Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000572.1 Hibiscus syriacus cultivar Beakdansim tig00001120_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: 2399138
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 9
Found at i:812746 original size:2 final size:2
Alignment explanation
Indices: 812732--813016 Score: 241
Period size: 2 Copynumber: 141.0 Consensus size: 2
812722 ATGTTTAATG
*
812732 AT AT AT A- AGT AT AT AC AT A- AGT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
812774 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
* * * * *
812816 AT AT AT AT AT AT AT AT AT AGT -T GT GT AT AT GCT -T AT CT AT AC
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT -AT AT AT AT AT AT
* * *
812858 AT AT GCT -T AT GT AT -T AT AT AT AT -T AT AT ACT TT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * * *
812899 ACT AT AGT TT AT AT AT CT -T AT AGT TT AT GGT TT AT AT AT AT AT
1 A-T AT A-T AT AT AT AT AT AT AT A-T AT AT -AT AT AT AT AT AT AT
812942 AGT -T AT AT ACT -T AT ACT AT AT AT AT AT AT AT AT AT AT AT AT
1 A-T AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
812983 AT AT AT AT AT AT AT AT AT AT AT AT ACT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
813017 TAATGTGATA
Statistics
Matches: 237, Mismatches: 21, Indels: 50
0.77 0.07 0.16
Matches are distributed among these distances:
1 11 0.05
2 210 0.89
3 16 0.07
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:813056 original size:15 final size:15
Alignment explanation
Indices: 813036--813065 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
813026 ACGTTGAAAC
*
813036 ATACCATTAACTAAA
1 ATACCACTAACTAAA
813051 ATACCACTAACTAAA
1 ATACCACTAACTAAA
813066 TTATTTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.23
Consensus pattern (15 bp):
ATACCACTAACTAAA
Found at i:815929 original size:2 final size:2
Alignment explanation
Indices: 815922--815946 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
815912 GATGGCGTAC
815922 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
815947 TAATTTGAGG
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:819797 original size:54 final size:50
Alignment explanation
Indices: 819736--819850 Score: 167
Period size: 54 Copynumber: 2.2 Consensus size: 50
819726 TTATTTGTTA
* *
819736 TAATTTGGCTACTGTTATTTCATTTTATGCATTTTAGTCACTATGTTTTATTTC
1 TAATTTGGCTACTGTTATTTCATTTCATACATTTTAG-C-C-AT-TTTTATTTC
*
819790 TAATTTGGCTACTGTTATTTTATTTCATACATTTTAGCCATTTTTATTTC
1 TAATTTGGCTACTGTTATTTCATTTCATACATTTTAGCCATTTTTATTTC
819840 TAATTTGGCTA
1 TAATTTGGCTA
819851 TTTTTTATTA
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
50 20 0.34
51 2 0.03
52 1 0.02
53 1 0.02
54 34 0.59
ACGTcount: A:0.22, C:0.13, G:0.10, T:0.55
Consensus pattern (50 bp):
TAATTTGGCTACTGTTATTTCATTTCATACATTTTAGCCATTTTTATTTC
Found at i:819855 original size:22 final size:22
Alignment explanation
Indices: 819776--819859 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 22
819766 ATTTTAGTCA
*
819776 CTATGTTTTATTTCTAATTTGG
1 CTATTTTTTATTTCTAATTTGG
*
819798 CTACTGTTATTTTATTTCATACATTTTAG
1 CTA---TT-TTTTATTTC-TA-A-TTTGG
*
819827 CCA-TTTTTATTTCTAATTTGG
1 CTATTTTTTATTTCTAATTTGG
819848 CTATTTTTTATT
1 CTATTTTTTATT
819860 ACATTTTGGT
Statistics
Matches: 49, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
21 6 0.12
22 12 0.24
23 2 0.04
24 9 0.18
25 2 0.04
26 9 0.18
27 2 0.04
28 1 0.02
29 6 0.12
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (22 bp):
CTATTTTTTATTTCTAATTTGG
Found at i:819867 original size:21 final size:20
Alignment explanation
Indices: 819817--819868 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
819807 TTTTATTTCA
*
819817 TACATTTTAGCCATTTTTAT
1 TACATTTTGGCCATTTTTAT
* * *
819837 TTCTAATTTGGCTATTTTTTAT
1 TAC-ATTTTGGCCA-TTTTTAT
819859 TACATTTTGG
1 TACATTTTGG
819869 TCTCTTATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 9 0.38
ACGTcount: A:0.21, C:0.12, G:0.10, T:0.58
Consensus pattern (20 bp):
TACATTTTGGCCATTTTTAT
Found at i:827292 original size:31 final size:31
Alignment explanation
Indices: 827257--827349 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 31
827247 AAGTTTCATA
* *
827257 TGTTATCAAATGATCATTAAACTTTTCAAAC
1 TGTTATAAAATGATCATTAAACTTATCAAAC
* * * * *
827288 TGTTATAAAATAATAACTAGAACTTATCATAT
1 TGTTATAAAATGATCATTA-AACTTATCAAAC
* *
827320 TATTATAAAATGATCCTTAAACTTATCAAA
1 TGTTATAAAATGATCATTAAACTTATCAAA
827350 ATTAATCATT
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
31 25 0.52
32 23 0.48
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (31 bp):
TGTTATAAAATGATCATTAAACTTATCAAAC
Found at i:857679 original size:2 final size:2
Alignment explanation
Indices: 857672--857707 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
857662 TTATTATGAC
857672 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
857708 TTTTTGATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:887801 original size:21 final size:21
Alignment explanation
Indices: 887775--887815 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
887765 GACTATCGTA
887775 TTGCGATTTCCCAAATTCGCG
1 TTGCGATTTCCCAAATTCGCG
* *
887796 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTCCCAAATTCGC
887816 AATGCGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGCG
Found at i:887821 original size:21 final size:21
Alignment explanation
Indices: 887776--887822 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
887766 ACTATCGTAT
**
887776 TGCGATTTCCCAAATTCGCGT
1 TGCGATTTCCCAAATTCGCAA
* *
887797 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTCCCAAATTCGCAA
887818 TGCGA
1 TGCGA
887823 ATACGTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TGCGATTTCCCAAATTCGCAA
Found at i:888065 original size:22 final size:22
Alignment explanation
Indices: 888040--888101 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
888030 GGCGACATCC
888040 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
888062 GTCCCCA----CGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* * *
888080 ATCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
888102 TTCACGGTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
18 15 0.48
22 16 0.52
ACGTcount: A:0.27, C:0.39, G:0.15, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:888460 original size:19 final size:20
Alignment explanation
Indices: 888436--888485 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
888426 GCGATTCTGT
888436 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCG
**
888455 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCATTTTCG
*
888475 TGTTGCGATTT
1 CGTTGCGATTT
888486 AAAGTTTTGC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCG
Found at i:890391 original size:20 final size:20
Alignment explanation
Indices: 890366--890469 Score: 121
Period size: 20 Copynumber: 5.5 Consensus size: 20
890356 AGAATAGTTT
890366 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
890386 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
890406 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
890422 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
890440 ACTATCGCAATACGAATTTG
1 ACTATCGCAATGCGAAAATG
890460 ACTATCGCAA
1 ACTATCGCAA
890470 CGAAAGAATC
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
14 7 0.10
16 4 0.06
17 4 0.06
18 4 0.06
20 53 0.74
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:890462 original size:54 final size:54
Alignment explanation
Indices: 890369--890488 Score: 195
Period size: 54 Copynumber: 2.2 Consensus size: 54
890359 ATAGTTTACT
* *
890369 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAACGAAAGA
* **
890423 ATCGCAATGCGAAAATGACTATCGCAATACGAATTTGACTATCGCAACGAAAGA
1 ATCGCAATGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAACGAAAGA
890477 ATCGCAATGCGA
1 ATCGCAATGCGA
890489 TTTAGCGAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAACGAAAGA
Found at i:890548 original size:34 final size:34
Alignment explanation
Indices: 890505--890658 Score: 141
Period size: 34 Copynumber: 4.4 Consensus size: 34
890495 GAAATGAAAA
*
890505 TCGCATTGCGATTCTTTCGTTGCGATAGTCAAAT
1 TCGCATTGCGATTCTTTCGTTGCGATAGTCAATT
*
890539 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
1 TCGCATTGCGAT--TC--TTTCG--TTGCGATAGTCAATT
* * * **
890579 TCGCGTTGCGATT-TTGTTGTTGCGAT-TTTTATT
1 TCGCATTGCGATTCTT-TCGTTGCGATAGTCAATT
* *
890612 TCGCATTGCGATTCTCTCGTTGCGATAGTCATTT
1 TCGCATTGCGATTCTTTCGTTGCGATAGTCAATT
*
890646 TCGCGTTGCGATT
1 TCGCATTGCGATT
890659 TTAAGTTTCA
Statistics
Matches: 95, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
33 24 0.25
34 35 0.37
35 2 0.02
36 4 0.04
38 6 0.06
40 24 0.25
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.43
Consensus pattern (34 bp):
TCGCATTGCGATTCTTTCGTTGCGATAGTCAATT
Found at i:890549 original size:20 final size:20
Alignment explanation
Indices: 890524--890590 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
890514 GATTCTTTCG
**
890524 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
890544 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
890564 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
890584 TTGCGAT
1 TTGCGAT
890591 TTTGTTGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:892604 original size:14 final size:14
Alignment explanation
Indices: 892585--892620 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
892575 ATTGTTTAAT
892585 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
892599 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
892613 TGATTTGT
1 TGATTTGT
892621 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:892861 original size:33 final size:32
Alignment explanation
Indices: 892799--892870 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 32
892789 ATTAATTTCG
892799 CGTTGCGATTTTCATTTTCGCATTACGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTACGATT--CT
* *
892833 CGTTGCGCTTTTCA-TTTCGCATTGCGATTCT
1 CGTTGCGATTTTCATTTTCGCATTACGATTCT
892864 CGTTGCG
