Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 32 of 221
Found at i:8881460 original size:20 final size:19
Alignment explanation
Indices: 8881437--8881483 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
8881427 TTATAAACTT
8881437 TAAAAATT-AAAAATAATATA
1 TAAAAATTGAAAAAT-AT-TA
* *
8881457 TAAAATTTGAAAAATGTTA
1 TAAAAATTGAAAAATATTA
8881476 TAAAAATT
1 TAAAAATT
8881484 TTAAAAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 9 0.39
20 8 0.35
21 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
TAAAAATTGAAAAATATTA
Found at i:8881471 original size:21 final size:20
Alignment explanation
Indices: 8881437--8881490 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
8881427 TTATAAACTT
*
8881437 TAAAAATTAAAAATAATATA
1 TAAAATTTAAAAATAATATA
**
8881457 TAAAATTTGAAAAATGTTATA
1 TAAAATTT-AAAAATAATATA
8881478 -AAAATTTTAAAAA
1 TAAAA-TTTAAAAA
8881491 AGTATCTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TAAAATTTAAAAATAATATA
Found at i:8881567 original size:19 final size:19
Alignment explanation
Indices: 8881539--8881578 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8881529 TTGAAAGAAA
*
8881539 TTAC-ATTTTTTTATAATTT
1 TTACAATTTTTTTA-CATTT
8881558 TTACAATTTTTTTACATTT
1 TTACAATTTTTTTACATTT
8881577 TT
1 TT
8881579 GTAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (19 bp):
TTACAATTTTTTTACATTT
Found at i:8881700 original size:19 final size:19
Alignment explanation
Indices: 8881678--8881725 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
8881668 AAGATTTAAA
*
8881678 TATATTTTTCTAAATTTTT
1 TATATTTTTATAAATTTTT
* ***
8881697 TATATATTTATTTCTTTTT
1 TATATTTTTATAAATTTTT
8881716 TATATTTTTA
1 TATATTTTTA
8881726 ATATGTATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (19 bp):
TATATTTTTATAAATTTTT
Found at i:8900149 original size:19 final size:19
Alignment explanation
Indices: 8900108--8900159 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
8900098 ATAGCGCATA
* *
8900108 AAGTGCATATTGGCATACG
1 AAGTGCATACTGGCACACG
* *
8900127 AAGTGCATCCTGGCACACT
1 AAGTGCATACTGGCACACG
*
8900146 AAGTGTATACTGGC
1 AAGTGCATACTGGC
8900160 GCACAAAGCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (19 bp):
AAGTGCATACTGGCACACG
Found at i:8904521 original size:19 final size:18
Alignment explanation
Indices: 8904486--8904536 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
8904476 AAATGTAATC
* *
8904486 AAAT-ATAATAATGATAA
1 AAATAATAATAGTAATAA
*
8904503 CAATAATAAATAGTAATAA
1 AAATAAT-AATAGTAATAA
8904522 AAATAATAATAGTAA
1 AAATAATAATAGTAA
8904537 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
19 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAATAATAATAGTAATAA
Found at i:8904527 original size:25 final size:24
Alignment explanation
Indices: 8904481--8904542 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
8904471 AATAGAAATG
**
8904481 TAATCAAATATAATAATGATAACAA
1 TAAT-AAATATAATAAAAATAACAA
*
8904506 TAATAAATAGTAATAAAAATAATAA
1 TAATAAATA-TAATAAAAATAACAA
*
8904531 TAGTAAAT-TAAT
1 TAATAAATATAAT
8904543 TAATAGCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.12
24 5 0.16
25 23 0.72
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (24 bp):
TAATAAATATAATAAAAATAACAA
Found at i:8909196 original size:31 final size:31
Alignment explanation
Indices: 8909161--8909237 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 31
8909151 TTAATGACTC
*
8909161 AGTGACTAAAATGTTACAACATGTT-AATATA
1 AGTGACTAAAATGTTACAACAT-TTAAACATA
* *
8909192 AGTGACAAAAATG-T--AATATTTCAAACATA
1 AGTGACTAAAATGTTACAACATTT-AAACATA
8909221 AGTGACTAAAATGTTAC
1 AGTGACTAAAATGTTAC
8909238 CTGAGGTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
27 2 0.05
28 4 0.11
29 17 0.46
30 2 0.05
31 12 0.32
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (31 bp):
AGTGACTAAAATGTTACAACATTTAAACATA
Found at i:8910290 original size:34 final size:34
Alignment explanation
Indices: 8910252--8910323 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
8910242 TTAGGGCTCA
*
8910252 ATTTCCTCGAAAAATCCCGAATATCGAATATTGC
1 ATTTCCTCGAAAAATCCCGAACATCGAATATTGC
8910286 ATTTCCTCGAAAAATCCCGAACATCGAATATTGC
1 ATTTCCTCGAAAAATCCCGAACATCGAATATTGC
8910320 ATTT
1 ATTT
8910324 ATTTTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.31
Consensus pattern (34 bp):
ATTTCCTCGAAAAATCCCGAACATCGAATATTGC
Found at i:8910895 original size:3 final size:3
Alignment explanation
Indices: 8910887--8910947 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
8910877 ATATATAGGT
* * *
8910887 ATA ATA ATA TTA ATA TTTA AT- ATA ATA ATAA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
8910933 ATA CAGTA ATA ATA A
1 ATA -A-TA ATA ATA A
8910948 CAATTTAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 36 0.77
4 7 0.15
5 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:8910930 original size:16 final size:15
Alignment explanation
Indices: 8910904--8910933 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8910894 TATTAATATT
