGTACCCATTCAAG
Found at i:809263 original size:105 final size:105
Alignment explanation
Indices: 809087--809284 Score: 281
Period size: 105 Copynumber: 1.9 Consensus size: 105
809077 TACGCGGTCT
* * *
809087 TTCGGGACATATAGGTATTCTATGGAACATCTATGAGGTCCTTTGAGACACGTATTTGGTCCTTA
1 TTCGGGACATATAGGTATTCTATGGAACATCTATGAGGTCCTTTGAGACACGTACTTGATCATTA
809152 GCATATGTATATGATTCTTAAGGAATTTTCTACGTGATCA
66 GCATATGTATATGATTCTTAAGGAATTTTCTACGTGATCA
* * * * *
809192 TTCGGGACATATATGTATTCTTTGGAGCATGC-ATGAGGTCTTTTGAGACACTTACTTGATCATT
1 TTCGGGACATATAGGTATTCTATGGAACAT-CTATGAGGTCCTTTGAGACACGTACTTGATCATT
* * *
809256 GGTATATGTATATGGTTCTTAAGGAATTT
65 AGCATATGTATATGATTCTTAAGGAATTT
809285 ATATGTGGTC
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
105 80 0.99
106 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (105 bp):
TTCGGGACATATAGGTATTCTATGGAACATCTATGAGGTCCTTTGAGACACGTACTTGATCATTA
GCATATGTATATGATTCTTAAGGAATTTTCTACGTGATCA
Found at i:813482 original size:8 final size:8
Alignment explanation
Indices: 813469--813498 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
813459 TTAGGGTTAA
813469 GATTTTAG
1 GATTTTAG
813477 GATTTTAG
1 GATTTTAG
*
813485 GATTTTGG
1 GATTTTAG
813493 GATTTT
1 GATTTT
813499 TTTTATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (8 bp):
GATTTTAG
Found at i:815858 original size:294 final size:294
Alignment explanation
Indices: 815329--815916 Score: 1176
Period size: 294 Copynumber: 2.0 Consensus size: 294
815319 CCACCACGGT
815329 TCGAAAACGTGGACACCAAAAGCCATGAAGGGCTTGACAATATCGATACCAAGATAAGTAACAGG
1 TCGAAAACGTGGACACCAAAAGCCATGAAGGGCTTGACAATATCGATACCAAGATAAGTAACAGG
815394 GATGGTCGTTAAACCTTGGAAAAGTTGGAGATAAAGCTGCCGGCCAACCAGCAAAGTTACCATAA
66 GATGGTCGTTAAACCTTGGAAAAGTTGGAGATAAAGCTGCCGGCCAACCAGCAAAGTTACCATAA
815459 ATTTTGACTTTAGACCAGAGAAATGCCTAGAATTATAACTTAGACATGTTCAATATTGTTATATC
131 ATTTTGACTTTAGACCAGAGAAATGCCTAGAATTATAACTTAGACATGTTCAATATTGTTATATC
815524 TTCTTAGTAGCATTAGAAAATTATTAGCTCTCCTCTTTTATTTATTCGAATTTATAGGAATTCAT
196 TTCTTAGTAGCATTAGAAAATTATTAGCTCTCCTCTTTTATTTATTCGAATTTATAGGAATTCAT
815589 ATATTTTTTTGACAGATCAATATAGTCTAAAAGA
261 ATATTTTTTTGACAGATCAATATAGTCTAAAAGA
815623 TCGAAAACGTGGACACCAAAAGCCATGAAGGGCTTGACAATATCGATACCAAGATAAGTAACAGG
1 TCGAAAACGTGGACACCAAAAGCCATGAAGGGCTTGACAATATCGATACCAAGATAAGTAACAGG
815688 GATGGTCGTTAAACCTTGGAAAAGTTGGAGATAAAGCTGCCGGCCAACCAGCAAAGTTACCATAA
66 GATGGTCGTTAAACCTTGGAAAAGTTGGAGATAAAGCTGCCGGCCAACCAGCAAAGTTACCATAA
815753 ATTTTGACTTTAGACCAGAGAAATGCCTAGAATTATAACTTAGACATGTTCAATATTGTTATATC
131 ATTTTGACTTTAGACCAGAGAAATGCCTAGAATTATAACTTAGACATGTTCAATATTGTTATATC
815818 TTCTTAGTAGCATTAGAAAATTATTAGCTCTCCTCTTTTATTTATTCGAATTTATAGGAATTCAT
196 TTCTTAGTAGCATTAGAAAATTATTAGCTCTCCTCTTTTATTTATTCGAATTTATAGGAATTCAT
815883 ATATTTTTTTGACAGATCAATATAGTCTAAAAGA
261 ATATTTTTTTGACAGATCAATATAGTCTAAAAGA
815917 GCATAATCTA
Statistics
Matches: 294, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
294 294 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (294 bp):
TCGAAAACGTGGACACCAAAAGCCATGAAGGGCTTGACAATATCGATACCAAGATAAGTAACAGG
GATGGTCGTTAAACCTTGGAAAAGTTGGAGATAAAGCTGCCGGCCAACCAGCAAAGTTACCATAA
ATTTTGACTTTAGACCAGAGAAATGCCTAGAATTATAACTTAGACATGTTCAATATTGTTATATC
TTCTTAGTAGCATTAGAAAATTATTAGCTCTCCTCTTTTATTTATTCGAATTTATAGGAATTCAT
ATATTTTTTTGACAGATCAATATAGTCTAAAAGA
Found at i:817277 original size:2 final size:2
Alignment explanation
Indices: 817270--817298 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
817260 TCCATACCCT
817270 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 T
817299 GTGGAACCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:828208 original size:17 final size:17
Alignment explanation
Indices: 828154--828208 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 17
828144 TCCTTGACGA
828154 TTTTTGCTTGGTTGGTGT
1 TTTTTGCTTGGTTGG-GT
* * *
828172 TTTTAGCTT-GCT-CGT
1 TTTTTGCTTGGTTGGGT
*
828187 ATTTTGCTTGGTTGGGT
1 TTTTTGCTTGGTTGGGT
828204 TTTTT
1 TTTTT
828209 TGGTGGTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
15 9 0.33
16 2 0.07
17 8 0.30
18 8 0.30
ACGTcount: A:0.04, C:0.09, G:0.27, T:0.60
Consensus pattern (17 bp):
TTTTTGCTTGGTTGGGT
Found at i:828840 original size:25 final size:25
Alignment explanation
Indices: 828811--828891 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
828801 AAATTAAATA
828811 AATATGTATAT-AATATAATAATAAC
1 AATAT-TATATAAATATAATAATAAC
828836 AATA-TATAATAAATATAATATATTAAC
1 AATATTAT-ATAAATATAATA-A-TAAC
** * *
828863 TTTATAATATAAATATAATAATAAT
1 AATATTATATAAATATAATAATAAC
828888 AATA
1 AATA
828892 ATATTTACTA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
23 3 0.07
24 2 0.04
25 18 0.40
26 2 0.04
27 18 0.40
28 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (25 bp):
AATATTATATAAATATAATAATAAC
Found at i:828841 original size:14 final size:13
Alignment explanation
Indices: 828822--828891 Score: 56
Period size: 14 Copynumber: 5.3 Consensus size: 13
828812 ATATGTATAT
828822 AATATAATAATAA
1 AATATAATAATAA
828835 CAATAT-ATAAT-A
1 -AATATAATAATAA
*
828847 AATATAATATATTA
1 AATATAATA-ATAA
* *
828861 ACT-TTATAATATA
1 AATATAATAATA-A
828874 AATATAATAATAA
1 AATATAATAATAA
828887 TAATA
1 -AATA
828892 ATATTTACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
11 5 0.11
12 6 0.13
13 15 0.33
14 19 0.42
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATAATAATAA
Found at i:828846 original size:13 final size:14
Alignment explanation
Indices: 828822--828891 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 14
828812 ATATGTATAT
828822 AATATAATAATAAC
1 AATATAATAATAAC
828836 AATAT-ATAAT-A-
1 AATATAATAATAAC
828847 AATATAATATATTAAC
1 AATATAATA-A-TAAC
**
828863 TTTATAAT-AT-A-
1 AATATAATAATAAC
*
828874 AATATAATAATAAT
1 AATATAATAATAAC
828888 AATA
1 AATA
828892 ATATTTACTA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
11 11 0.25
12 7 0.16
13 8 0.18
14 11 0.25