1 CGTTGCG
892871 TTGCGATAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
31 9 0.25
33 14 0.39
34 13 0.36
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTTCGCATTACGATTCT
Found at i:892893 original size:20 final size:20
Alignment explanation
Indices: 892868--892977 Score: 168
Period size: 20 Copynumber: 5.5 Consensus size: 20
892858 GATTCTCGTT
892868 GCGTTGCGATAGTCATTTCC
1 GCGTTGCGATAGTCATTTCC
892888 GCGTTGCGATAGTCATTTCC
1 GCGTTGCGATAGTCATTTCC
*
892908 GCGTTGCGATAGTCAATTCC
1 GCGTTGCGATAGTCATTTCC
*
892928 GCGTTGCGATAGTCATTTCT
1 GCGTTGCGATAGTCATTTCC
*
892948 GTGTTGCGATAGTCATATT-C
1 GCGTTGCGATAGTCAT-TTCC
*
892968 GCGCTGCGAT
1 GCGTTGCGAT
892978 TTCCGCGTTA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
20 80 0.98
21 2 0.02
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (20 bp):
GCGTTGCGATAGTCATTTCC
Found at i:895440 original size:24 final size:24
Alignment explanation
Indices: 895406--895459 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
895396 CTGAAAAATC
895406 ATCAAAATCCGAGTATTAACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
* * *
895430 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTAACCAAG
895454 ATCAAA
1 ATCAAA
895460 TTTCGAATAC
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:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTAACCAAG
Found at i:896334 original size:20 final size:20
Alignment explanation
Indices: 896311--896467 Score: 151
Period size: 20 Copynumber: 7.8 Consensus size: 20
896301 TTGCGATAGT
* *
896311 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
896331 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
896351 CAGAATCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
** * *
896371 CCTATTCACATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
896391 C-GTAATCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
896411 C-GTAATCGCATTGCGATTTTC
1 CAG-AATCGCATTGCGA-TTTA
*
896432 CA-AATTCGCGTTGCGATTTA
1 CAGAA-TCGCATTGCGATTTA
*
896452 C-GTATTCGCATTGCGA
1 CAG-AATCGCATTGCGA
896468 ATTAGGAAAA
Statistics
Matches: 115, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
20 100 0.87
21 15 0.13
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:896346 original size:40 final size:40
Alignment explanation
Indices: 896311--896467 Score: 194
Period size: 40 Copynumber: 3.9 Consensus size: 40
896301 TTGCGATAGT
* *
896311 CAGAATCTCGTTGCGATTTACAG-ATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTAC-GTATTCGCATTGCGATTTA
* *
896351 CAGAATCGCATTGCGATTTACCTATTCACATTGCGATTTA
1 CAGAATCGCATTGCGATTTACGTATTCGCATTGCGATTTA
* *
896391 C-GTAATCGCATTGCGATTTACGTAATCGCATTGCGATTTTC
1 CAG-AATCGCATTGCGATTTACGTATTCGCATTGCGA-TTTA
*
896432 CA-AATTCGCGTTGCGATTTACGTATTCGCATTGCGA
1 CAGAA-TCGCATTGCGATTTACGTATTCGCATTGCGA
896468 ATTAGGAAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 68 0.67
41 33 0.32
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (40 bp):
CAGAATCGCATTGCGATTTACGTATTCGCATTGCGATTTA
Found at i:896385 original size:60 final size:61
Alignment explanation
Indices: 896321--896467 Score: 210
Period size: 60 Copynumber: 2.4 Consensus size: 61
896311 CAGAATCTCG
*
896321 TTGCGATTTACAG-ATTCGCATTGCGATTTACAG-AATCGCATTGCGATTTACC-TATTCACA
1 TTGCGATTTAC-GTATTCGCATTGCGATTTAC-GTAATCGCATTGCGATTTACCAAATTCACA
* * * *
896381 TTGCGATTTACGTAATCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCAAATTCGCG
1 TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCAAATTCACA
896442 TTGCGATTTACGTATTCGCATTGCGA
1 TTGCGATTTACGTATTCGCATTGCGA
896468 ATTAGGAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
59 2 0.03
60 46 0.59
61 30 0.38
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (61 bp):
TTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCAAATTCACA
Found at i:896483 original size:21 final size:21
Alignment explanation
Indices: 896457--896503 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
896447 ATTTACGTAT
*
896457 TCGCATTGCGAATTAGGAAAA
1 TCGCATCGCGAATTAGGAAAA
*
896478 TCGCATCGCGAATTTGGAAAA
1 TCGCATCGCGAATTAGGAAAA
896499 TCGCA
1 TCGCA
896504 ATGATAGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCATCGCGAATTAGGAAAA
Found at i:901130 original size:309 final size:308
Alignment explanation
Indices: 900665--901270 Score: 923
Period size: 309 Copynumber: 2.0 Consensus size: 308
900655 GGATCAAATG
*
900665 AATTATTATTCATTAATTATTATTTTTAACAACATTAAATAATTTTGATAATTTATGGCATAATA
1 AATTATTATTCATTAATTATTATTTTTAACAACATTAAATAATTTTAATAATTTATGGCATAATA
900730 CTTAATTTTAAAAATGAATACACATTATTAATGCTATTAAAAAATAATAATTAATGAATAATAAT
66 CTTAATTTTAAAAATGAATACACATTATTAATGCTATTAAAAAATAATAATTAATGAATAATAAT
* ** * *
900795 TCATTTGATCCCTCCATTTAATTAAAATTTTATTTCAATGTTTTTTATATTTTTACATAATTGAT
131 TCATTTGATCCCTCAATTTAATTAAAATTTTATTTCAATACTTTTTATATTTTTAAATAATTAAT
*
900860 TTTAAAAGTTAAG-ATTTTTTTCAAAAATATATGAAATTTATAA-TTTTTAAAATTATAAAATAT
196 TTTAAAAGTTAAGAATTCTTTT-AAAAATATATGAAATTTATAATTTTTTAAAATTATAAAATAT
* * *
900923 TTCTTATCATCATCGTCATCATTATCATTTTAAAAAAATTCTAGTAATA
260 TTATTATCATCATCATCATCATCATCATTTTAAAAAAATTCTAGTAATA
* * **
900972 AATTTTTATTTATTAATTATTATTTTTTAACAACATT-AATAATTTTAATAATTTATGGTCATTG
1 AATTATTATTCATTAATTATTA-TTTTTAACAACATTAAATAATTTTAATAATTTATGG-CATAA
*
901036 TACTTAATTTTAAAAATGAATACACATTATTAACTGTTATTAAAAAATAATAATTAATGAATAAT
64 TACTTAATTTTAAAAATGAATACACATTATTAA-TGCTATTAAAAAATAATAATTAATGAATAAT
* *
901101 AATTCATTTGAT-TCTCAATTGTAATTAAAATTTTATTTTAATACTTTTTATATTTTTAAATAAT
128 AATTCATTTGATCCCTCAATT-TAATTAAAATTTTATTTCAATACTTTTTATATTTTTAAATAAT
* *
901165 TAATTTTAAAAGTTAAGAATTCTTTTAAAAATATTTGAAATTTATAATTTTTTTTAAATTATAAA
192 TAATTTTAAAAGTTAAGAATTCTTTTAAAAATATATGAAATTTATAA-TTTTTTAAAATTATAAA
* * * *
901230 ATATTTATTATTATTATTATCATTATCATCATTTTAAAAAA
256 ATATTTATTATCATCATCATCATCATCATCATTTTAAAAAA
901271 GAAATACAAG
Statistics
Matches: 269, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
307 40 0.15
308 56 0.21
309 117 0.43
310 7 0.03
311 49 0.18
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.48
Consensus pattern (308 bp):
AATTATTATTCATTAATTATTATTTTTAACAACATTAAATAATTTTAATAATTTATGGCATAATA
CTTAATTTTAAAAATGAATACACATTATTAATGCTATTAAAAAATAATAATTAATGAATAATAAT
TCATTTGATCCCTCAATTTAATTAAAATTTTATTTCAATACTTTTTATATTTTTAAATAATTAAT
TTTAAAAGTTAAGAATTCTTTTAAAAATATATGAAATTTATAATTTTTTAAAATTATAAAATATT
TATTATCATCATCATCATCATCATCATTTTAAAAAAATTCTAGTAATA
Found at i:902188 original size:17 final size:19
Alignment explanation
Indices: 902154--902188 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
902144 CCAACTAACC
902154 GTTTCTCATTTATTCTTTT
1 GTTTCTCATTTATTCTTTT
902173 GTTTCTC-TTT-TTCTTT
1 GTTTCTCATTTATTCTTT
902189 CTTCTTCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.71
Consensus pattern (19 bp):
GTTTCTCATTTATTCTTTT
Found at i:910304 original size:2 final size:2
Alignment explanation
Indices: 910297--910325 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
910287 ATATACATGC
910297 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
910326 ATTAAGTATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:918911 original size:2 final size:2
Alignment explanation
Indices: 918906--918933 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
918896 TATTTGAAGA
918906 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
918934 CTGTTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:936804 original size:3 final size:3
Alignment explanation
Indices: 936796--936837 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
936786 AGCGTTTAAT
936796 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
936838 ATCTAGTACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:937252 original size:21 final size:21
Alignment explanation
Indices: 937200--937296 Score: 67
Period size: 20 Copynumber: 4.7 Consensus size: 21
937190 GATTCTAACT
* *
937200 ATCGCATTGCGA-TTTCCCAA
1 ATCGCAATGCGATTTTCCTAA
**
937220 ATTCGCGCTGCGATTTTCCTAA
1 A-TCGCAATGCGATTTTCCTAA
* * *
937242 ATCGCAATGCGA-ATACGTAA
1 ATCGCAATGCGATTTTCCTAA
**
937262 ATCGCAATGCGAATTTGACT--
1 ATCGCAATGCG-ATTTTCCTAA
937282 ATCGCAATGCGATTT
1 ATCGCAATGCGATTT
937297 ACATAGCGCC
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
19 4 0.07
20 28 0.46
21 19 0.31
22 10 0.16
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (21 bp):
ATCGCAATGCGATTTTCCTAA
Found at i:937536 original size:21 final size:20
Alignment explanation
Indices: 937506--937595 Score: 83
Period size: 21 Copynumber: 4.3 Consensus size: 20
937496 GTTTCCAAAT
*
937506 TCGCATTGCGAACTTGGACTA
1 TCGCAATGCGAA-TTGGACTA
* *
937527 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGAAT-TGGACTA
* * *
937547 TCGTAATGCGATAGTCGACTA
1 TCGCAATGCGA-ATTGGACTA
937568 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAA-TTGGACTA
937589 TCGCAAT
1 TCGCAAT
937596 CGCATTGCGA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
20 15 0.28
21 39 0.72
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (20 bp):
TCGCAATGCGAATTGGACTA
Found at i:938371 original size:21 final size:21
Alignment explanation
Indices: 938346--938468 Score: 96
Period size: 21 Copynumber: 5.9 Consensus size: 21
938336 GAATATGTAA
938346 ATCGCAATGCGATAGTCGACT
1 ATCGCAATGCGATAGTCGACT
*
938367 ATCGCAATGCGA-ACTTCGACT
1 ATCGCAATGCGATA-GTCGACT
*
938388 ATCGCAATGCGAATA-T-GTA-A
1 ATCGCAATGCG-ATAGTCG-ACT
*
938408 ATCGCAATGCGATAGTCGAAGT
1 ATCGCAATGCGATAGTCG-ACT
* * *
938430 -TCGCATTGCGATAGTCCAAGT
1 ATCGCAATGCGATAGT-CGACT
*
938451 -TCGCATTGCGATAGTCGA
1 ATCGCAATGCGATAGTCGA
938469 AGTTCGCGTT
Statistics
Matches: 87, Mismatches: 7, Indels: 17
0.78 0.06 0.15
Matches are distributed among these distances:
19 3 0.03
20 16 0.18
21 65 0.75
22 2 0.02
23 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (21 bp):
ATCGCAATGCGATAGTCGACT
Found at i:938461 original size:62 final size:62
Alignment explanation
Indices: 938331--938461 Score: 167
Period size: 62 Copynumber: 2.1 Consensus size: 62
938321 CAACGACGGT
* *
938331 ATTGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCAATGCGAACTTCGACTATCGC
1 ATTGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCAATGCGAACTCCAACTATCGC
* * * * *
938393 AATGCGAATATGTAAATCGCAATGCGATAGTCGAAGT-TCGCATTGCGATAGTCCAAGT-TCGC
1 ATTGCGAATATGTAAATCGCAATGCGATAGTCG-ACTATCGCAATGCGA-ACTCCAACTATCGC
938455 ATTGCGA
1 ATTGCGA
938462 TAGTCGAAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 52 0.88
63 7 0.12
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (62 bp):
ATTGCGAATATGTAAATCGCAATGCGATAGTCGACTATCGCAATGCGAACTCCAACTATCGC
Found at i:938471 original size:21 final size:21
Alignment explanation
Indices: 938409--938482 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
938399 AATATGTAAA
*
938409 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
938430 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
938451 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
938472 TCGCGTTGCGA
1 TCGCATTGCGA
938483 ATCTGGAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:939163 original size:22 final size:21
Alignment explanation
Indices: 939121--939163 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
939111 GTATGTTTAA
* **
939121 ATAATTTTAAAATATTTTTTC
1 ATAATTTTAAAAGATCATTTC
939142 ATAATATTTAAAAGATCATTTC
1 ATAAT-TTTAAAAGATCATTTC
939164 CTTATATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (21 bp):
ATAATTTTAAAAGATCATTTC
Found at i:939796 original size:21 final size:21
Alignment explanation
Indices: 939768--939811 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
939758 TTTTTCACCT
*
939768 TCCATGATG-GCTTTGAAGGA
1 TCCATGATGCGCTTTGAAAGA
*
939788 TCCATTGATGCTCTTTGAAAGA
1 TCCA-TGATGCGCTTTGAAAGA
939810 TC
1 TC
939812 AACTCGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 11 0.55
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (21 bp):
TCCATGATGCGCTTTGAAAGA
Found at i:951001 original size:2 final size:2
Alignment explanation
Indices: 950994--951020 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
950984 GCTTCTTGTT
950994 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 T
951021 GGCTTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:956997 original size:29 final size:29
Alignment explanation
Indices: 956963--957021 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
956953 CCTAAATTAA
956963 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
956992 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
957021 T
1 T
957022 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:961682 original size:29 final size:29
Alignment explanation
Indices: 961648--961706 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
961638 CCTAAATTAA
961648 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
961677 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
961706 T
1 T
961707 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:966258 original size:19 final size:19
Alignment explanation
Indices: 966235--966280 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
966225 TACAAATATA
966235 ATAGAGTATTTTTAATAGT
1 ATAGAGTATTTTTAATAGT
*
966254 CTAGAGTATTTTTAATAGT
1 ATAGAGTATTTTTAATAGT
966273 ATAGAGTA
1 ATAGAGTA
966281 ATTAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.43
Consensus pattern (19 bp):
ATAGAGTATTTTTAATAGT
Found at i:973861 original size:26 final size:26
Alignment explanation
Indices: 973801--973868 Score: 61
Period size: 26 Copynumber: 2.7 Consensus size: 26
973791 ATCATTTTAA
973801 TAAA-AATATTAATTATTAAAATATT
1 TAAATAATATTAATTATTAAAATATT
* * * * *
973826 TAAATTATATTATTTTTTAATATTTT
1 TAAATAATATTAATTATTAAAATATT
*
973852 TTAATAATA-TAA-TATTA
1 TAAATAATATTAATTATTA
973869 TATTTTTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
24 4 0.12
25 6 0.18
26 23 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TAAATAATATTAATTATTAAAATATT
Found at i:973953 original size:53 final size:53
Alignment explanation
Indices: 973853--974026 Score: 152
Period size: 53 Copynumber: 3.3 Consensus size: 53
973843 TAATATTTTT
*
973853 TAATAATATAATATTATATTTTTAATATTATAATAAAATAATCAATTATATTA
1 TAATAATATAATATTATATTTTTAATATTATAATAAAATAATAAATTATATTA
*
973906 TAATAATATAGATATTATATTTTT-AT-TT-TAATAATATATAATAAATTAT-TAA
1 TAATAATATA-ATATTATATTTTTAATATTATAATAA-A-ATAATAAATTATATTA
* * * *
973958 TAA-AAT-TTATATTAT-TTATTAAT-TTCAT-A-AAAATAATATTATTAAATTA
1 TAATAATATAATATTATATTTTTAATATT-ATAATAAAATAATA-AATTATATTA
974007 TTAATAATGAATAATATTAT
1 -TAATAAT--ATAATATTAT
974027 TTATATATTT
Statistics
Matches: 100, Mismatches: 8, Indels: 25
0.75 0.06 0.19
Matches are distributed among these distances:
47 6 0.06
48 9 0.09
49 15 0.15
50 5 0.05
51 13 0.13
52 8 0.08
53 23 0.23
54 21 0.21
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (53 bp):
TAATAATATAATATTATATTTTTAATATTATAATAAAATAATAAATTATATTA
Found at i:974027 original size:19 final size:19
Alignment explanation
Indices: 973991--974071 Score: 71
Period size: 19 Copynumber: 4.3 Consensus size: 19
973981 TTCATAAAAA
*
973991 TAAT-ATTATTAA-ATTAT
1 TAATAATTAATAATATTAT
*
974008 TAATAATGAATAATATTATT
1 TAATAATTAATAATATTA-T
* *
974028 TATATATTTAATAGTATTA-
1 TA-ATAATTAATAATATTAT
974047 TAATAATCTAATAATATT-T
1 TAATAAT-TAATAATATTAT
974066 TAATAA
1 TAATAA
974072 AGATATTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
17 4 0.08
18 10 0.20
19 21 0.41
20 3 0.06
21 13 0.25
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATAATTAATAATATTAT
Found at i:974085 original size:23 final size:23
Alignment explanation
Indices: 974066--974110 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
974056 AATAATATTT
974066 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
974089 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
974111 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:974246 original size:28 final size:30
Alignment explanation
Indices: 974215--974275 Score: 83
Period size: 28 Copynumber: 2.1 Consensus size: 30
974205 TATAAAAATA
*
974215 ATATTTTAATAATAAATAA-ATT-A-TTTTT
1 ATATTTTAAAAAT-AATAATATTAAGTTTTT
974243 ATATTTTAAAAATAATAATATTAAGTTTTT
1 ATATTTTAAAAATAATAATATTAAGTTTTT
974273 ATA
1 ATA
974276 ATAAATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 5 0.17
28 15 0.52
29 1 0.03
30 8 0.28
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
ATATTTTAAAAATAATAATATTAAGTTTTT
Found at i:976272 original size:22 final size:21
Alignment explanation
Indices: 976246--976293 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
976236 AATATGATTA
976246 TATTTACTCAAAAAATTTAAAT
1 TATTTACTCAAAAAA-TTAAAT
** *
976268 TATTTTGTTAAAAAATTAAAT
1 TATTTACTCAAAAAATTAAAT
976289 TATTT
1 TATTT
976294 GAGTGGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (21 bp):
TATTTACTCAAAAAATTAAAT
Found at i:987739 original size:32 final size:31
Alignment explanation
Indices: 987700--987826 Score: 132
Period size: 31 Copynumber: 4.1 Consensus size: 31
987690 AGAGTTGAGG
*
987700 GTATACCTATGTTCTAAGGAACATATGGATA
1 GTATACCTATGTTCTAAGGAACATATGGACA
***
987731 -TAATTACCTATG-TCTTTCGAGACATATGGACA
1 GT-A-TACCTATGTTCTAAGGA-ACATATGGACA
987763 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
* * ** *
987794 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 GTATACCTATGTTCTAAGGAACATATGGACA
987825 GT
1 GT
987827 TGTCGAGGAT
Statistics
Matches: 79, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
30 1 0.01
31 53 0.67
32 24 0.30
33 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (31 bp):
GTATACCTATGTTCTAAGGAACATATGGACA
Found at i:992186 original size:31 final size:31
Alignment explanation
Indices: 992113--992239 Score: 123
Period size: 31 Copynumber: 4.1 Consensus size: 31
992103 AGAGTTGAGG
* *
992113 GTATACCTATGTTCTAAGGAACATATGGATA
1 GTATACCTATGTTCTAACGAACATATGGACA
* **
992144 GAATTACCTATG-TCTTTCGAGACATATGGACA
1 GTA-TACCTATGTTCTAACGA-ACATATGGACA
*
992176 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTAACGAACATATGGACA
* * * *
992207 GTTTACCTAGGTTCT-TCGGAACCTATGGACA
1 GTATACCTATGTTCTAAC-GAACATATGGACA
992238 GT
1 GT
992240 TGCCGAGGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
31 53 0.68
32 25 0.32
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (31 bp):
GTATACCTATGTTCTAACGAACATATGGACA
Found at i:993187 original size:13 final size:14
Alignment explanation
Indices: 993169--993197 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
993159 CATATGTAAT
993169 TTAAGTG-ATTTAA
1 TTAAGTGCATTTAA
993182 TTAAGTGCATTTAA
1 TTAAGTGCATTTAA
993196 TT
1 TT
993198 TAATTTAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.48
Consensus pattern (14 bp):
TTAAGTGCATTTAA
Found at i:1001711 original size:29 final size:29
Alignment explanation
Indices: 1001671--1001851 Score: 299
Period size: 29 Copynumber: 6.2 Consensus size: 29
1001661 CGGTGGAGCT
* *
1001671 TGAAATTAATGGTTTATTCAACGGAGAGGA
1 TGAAA-TAATGGTTTATTCAATGGAGCGGA
1001701 TGAAATAATGGTTTATTCAATGGAGCGGA
1 TGAAATAATGGTTTATTCAATGGAGCGGA
*
1001730 TGAAATAATGGTTTATTCAACGGAGCGGA
1 TGAAATAATGGTTTATTCAATGGAGCGGA
*
1001759 TGAAATAATGGTTTATTCAATGGAGCGTA
1 TGAAATAATGGTTTATTCAATGGAGCGGA
1001788 TGAAATAATGGTTTATTCAATGGAGCGGA
1 TGAAATAATGGTTTATTCAATGGAGCGGA
* *
1001817 TGAAATAATGGTTTATTCAGTGGAGCAGA
1 TGAAATAATGGTTTATTCAATGGAGCGGA
1001846 TGAAAT
1 TGAAAT
1001852 TTCAATTTCA
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
29 138 0.97
30 5 0.03
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (29 bp):
TGAAATAATGGTTTATTCAATGGAGCGGA
Found at i:1007271 original size:20 final size:19
Alignment explanation
Indices: 1007241--1007281 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
1007231 TTTTATCACA
*
1007241 CTAAATTCTCTCAAATTCT
1 CTAAATTCTCTCAAATACT
1007260 CTAAATTTCTCTCAAATACT
1 CTAAA-TTCTCTCAAATACT
1007280 CT
1 CT
1007282 CTTTTTAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (19 bp):
CTAAATTCTCTCAAATACT
Found at i:1007283 original size:12 final size:10
Alignment explanation
Indices: 1007243--1007282 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
1007233 TTATCACACT