8910904 TAATATAATAATAAA
1 TAATATAATAATAAA
8910919 TAATACTAATAATAA
1 TAATA-TAATAATAA
8910934 TACAGTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATATAATAATAAA
Found at i:8912013 original size:24 final size:24
Alignment explanation
Indices: 8911960--8912013 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
8911950 TTCTAATTAA
* **
8911960 ATTTTATAAATAATTATTATTTAT
1 ATTTTAAAAATAATTAAAATTTAT
*
8911984 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTAAAAATAATTAAAATTTAT
8912008 ATTTTA
1 ATTTTA
8912014 TATATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 22 0.92
25 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTTAAAAATAATTAAAATTTAT
Found at i:8912912 original size:23 final size:24
Alignment explanation
Indices: 8912858--8912909 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
8912848 TCTAAATTTA
* * *
8912858 TAATTCCTTCAAAAATTATAAGTT
1 TAATTCCTTCAAAAATGAAAAGGT
*
8912882 TAATTCCTTTAAAAATGAAAAGGT
1 TAATTCCTTCAAAAATGAAAAGGT
8912906 TAAT
1 TAAT
8912910 CCTAAAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (24 bp):
TAATTCCTTCAAAAATGAAAAGGT
Found at i:8914191 original size:9 final size:9
Alignment explanation
Indices: 8914177--8914226 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
8914167 TTTGGTTAAA
*
8914177 AATTAACCT
1 AATTAACCG
*
8914186 AATTAATCG
1 AATTAACCG
8914195 AATTAACCG
1 AATTAACCG
*
8914204 AATTACCCG
1 AATTAACCG
* *
8914213 GATTAATCG
1 AATTAACCG
8914222 AATTA
1 AATTA
8914227 CTCGCATTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTAACCG
Found at i:8914217 original size:18 final size:18
Alignment explanation
Indices: 8914196--8914237 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8914186 AATTAATCGA
*
8914196 ATTAACCGAATTACCCGG
1 ATTAACCGAATTACCCGC
* *
8914214 ATTAATCGAATTACTCGC
1 ATTAACCGAATTACCCGC
8914232 ATTAAC
1 ATTAAC
8914238 TGAAAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (18 bp):
ATTAACCGAATTACCCGC
Found at i:8915065 original size:26 final size:28
Alignment explanation
Indices: 8915030--8915093 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
8915020 ATAGAAAATA
8915030 ACCAAAATATTAT-AA-TTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
*
8915056 ATCAAAATATTATAAATTTTTTTTATTT
1 ACCAAAATATTATAAATTTTTTTTATTT
8915084 ACCAAAATAT
1 ACCAAAATAT
8915094 ATTAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 12 0.35
27 2 0.06
28 20 0.59
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (28 bp):
ACCAAAATATTATAAATTTTTTTTATTT
Found at i:8915171 original size:27 final size:26
Alignment explanation
Indices: 8915141--8915226 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
8915131 GCCTGATCAA
* * *
8915141 GCCAATCACATTGGCAGCACCAAAGGT
1 GCCAAT-AGATTGGCGGCACCAATGGT
*
8915168 GCCAATGTGATTGGCGGCACCAATGGT
1 GCCAAT-AGATTGGCGGCACCAATGGT
*
8915195 GCTAATATGATTGGCGGCACCAATGGT
1 GCCAATA-GATTGGCGGCACCAATGGT
8915222 GCCAA
1 GCCAA
8915227 AGGACTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (26 bp):
GCCAATAGATTGGCGGCACCAATGGT
Found at i:8915554 original size:19 final size:19
Alignment explanation
Indices: 8915530--8915595 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
8915520 ATTAAAATAG
8915530 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
8915549 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
8915567 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
8915586 TTTAATTTAA
1 TTTAATTTAA
8915596 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:8915860 original size:18 final size:19
Alignment explanation
Indices: 8915821--8915916 Score: 124
Period size: 19 Copynumber: 5.2 Consensus size: 19
8915811 ATTTTATATT
8915821 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
8915840 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
8915858 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
8915877 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
8915895 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
8915914 TTA
1 TTA
8915917 CTTAATTAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 30 0.47
19 34 0.53
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:8915862 original size:37 final size:37
Alignment explanation
Indices: 8915821--8915916 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
8915811 ATTTTATATT
*
8915821 TTAAATGAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
8915858 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
8915895 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
8915917 CTTAATTAGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.38
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:8916593 original size:27 final size:28
Alignment explanation
Indices: 8916540--8916604 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 28
8916530 TTTTTTTTTT
8916540 ATATTTTGATAAATAAAAAAAAATTATA
1 ATATTTTGATAAATAAAAAAAAATTATA
*
8916568 ATATTTTGATAAAT-AAAAAAATTTATA
1 ATATTTTGATAAATAAAAAAAAATTATA