15 1 0.02
16 6 0.14
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATAATAATAAC
Found at i:828862 original size:27 final size:25
Alignment explanation
Indices: 828817--828891 Score: 80
Period size: 27 Copynumber: 2.9 Consensus size: 25
828807 AATAAATATG
828817 TATATAATATAATAATAACAATAT-A
1 TATA-AATATAATAATAACAATATAA
**
828842 TAATAAATATAATATATTAACTTTATAA
1 T-ATAAATATAATA-A-TAACAATATAA
*
828870 TATAAATATAATAATAATAATA
1 TATAAATATAATAATAACAATA
828892 ATATTTACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
25 15 0.37
26 5 0.12
27 19 0.46
28 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (25 bp):
TATAAATATAATAATAACAATATAA
Found at i:828929 original size:26 final size:23
Alignment explanation
Indices: 828875--828937 Score: 58
Period size: 26 Copynumber: 2.7 Consensus size: 23
828865 TATAATATAA
* *
828875 ATATAATAATAATAATAATATTT
1 ATATAATAATAATAATAATAATC
828898 ACTATATATATATAATAATAATGAATC
1 A-TATA-ATA-ATAATAATAAT-AATC
828925 ATATAA-AA-AATAA
1 ATATAATAATAATAA
828938 AAAGATCGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 5 0.15
23 2 0.06
24 5 0.15
25 4 0.12
26 15 0.44
27 3 0.09
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (23 bp):
ATATAATAATAATAATAATAATC
Found at i:831314 original size:14 final size:14
Alignment explanation
Indices: 831295--831321 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
831285 TAATTTTTTC
831295 ATTATTATTATTAT
1 ATTATTATTATTAT
831309 ATTATTATTATTA
1 ATTATTATTATTA
831322 CAGGCCAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTATTATTATTAT
Found at i:834698 original size:3 final size:3
Alignment explanation
Indices: 834690--834754 Score: 85
Period size: 3 Copynumber: 21.7 Consensus size: 3
834680 CCTGCAAATG
* * * * *
834690 TAA TAA TAA TAA TAT TAA TAA TAG TAA TAG TAA TAG TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
834738 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
834755 TAAACAAGGA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:834860 original size:12 final size:13
Alignment explanation
Indices: 834835--834862 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
834825 TTTCTATACG
834835 TTTTAATTCTTTT
1 TTTTAATTCTTTT
834848 TTTTAATTCTTTT
1 TTTTAATTCTTTT
834861 TT
1 TT
834863 ATTATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTAATTCTTTT
Found at i:835752 original size:23 final size:23
Alignment explanation
Indices: 835721--835764 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
835711 ATTTTTGTAC
835721 TTTAAAAATAAATAAATATATTA
1 TTTAAAAATAAATAAATATATTA
* * *
835744 TTTATAAATATATATATATAT
1 TTTAAAAATAAATAAATATAT
835765 ATATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAAAAATAAATAAATATATTA
Found at i:839013 original size:20 final size:20
Alignment explanation
Indices: 838990--839041 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
838980 TTTTTCATTA
*
838990 CATTTGCATTTTTATGTTTG
1 CATTTGCATTTTTATATTTG
*
839010 CATTTGCATTTTTATATTTT
1 CATTTGCATTTTTATATTTG
*
839030 CATTTTCATTTT
1 CATTTGCATTTT
839042 CATTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.12, G:0.08, T:0.63
Consensus pattern (20 bp):
CATTTGCATTTTTATATTTG
Found at i:840734 original size:8 final size:8
Alignment explanation
Indices: 840721--840746 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
840711 AGCATTGAGT
840721 CAATTTTG
1 CAATTTTG
840729 CAATTTTG
1 CAATTTTG
840737 CAATTTTG
1 CAATTTTG
840745 CA
1 CA
840747 GTTATTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (8 bp):
CAATTTTG
Found at i:841296 original size:72 final size:72
Alignment explanation
Indices: 841206--841349 Score: 245
Period size: 72 Copynumber: 2.0 Consensus size: 72
841196 ATACAATAAA
*
841206 GCTTGAGTTATCCCCCTAAAGTAATTGGTTAATAGCC-CTGGCTTTATGGATAATATTCAGCTAA
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCTC-GGCTTTATGGATAATATTCAGCTAA
841270 TCTGTTAT
65 TCTGTTAT
*
841278 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATCGCCTCGGCTTTATGGATAATATTCAGCTAAT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCTCGGCTTTATGGATAATATTCAGCTAAT
*
841343 TTGTTAT
66 CTGTTAT
841350 ATTATTATAC
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 67 0.99
73 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCTCGGCTTTATGGATAATATTCAGCTAAT
CTGTTAT
Found at i:844382 original size:23 final size:23
Alignment explanation
Indices: 844352--844435 Score: 114
Period size: 23 Copynumber: 3.7 Consensus size: 23
844342 ATTATTATAT
*
844352 GGCACTACGGTGCAATTTTACGC
1 GGCACTACGGTGCAATTCTACGC
844375 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * * *
844398 AGCACTACAGTGTAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
844421 GGCACTTCGGTGCAA
1 GGCACTACGGTGCAA
844436 CTATATGAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:849923 original size:23 final size:23
Alignment explanation
Indices: 849889--849951 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
849879 ATTATTATAT
*
849889 GGCACTATGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
849912 GGTACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
849935 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
849952 ATATGAGCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:851901 original size:2 final size:2
Alignment explanation
Indices: 851894--851918 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
851884 GATATAATTG
851894 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
851919 TCTGATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:853179 original size:26 final size:26
Alignment explanation
Indices: 853148--853202 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
853138 GAACTGATGT
853148 TATTGTAAACATGATAAGTGATATGA
1 TATTGTAAACATGATAAGTGATATGA
*
853174 TATTGTATACATGATAAGTGATATGA
1 TATTGTAAACATGATAAGTGATATGA
853200 TAT
1 TAT
853203 GGATGTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (26 bp):