1007243 AAATTCTCTC
1 AAATTCTCTC
1007253 AAATTCTCT-
1 AAATTCTCTC
1007262 AAATTTCTCTC
1 AAA-TTCTCTC
*
1007273 AAATACTCTC
1 AAATTCTCTC
1007283 TTTTTAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTCTCTC
Found at i:1007617 original size:110 final size:111
Alignment explanation
Indices: 1007401--1007621 Score: 381
Period size: 110 Copynumber: 2.0 Consensus size: 111
1007391 GGATAGAAAT
* * *
1007401 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACCTTTTAATTTAATTTAAATTATTAGTAA
* * *
1007466 TATTTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
1007512 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACCTTTTAATTTAATTT-AATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACCTTTTAATTTAATTTAAATTATTAGTAA
1007576 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
1007622 TTTTTGTAAT
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
110 55 0.53
111 49 0.47
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACAGTAACATTTTAACCTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:1009482 original size:21 final size:21
Alignment explanation
Indices: 1009458--1009497 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1009448 ACCTGCTCAG
1009458 GACGACGACGATGACGATGGT
1 GACGACGACGATGACGATGGT
1009479 GACGACGACGATGACGATG
1 GACGACGACGATGACGATG
1009498 ACAGCGAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.38, T:0.12
Consensus pattern (21 bp):
GACGACGACGATGACGATGGT
Found at i:1009753 original size:35 final size:33
Alignment explanation
Indices: 1009714--1009798 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
1009704 ATATTTTAGT
1009714 TAATTTTGTT-TATTACAATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACAATTTAAT-TC--TTATTG
* *
1009749 TAATTTGGTTATCATTTACCATTTAATTCTTATTG
1 TAATTTTGTTAT-A-TTACAATTTAATTCTTATTG
* *
1009784 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
1009799 TAAATATCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 3 0.07
38 11 0.26
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACAATTTAATTCTTATTG
Found at i:1013460 original size:50 final size:49
Alignment explanation
Indices: 1013399--1013506 Score: 117
Period size: 49 Copynumber: 2.2 Consensus size: 49
1013389 CTCTACGTGG
* * * * * *
1013399 CGTATAGCGCGGATCAAGAGGCGCGCTATACCAACGTGGCGCCACATCAC
1 CGTATATCGCGGAGCAAGA-GAGCGCTATACCAACGTGACGCCAAATCAA
* * *
1013449 CGTATATCGCGGGGCAGGAGAGCGCTATACCCACGTGACGCCAAATCAA
1 CGTATATCGCGGAGCAAGAGAGCGCTATACCAACGTGACGCCAAATCAA
*
1013498 CATATATCG
1 CGTATATCG
1013507 TGGTGCAGAG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 33 0.69
50 15 0.31
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.16
Consensus pattern (49 bp):
CGTATATCGCGGAGCAAGAGAGCGCTATACCAACGTGACGCCAAATCAA
Found at i:1022541 original size:2 final size:2
Alignment explanation
Indices: 1022534--1022561 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1022524 TCAAATGAAG
1022534 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1022562 GCACACACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1027158 original size:48 final size:49
Alignment explanation
Indices: 1027086--1027186 Score: 177
Period size: 48 Copynumber: 2.1 Consensus size: 49
1027076 CATAGTTACC
*
1027086 ATTAATCTCTTTTCTTCTTCATTTTTGTTCATTATTTTTCATTTACTTT
1 ATTAATCTCTTTTCTTCTTCATTTTTATTCATTATTTTTCATTTACTTT
*
1027135 ATTACTCTC-TTTCTTCTTCATTTTTATTCATTATTTTTCATTTACTTT
1 ATTAATCTCTTTTCTTCTTCATTTTTATTCATTATTTTTCATTTACTTT
1027183 ATTA
1 ATTA
1027187 TAGCATATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 42 0.84
49 8 0.16
ACGTcount: A:0.18, C:0.17, G:0.01, T:0.64
Consensus pattern (49 bp):
ATTAATCTCTTTTCTTCTTCATTTTTATTCATTATTTTTCATTTACTTT
Found at i:1031404 original size:2 final size:2
Alignment explanation
Indices: 1031397--1031465 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
1031387 TTCTTTGGAA
1031397 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
1031439 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1031466 ATTCGATATC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1032337 original size:26 final size:27
Alignment explanation
Indices: 1032290--1032345 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
1032280 TCAATATTTA
* *
1032290 TTTTATATTTATATGAATTTAT-TATT
1 TTTTATATTTATATAAAATTATATATT
1032316 TTTTATATTGTATA-AAAATTATATATT
1 TTTTATATT-TATATAAAATTATATATT
1032343 TTT
1 TTT
1032346 GATCTATCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (27 bp):
TTTTATATTTATATAAAATTATATATT
Found at i:1032399 original size:27 final size:26
Alignment explanation
Indices: 1032364--1032415 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
1032354 TAAATAATTT
*
1032364 AAATAAAAAATAAAATATATATTTAAA
1 AAATAAAAAAAAAAATA-ATATTTAAA
* *
1032391 AAATTAAAAAAAAAATAATTTTTAA
1 AAATAAAAAAAAAAATAATATTTAA
1032416 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATAAAAAAAAAAATAATATTTAAA
Found at i:1033902 original size:29 final size:29
Alignment explanation
Indices: 1033860--1033915 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
1033850 ACTTAAACAA
1033860 CCAGAAGATAAAAAATCCTCAAAAAAAAT
1 CCAGAAGATAAAAAATCCTCAAAAAAAAT
1033889 CCAGAAGATAAAAAATCCTCAAAAAAA
1 CCAGAAGATAAAAAATCCTCAAAAAAA
1033916 CAACAACCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.62, C:0.18, G:0.07, T:0.12
Consensus pattern (29 bp):
CCAGAAGATAAAAAATCCTCAAAAAAAAT
Found at i:1033903 original size:16 final size:16
Alignment explanation
Indices: 1033860--1033906 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
1033850 ACTTAAACAA
1033860 CCAGAAGATAAAAAAT
1 CCAGAAGATAAAAAAT
**
1033876 CC-TCA-A-AAAAAAT
1 CCAGAAGATAAAAAAT
1033889 CCAGAAGATAAAAAAT
1 CCAGAAGATAAAAAAT
1033905 CC
1 CC
1033907 TCAAAAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 2 0.08
16 11 0.46
ACGTcount: A:0.60, C:0.19, G:0.09, T:0.13
Consensus pattern (16 bp):
CCAGAAGATAAAAAAT
Found at i:1043449 original size:5 final size:5
Alignment explanation
Indices: 1043439--1043464 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1043429 TATTTATGAG
1043439 TTAAT TTAAT TTAAT TTAAT TTAAT T
1 TTAAT TTAAT TTAAT TTAAT TTAAT T
1043465 GACATTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTAAT
Found at i:1052683 original size:25 final size:25
Alignment explanation
Indices: 1052634--1052687 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
1052624 CTACACCATC
1052634 TTAATTGAAAAATAATTAAAATATT
1 TTAATTGAAAAATAATTAAAATATT
*
1052659 TTAATT-AAAAATTA-TAAATATTATT
1 TTAATTGAAAAATAATTAAA-A-TATT
1052684 TTAA
1 TTAA
1052688 GAGTGTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 4 0.15
24 8 0.31
25 14 0.54
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TTAATTGAAAAATAATTAAAATATT
Found at i:1056642 original size:50 final size:50
Alignment explanation
Indices: 1056584--1056709 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
1056574 TTAGTAGGAA
* * * *
1056584 AGCGCGCCCCCTGAATCACGCTATATGCTGATTTGGCTCCACGTGGATAT
1 AGCGCGCCCCCTGAATCGCGCTATACGCTGATCTGGCGCCACGTGGATAT
*** * * *
1056634 AGCGCGCCCCCTGCCCCGCGATATACGGTGATCTGGCGCCACGTGGGTAT
1 AGCGCGCCCCCTGAATCGCGCTATACGCTGATCTGGCGCCACGTGGATAT
* *
1056684 AGCACGCCCCCTGATTCGCGCTATAC
1 AGCGCGCCCCCTGAATCGCGCTATAC
1056710 CTGGATATCT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.17, C:0.35, G:0.26, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGAATCGCGCTATACGCTGATCTGGCGCCACGTGGATAT
Found at i:1056827 original size:60 final size:60
Alignment explanation
Indices: 1056754--1056870 Score: 207
Period size: 60 Copynumber: 1.9 Consensus size: 60
1056744 AGAGGGCGTA
* * *
1056754 CTATACCCCTAAATACCCAACCCTTCATGTCCCCATCTCCCTATAAATATCCCATCCGCG
1 CTATACCCCTAAATACCCAACCCTTCACGTCCCCATCTCCCTATAAACACCCCATCCGCG
1056814 CTATACCCCTAAATACCCAACCCTTCACGTCCCCATCTCCCTATAAACACCCCATCC
1 CTATACCCCTAAATACCCAACCCTTCACGTCCCCATCTCCCTATAAACACCCCATCC
1056871 TCAATCACTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.27, C:0.46, G:0.03, T:0.23
Consensus pattern (60 bp):
CTATACCCCTAAATACCCAACCCTTCACGTCCCCATCTCCCTATAAACACCCCATCCGCG
Found at i:1056931 original size:12 final size:10
Alignment explanation
Indices: 1056890--1056930 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
1056880 TTTATCACAC
1056890 CAAATTCTCT
1 CAAATTCTCT
1056900 CAAATTCTCT
1 CAAATTCTCT
1056910 -AAATTTCTCT
1 CAAA-TTCTCT
*
1056920 CAAATACTCT
1 CAAATTCTCT
1056930 C
1 C
1056931 TTTTAAGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:1057247 original size:111 final size:111
Alignment explanation
Indices: 1057053--1057274 Score: 408
Period size: 111 Copynumber: 2.0 Consensus size: 111
1057043 TGAAAATCAT
* *
1057053 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
1057118 TATTTAGTTGATTGATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
1057164 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1057229 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
1057275 TTTTTGTAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (111 bp):
ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:1058796 original size:18 final size:18
Alignment explanation
Indices: 1058773--1058813 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1058763 CCCAGTAGCC
*
1058773 ACCGCAGCCATATATGAT
1 ACCGCAACCATATATGAT
1058791 ACCGCAACCATATATGAT
1 ACCGCAACCATATATGAT
*
1058809 GCCGC
1 ACCGC
1058814 CATCGCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.20
Consensus pattern (18 bp):
ACCGCAACCATATATGAT
Found at i:1059176 original size:21 final size:21
Alignment explanation
Indices: 1059152--1059191 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1059142 ACCTGCTCAG
1059152 GACGACGACGATGACGATGGT
1 GACGACGACGATGACGATGGT
*
1059173 GACGACGATGATGACGATG
1 GACGACGACGATGACGATG
1059192 ACGATGACAG
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:0.30, C:0.17, G:0.38, T:0.15
Consensus pattern (21 bp):
GACGACGACGATGACGATGGT
Found at i:1059188 original size:9 final size:9
Alignment explanation