8916595 ATATTTTGAT
1 ATATTTTGAT
8916605 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (28 bp):
ATATTTTGATAAATAAAAAAAAATTATA
Found at i:8922156 original size:30 final size:30
Alignment explanation
Indices: 8922097--8922156 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
8922087 AAAATAAGAG
**
8922097 TTAGTGGCAAAAATTAATAAAATTTAAATT
1 TTAGTGGCAAAAATTAATAAAATAAAAATT
* * *
8922127 TTAGTGGTAAAATTTAATAACATAAAAATT
1 TTAGTGGCAAAAATTAATAAAATAAAAATT
8922157 AAGTTACAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (30 bp):
TTAGTGGCAAAAATTAATAAAATAAAAATT
Found at i:8922672 original size:101 final size:102
Alignment explanation
Indices: 8922545--8922882 Score: 410
Period size: 101 Copynumber: 3.1 Consensus size: 102
8922535 GAAATTATAT
*
8922545 ATTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGA
1 ATTTTATTAAATTATACTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGA
8922610 TTTTAG-AAATTCATATAAGAA-ATTTTAATATTAAGA
66 TTTTAGAAAATTCATATAAGAATA-TTTAATATTAAGA
8922646 ATTTTATTAAATTATACTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGA
1 ATTTTATTAAATTATACTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGA
8922711 TTTTAGAAAATTCATATAAGAATATTTAATATTAAGA
66 TTTTAGAAAATTCATATAAGAATATTTAATATTAAGA
* *
8922748 ATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTA
1 ATTTTATT-AA--AT-TA---TACTT--AATA-A--T-A-ATT-A-T-GTT-AAATTATATTTTA
* * * * * *
8922813 TAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATA
48 TAGTATTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGA
8922868 ATTTTATTAAATTAT
1 ATTTTATTAAATTAT
8922883 CTATTTTAAT
Statistics
Matches: 208, Mismatches: 9, Indels: 28
0.85 0.04 0.11
Matches are distributed among these distances:
101 70 0.34
102 36 0.17
103 3 0.01
105 2 0.01
106 2 0.01
109 4 0.02
111 4 0.02
112 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 5 0.02
117 3 0.01
118 1 0.00
119 4 0.02
120 70 0.34
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (102 bp):
ATTTTATTAAATTATACTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATGA
TTTTAGAAAATTCATATAAGAATATTTAATATTAAGA
Found at i:8922794 original size:120 final size:120
Alignment explanation
Indices: 8922646--8922922 Score: 432
Period size: 120 Copynumber: 2.3 Consensus size: 120
8922636 AATATTAAGA
* * *
8922646 ATTTT-ATTAAATTATACTTAATAATAATTATGTTAAATTATATTTTATAGTATTATATATTATG
1 ATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATG
* *
8922710 ATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATCATAT
66 ATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAATCATAT
*
8922765 ATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTATCATATATTAT
1 ATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATCATATATTAT
* * * * *
8922829 GATTTGAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATCT
65 GATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAATCATAT
8922885 ATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
8922923 ATATGATTAA
Statistics
Matches: 143, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
119 7 0.05
120 134 0.94
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
ATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATG
ATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATTAAATCATAT
Found at i:8923122 original size:44 final size:45
Alignment explanation
Indices: 8923059--8923156 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
8923049 CTATTACACC
*
8923059 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * *
8923103 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
8923148 TCCATTACA
1 TCCATTACA
8923157 ACGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:8928304 original size:40 final size:41
Alignment explanation
Indices: 8928260--8928359 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 41
8928250 AATGAAGCAC
8928260 TTTGTCCACGTGGACAAAAAACACTT-CTTCAAGAAAGCG-T
1 TTTGTCCACGTGGACAAAAAACACTTCCTT-AAGAAAGCGTT
* * * * **
8928300 TTTGTCCACGTGGATAGAAAACGCTTCCTTGAGGGAGCGTT
1 TTTGTCCACGTGGACAAAAAACACTTCCTTAAGAAAGCGTT
8928341 TTGTGTCCACGTGGACAAA
1 TT-TGTCCACGTGGACAAA
8928360 GTGCTTCCAT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 29 0.59
41 6 0.12
42 14 0.29
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (41 bp):
TTTGTCCACGTGGACAAAAAACACTTCCTTAAGAAAGCGTT
Found at i:8929267 original size:96 final size:95
Alignment explanation
Indices: 8929163--8929450 Score: 391
Period size: 97 Copynumber: 3.0 Consensus size: 95
8929153 AACAACTAGT
* *
8929163 TTTATTTGATTTTTCCTTAAAAACCCTAAATACTAAACCCCAATCTAATTTTTTTAAAATTTATA
1 TTTATTTGATTTTTCCTTAAAAACCCTAAA-ACTAAACCCTAATCTAATTTTTTAAAAATTTATA
* *
8929228 ATTAATTTACTCAAATAACCCTACACCCTAA
65 ATTAATTTACTCAAATAAACCTAAACCCTAA
* *
8929259 TTTATTTGATTTTTTCCTTAAAAATCCTAAACACTAAACCCTAATATAATTTTTTAAAAATTTAT
1 TTTATTTGA-TTTTTCCTTAAAAACCCTAAA-ACTAAACCCTAATCTAATTTTTTAAAAATTTAT
*
8929324 AATTAATTTACTCAAGTAAACCTAAACCCTAA
64 AATTAATTTACTCAAATAAACCTAAACCCTAA