TATTGTAAACATGATAAGTGATATGA
Found at i:860524 original size:21 final size:22
Alignment explanation
Indices: 860489--860569 Score: 78
Period size: 21 Copynumber: 3.8 Consensus size: 22
860479 TTGGTGCAGA
*
860489 GGGAATCGA-TCCCCCCATGA-
1 GGGAACCGATTCCCCCCATGAG
**
860509 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCATG-AG
*
860532 GGGAACCGATCCCCCCCAT-AG
1 GGGAACCGATTCCCCCCATGAG
* *
860553 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
860570 CGGGGTTCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
20 8 0.16
21 25 0.50
22 1 0.02
23 16 0.32
ACGTcount: A:0.23, C:0.37, G:0.25, T:0.15
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCATGAG
Found at i:865062 original size:23 final size:23
Alignment explanation
Indices: 865032--865094 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
865022 ATTATTATAT
865032 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
865055 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
865078 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
865095 ATATGAGCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:866304 original size:46 final size:46
Alignment explanation
Indices: 866237--866426 Score: 290
Period size: 46 Copynumber: 4.1 Consensus size: 46
866227 TGAATCAGCC
* *
866237 AAATCTACTCATCAATTGCTCCAATCGATCATCATTCAGTTCTTGT
1 AAATCTACTCATCAATTGCTCCAACCGATCACCATTCAGTTCTTGT
* ** *
866283 AAATCTACTTATCAATTGCTCCAACCGATCATTATTCAGTTTTTGT
1 AAATCTACTCATCAATTGCTCCAACCGATCACCATTCAGTTCTTGT
* * *
866329 AAATCTACTCATCAATTGCTCTAACCGATTACCATTCAGTTCTTGC
1 AAATCTACTCATCAATTGCTCCAACCGATCACCATTCAGTTCTTGT
866375 AAATCTACTCATCAATTGCTCCAACCGATCACCATTCAGTTCTTGT
1 AAATCTACTCATCAATTGCTCCAACCGATCACCATTCAGTTCTTGT
*
866421 ACATCT
1 AAATCT
866427 GCTTTCAAAA
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.28, C:0.27, G:0.08, T:0.36
Consensus pattern (46 bp):
AAATCTACTCATCAATTGCTCCAACCGATCACCATTCAGTTCTTGT
Found at i:867165 original size:75 final size:75
Alignment explanation
Indices: 866987--867165 Score: 250
Period size: 75 Copynumber: 2.4 Consensus size: 75
866977 TCAATAAAAA
* * * *
866987 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCATAATCAGGAATATTGACGCATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCTCATTTCAATCAGAACCAAGAATATTGACGCATTTTGAA
**
867052 CGTTTGTATC
66 CGTTCATATC
* * * * *
867062 AGCAAATGTTGGGACATACTGAAAGCTCATTTCAATCAGAACCAAGAATGTTGATGTATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCTCATTTCAATCAGAACCAAGAATATTGACGCATTTTGAA
867127 CGTTCATATC
66 CGTTCATATC
*
867137 AGCAAATGTTGGGGCATGCTGAAGGCTCA
1 AGCAAATGTTGGGGCATGCTGAAAGCTCA
867166 CATCATCATG
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAGCTCATTTCAATCAGAACCAAGAATATTGACGCATTTTGAA
CGTTCATATC
Found at i:868145 original size:53 final size:53
Alignment explanation
Indices: 867998--868157 Score: 189
Period size: 54 Copynumber: 3.0 Consensus size: 53
867988 TAACCAGAAG
* * * *
867998 TCTGGGCAGAAGCCATAGAAAAGGATGTATGTATTTTCAAATGTTTTACGAACA
1 TCTGAGCAGAAGCCACAG-AAAGGATGAATGTGTTTTCAAATGTTTTACGAACA
* *
868052 TCTGAGCATAAGCCACAGGAAAGGATGAATGTGTTTTCAAATGTTTTATGAAACA
1 TCTGAGCAGAAGCCACA-GAAAGGATGAATGTGTTTTCAAATGTTTTACG-AACA
** *
868107 TCTGTA-CAGAAGCCACA-ACTGGATGAATGTGTTGTCAAATGTTTTACGAAC
1 TCTG-AGCAGAAGCCACAGAAAGGATGAATGTGTTTTCAAATGTTTTACGAAC
868158 CAGTTATAGT
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.03
53 27 0.29
54 42 0.46
55 19 0.21
56 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (53 bp):
TCTGAGCAGAAGCCACAGAAAGGATGAATGTGTTTTCAAATGTTTTACGAACA
Found at i:868546 original size:22 final size:22
Alignment explanation
Indices: 868518--868640 Score: 183
Period size: 22 Copynumber: 5.6 Consensus size: 22
868508 ACATCTATAT
*
868518 TCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
868540 TCTTCAAAGATGATAGATTCTT
1 TCTTCAAAGATGATAGATTCTC
* *
868562 TCTTCAAAGATGATATATTCTT
1 TCTTCAAAGATGATAGATTCTC
* *
868584 TTTTCAAAGATGATAGATTTTC
1 TCTTCAAAGATGATAGATTCTC
868606 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
868628 TTTTCAAAGATGA
1 TCTTCAAAGATGA
868641 AAACTTTATT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 91 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:868567 original size:44 final size:43
Alignment explanation
Indices: 868517--868640 Score: 203
Period size: 44 Copynumber: 2.8 Consensus size: 43
868507 TACATCTATA
*
868517 TTCTTCAAAGATGATATATTCTCTCTTCAAAGATGATAGATTCT
1 TTCTTCAAAGATGATATATTCTCTTTTCAAAGATGATAGATT-T
*
868561 TTCTTCAAAGATGATATATTCTTTTTTCAAAGATGATAGATTT
1 TTCTTCAAAGATGATATATTCTCTTTTCAAAGATGATAGATTT
*
868604 TCTCTTCAAAGATGATAGATTCTCTTTTCAAAGATGA
1 T-TCTTCAAAGATGATATATTCTCTTTTCAAAGATGA
868641 AAACTTTATT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
43 2 0.03
44 73 0.97
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (43 bp):
TTCTTCAAAGATGATATATTCTCTTTTCAAAGATGATAGATTT
Found at i:869470 original size:116 final size:116
Alignment explanation
Indices: 869296--869817 Score: 776
Period size: 116 Copynumber: 4.5 Consensus size: 116
869286 TATTTCTCAT
* * * * *
869296 ATCTGTAAGACCTATAGTGCATGATGTTTTTAA-AGCCTCCGGGTCATCCATAAGACCTACACTA
1 ATCTGTAAGACCTACAGTGCAAGATG---ATAAGA-CCTCAGGGTCATCCATAAGACCTACAGTA
* *
869360 CAGGATGTTTTCAAAAAGCCTTCAGGAGATTTTTGATATTTAAAGCCTCCAGGTC
62 CAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTCCGGGTC
* * *
869415 ATCTGTAAGACCTACGGTGCAAGATGATAAGACCTCAGGGTCATCCATAAGACCTATAGTACATG
1 ATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGTCATCCATAAGACCTACAGTACAGG
869480 ATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTCCGGGTC
66 ATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTCCGGGTC
* * * * *
869531 ATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCACAAGACCTACATTGCATG
1 ATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGTCATCCATAAGACCTACAGTACAGG
*