Indices: 1059155--1059195 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
1059145 TGCTCAGGAC
1059155 GACGACGAT
1 GACGACGAT
* *
1059164 GACGATGGT
1 GACGACGAT
1059173 GACGACGAT
1 GACGACGAT
*
1059182 GATGACGAT
1 GACGACGAT
1059191 GACGA
1 GACGA
1059196 TGACAGCGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.32, C:0.17, G:0.37, T:0.15
Consensus pattern (9 bp):
GACGACGAT
Found at i:1068811 original size:21 final size:22
Alignment explanation
Indices: 1068783--1068823 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1068773 ACCTTAGTTC
1068783 ACATTAATG-AA-AGTAAAAGA
1 ACATTAATGCAAGAGTAAAAGA
1068803 ACATATAATGCAAGAGTAAAA
1 ACAT-TAATGCAAGAGTAAAA
1068824 TAGGGACTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 5 0.28
22 2 0.11
23 7 0.39
ACGTcount: A:0.59, C:0.07, G:0.15, T:0.20
Consensus pattern (22 bp):
ACATTAATGCAAGAGTAAAAGA
Found at i:1074723 original size:15 final size:15
Alignment explanation
Indices: 1074703--1074733 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1074693 CCATTGCAAG
1074703 GTGGGATGAAACTGA
1 GTGGGATGAAACTGA
1074718 GTGGGATGAAACTGA
1 GTGGGATGAAACTGA
1074733 G
1 G
1074734 GGTTTAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.42, T:0.19
Consensus pattern (15 bp):
GTGGGATGAAACTGA
Found at i:1089048 original size:3 final size:3
Alignment explanation
Indices: 1089035--1089081 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
1089025 TTTTTTATCG
1089035 TTA TT- TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
1089079 TTA
1 TTA
1089082 ATATCAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1089196 original size:25 final size:25
Alignment explanation
Indices: 1089163--1089239 Score: 136
Period size: 25 Copynumber: 3.1 Consensus size: 25
1089153 CAATCAACCC
*
1089163 ATCATATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1089188 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
1089213 AACAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1089238 AT
1 AT
1089240 GTTCCAGCCG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:1092753 original size:31 final size:32
Alignment explanation
Indices: 1092717--1092778 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1092707 ATTTTACATG
1092717 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
1092748 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1092779 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:1093325 original size:210 final size:210
Alignment explanation
Indices: 1092957--1093372 Score: 564
Period size: 210 Copynumber: 2.0 Consensus size: 210
1092947 ATGAGATTTT
* *
1092957 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCTAAGGAGTAATCCAGCAG
1 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCGAAGGAGTAATCCAACAG
* * * *
1093022 TAGATTCTCATCCACAATTATTCCATCGTTAACCATCAGGGAGTGAAGCACAAACTTCAGCATAG
66 TAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACAG
* * * * *
1093087 CCGAGGTATTAATGGAGTTAGTTTACAGAGCATAGAGGGGCATCGGTTCCAAGTACAAAGATCCG
131 CCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATCAGTTCCAAGGACAAAGATCCG
1093152 AGACGAAGCAGTGAG
196 AGACGAAGCAGTGAG
*
1093167 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCATTGATCCGAA-GAGTAATCCAACA
1 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGAT-CGAAGGAGTAATCCAACA
* * * * ** *
1093231 GTAGATTCTCATCTACAATTATTTCATCGCTATCCATCAAGGAGCGACGCACTGACTTCAGCACC
65 GTAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACA
* * * * * * * * *
1093296 GCCGGGGCATTAATGGTGTCAGATTACAGATCATTGAGGGGCATTATTTTCAAGGACGAAGATCT
130 GCCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATCAGTTCCAAGGACAAAGATCC
1093361 GAGACGAAGCAG
195 GAGACGAAGCAG
1093373 CGATCTATTT
Statistics
Matches: 177, Mismatches: 28, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
210 174 0.98
211 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (210 bp):
CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCGAAGGAGTAATCCAACAG
TAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACAG
CCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATCAGTTCCAAGGACAAAGATCCG
AGACGAAGCAGTGAG
Found at i:1095239 original size:26 final size:25
Alignment explanation
Indices: 1095210--1095286 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
1095200 AATTTTTGAC
1095210 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
*
1095236 ATTCTT-TC-----GACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
1095255 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
1095281 ATTCTT
1 ATTCTT
1095287 TCCACCTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 15
0.68 0.07 0.25
Matches are distributed among these distances:
19 13 0.32
20 2 0.05
21 2 0.05
24 2 0.05
25 3 0.08
26 18 0.45
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:1097656 original size:36 final size:34
Alignment explanation
Indices: 1097610--1097679 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
1097600 ATTTTTCTAA
* * *
1097610 AAAATAAATTTTGTCTCGCTTGAGACAATTTATTTC
1 AAAACAAATTTCGTCTCACTTGAGAC-ATTT-TTTC
*
1097646 AAAACAAATTTCGTCTCATTTGAGACATTTTTTC
1 AAAACAAATTTCGTCTCACTTGAGACATTTTTTC
1097680 CTTTGAGATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.13
35 4 0.13
36 22 0.73
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (34 bp):
AAAACAAATTTCGTCTCACTTGAGACATTTTTTC
Found at i:1097816 original size:195 final size:196
Alignment explanation
Indices: 1097471--1097847 Score: 586
Period size: 195 Copynumber: 1.9 Consensus size: 196
1097461 ATTCAGTCCC
1097471 TTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTCA
1 TTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTCA
* *
1097536 TTTGAGATCGTATCTATTTCAAAACAAATTTTGTCCCTTGAGACATTTTTCCACAAACTTTGAGA
66 TTTGAGATCGTATCTATTTCAAAACAAATTTTGTCCCTGGAGACAGTTTTCCACAAACTTTGAGA
* *
1097601 TTTTTCTAAAAA-ATAAATTTTGTCTC-GC-TTGAGACAATTTATTTCAAAACAAATTTCGTCTC
131 TATTTCTAAAAACA-AATTTTTGTCTCAGCTTTGAGACAATTTATTTCAAAACAAATTTCGTCTC
1097663 AT
195 AT
1097665 TTGAGACATTTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTC
1 TTGAGACA-TTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTC
* *
1097730 ATTTGAGATCGTATCTATTTCAAAACAAAATTTTTGTCTCACTGGAGATAGTTTTCCACAAATTT
65 ATTTGAGATCGTATCTATTTCAAAAC-AAA-TTTTGTC-C-CTGGAGACAGTTTTCCACAAACTT
* *
1097795 TGAGA-ATTT-T-AAAACAAATTTTTGTCTCATCTTTGAGACAATTTCTTTCAAAA
126 TGAGATATTTCTAAAAACAAATTTTTGTCTCAGCTTTGAGACAATTTATTTCAAAA
1097848 ATTTTGTCTC
Statistics
Matches: 167, Mismatches: 8, Indels: 12
0.89 0.04 0.06
Matches are distributed among these distances:
194 8 0.05
195 82 0.49
196 18 0.11
197 10 0.06
198 24 0.14
199 25 0.15
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (196 bp):
TTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTCA
TTTGAGATCGTATCTATTTCAAAACAAATTTTGTCCCTGGAGACAGTTTTCCACAAACTTTGAGA
TATTTCTAAAAACAAATTTTTGTCTCAGCTTTGAGACAATTTATTTCAAAACAAATTTCGTCTCA
T
Found at i:1097885 original size:35 final size:35
Alignment explanation
Indices: 1097846--1097920 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
1097836 TTTCTTTCAA
*
1097846 AAATTTTGTCTCGATCGAGACAGCTTTCT-AAAAAC
1 AAATTTTGTCTCGATCGAGACA-ATTTCTGAAAAAC
* *
1097881 AAATTTTGTCTCGTTTGAGACAATTTCTGAAAAAC
1 AAATTTTGTCTCGATCGAGACAATTTCTGAAAAAC
1097916 AAATT
1 AAATT
1097921 CCGCCTTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 5 0.14
35 31 0.86
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (35 bp):
AAATTTTGTCTCGATCGAGACAATTTCTGAAAAAC
Found at i:1098103 original size:36 final size:36
Alignment explanation
Indices: 1098022--1098103 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
1098012 ATTTTGTTTT
* *
1098022 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
* * *
1098058 ACTTAAGACAAATTCTCTT-AAAACAAA-TTGCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAAGTT-CGTATC
1098094 GCTTGAGACA
1 GCTTGAGACA
1098104 TTTTCCTTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 2 0.05
36 33 0.89
37 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
Found at i:1098189 original size:103 final size:105
Alignment explanation
Indices: 1098077--1098264 Score: 272
Period size: 104 Copynumber: 1.8 Consensus size: 105
1098067 AAATTCTCTT
*
1098077 AAAACAAATTGCGTCTCGCTTGAGACATTTT-CCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTGCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
1098140 TAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTC
66 TAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTC
** * * * *
1098180 AAAACAAATTTTGTTTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTGCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* * *
1098245 TTAAACAAAGTTGATCTCAC
66 TAAAACAAAATTAATCTCAC
1098265 TTGAGATCGT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
103 27 0.37
104 29 0.40
105 17 0.23
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (105 bp):
AAAACAAATTGCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTC
Found at i:1098373 original size:36 final size:36
Alignment explanation
Indices: 1098292--1098373 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
1098282 ATTTTGTTTT
* *
1098292 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
* * *
1098328 ACTTAAGACAAATTCTCTT-AAAACAAA-TTGCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAAGTT-CGTATC
1098364 GCTTGAGACA
1 GCTTGAGACA
1098374 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 2 0.05
36 33 0.89
37 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
Found at i:1098513 original size:272 final size:272
Alignment explanation
Indices: 1097944--1098813 Score: 1678
Period size: 272 Copynumber: 3.2 Consensus size: 272
1097934 GACATTTTCA
*
1097944 TTGAGATACAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1098009 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
66 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
1098074 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTTGAATTTGATTCA
131 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTTGAATTTGATTCA
1098139 CT-AAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTGA
196 CTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTGA
1098203 GACCTTTTCCCT
261 GACCTTTTCCCT
1098215 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1098280 C-AATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
66 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
1098344 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTC
131 CTTAAAACAAATTGCGTCTCGCTTGAGACA-TTTTCCTTTGAGATACAAATTTTGAATTTGATTC
1098409 ACTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTG
195 ACTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTG
1098474 AGACCTTTTCCCT
260 AGACCTTTTCCCT
1098487 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1098552 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
66 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
1098617 CTT-AAACAAATTGCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTTGAATTTGATTCA
131 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTTGAATTTGATTCA
1098681 CTAAAAACAAAATTAATCTCACCTT--ATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTGA
196 CTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTGA
1098744 GACCTTTTCCCT
261 GACCTTTTCCCT
*
1098756 TTGAGATCCAAATTTCGGATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATC
1 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATC
1098814 ATTTCTCGAA
Statistics
Matches: 594, Mismatches: 2, Indels: 8
0.98 0.00 0.01
Matches are distributed among these distances:
269 107 0.18
270 93 0.16
271 162 0.27
272 166 0.28
273 66 0.11
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (272 bp):
TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTCCTTTGAGATACAAATTTTGAATTTGATTCA
CTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTGA
GACCTTTTCCCT
Found at i:1099208 original size:29 final size:29
Alignment explanation
Indices: 1099166--1099272 Score: 141
Period size: 29 Copynumber: 3.8 Consensus size: 29
1099156 TTTCTCTTGA
1099166 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
1099195 AAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
* * *
1099224 AAATATCTTTGAG-TCGTTTCTTTTG---
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
1099249 AAAAATCTTTGAGTTTGTTTCTTT
1 AAAAATCTTTGAGTTTGTTCCTTT
1099273 GGAAACAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.17
26 9 0.13
28 10 0.14
29 39 0.56
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:1099345 original size:67 final size:66
Alignment explanation
Indices: 1099249--1099403 Score: 256
Period size: 67 Copynumber: 2.3 Consensus size: 66
1099239 GTTTCTTTTG
* * *
1099249 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAGTTTCTTTTGAA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATA-ATTCTTTTGAA
1099314 AC
65 AC
*
1099316 AAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAAA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAAA
1099381 C
66 C
*
1099382 AAAAATCTTTGAATCTGTTTCT
1 AAAAATCTTTGAGTCTGTTTCT
1099404 CTTAAAATGA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
66 33 0.40
67 50 0.60
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (66 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAAA
C
Found at i:1099440 original size:66 final size:66
Alignment explanation
Indices: 1099249--1099464 Score: 226
Period size: 66 Copynumber: 3.3 Consensus size: 66
1099239 GTTTCTTTTG
* * * * *
1099249 AAAAATCTTTGAGTTTGTTTCT-TTGGAAACAAAATTTTTTCTCTCTTAAGATAGTTTCTTTTGA
1 AAAAATCTTTGAATCTGTTTCTCTT-GAAACAAAATTTTGTATCTCTTAAGA-CGTTTCTTTTGA
1099313 AAC
64 AAC
* * * ***
1099316 AAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTCTTTTGAAA
1 AAAAATCTTTGAATCTGTTTCTCTTGAAACAAAATTTTGTATCTCTTAAGACGTTTCTTTTGAAA
1099381 C
66 C
* *
1099382 AAAAATCTTTGAATCTGTTTCTCTT-AAA-ATGAATTTTGTATCTCTTGAGACCGTTTCTTTTGA
1 AAAAATCTTTGAATCTGTTTCTCTTGAAACA-AAATTTTGTATCTCTTAAGA-CGTTTCTTTTGA
*
1099445 AGC
64 AAC
*
1099448 --AAATCTTTGAATATGTT
1 AAAAATCTTTGAATCTGTT
1099465 CATTTTGAAA
Statistics
Matches: 131, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
64 17 0.13
65 20 0.15
66 46 0.35
67 46 0.35
68 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (66 bp):
AAAAATCTTTGAATCTGTTTCTCTTGAAACAAAATTTTGTATCTCTTAAGACGTTTCTTTTGAAA
C
Found at i:1099780 original size:28 final size:28
Alignment explanation
Indices: 1099743--1099808 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
1099733 AGACAATTTG
*
1099743 TGAAAAAAATCTTTGAGATTGTTTCTTT
1 TGAAAAAAATCTTTGAGATTGTTTCCTT
*
1099771 TGAAAAAAATCTTTGAGTTTGTTTCCTT
1 TGAAAAAAATCTTTGAGATTGTTTCCTT
*
1099799 TGAAACAAAT
1 TGAAAAAAAT
1099809 TGTGTCTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (28 bp):
TGAAAAAAATCTTTGAGATTGTTTCCTT
Found at i:1099855 original size:87 final size:90
Alignment explanation
Indices: 1099672--1099868 Score: 260
Period size: 87 Copynumber: 2.2 Consensus size: 90
1099662 CTTAAAGACA
*
1099672 ATTTCTTTTGAAAAAAATCTTTGAGTCTATTTTACTTTGAAACAAAGTTTTGTCTCTCTTGAGAC
1 ATTTCTTTTGAAAAAAATCTTTGAGTCTATTTTACTTTGAAACAAAGTTGTGTCTCTC-TGAGAC
1099737 AATTTGTGAAAAAAATCTTTGAGATT
65 AATTTGTGAAAAAAATCTTTGAGATT
* *
1099763 GTTTCTTTTGAAAAAAATCTTTGAGT-T-TGTTTCCTTTGAAACAAA-TTGTGTCTCTC-GAGAC
1 ATTTCTTTTGAAAAAAATCTTTGAGTCTAT-TTTACTTTGAAACAAAGTTGTGTCTCTCTGAGAC
* * *
1099824 AGTCTT-TGAGAAAAATCTTTGAGTTT
65 AAT-TTGTGAAAAAAATCTTTGAGATT
*
1099850 ATTTCTTTGGAAACAAAAT
1 ATTTCTTTTGAAA-AAAAT
1099869 TTACCATCTT
Statistics
Matches: 95, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
87 36 0.38
88 7 0.07
89 11 0.12
90 16 0.17
91 25 0.26
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (90 bp):
ATTTCTTTTGAAAAAAATCTTTGAGTCTATTTTACTTTGAAACAAAGTTGTGTCTCTCTGAGACA
ATTTGTGAAAAAAATCTTTGAGATT
Found at i:1099925 original size:35 final size:36
Alignment explanation
Indices: 1099859--1099933 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
1099849 TATTTCTTTG
* *
1099859 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
1099895 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
1099930 GAAA
1 GAAA
1099934 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:1100418 original size:43 final size:43
Alignment explanation
Indices: 1100358--1100609 Score: 172
Period size: 43 Copynumber: 5.8 Consensus size: 43
1100348 TCATTCCCCG
* *
1100358 ACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * * *
1100401 ACCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * * * * **
1100447 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
*
1100487 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * * * *
1100530 AACAG-CCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * *
1100576 GCCAAGAACTCTTCATCACGTAGGAGCCGTGTCA
1 ACC-AGACCTCCTCATCACGTAGGAGCCGTGTCA
1100610 CCTTTAGACG
Statistics
Matches: 157, Mismatches: 38, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
40 33 0.21
42 2 0.01
43 54 0.34
44 2 0.01
45 6 0.04
46 35 0.22
47 24 0.15
48 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
Found at i:1100503 original size:40 final size:40
Alignment explanation
Indices: 1100320--1100519 Score: 154
Period size: 40 Copynumber: 4.8 Consensus size: 40
1100310 CTTTAGATGG
*
1100320 CCAGAACT-CTCATCACGTATGAGCCGTGTCATTCCCC-GA
1 CCAGAACTCCTCATCACGTAGGAGCCGTGTCA-TCCCCAGA
* * * **
1100359 CCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGAACTCCTCATCACGTAGGAGCCGTGTCATCCCCAG---A
* * * * *
1100402 CCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGA
1 CCAGAAC-TCCTCATCACGTAGGAGCCGTGTCATC-CC--CAGA
* *
1100445 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
1 ---CCAGAACTCCTCATCACGTAGGAGCCGTGTCATCCCCAGA
*
1100488 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA
1 CCAGAACTCCTCATCACGTAGGAGCCGTGTCA
1100520 ACCATAGATA
Statistics
Matches: 125, Mismatches: 23, Indels: 25
0.72 0.13 0.14
Matches are distributed among these distances:
39 9 0.07
40 51 0.41
42 1 0.01
43 31 0.25
44 1 0.01
45 2 0.02
46 29 0.23
47 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (40 bp):
CCAGAACTCCTCATCACGTAGGAGCCGTGTCATCCCCAGA
Found at i:1100524 original size:129 final size:129
Alignment explanation
Indices: 1100268--1100609 Score: 598
Period size: 129 Copynumber: 2.7 Consensus size: 129
1100258 ATTATCCTAG
*
1100268 AGATAACCAGCCGTCCTCGTCATGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTC-TCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
1100332 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
* *
1100396 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1100461 TCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
1100525 AGATAAACAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCTTC
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTC
*
1100590 ATCACGTAGGAGCCGTGTCA
65 ATCACGTATGAGCCGTGTCA
1100610 CCTTTAGACG
Statistics
Matches: 203, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
128 63 0.31
129 111 0.55
130 29 0.14
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:1100640 original size:43 final size:44
Alignment explanation
Indices: 1100306--1100651 Score: 154
Period size: 43 Copynumber: 8.0 Consensus size: 44
1100296 AACCGTGTTA
* * *
1100306 TCACCTTTAGATGGCC-AGAACTC-TCATCACGTATGAGCCGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
*** *
1100348 TCA---TTCCCCGACC-AGATCTCTTCATCACGTAGGAGCCGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
* ** * * * *
1100388 TCAACC-ATAGATAACC-AG-CCGTCCTCATCACGTAGGAACCATGTTA
1 TC-ACCTTTAGACGACCAAGAAC-TCTTCATCACGTAGGAGCC--G-TG
* * *
1100434 TCACCTTTAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
** * *
1100477 TCATCC---CCA-GACC-AGATCTCCTCATCACGTAGGAGCCGTG
1 TCA-CCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
* ** * * * * *
1100517 TCAACC-ATAGATAAAC-AG-CCGTCCTCGTCACGTAGGAACCGTG
1 TC-ACCTTTAGACGACCAAGAAC-TCTTCATCACGTAGGAGCCGTG
* *
1100560 TTATCACCTTTAGATGGCCAAGAACTCTTCATCACGTAGGAGCCGTG
1 ---TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
* * *