* * * *
8929356 TTTATTTAATTTTTCCTTAAAAACCATAAAATCTAAACTCTAATCTAA-TTTTTAAAAATTTATC
1 TTTATTTGATTTTTCCTTAAAAACCCTAAAA-CTAAACCCTAATCTAATTTTTTAAAAATTTATA
* * *
8929420 ATTAATTTAAT-TAAGAAACCTTAAACCCTAA
65 ATTAATTTACTCAAATAAACC-TAAACCCTAA
8929451 ACCCTTATTT
Statistics
Matches: 171, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
94 6 0.04
95 36 0.21
96 42 0.25
97 87 0.51
ACGTcount: A:0.41, C:0.17, G:0.01, T:0.40
Consensus pattern (95 bp):
TTTATTTGATTTTTCCTTAAAAACCCTAAAACTAAACCCTAATCTAATTTTTTAAAAATTTATAA
TTAATTTACTCAAATAAACCTAAACCCTAA
Found at i:8935130 original size:12 final size:12
Alignment explanation
Indices: 8935113--8935138 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8935103 CTATTATTTG
8935113 TTAAACTTATTA
1 TTAAACTTATTA
8935125 TTAAACTTATTA
1 TTAAACTTATTA
8935137 TT
1 TT
8935139 TGTTGAACGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (12 bp):
TTAAACTTATTA
Found at i:8941827 original size:20 final size:21
Alignment explanation
Indices: 8941789--8941827 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8941779 CAAAGTTTTA
* *
8941789 TTTTAAAAATCATTTTCAAAT
1 TTTTAAAAATAATTATCAAAT
8941810 TTTTAAAAA-AATTATCAA
1 TTTTAAAAATAATTATCAA
8941828 TTAGATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTAAAAATAATTATCAAAT
Found at i:8954674 original size:213 final size:213
Alignment explanation
Indices: 8954283--8955334 Score: 1070
Period size: 211 Copynumber: 5.0 Consensus size: 213
8954273 CTAATATAAT
* * *
8954283 ATGAGCATAATACTTACTTCATCGGAGGATGAATCTTCCTCACTACTAGACTCTGAACTACTATC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * * **
8954348 AGCTTTCACTGTCTTAGCAACTGGTATAGAGCCACTTTTAGCAACTACGGGTTTTTTCTTCTGAA
66 AGCTTTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGTG
* * *
8954413 CAGAAGCTTCCTGGAATAAAACAGACA-ATTGAACATTAACAATCATGCAAAAGAATATTCCCAA
131 CAGGAGCTTCCTGGGATAAAACA-AAATATTGAACATTAACAATCATGCAAAAGAATATTCCCAA
8954477 CCATGCTAATATTATAAGC
195 CCATGCTAATATTATAAGC
* * * * *
8954496 ATGAGTATAATAGTCACTTCGTCAGAGGATGAACCCTCCTCACTACTAGACTCAGAACTACTATC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * ** *** *
8954561 AGCTTTCACAGTCTTAGCATCTGGAACAGATACACTTTTAGTGGCTACAGATTTTTTATTCTGTG
66 AGCTTTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGTG
* * * *
8954626 CAGGAGCTTCCTGGGATAAGACAAAATATTGAACATCAACAATCATGCAAAAGAACACTCCCAAC
131 CAGGAGCTTCCTGGGATAAAACAAAATATTGAACATTAACAATCATGCAAAAGAATATTCCCAAC
* * *
8954691 CATACTCAA-AATATAACC
196 CATGCT-AATATTATAAGC
* * * *
8954709 AT--GCATATTACTCACTTCATCAGAGGATGAGTCTTCTTCGCTACTAGACTCAGAACTACTATC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * * * * *
8954772 AGCTTTAACAGCCTTAGCAGCCGGAATAGAGCCAGGTTTT-GCAGCTACAGGTTTTTTATTCTGA
66 AGCTTTCACTGTCTTAGCAGCTGGAACAGAGCCA-CTTTTAGCAACTACAGGTTTTTTATTCTGT
* * * * **
8954836 GCAGGAGCTTCCT--GA-AAAAAAAAACAATTGAACATTAACAATTATACAAAAGAA-GGT-CCA
130 GCAGGAGCTTCCTGGGATAAAACAAAA-TATTGAACATTAACAATCATGCAAAAGAATATTCCCA
** * *
8954896 ATTATGCGAACGTTTTA-ACTAGC
194 ACCATGCTAA--TATTATA--AGC
* * *
8954919 AAGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTTGA---AGAACTGCTATC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * ** * *
8954981 AGCTTTCAGTGTCTTGGCAGCTGGAACAGAGCCTTTTTTAGCAACTACAGGGTTTTTCTTCT-TA
66 AGCTTTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGT-
* * **
8955045 GCAGGAGCTTCCT-GGATAAAACAAAATATTGAACATCAAAAATCATAG-AAAAGAATATAACCA
130 GCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATTAACAATCAT-GCAAAAGAATATTCCCA
*
8955108 ACCATGCT-ATATTACAAGC
194 ACCATGCTAATATTATAAGC
* * *
8955127 ATGAGCATGATACTCACTTCGTCAGAGGATGAATCTTCCTCACTGCTAGACTCAGAACTACTATC
1 ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * *
8955192 AGCTTTCACTGTCTTGGCAGCTGGAACAGGGCCATTTTTAGAAACTACAGGTTTTTTATTC--TG
66 AGCTTTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGTG
* * * * *
8955255 -AGGAGCTTCCTGGAATATTAAA-AAAATATTTGAACATTAACGATCATAC-AAAGAATACATCT
131 CAGGAGCTTCCTGGGATA--AAACAAAATA-TTGAACATTAACAATCATGCAAAAGAATA-TTCC
**
8955317 TGACCATGCTAATATTAT
192 CAACCATGCTAATATTAT
8955335 GATGCCCCTA
Statistics
Matches: 685, Mismatches: 125, Indels: 59
0.79 0.14 0.07
Matches are distributed among these distances:
206 2 0.00
207 7 0.01
208 72 0.11
209 107 0.16
210 44 0.06
211 213 0.31
212 61 0.09
213 177 0.26
214 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (213 bp):
ATGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
AGCTTTCACTGTCTTAGCAGCTGGAACAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGTG
CAGGAGCTTCCTGGGATAAAACAAAATATTGAACATTAACAATCATGCAAAAGAATATTCCCAAC
CATGCTAATATTATAAGC
Found at i:8955178 original size:420 final size:423
Alignment explanation
Indices: 8954283--8955311 Score: 1176
Period size: 420 Copynumber: 2.4 Consensus size: 423
8954273 CTAATATAAT
* * *
8954283 ATGAGCATAATACTTACTTCATCGGAGGATGAATCTTCCTCACTACTAGACTCTGAACTACTATC
1 ATGAGCAT-ATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * *
8954348 AGCTTTCACTGTCTTAGCAACTGGTATAGAGCCACTTTTAGCAACTACGGGTTTTTTCTTCTGAA