869596 ATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTC
66 ATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTCCGGGTC
* * * *
869647 ATCTGTAAGACCTACAGTGCAAGATGATAAGATCTTAGGGCCATCCATAAGACCTACAGTGCAGG
1 ATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGTCATCCATAAGACCTACAGTACAGG
*
869712 ATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGTC
66 ATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTCCGGGTC
** * *
869763 ATCTGTAAGATGTACAGTGCAAGATGATAAGACCTTAGGGTCATTCATAAGACCT
1 ATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGTCATCCATAAGACCT
869818 CTGGGTCATT
Statistics
Matches: 375, Mismatches: 27, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
116 351 0.94
117 1 0.00
119 23 0.06
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (116 bp):
ATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGTCATCCATAAGACCTACAGTACAGG
ATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTCCGGGTC
Found at i:869814 original size:20 final size:20
Alignment explanation
Indices: 869789--869842 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
869779 GTGCAAGATG
869789 ATAAGACCT-TAGGGTCATTC
1 ATAAGACCTCT-GGGTCATTC
869809 ATAAGACCTCTGGGTCATTC
1 ATAAGACCTCTGGGTCATTC
869829 ATAAGACCTCTGGG
1 ATAAGACCTCTGGG
869843 CATAATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (20 bp):
ATAAGACCTCTGGGTCATTC
Found at i:875098 original size:16 final size:16
Alignment explanation
Indices: 875079--875112 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
875069 CAATATACGA
875079 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
875095 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
875111 AT
1 AT
875113 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:875184 original size:16 final size:18
Alignment explanation
Indices: 875152--875185 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
875142 TATTAATGTA
875152 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
875170 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
875186 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:875888 original size:130 final size:130
Alignment explanation
Indices: 875655--875902 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
875645 AATTTTCTTC
* *
875655 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
875720 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAACATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAACATATATAAA
* * * *
875785 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCATAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
875850 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
875903 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAACATATATAAA
Found at i:876349 original size:35 final size:35
Alignment explanation
Indices: 876299--876374 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
876289 AATTGAATTT
* *
876299 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
876334 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
876369 AATTGA
1 AATTGA
876375 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:878039 original size:25 final size:25
Alignment explanation
Indices: 877975--878041 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
877965 ATAAAATTAT
* *
877975 AAATA-ATTAATATATTAAATATTA
1 AAATATATTAATATTTTAAATACTA
* *
877999 AAATATA-AAATAATTTTAAATACTC
1 AAATATATTAAT-ATTTTAAATACTA
*
878024 AAATTTATTAATATTTTA
1 AAATATATTAATATTTTA
878042 CTCAATTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 8 0.24
25 23 0.68
26 3 0.09
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (25 bp):
AAATATATTAATATTTTAAATACTA
Found at i:878069 original size:3 final size:3
Alignment explanation
Indices: 878061--878120 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
878051 ACTCTTTGTA
878061 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
878109 TAT TAT TAT TAT
1 TAT TAT TAT TAT
878121 GAGTAACTTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:878718 original size:21 final size:21
Alignment explanation
Indices: 878694--878764 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
878684 CGTTAGAGCA
878694 ATACTTAAAATGTTATTTTTT
1 ATACTTAAAATGTTATTTTTT
* * *
878715 ATACTAAAAATGTTAATTTCT
1 ATACTTAAAATGTTATTTTTT
* **
878736 CTACTTAAAATAAATATTTTTT
1 ATACTTAAAAT-GTTATTTTTT
878758 ATA-TTAA
1 ATACTTAA
878765 TATTTTTTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 31 0.79
22 8 0.21
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.49
Consensus pattern (21 bp):
ATACTTAAAATGTTATTTTTT
Found at i:879949 original size:27 final size:27
Alignment explanation
Indices: 879910--879975 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
879900 ATATTAGAAA
*
879910 AATAAAT-TATAAAAATAAG-CTCCTAAT
1 AATAAATAT-TAAAAATAAGTCTAC-AAT
*
879937 AATAAATATTAAAAAATGAGTCTACAAT
1 AATAAATATT-AAAAATAAGTCTACAAT
879965 AATAAATATTA
1 AATAAATATTA
879976 GAGAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 9 0.26
28 22 0.65
29 3 0.09
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.30
Consensus pattern (27 bp):
AATAAATATTAAAAATAAGTCTACAAT
Found at i:883453 original size:41 final size:41
Alignment explanation
Indices: 883367--883519 Score: 139
Period size: 41 Copynumber: 3.7 Consensus size: 41
883357 CATTTTTAGG
* *
883367 GAAAAC-ACCGCTACAAACACATACTTTAGTGGCGTTT-TTGT
1 GAAAACGA-CGCTACAAACACGTACTTTAGTGGCGTTTGTT-A
* * *
883408 GAAAATGTCGCTATAAACACGTACTTTAGTGGCGTTTGTTA
1 GAAAACGACGCTACAAACACGTACTTTAGTGGCGTTTGTTA
** * * * * * *
883449 GAAAACCCCCACTAGATATATGTATTTTAGTGGCGTTTGTTA
1 GAAAA-CGACGCTACAAACACGTACTTTAGTGGCGTTTGTTA
*
883491 GAAAACGACGCTACATACACGTACTTTAG
1 GAAAACGACGCTACAAACACGTACTTTAG
883520 CTGTGTTTAT
Statistics
Matches: 88, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
41 54 0.61
42 34 0.39
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (41 bp):