1100607 TCACCTTTAGACGACCCA-AACTCTTCATCACGTATGAGCAGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
1100650 TC
1 TC
1100652 GTCCCCAACA
Statistics
Matches: 231, Mismatches: 51, Indels: 43
0.71 0.16 0.13
Matches are distributed among these distances:
39 11 0.05
40 51 0.22
41 3 0.01
42 6 0.03
43 76 0.33
44 18 0.08
45 7 0.03
46 36 0.16
47 22 0.10
48 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (44 bp):
TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
Found at i:1100821 original size:3 final size:3
Alignment explanation
Indices: 1100808--1100854 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
1100798 TTTTTTATCG
1100808 TTA TT- TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
1100852 TTA
1 TTA
1100855 ATATCAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1100969 original size:25 final size:25
Alignment explanation
Indices: 1100936--1101012 Score: 136
Period size: 25 Copynumber: 3.1 Consensus size: 25
1100926 CAATCAACCC
*
1100936 ATCATATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1100961 ATCAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
*
1100986 AACAGATTAGGGTTTCAAACCCTAA
1 ATCAGATTAGGGTTTCAAACCCTAA
1101011 AT
1 AT
1101013 GTTCCAGCCG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (25 bp):
ATCAGATTAGGGTTTCAAACCCTAA
Found at i:1104525 original size:31 final size:32
Alignment explanation
Indices: 1104489--1104550 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1104479 ATTTTACATG
1104489 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
1104520 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1104551 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:1105096 original size:210 final size:210
Alignment explanation
Indices: 1104728--1105143 Score: 564
Period size: 210 Copynumber: 2.0 Consensus size: 210
1104718 ATGAGATTTT
* *
1104728 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCTAAGGAGTAATCCAGCAG
1 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCGAAGGAGTAATCCAACAG
* * * *
1104793 TAGATTCTCATCCACAATTATTCCATCGTTAACCATCAGGGAGTGAAGCACAAACTTCAGCATAG
66 TAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACAG
* * * * *
1104858 CCGAGGTATTAATGGAGTTAGTTTACAGAGCATAGAGGGGCATCGGTTCCAAGTACAAAGATCCG
131 CCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATCAGTTCCAAGGACAAAGATCCG
1104923 AGACGAAGCAGTGAG
196 AGACGAAGCAGTGAG
*
1104938 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCATTGATCCGAA-GAGTAATCCAACA
1 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGAT-CGAAGGAGTAATCCAACA
* * * * ** *
1105002 GTAGATTCTCATCTACAATTATTTCATCGCTATCCATCAAGGAGCGACGCACTGACTTCAGCACC
65 GTAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACA
* * * * * * * * *
1105067 GCCGGGGCATTAATGGTGTCAGATTACAGATCATTGAGGGGCATTATTTTCAAGGACGAAGATCT
130 GCCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATCAGTTCCAAGGACAAAGATCC
1105132 GAGACGAAGCAG
195 GAGACGAAGCAG
1105144 CGATCTATTT
Statistics
Matches: 177, Mismatches: 28, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
210 174 0.98
211 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (210 bp):
CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCGAAGGAGTAATCCAACAG
TAGATTCTCATCCACAATTATTCCATCGCTAACCATCAAGGAGCGAAGCACAAACTTCAGCACAG
CCGAGGCATTAATGGAGTCAGATTACAGAGCATAGAGGGGCATCAGTTCCAAGGACAAAGATCCG
AGACGAAGCAGTGAG
Found at i:1107014 original size:26 final size:25
Alignment explanation
Indices: 1106985--1107062 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
1106975 AATTTTTGAC
1106985 ATTCTATCTCTTTGAGACCTTGAAAT
1 ATTCT-TCTCTTTGAGACCTTGAAAT
* *
1107011 A---TTCT-TTT-CGACCTTGAAAC
1 ATTCTTCTCTTTGAGACCTTGAAAT
*
1107031 ATTCCCTCTCTTTGAGACCTTGAAAT
1 ATT-CTTCTCTTTGAGACCTTGAAAT
1107057 ATTCTT
1 ATTCTT
1107063 TCCACCTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
20 11 0.28
21 3 0.08
22 3 0.08
23 1 0.03
24 3 0.08
25 5 0.12
26 14 0.35
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
ATTCTTCTCTTTGAGACCTTGAAAT
Found at i:1107023 original size:20 final size:20
Alignment explanation
Indices: 1107000--1107074 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
1106990 ATCTCTTTGA
1107000 GACCTTGAAATATTCTTTTC
1 GACCTTGAAATATTCTTTTC
* *
1107020 GACCTTGAAACATTCCCTCTCTTTGA
1 GACCTTGAAATA-T---TCT-TTT-C
1107046 GACCTTGAAATATTC-TTTC
1 GACCTTGAAATATTCTTTTC
*
1107065 CACCTTGAAA
1 GACCTTGAAA
1107075 CACTGTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.20
20 14 0.32
21 1 0.02
22 2 0.05
24 3 0.07
25 4 0.09
26 11 0.25
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (20 bp):
GACCTTGAAATATTCTTTTC
Found at i:1109436 original size:36 final size:34
Alignment explanation
Indices: 1109390--1109459 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 34
1109380 ATTTTTCTAA
* * *
1109390 AAAATAAATTTTGTCTCGCTTGAGACAATTTATTTC
1 AAAACAAATTTCGTCTCACTTGAGAC-ATTT-TTTC
*
1109426 AAAACAAATTTCGTCTCATTTGAGACATTTTTTC
1 AAAACAAATTTCGTCTCACTTGAGACATTTTTTC
1109460 CTTTGAGATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.13
35 4 0.13
36 22 0.73
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (34 bp):
AAAACAAATTTCGTCTCACTTGAGACATTTTTTC
Found at i:1109600 original size:196 final size:197
Alignment explanation
Indices: 1109250--1109640 Score: 612
Period size: 196 Copynumber: 2.0 Consensus size: 197
1109240 ATTCAGTCCC
1109250 TTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTCA
1 TTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTCA
* *
1109315 TTTGAGATCGTATCTATTTCAAAACAAATTTTTGTCCCTTGAGACATTTTTCCACAAACTTTGAG
66 TTTGAGATCGTATCTATTTCAAAACAAATTTTTGTCCCTGGAGACAGTTTTCCACAAACTTTGAG
*
1109380 ATTTTTCTAAAAAATAAATTTTGTCTC-GC-TTGAGACAATTTATTTCAAAACAAATTTCGTCTC
131 ATATTTCTAAAAAATAAATTTTGTCTCAGCTTTGAGACAATTTATTTCAAAACAAATTTCGTCTC
1109443 AT
196 AT
1109445 TTGAGACATTTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTC
1 TTGAGACA-TTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTC
* *
1109510 ATTTGAGATCGTATCTATTTCAAAACAAAATTTTTGTCTCACTGGAGATAGTTTTCCACAAATTT
65 ATTTGAGATCGTATCTATTTCAAAAC-AAATTTTTGTC-C-CTGGAGACAGTTTTCCACAAACTT
* * * * * *
1109575 TGAGA-ATTT-TAAAACA-AATTTTTGTCTCATCTTTGAGACAATTTCTTTCAAAGCAAATTTTG
127 TGAGATATTTCTAAAAAATAAATTTTGTCTCAGCTTTGAGACAATTTATTTCAAAACAAATTTCG
1109637 TCTC
192 TCTC
1109641 GATCGAGACA
Statistics
Matches: 179, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
195 8 0.04
196 93 0.52
197 18 0.10
198 35 0.20
199 25 0.14
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.41
Consensus pattern (197 bp):
TTGAGACATTTTTCCTTTGAGATCCAAATTTTGAATTTGTTTCACATTAAACAAAGTTGATCTCA
TTTGAGATCGTATCTATTTCAAAACAAATTTTTGTCCCTGGAGACAGTTTTCCACAAACTTTGAG
ATATTTCTAAAAAATAAATTTTGTCTCAGCTTTGAGACAATTTATTTCAAAACAAATTTCGTCTC
AT
Found at i:1109671 original size:35 final size:36
Alignment explanation
Indices: 1109585--1109704 Score: 120
Period size: 35 Copynumber: 3.3 Consensus size: 36
1109575 TGAGAATTTT
**
1109585 AAAACAAATTTTTGTCTC-ATCTTTGAGACAATTTCTTTC
1 AAAACAAA-TTTTGTCTCGATC---GAGACAATTTCTTGA
* *
1109624 AAAGCAAATTTTGTCTCGATCGAGACAGCTTTC-T-A
1 AAAACAAATTTTGTCTCGATCGAGACA-ATTTCTTGA
* *
1109659 AAAACAAATTTTGTCTCGTTTGAGACAATTTCTTGA
1 AAAACAAATTTTGTCTCGATCGAGACAATTTCTTGA
1109695 AAAACAAATT
1 AAAACAAATT
1109705 CCGCCTTACT
Statistics
Matches: 70, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
34 4 0.06
35 25 0.36
36 18 0.26
37 4 0.06
38 9 0.13
39 10 0.14
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.37
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCGATCGAGACAATTTCTTGA
Found at i:1109888 original size:36 final size:36
Alignment explanation
Indices: 1109807--1109888 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
1109797 ATTTTGTTTT
* *
1109807 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
* * *
1109843 ACTTAAGACAAATTCTCTT-AAAACAAA-TTGCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAAGTT-CGTATC
1109879 GCTTGAGACA
1 GCTTGAGACA
1109889 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 2 0.05
36 33 0.89
37 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
Found at i:1110161 original size:36 final size:36
Alignment explanation
Indices: 1110080--1110161 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
1110070 ATTTTGTTTT
* *
1110080 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
* * *
1110116 ACTTAAGACAAATTCTCTT-AAAACAAA-TTGCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAAGTT-CGTATC
1110152 GCTTGAGACA
1 GCTTGAGACA
1110162 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 2 0.05
36 33 0.89
37 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
Found at i:1110433 original size:36 final size:36
Alignment explanation
Indices: 1110352--1110433 Score: 87
Period size: 36 Copynumber: 2.3 Consensus size: 36
1110342 ATTTTGTTTT
* *
1110352 GCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATC
1 GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
* * *
1110388 ACTTAAGACAAATTCTCTT-AAAACAAA-TTGCGTCTC
1 GCTTGAGACAAATTCT-TTAAAAACAAAGTT-CGTATC
1110424 GCTTGAGACA
1 GCTTGAGACA
1110434 TTTTTCCTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 2 0.05
36 33 0.89
37 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (36 bp):
GCTTGAGACAAATTCTTTAAAAACAAAGTTCGTATC
Found at i:1110462 original size:272 final size:273
Alignment explanation
Indices: 1109729--1110604 Score: 1727
Period size: 273 Copynumber: 3.2 Consensus size: 273
1109719 ACATTTTTCA
*
1109729 TTGAGATACAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1109794 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
66 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
1109859 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTC
131 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTC
1109924 ACTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTG
196 ACTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTG
1109989 AGACCTTTTCCCT
261 AGACCTTTTCCCT