65 AGCTTTCACTGTCTTAGCAGCTGGAATAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGAG
* * * * *
8954413 CAGAAGCTTCCTGGAATAAAACAGACAATTGAACATTAACAATCATGCAAAAGAATATTCCCAAC
130 CAGGAGCTTCCTGGAATAAAAAAAACAATTGAACATTAACAATCATACAAAAGAATAGTCCCAAC
* * * * *
8954478 CATGCTAATATTATAAGCATGAGTATAATAGTCACTTCGTCAGAGGATGAACCCTCCTCACTACT
195 CATGCGAATATTATAAGCAAGAGCATAATACTCACTTCATCAGAGGATGAACCCTCCTCACTACT
* * ***
8954543 AGACTCAGAACTACTATCAGCTTTCACAGTCTTAGCATCTGGAACAGATACACTTTTAGTGGCTA
260 AGA--CAGAACTACTATCAGCTTTCACAGTCTTAGCAGCTGGAACAGAGACACTTTTAGCAACTA
* * *
8954608 CAGATTTTTTATTCTGTGCAGGAGCTTCCTGGGATAAGACAAAATATTGAACATCAACAATCATG
323 CAGAGTTTTTATTCTGTGCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATCAAAAATCATG
* *
8954673 CAAAAGAACACTCCCAACCATACTCAAAATATAACC
388 CAAAAGAACACTACCAACCATACTCAAAATACAACC
* * *
8954709 AT--GCATATTACTCACTTCATCAGAGGATGAGTCTTCTTCGCTACTAGACTCAGAACTACTATC
1 ATGAGCATA-TACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * * *
8954772 AGCTTTAACAGCCTTAGCAGCCGGAATAGAGCCAGGTTTT-GCAGCTACAGGTTTTTTATTCTGA
65 AGCTTTCACTGTCTTAGCAGCTGGAATAGAGCCA-CTTTTAGCAACTACAGGTTTTTTATTCTGA
* *
8954836 GCAGGAGCTTCCT-GAA-AAAAAAAACAATTGAACATTAACAATTATACAAAAGAA-GGT-CCAA
129 GCAGGAGCTTCCTGGAATAAAAAAAACAATTGAACATTAACAATCATACAAAAGAATAGTCCCAA
** * * *
8954897 TTATGCGAACGTTTTA-ACTAGCAAGAGCATAATACTCACTTCATCAGAGGATGAATCTTCCTCA
194 CCATGCGAA--TATTATA--AGCAAGAGCATAATACTCACTTCATCAGAGGATGAACCCTCCTCA
* * ** * * **
8954961 CTACTTGA-AGAACTGCTATCAGCTTTCAGTGTCTTGGCAGCTGGAACAGAGCCTTTTTTAGCAA
255 CTACTAGACAGAACTACTATCAGCTTTCACAGTCTTAGCAGCTGGAACAGAGACACTTTTAGCAA
* *
8955025 CTACAGGGTTTTTCTTCT-TAGCAGGAGCTTCCT-GGATAAAACAAAATATTGAACATCAAAAAT
320 CTACAGAGTTTTTATTCTGT-GCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATCAAAAAT
* * * * *
8955088 CATAG-AAAAGAATA-TAACCAACCATGCT-ATATTACAAGC
384 CAT-GCAAAAGAACACT-ACCAACCATACTCAAAATACAACC
* *
8955127 ATGAGCATGATACTCACTTCGTCAGAGGATGAATCTTCCTCACTGCTAGACTCAGAACTACTATC
1 ATGAGCAT-ATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATC
* * * * *
8955192 AGCTTTCACTGTCTTGGCAGCTGGAACAGGGCCATTTTTAGAAACTACAGGTTTTTTATTCT--G
65 AGCTTTCACTGTCTTAGCAGCTGGAATAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGAG
* * *
8955255 -AGGAGCTTCCTGGAATATTAAAAAAATATTTGAACATTAACGATCATAC-AAAGAATA
130 CAGGAGCTTCCTGGAATA--AAAAAAACAATTGAACATTAACAATCATACAAAAGAATA
8955312 CATCTTGACC
Statistics
Matches: 506, Mismatches: 79, Indels: 41
0.81 0.13 0.07
Matches are distributed among these distances:
417 11 0.02
418 14 0.03
419 55 0.11
420 190 0.38
421 29 0.06
422 38 0.08
423 50 0.10
424 113 0.22
425 4 0.01
426 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (423 bp):
ATGAGCATATACTCACTTCATCAGAGGATGAATCTTCCTCACTACTAGACTCAGAACTACTATCA
GCTTTCACTGTCTTAGCAGCTGGAATAGAGCCACTTTTAGCAACTACAGGTTTTTTATTCTGAGC
AGGAGCTTCCTGGAATAAAAAAAACAATTGAACATTAACAATCATACAAAAGAATAGTCCCAACC
ATGCGAATATTATAAGCAAGAGCATAATACTCACTTCATCAGAGGATGAACCCTCCTCACTACTA
GACAGAACTACTATCAGCTTTCACAGTCTTAGCAGCTGGAACAGAGACACTTTTAGCAACTACAG
AGTTTTTATTCTGTGCAGGAGCTTCCTGGGATAAAACAAAATATTGAACATCAAAAATCATGCAA
AAGAACACTACCAACCATACTCAAAATACAACC
Found at i:8956940 original size:16 final size:15
Alignment explanation
Indices: 8956909--8956947 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
8956899 TATATGTTAT
*
8956909 TATATTTTATGTATA
1 TATATTTTAAGTATA
8956924 TATATTTTGAAGTATA
1 TATATTTT-AAGTATA
8956940 TATTATTT
1 TA-TATTT
8956948 ATCGTGTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 8 0.38
17 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (15 bp):
TATATTTTAAGTATA
Found at i:8961709 original size:27 final size:27
Alignment explanation
Indices: 8961644--8961963 Score: 256
Period size: 27 Copynumber: 11.9 Consensus size: 27
8961634 GGGTATAAAA
* * *
8961644 GTCATTTTACACTAT-GAGG-GTTTCA
1 GTCATTTTACCCTATGGAGGTATTTCG
* *
8961669 GTCATTTTAACCTATGGAAGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* * **
8961696 GTCATTCTACCCTATGGGGGTATTTTA
1 GTCATTTTACCCTATGGAGGTATTTCG
* *
8961723 GTCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* **
8961750 ATCATTTTACCCTAT-GAGGGTATTTTA
1 GTCATTTTACCCTATGGA-GGTATTTCG
* *
8961777 GTTATTTTACCCTAT-AAGGGTATTTCG
1 GTCATTTTACCCTATGGA-GGTATTTCG
* *
8961804 GTCATTTTACCTTAT-GAGGGTATTTCA
1 GTCATTTTACCCTATGGA-GGTATTTCG
* *
8961831 GTTATTTTACCCTAT-GAGGGTATTTTG
1 GTCATTTTACCCTATGGA-GGTATTTCG
* * *
8961858 GTCATTCTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* * *
8961885 ATTATTTTACTCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* * * *
8961912 GCCATTCTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGAGGTATTTCG
* * * *
8961939 ATAATTTTATCCTATGAAGGTATTT
1 GTCATTTTACCCTATGGAGGTATTT
8961964 TGGTTATAAC
Statistics
Matches: 234, Mismatches: 57, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
25 13 0.06
26 4 0.02
27 216 0.92
28 1 0.00
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGAGGTATTTCG
Found at i:8966392 original size:22 final size:22
Alignment explanation
Indices: 8966363--8966406 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8966353 ACCAAATTTA
*
8966363 ATATTACAATTTATAT-ATATT
1 ATATTACAATTTAAATAATATT
8966384 ATATATACAATTTAAATAATATT
1 ATAT-TACAATTTAAATAATATT
8966407 TTAATAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 11 0.55
23 5 0.25
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTACAATTTAAATAATATT
Found at i:8974924 original size:27 final size:27
Alignment explanation
Indices: 8974906--8974955 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 27
8974896 ATATTATTAA
8974906 TATAATATA-TAA-ATGTTATAATAAG
1 TATAATATATTAATATGTTATAATAAG
8974931 TATAATATATTAATATGTTA-AATAA
1 TATAATATATTAATATGTTATAATAA
8974956 ACATTAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.39
26 8 0.35
27 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (27 bp):
TATAATATATTAATATGTTATAATAAG
Found at i:8975973 original size:43 final size:43
Alignment explanation
Indices: 8975858--8975973 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
8975848 TGTGTTTTCG
* * * * * *
8975858 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGTTTACG
1 TGTAAGACCACGTCTGGGATGTTGGCATTGATCTGAGATTACA
*
8975901 TGTAAGACC-CTGTCT-GGAT-TAGCGACATTGATCTGAGATTACA
1 TGTAAGACCAC-GTCTGGGATGTTG-G-CATTGATCTGAGATTACA
8975944 TGTAAGACCACGTCTGGGATGTTGGCATTG
1 TGTAAGACCACGTCTGGGATGTTGGCATTG
8975974 TACGAGCTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
41 2 0.03
42 5 0.08
43 44 0.75
44 6 0.10
45 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATGTTGGCATTGATCTGAGATTACA
Found at i:8982988 original size:41 final size:41
Alignment explanation
Indices: 8982931--8983085 Score: 256
Period size: 41 Copynumber: 3.8 Consensus size: 41
8982921 CCTTTTAGGG
*
8982931 CTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
* * * *
8982972 CTTTAGCAGCATTTTTGAAAAGGCGCCGCTAATGCTCAGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
*
8983013 CTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
8983054 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
8983086 AAACATTTTA
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 103 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGT
Found at i:8983473 original size:14 final size:15
Alignment explanation
Indices: 8983440--8983484 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 15
8983430 TTTTAAGGTA
*
8983440 TAGGGAGTATGGATT
1 TAGGGATTATGGATT
8983455 TAGGGATTATGGA-T
1 TAGGGATTATGGATT
8983469 TAGGGATTATGG-TT
1 TAGGGATTATGGATT
8983483 TA
1 TA
8983485 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.38
Consensus pattern (15 bp):
TAGGGATTATGGATT
Found at i:8983796 original size:14 final size:14
Alignment explanation
Indices: 8983776--8983819 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
8983766 ACAGATTATA
8983776 GTTTAAGGGTT-GG
1 GTTTAAGGGTTAGG
*
8983789 GATTTAAGGTTTAGG
1 G-TTTAAGGGTTAGG
8983804 GTTTAAGGGTCTAGG
1 GTTTAAGGGT-TAGG
8983819 G
1 G
8983820 GTTAGACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 17 0.65
15 8 0.31
ACGTcount: A:0.20, C:0.02, G:0.41, T:0.36
Consensus pattern (14 bp):
GTTTAAGGGTTAGG
Found at i:8984180 original size:50 final size:50
Alignment explanation
Indices: 8984119--8984291 Score: 247
Period size: 50 Copynumber: 3.3 Consensus size: 50
8984109 AAACCATTTG
8984119 ATATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTAAAATAAA
1 ATATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTAAAATAAA
* *
8984169 ATATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAAGAAAATA
1 ATATATTTAAATATTAATTTAAATAGAATTAATAAATAAG-TTAAA-ATAA-A
*
8984222 TATTTAAATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAA
1 -A--T--ATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTAAAATAAA
8984277 ATATATTTAAATATT
1 ATATATTTAAATATT
8984292 TAAATATTAG
Statistics
Matches: 110, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
50 52 0.47
51 5 0.05
52 4 0.04
53 1 0.01
54 2 0.02
55 1 0.01
56 4 0.04
57 4 0.04
58 37 0.34
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (50 bp):
ATATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTAAAATAAA
Found at i:8984210 original size:23 final size:23
Alignment explanation
Indices: 8984136--8984214 Score: 95
Period size: 23 Copynumber: 3.3 Consensus size: 23
8984126 TAAATATTAA
8984136 TTTAAATAGAATTAATAAATAAG
1 TTTAAATAGAATTAATAAATAAG
* * *
8984159 TTAAAATAAAATATATTTAAATATTAG
1 TTTAAATAGAAT-TA-ATAAATA--AG
8984186 TTTAAATAGAATTAATAAATAAG
1 TTTAAATAGAATTAATAAATAAG
8984209 TTTAAA
1 TTTAAA
8984215 GAAAATATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 18 0.39
24 2 0.04
25 12 0.26
26 2 0.04
27 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
TTTAAATAGAATTAATAAATAAG
Found at i:8984304 original size:35 final size:36
Alignment explanation
Indices: 8984265--8984353 Score: 121
Period size: 35 Copynumber: 2.6 Consensus size: 36
8984255 TTAATAAATA