GAAAACGACGCTACAAACACGTACTTTAGTGGCGTTTGTTA
Found at i:885350 original size:112 final size:112
Alignment explanation
Indices: 885133--885610 Score: 661
Period size: 112 Copynumber: 4.3 Consensus size: 112
885123 TTGTCGGTTT
* * * *
885133 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAAATGAAAAAAA
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATG-ACAAAA
* * *
885198 CCGATTTATAAATGACAAAACAGGTAAAGCGCTACTGGATATATTGAAA
64 CCGATCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
* * *
885247 GTGTCAATACTTTATAAAATTGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
885312 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
*
885359 GTGTTGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * * *
885424 GGTTTATAAATGACAAAACATGTAAAGCGCAACCAAATATATTGAAA
66 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
* * * *
885471 GTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* ** * * *
885536 GGTCTCGAAATGACAAAACCGGTTAAGCGCTACCGAATATGTTGAAA
66 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
* * *
885583 GTGTTGATACTTTATTATAA-GTATCGAT
1 GTGTCGATACTTTATAAAAATGTATCGAT
885611 ACTTTTGGAA
Statistics
Matches: 327, Mismatches: 37, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
111 8 0.02
112 268 0.82
113 9 0.03
114 42 0.13
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GATCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
Found at i:885994 original size:182 final size:182
Alignment explanation
Indices: 885468--886142 Score: 1136
Period size: 182 Copynumber: 3.7 Consensus size: 182
885458 AAATATATTG
* *
885468 AAAGTGTCAATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * * * * *
885533 ATCGGTCTCGAAATGACAAAACCGGTTAAGCGCTACCGAATATGTTGAAAGTGTTGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
*
885598 TATAAGTATCGATACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
* *
885650 AAAGTGTCGATACTTTATAAAAATGTATAGATCGATAACAATTTAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGATAAA
*
885715 ACCGG-CTCGAAATGACAAAACCGGTAAAGAACTACCGGATATGTTGATAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
* * *
885779 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAAAAGTTATAGTGTTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
885831 AAAGTGTCGATACTTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * *
885896 ACCGGTCTCGAAATGACAAAACCGATAAAGAGCTACCGGATATTTTGATAGTGTCAATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
885961 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
* *
886013 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACTGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGATAAA
* * *
886078 ACCGGTCTCAAAATGATAAAACCGGTAAAGAGCTACTGGATATGTTGATAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
886143 AAAAATGTAT
Statistics
Matches: 460, Mismatches: 32, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
181 169 0.37
182 291 0.63
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATAGATCCATAACAATATAACAGGTAAAAATATGATAAA
ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
Found at i:886210 original size:20 final size:20
Alignment explanation
Indices: 886185--886230 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
886175 TAAAAATATA
886185 ACAAAATCGATCTCAAAATG
1 ACAAAATCGATCTCAAAATG
*
886205 ACAAAATCGATCTCGAAATG
1 ACAAAATCGATCTCAAAATG
886225 ACAAAA
1 ACAAAA
886231 CTGATAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.52, C:0.20, G:0.11, T:0.17
Consensus pattern (20 bp):
ACAAAATCGATCTCAAAATG
Found at i:886650 original size:23 final size:23
Alignment explanation
Indices: 886624--886671 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
886614 AAATATGTCA
*
886624 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
886647 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATATATT
886670 AT
1 AT
886672 TGTACTTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:887980 original size:2 final size:2
Alignment explanation
Indices: 887973--888005 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
887963 ATTATATCGT
887973 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
888006 TAATAATTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:888676 original size:25 final size:24
Alignment explanation
Indices: 888646--888699 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
888636 TTTATATTAT
* *
888646 TTTATTTGTTAACTTCTAACATTTA
1 TTTATTTATGAACTT-TAACATTTA
**
888671 TTTATTTATGAACTTTAATTTTTA
1 TTTATTTATGAACTTTAACATTTA
888695 TTTAT
1 TTTAT
888700 GCATTTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTATTTATGAACTTTAACATTTA
Found at i:888714 original size:19 final size:20
Alignment explanation
Indices: 888671--888716 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
888661 CTAACATTTA
888671 TTTATTTATGAACTTTAATT
1 TTTATTTATGAACTTTAATT
* *
888691 TTTATTTATGCATTTTAA-T
1 TTTATTTATGAACTTTAATT
888710 TTTATTT
1 TTTATTT
888717 GGTTGTGCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTATTTATGAACTTTAATT
Found at i:889071 original size:18 final size:17
Alignment explanation
Indices: 889038--889070 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
889028 AAATTAATTT
889038 ATGTCAATTTTATTTTC
1 ATGTCAATTTTATTTTC
889055 ATGTCAAATTTT-TTTT
1 ATGTC-AATTTTATTTT
889071 TATTTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (17 bp):
ATGTCAATTTTATTTTC
Found at i:893439 original size:13 final size:13
Alignment explanation
Indices: 893421--893527 Score: 88
Period size: 13 Copynumber: 7.3 Consensus size: 13
893411 GTCACAACCC
893421 GACCCGACCCGTT
1 GACCCGACCCGTT
893434 GACCCGACCCGTT
1 GACCCGACCCGTT
893447 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
*
893465 TACCCGACCCGTTT
1 GACCCGACCCG-TT
893479 ACCCGACCCGACCCGTT
1 ----GACCCGACCCGTT
893496 GACCCGACCCGTT
1 GACCCGACCCGTT
*
893509 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
893524 GACC