1110002 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1110067 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
66 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
1110132 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTC
131 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTC
1110197 ACTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAA-TTTGTTTCGCTTG
196 ACTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTG
1110261 AGACCTTTTCCCT
261 AGACCTTTTCCCT
1110274 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
1110339 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
66 CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
1110404 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTC
131 CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTC
1110469 ACTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTG
196 ACTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTG
1110534 AGACCTTTTCCCT
261 AGACCTTTTCCCT
*
1110547 TTGAGATCCAAATTTCGGATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATC
1 TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATC
1110605 ATTTCTCGAA
Statistics
Matches: 600, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
272 272 0.45
273 328 0.55
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (273 bp):
TTGAGATCCAAATTTCGAATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCT
CAAATTTTGTTTTGCTTGAGACAATTTCTTTAAAAACAAAGTTTGTATCACTTAAGACAAATTCT
CTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTC
ACTAAAAACAAAATTAATCTCACCTTAGATTGTTGCTTCTTTCAAAACAAATTTTGTTTCGCTTG
AGACCTTTTCCCT
Found at i:1111000 original size:29 final size:29
Alignment explanation
Indices: 1110958--1111064 Score: 141
Period size: 29 Copynumber: 3.8 Consensus size: 29
1110948 TTTCTCTTGA
1110958 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
1110987 AAAAATCTTGGAGTTTGTTCCTTTTGAAT
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
* * *
1111016 AAATATCTTTGAG-TCGTTTCTTTTG---
1 AAAAATCTTTGAGTTTGTTCCTTTTGAAT
*
1111041 AAAAATCTTTGAGTTTGTTTCTTT
1 AAAAATCTTTGAGTTTGTTCCTTT
1111065 GGAAACAAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.17
26 9 0.13
28 10 0.14
29 39 0.56
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.50
Consensus pattern (29 bp):
AAAAATCTTTGAGTTTGTTCCTTTTGAAT
Found at i:1111099 original size:37 final size:36
Alignment explanation
Indices: 1111057--1111178 Score: 123
Period size: 37 Copynumber: 3.5 Consensus size: 36
1111047 CTTTGAGTTT
*
1111057 GTTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAA-TTTTTCTCTCTTAAGATA
* * *
1111094 GTTTCTTTTGAAACAAAA-----ATCT-TTGAG-TCT
1 GTTTCTTTTGAAACAAAATTTTTCTCTCTTAAGAT-A
1111124 GTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAATTTT-TCTCTCTTAAGATA
*
1111161 ATTTCTTTTGAAACAAAA
1 GTTTCTTTTGAAACAAAA
1111179 ATCTTTGAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
29 1 0.01
30 22 0.32
31 3 0.04
36 3 0.04
37 38 0.56
38 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (36 bp):
GTTTCTTTTGAAACAAAATTTTTCTCTCTTAAGATA
Found at i:1111137 original size:67 final size:67
Alignment explanation
Indices: 1111041--1111196 Score: 267
Period size: 67 Copynumber: 2.3 Consensus size: 67
1111031 GTTTCTTTTG
* * *
1111041 AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATAGTTTCTTTTGAA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
1111106 AC
66 AC
*
1111108 AAAAATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
1 AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
1111173 AC
66 AC
*
1111175 AAAAATCTTTGAATCTGTTTCT
1 AAAAATCTTTGAGTCTGTTTCT
1111197 CTTAAAATGA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 84 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (67 bp):
AAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGATAATTTCTTTTGAA
AC
Found at i:1111577 original size:28 final size:28
Alignment explanation
Indices: 1111539--1111605 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
1111529 GACAATTTTG
*
1111539 TGAAAAAAATCTTTGAGATTGTTTCTTT
1 TGAAAAAAATCTTTGAGATTGTTTCCTT
*
1111567 TGAAAAAAATCTTTGAGTTTGTTTCCTT
1 TGAAAAAAATCTTTGAGATTGTTTCCTT
1111595 TGAAACAAAAT
1 TGAAA-AAAAT
1111606 TGTGTCTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 31 0.86
29 5 0.14
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (28 bp):
TGAAAAAAATCTTTGAGATTGTTTCCTT
Found at i:1111722 original size:35 final size:36
Alignment explanation
Indices: 1111656--1111730 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
1111646 TATTTCTTTG
* *
1111656 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
1111692 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
1111727 GAAA
1 GAAA
1111731 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:1112216 original size:43 final size:43
Alignment explanation
Indices: 1112156--1112407 Score: 172
Period size: 43 Copynumber: 5.8 Consensus size: 43
1112146 TCATTCCCCG
* *
1112156 ACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * * *
1112199 ACCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * * * * **
1112245 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAG---
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
*
1112285 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
* * * * * *
1112328 AACAG-CCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-ATAGATA
* * *
1112374 GCCAAGAACTCTTCATCACGTAGGAGCCGTGTCA
1 ACC-AGACCTCCTCATCACGTAGGAGCCGTGTCA
1112408 CCTTTAGACG
Statistics
Matches: 157, Mismatches: 38, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
40 33 0.21
42 2 0.01
43 54 0.34
44 2 0.01
45 6 0.04
46 35 0.22
47 24 0.15
48 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
ACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
Found at i:1112300 original size:129 final size:129
Alignment explanation
Indices: 1112065--1112407 Score: 607
Period size: 129 Copynumber: 2.7 Consensus size: 129
1112055 ATTATCCTAG
*
1112065 AGATAACCAGCCGTCCTCGTCATGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
1112130 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
* *
1112194 AGATAACCAGCCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1112259 TCACGTATGAGCCGTGTCA-TCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
1112323 AGATAAACAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAAGAACTCTTC
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCC-AGAACTCTTC
*
1112388 ATCACGTAGGAGCCGTGTCA
65 ATCACGTATGAGCCGTGTCA
1112408 CCTTTAGACG
Statistics
Matches: 204, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
128 5 0.02
129 170 0.83
130 29 0.14
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:1112301 original size:40 final size:40
Alignment explanation
Indices: 1112117--1112317 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 40
1112107 CTTTAGATGG
*
1112117 CCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCC-GA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCA-TCCCCAGA
* * **
1112157 CCAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAG---A
* * * * * *
1112200 CCAG-CCGTCCTCATCACGTAGGAACCATGTTATCACCTTTAGA
1 CCAGAAC-TCTTCATCACGTAGGAGCCGTGTCATC-CC--CAGA
*
1112243 TGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCAGA
1 ---CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAGA
* *
1112286 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA
1 CCAGAACTCTTCATCACGTAGGAGCCGTGTCA
1112318 ACCATAGATA
Statistics
Matches: 127, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
39 2 0.02
40 60 0.47
42 1 0.01
43 31 0.24
44 1 0.01
45 2 0.02
46 29 0.23
47 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (40 bp):
CCAGAACTCTTCATCACGTAGGAGCCGTGTCATCCCCAGA
Found at i:1112438 original size:43 final size:44
Alignment explanation
Indices: 1112103--1112449 Score: 163
Period size: 43 Copynumber: 8.0 Consensus size: 44
1112093 AACCGTGTTA
* * *
1112103 TCACCTTTAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
*** *
1112146 TCA---TTCCCCGACC-AGATCTCTTCATCACGTAGGAGCCGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
* ** * * * *
1112186 TCAACC-ATAGATAACC-AG-CCGTCCTCATCACGTAGGAACCATGTTA
1 TC-ACCTTTAGACGACCAAGAAC-TCTTCATCACGTAGGAGCC--G-TG
* * *
1112232 TCACCTTTAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
** * *
1112275 TCATCC---CCA-GACC-AGATCTCCTCATCACGTAGGAGCCGTG
1 TCA-CCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
* ** * * * * *
1112315 TCAACC-ATAGATAAAC-AG-CCGTCCTCGTCACGTAGGAACCGTG
1 TC-ACCTTTAGACGACCAAGAAC-TCTTCATCACGTAGGAGCCGTG
* *
1112358 TTATCACCTTTAGATGGCCAAGAACTCTTCATCACGTAGGAGCCGTG
1 ---TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
* * *
1112405 TCACCTTTAGACGACCCA-AACTCTTCATCACGTATGAGCAGTG
1 TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
1112448 TC
1 TC
1112450 GTCCCCAACA
Statistics
Matches: 232, Mismatches: 51, Indels: 42
0.71 0.16 0.13
Matches are distributed among these distances:
40 63 0.27
41 3 0.01
42 3 0.01
43 79 0.34
44 18 0.08
45 7 0.03
46 36 0.16
47 22 0.09
48 1 0.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (44 bp):
TCACCTTTAGACGACCAAGAACTCTTCATCACGTAGGAGCCGTG
Found at i:1112622 original size:3 final size:3
Alignment explanation
Indices: 1112606--1112648 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
1112596 TTTTTTATCG
1112606 TTA TT- TTA -TA TTA TTA TTA TTTA TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
1112649 ATATCAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 6 0.17
3 27 0.75
4 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1112622 original size:13 final size:14
Alignment explanation
Indices: 1112606--1112648 Score: 72
Period size: 13 Copynumber: 3.2 Consensus size: 14
1112596 TTTTTTATCG
1112606 TTATT-TTATATTA
1 TTATTATTATATTA
1112619 TTATTATT-TATTA
1 TTATTATTATATTA
1112632 TTATTATTATATTA
1 TTATTATTATATTA
1112646 TTA
1 TTA
1112649 ATATCAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.64
14 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATTATATTA
Done.