1 GACC
893528 ATTGACTGGA
Statistics
Matches: 79, Mismatches: 3, Indels: 22
0.76 0.03 0.21
Matches are distributed among these distances:
13 40 0.51
14 2 0.03
15 12 0.15
17 2 0.03
18 23 0.29
ACGTcount: A:0.16, C:0.46, G:0.21, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:893440 original size:18 final size:18
Alignment explanation
Indices: 893434--893506 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
893424 CCGACCCGTT
893434 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
893452 GACCCGACCCGTT-----
1 GACCCGACCCGTTGACCC
* *
893465 TACCCGACCCGTTTACCC
1 GACCCGACCCGTTGACCC
893483 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
893501 GACCCG
1 GACCCG
893507 TTGACCGTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
13 12 0.26
18 35 0.74
ACGTcount: A:0.16, C:0.49, G:0.21, T:0.14
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:893453 original size:31 final size:31
Alignment explanation
Indices: 893417--893512 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
893407 ACCGGTCACA
893417 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
* *
893448 ACCCGACCCGACCCGTTTACCCGACCCGTTT
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
893479 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
893510 ACC
1 ACC
893513 GTTGACCCGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.17, C:0.49, G:0.20, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGACCCGTTG
Found at i:893499 original size:8 final size:8
Alignment explanation
Indices: 893488--893527 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
893478 TACCCGACCC
893488 GACCCGTT
1 GACCCGTT
893496 GACCC---
1 GACCCGTT
893501 GACCCGTT
1 GACCCGTT
893509 GA-CCGTT
1 GACCCGTT
893516 GACCCGTT
1 GACCCGTT
893524 GACC
1 GACC
893528 ATTGACTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:893521 original size:15 final size:14
Alignment explanation
Indices: 893488--893533 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
893478 TACCCGACCC
*
893488 GACCCGTTGACC-C
1 GACCCGTTGACCTT
893501 GACCCGTTGACCGTT
1 GACCCGTTGACC-TT
893516 GACCCGTTGACCATT
1 GACCCGTTGACC-TT
893531 GAC
1 GAC
893534 TGGAGTTGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 12 0.41
15 17 0.59
ACGTcount: A:0.17, C:0.37, G:0.24, T:0.22
Consensus pattern (14 bp):
GACCCGTTGACCTT
Found at i:894850 original size:18 final size:18
Alignment explanation
Indices: 894824--894858 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
894814 TCGAAAGGAC
*
894824 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
894842 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
894859 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:903020 original size:13 final size:13
Alignment explanation
Indices: 902998--903032 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
902988 ATAATACTAT
*
902998 CCTAACTTAAAAC
1 CCTAAATTAAAAC
*
903011 CCTAAATTAAAAT
1 CCTAAATTAAAAC
903024 CCTAAATTA
1 CCTAAATTA
903033 CAAAGCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (13 bp):
CCTAAATTAAAAC
Found at i:903620 original size:33 final size:34
Alignment explanation
Indices: 903574--903637 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
903564 CAAAATCGCA
** *
903574 TTGCGATTTTCATTT-CGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCCGCATTGCGATTCTCTCG
903607 TTGCGATAGTCATTTCCGCATTGCGATTCTC
1 TTGCGATAGTCATTTCCGCATTGCGATTCTC
903638 ATTATCTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.42
Consensus pattern (34 bp):
TTGCGATAGTCATTTCCGCATTGCGATTCTCTCG
Found at i:903639 original size:20 final size:19
Alignment explanation
Indices: 903574--903662 Score: 57
Period size: 20 Copynumber: 4.8 Consensus size: 19
903564 CAAAATCGCA
*
903574 TTGCGATTTTCATTT-CGC
1 TTGCGATTCTCATTTCCGC
903592 GTTGCGATTCTC---T-CG-
1 -TTGCGATTCTCATTTCCGC
**
903607 TTGCGATAGTCATTTCCGC
1 TTGCGATTCTCATTTCCGC
903626 ATTGCGATTCTCATTATCTCG-
1 -TTGCGATTCTCATT-TC-CGC
*
903647 TTGCGATTTTCATTTC
1 TTGCGATTCTCATTTC
903663 AACCAAAAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
14 9 0.16
16 3 0.05
17 1 0.02
18 2 0.04
19 12 0.21
20 25 0.45
21 2 0.04
22 2 0.04
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (19 bp):
TTGCGATTCTCATTTCCGC
Found at i:906401 original size:68 final size:68
Alignment explanation
Indices: 906280--906431 Score: 207
Period size: 68 Copynumber: 2.2 Consensus size: 68
906270 ACCCATTTAA
* * *
906280 GGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATGCAAGAGGGGAATCGATACCCC-CA
1 GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCTAA
906344 GGG
66 GGG
* * * **
906347 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCTA
1 GGGGAACCGATACCCCCTCAACG-AAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCTA
906412 AGGG
65 AGGG
*
906416 GGGGAACCGATTCCCC
1 GGGGAACCGATACCCC
906432 ATGAGAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
67 21 0.28
68 34 0.46
69 19 0.26
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCTAA
GGG
Found at i:906803 original size:30 final size:31
Alignment explanation
Indices: 906761--906820 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
906751 CAGAAAAGTT
*
906761 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
906792 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
906821 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:907136 original size:22 final size:22
Alignment explanation
Indices: 907041--907128 Score: 176
Period size: 22 Copynumber: 4.0 Consensus size: 22
907031 TATGGACATC
907041 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
907063 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
907085 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
907107 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
907129 TTTATACGAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:913312 original size:68 final size:68
Alignment explanation
Indices: 913191--913343 Score: 209
Period size: 68 Copynumber: 2.2 Consensus size: 68
913181 ACCCATTTAA
* * *
913191 GGGGAACCGATACCCCTTCAACGAAATGAATTTCCAGAATGCAAGAGGGGAATCGATACCCC-CA
1 GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCTAA
913255 GGG
66 GGG
* * * **
913258 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCTA
1 GGGGAACCGATACCCCCTCAACG-AAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCTA
913323 AGGG
65 AGGG
*
913327 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
913344 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
67 21 0.28
68 34 0.45
69 20 0.27
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAAATGAAATTCCAGAATGCAAGAGGGGAATCGATACCCCTAA
GGG
Found at i:913715 original size:30 final size:31
Alignment explanation
Indices: 913673--913732 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
913663 CAGAAAAGTT
*
913673 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
913704 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
913733 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:914048 original size:22 final size:22
Alignment explanation
Indices: 913953--914040 Score: 176
Period size: 22 Copynumber: 4.0 Consensus size: 22
913943 TATGGACATC
913953 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
913975 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
913997 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
914019 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
914041 TTTATACGAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:914908 original size:21 final size:21
Alignment explanation
Indices: 914884--915034 Score: 58
Period size: 21 Copynumber: 7.2 Consensus size: 21
914874 TCATTCCTCG
914884 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** *
914905 AGAGGCCACTGTCATCC-CTCA
1 AGAGTCCCCTCCCA-CCGTTCA
* * * *
914926 AGAGTCCACTCCTATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
* ** *
914947 AGAGGCCCCTATCATTCC--TCG
1 AGAGTCCCCTCCCA--CCGTTCA
914968 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
914989 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
915010 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
915031 AGAG
1 AGAG
915035 CCCGATTCAC
Statistics
Matches: 86, Mismatches: 37, Indels: 15
0.62 0.27 0.11
Matches are distributed among these distances:
19 2 0.02
20 2 0.02
21 78 0.91
22 3 0.03
23 1 0.01
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:914908 original size:42 final size:42
Alignment explanation
Indices: 914862--915034 Score: 197
Period size: 42 Copynumber: 4.1 Consensus size: 42
914852 CCTATTATTG
*
914862 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
1 AAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
* * * * * * *
914904 AAGAGGCCACTGTCATCCCTCAAGAGTCCACTCCTATCGTTG
1 AAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
*
914946 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
1 AAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
* * * *
914988 AAGAGGCCACTGTCA-TCGTTGAAGAGGT-CCCTCCCACCATTC
1 AAGAGGCCACTATCATTCCTCG-AGA-GTCCCCTCCCACCGTTC
915030 AAGAG
1 AAGAG
915035 CCCGATTCAC
Statistics
Matches: 108, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
41 4 0.04
42 102 0.94
43 2 0.02
ACGTcount: A:0.23, C:0.37, G:0.19, T:0.21
Consensus pattern (42 bp):
AAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCACCGTTC
Found at i:915013 original size:84 final size:84
Alignment explanation
Indices: 914829--915004 Score: 334
Period size: 84 Copynumber: 2.1 Consensus size: 84
914819 CCCGACTCGC
*
914829 CTGTCATCCCTCAAGAGTCCACTCCTATTATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
914894 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
*
914913 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
914978 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
914997 CTGTCATC
1 CTGTCATC
915005 GTTGAAGAGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:915034 original size:84 final size:84
Alignment explanation
Indices: 914829--915034 Score: 297
Period size: 84 Copynumber: 2.5 Consensus size: 84
914819 CCCGACTCGC
* ** *
914829 CTGTCATCCCTCAAGAGTCCACTCCTATTATTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
914894 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
* * * *
914913 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
914978 CCCACCGTTCAAGAGGCCA
66 CCCACCGTTCAAGAGGCCA
** *
914997 CTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CTGTCATCCCTCAAGA-GTCCACTCCCACCATTCAAGAG
915035 CCCGATTCAC
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 108 0.96
85 4 0.04
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.23
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
CCCACCGTTCAAGAGGCCA
Found at i:916349 original size:14 final size:14
Alignment explanation
Indices: 916329--916365 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
916319 GATTGTTTAA
916329 TTGATTTGTAAAA-
1 TTGATTTGTAAAAG
916342 TGTGATTTGTAAAAG
1 T-TGATTTGTAAAAG
916357 TTGATTTGT
1 TTGATTTGT
916366 TTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:916509 original size:14 final size:14
Alignment explanation
Indices: 916487--916551 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
916477 AATGTGAAAT
916487 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
916501 GATAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
916519 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
916534 GAGAATCGCAACGC
1 GAAAATCGCAACGA
916548 GAAA
1 GAAA
916552 TTAAATTCGT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.22, G:0.23, T:0.09
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:916519 original size:33 final size:33
Alignment explanation
Indices: 916472--916552 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
916462 AAAAAGTACT
* * *
916472 ATCGCAATGTGAAATGAAAATCGCAACGAGATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
916505 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
916538 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
916553 TAAATTCGTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:916528 original size:19 final size:19
Alignment explanation
Indices: 916472--916532 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
916462 AAAAAGTACT
* *
916472 ATCGCAATGTGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
916491 ATCGCAA--CG--A-GATA
1 ATCGCAACGCGAAATGAAA
916505 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
916524 ATCGCAACG
1 ATCGCAACG
916533 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 1 0.03
18 1 0.03
19 19 0.56
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:916604 original size:33 final size:32
Alignment explanation
Indices: 916562--916687 Score: 182
Period size: 33 Copynumber: 3.8 Consensus size: 32
916552 TTAAATTCGT
916562 GTTGCGATTTTCATTTCGCATTGCGATTCCCTC
1 GTTGCGATTTTCATTTCGCATTGCGATT-CCTC
**
916595 GTTGCGATTTTCATTTCGCATTGCGAAATT-AGC
1 GTTGCGATTTTCATTTCGCATTGCG--ATTCCTC
916628 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTC-CTC
*
916661 ATTGCGATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGAT
916688 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (32 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCCTC
Found at i:916620 original size:19 final size:19
Alignment explanation
Indices: 916563--916687 Score: 91
Period size: 19 Copynumber: 7.4 Consensus size: 19
916553 TAAATTCGTG
916563 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
**
916582 TTGCGA--TTC-CCTCG--
1 TTGCGATTTTCATTTCGCA
916596 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* * *
916615 TTGCGA-----AATTAGCG
1 TTGCGATTTTCATTTCGCA
916629 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
916648 TTGCGA--TTC---TCTCA
1 TTGCGATTTTCATTTCGCA
916662 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
916681 TTGCGAT
1 TTGCGAT
916688 AGTAATTTCC
Statistics
Matches: 79, Mismatches: 12, Indels: 30
0.65 0.10 0.25
Matches are distributed among these distances:
14 27 0.34
16 9 0.11
17 9 0.11
19 34 0.43
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:916641 original size:66 final size:66
Alignment explanation
Indices: 916562--916686 Score: 232
Period size: 66 Copynumber: 1.9 Consensus size: 66
916552 TTAAATTCGT
*
916562 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAG
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGCGAAATTAG
916627 C
66 C
*
916628 GTTGCGATTTTCATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGA
1 GTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGCGA
916687 TAGTAATTTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.42
Consensus pattern (66 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCCCTCATTGCGATTTTCATTTCGCATTGCGAAATTAG
C
Found at i:918995 original size:12 final size:12
Alignment explanation
Indices: 918978--919014 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
918968 TCTTCGGGGA
918978 CTTTTTCTTCTT
1 CTTTTTCTTCTT
918990 CTTTTTCTTCTT
1 CTTTTTCTTCTT
919002 CTTTTTCTTCTT
1 CTTTTTCTTCTT
919014 C
1 C
919015 AGGATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:919223 original size:24 final size:24
Alignment explanation
Indices: 919189--919242 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
919179 CTGAAACATC
*
919189 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
919213 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
919237 ATCAAA
1 ATCAAA
919243 TTTCAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:920040 original size:20 final size:21
Alignment explanation
Indices: 920015--920066 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
920005 TTTTCCTAAT
*
920015 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
920035 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
920056 TCGCAATGCGA
1 TCGCAATGCGA
920067 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:920140 original size:20 final size:20
Alignment explanation
Indices: 920051--920142 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
920041 TGCGAATTTG
* *
920051 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
920071 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* * *
920091 ACAAAATCACAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
920112 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
920132 GAAAATCGCAA
1 GAAAATCGCAA
920143 TCATCTTCAA
Statistics
Matches: 52, Mismatches: 19, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
20 38 0.73
21 14 0.27
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:920444 original size:54 final size:53
Alignment explanation
Indices: 920367--920474 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 53
920357 TTGCAACGCA
* * *
920367 AAAATGGCTATCGCAACGCGAAAATCGCAATTCGAAATGAAAAATCGCAATGCG
1 AAAATGGCTATCGCAACGAGAAAATCGCAATGCAAAATG-AAAATCGCAATGCG
* *
920421 AAAATGGCTATCGCAACTAGAAAATCGCAATGCAAAATGAAAATCGCATTGCG
1 AAAATGGCTATCGCAACGAGAAAATCGCAATGCAAAATGAAAATCGCAATGCG
920474 A
1 A
920475 TTTTCTCGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 14 0.29
54 35 0.71
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (53 bp):
AAAATGGCTATCGCAACGAGAAAATCGCAATGCAAAATGAAAATCGCAATGCG
Found at i:920488 original size:14 final size:16
Alignment explanation
Indices: 920468--920541 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
920458 TGAAAATCGC
920468 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
920483 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
920500 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
920519 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
920535 -TTGCGAT
1 ATTGCGAT
920542 AGTCAGTTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Done.