8984265 AGTTTAAATAAAATATATTTAA-ATATTTAAATATT
1 AGTTTAAATAAAATATATTTAATATATTTAAATATT
* * *
8984300 AGTTTAAATAGAAT-TAATAAATATATTTAAATATT
1 AGTTTAAATAAAATATATTTAATATATTTAAATATT
*
8984335 AATTTAAATAAAATA-ATTT
1 AGTTTAAATAAAATATATTT
8984354 TTATTCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
34 5 0.11
35 40 0.89
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (36 bp):
AGTTTAAATAAAATATATTTAATATATTTAAATATT
Found at i:8984331 original size:58 final size:58
Alignment explanation
Indices: 8984171--8984332 Score: 290
Period size: 58 Copynumber: 2.8 Consensus size: 58
8984161 AAAATAAAAT
*
8984171 ATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAAGAAAATATATTTAA
1 ATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
*
8984229 ATATTTAAATATTAATTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
1 ATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
8984287 ATATTTAAATATTAGTTTAAATAGAATTAATAAATATA-TTTAAATA
1 ATATTTAAATATTAGTTTAAATAGAATTAATAAATA-AGTTTAAATA
8984333 TTAATTTAAA
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
58 99 0.99
59 1 0.01
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (58 bp):
ATATTTAAATATTAGTTTAAATAGAATTAATAAATAAGTTTAAATAAAATATATTTAA
Found at i:8986779 original size:27 final size:27
Alignment explanation
Indices: 8986684--8986779 Score: 72
Period size: 27 Copynumber: 3.5 Consensus size: 27
8986674 TACTTGTATT
* *
8986684 TAAAATAATAAAACT-TAAAAAAAGTT-
1 TAAAATAATAAAAATATATAAAAA-TTA
* * **
8986710 TAAAACAAATTAAAAATACATAAATTTTA
1 TAAAA-TAA-TAAAAATATATAAAAATTA
*
8986739 TAAAAGAA-ATAAAATATATAAAAATTA
1 TAAAATAATA-AAAATATATAAAAATTA
8986766 TAAAATAATAAAAA
1 TAAAATAATAAAAA
8986780 ACTTGAAAGT
Statistics
Matches: 53, Mismatches: 11, Indels: 11
0.71 0.15 0.15
Matches are distributed among these distances:
26 6 0.11
27 27 0.51
28 11 0.21
29 9 0.17
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (27 bp):
TAAAATAATAAAAATATATAAAAATTA
Found at i:8988865 original size:43 final size:42
Alignment explanation
Indices: 8988762--8989182 Score: 493
Period size: 43 Copynumber: 9.8 Consensus size: 42
8988752 AGATTATGTT
* * *
8988762 TTTAGCGGCGGTTT-TGCTAGAAGCGCCGCTAAAGGTTTGTTC
1 TTTAGCGGC-GTTTGTGATAAAAGCGCCGCTAAAGGTTTGGTC
8988804 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTTATGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTT-TGGTC
* * *
8988847 TATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGT-TTGGTC
* * * *
8988890 TATAGCGGCGTTTGTGATAGAAGAGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGT-TTGGTC
** *
8988933 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGT-TTGGTC
* * ** *
8988976 TTTAGCGGCGTTTGTGAGAAAAGCACTACTAAAGGTCTTGGTA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGT-TTGGTC
8989019 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGT-TTGGTC
* * * * *
8989062 TTTAGCGGCGTTTGTGAGAAAAGCGCTGCTAAAAGTGATGGTA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGT-TTGGTC
* *
8989105 TTTAACGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGT-TTGGTC
** *
8989148 TTTAGCGGCGTTTGTTTCTAAAAACGCCGCTAAAG
1 TTTAGCGGCGTTTG-TGATAAAAGCGCCGCTAAAG
8989183 TTAGCGACGC
Statistics
Matches: 331, Mismatches: 44, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
41 4 0.01
42 30 0.09
43 280 0.85
44 17 0.05
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTTTGGTC
Found at i:8988998 original size:129 final size:128
Alignment explanation
Indices: 8988762--8989162 Score: 556
Period size: 129 Copynumber: 3.1 Consensus size: 128
8988752 AGATTATGTT
* * *
8988762 TTTAGCGGCGGTTT-TGCTAGAAGCGCCGCTAAAGGT-TTGTTCTTTAGCGGCGTTTGTGATAAA
1 TTTAGCGGC-GTTTGTGATAGAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAA
* * * *
8988825 AGCGCCGCTAAAGGTTATGGTCTATAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTA
65 AGCGCCGCTAAAGG-TGTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTA
* * * *
8988890 TATAGCGGCGTTTGTGATAGAAGAGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGGAAAA
1 TTTAGCGGCGTTTGTGATAGAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAA
* **
8988955 GCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGAGAAAAGCACTACTAAAGGTCTTGGTA
66 GCGCCGCTAAAGGT-GTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTA
*
8989019 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAA
1 TTTAGCGGCGTTTGTGATAGAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAA
* * * * *
8989084 GCGCTGCTAAAAGTGATGGTATTTAACGGCGTTTGTG-GTAAAAGCGCCGCTAAAGGTCTTGGTC
66 GCGCCGCTAAAGGTG-TGGTCTTTAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAGGTCTTGGTA
8989148 TTTAGCGGCGTTTGT
1 TTTAGCGGCGTTTGT
8989163 TTCTAAAAAC
Statistics
Matches: 241, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
127 4 0.02
128 31 0.13
129 206 0.85
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.29
Consensus pattern (128 bp):
TTTAGCGGCGTTTGTGATAGAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAGAAAA
GCGCCGCTAAAGGTGTGGTCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTA
Found at i:8989590 original size:19 final size:19
Alignment explanation
Indices: 8989566--8989641 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 19
8989556 TTTACATGAT
8989566 TTAATTATAAATATAAAAA
1 TTAATTATAAATATAAAAA
8989585 TTAATTATAAAGTATATTATTAAA
1 TTAATTATAAA-TATA--A--AAA
* *
8989609 TTAATTAT-ATTATAAATA
1 TTAATTATAAATATAAAAA
8989627 TTATATTAATAAATA
1 TTA-ATT-ATAAATA
8989642 AATTAAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
18 5 0.11
19 14 0.30
20 7 0.15
21 3 0.07
22 5 0.11
23 1 0.02
24 11 0.24
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (19 bp):
TTAATTATAAATATAAAAA
Found at i:8989608 original size:26 final size:25
Alignment explanation
Indices: 8989579--8989646 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 25
8989569 ATTATAAATA
8989579 TAAAAATTAATTATAAAGTA-TATTAT
1 TAAAAATTAATTATAAA-TATTA-TAT
8989605 TAAATTAATTATATTATAAATATTATAT
1 TAAA--AATTA-ATTATAAATATTATAT
*
8989633 TAATAAATAAATTA
1 TAA-AAATTAATTA
8989647 AATAAAGACA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
26 8 0.22
27 4 0.11
28 13 0.36
29 11 0.31
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (25 bp):
TAAAAATTAATTATAAATATTATAT
Found at i:8989678 original size:12 final size:12
Alignment explanation
Indices: 8989661--8989685 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8989651 AAGACAAATG
8989661 TATGGTGATGAT
1 TATGGTGATGAT
8989673 TATGGTGATGAT
1 TATGGTGATGAT
8989685 T
1 T
8989686 TGATACAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (12 bp):
TATGGTGATGAT
Found at i:8989990 original size:9 final size:9
Alignment explanation
Indices: 8989968--8990007 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
8989958 GAAACAGGGA
8989968 GAAAGGAAAG
1 GAAA-GAAAG
*
8989978 GAAAGAAAT
1 GAAAGAAAG
8989987 GAAAGAAA-
1 GAAAGAAAG
8989995 GAAAGAAAG
1 GAAAGAAAG
8990004 GAAA
1 GAAA
8990008 AACTAGAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.29
9 16 0.57
10 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (9 bp):
GAAAGAAAG
Found at i:8990399 original size:17 final size:18
Alignment explanation
Indices: 8990377--8990410 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8990367 TAAATGAGTT
8990377 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
8990394 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
8990411 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:8991769 original size:26 final size:26
Alignment explanation
Indices: 8991739--8991790 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
8991729 AATGGTTGTG
*
8991739 GTTTGAAATTGCAGGGAAGGTTAGAT
1 GTTTGAAATTGCAGGAAAGGTTAGAT
8991765 GTTTGAAATTGCAGGAAAGGTTAGAT
1 GTTTGAAATTGCAGGAAAGGTTAGAT
8991791 AATTATAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.31
Consensus pattern (26 bp):
GTTTGAAATTGCAGGAAAGGTTAGAT
Found at i:8998793 original size:17 final size:17
Alignment explanation
Indices: 8998756--8998790 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8998746 CAAAATAAAT
*
8998756 ATTATTTATTAAATTAA
1 ATTAATTATTAAATTAA
8998773 ATTAATTATATAAATTAA
1 ATTAATTAT-TAAATTAA
8998791 TTATTCCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTAATTATTAAATTAA
Found at i:8998803 original size:13 final size:13
Alignment explanation
Indices: 8998770--8998794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8998760 TTTATTAAAT
8998770 TAAATTAATTATA
1 TAAATTAATTATA
8998783 TAAATTAATTAT
1 TAAATTAATTAT
8998795 TCCAATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATTAATTATA
Found at i:9000818 original size:44 final size:44
Alignment explanation
Indices: 9000713--9000811 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
9000703 GTGTGTACGA
* * * *
9000713 GCTTAGTACTTTGGTGCTCTTTGTTCAACACTTCAATGCTCTCT
1 GCTTAGCACTTTCGTGCTCTTTGATCAACACTTCAATGCTCACT
* * * *
9000757 GCTTATCACTTTCGTGCTCTTTGATCAGCATTTCGATGCTCACT
1 GCTTAGCACTTTCGTGCTCTTTGATCAACACTTCAATGCTCACT
*
9000801 TCTTAGCACTT
1 GCTTAGCACTT
9000812 CAGTGCTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.16, C:0.26, G:0.15, T:0.42
Consensus pattern (44 bp):
GCTTAGCACTTTCGTGCTCTTTGATCAACACTTCAATGCTCACT
Found at i:9002492 original size:20 final size:20
Alignment explanation
Indices: 9002463--9002509 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9002453 ATATATCTTG
9002463 AATT-ATTTGATTCTAATCA
1 AATTGATTTGATTCTAATCA
* *
9002482 ATTTGATTTGATTTTAATCA
1 AATTGATTTGATTCTAATCA
9002502 AATTGATT
1 AATTGATT
9002510 CAATTGCCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (20 bp):
AATTGATTTGATTCTAATCA
Found at i:9003167 original size:40 final size:41
Alignment explanation
Indices: 9003084--9003178 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 41
9003074 GTTTGGATAA
* **
9003084 AAAACGCCACT-AAAGATCAAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAAGATCAAGCATTAGCGGCGCTTTTCAG
*
9003124 AAAACGCCGCTAAAAGAT-AAGCATTAGCGGTG-TTTTCCAG
1 AAAACGCCGCTAAAAGATCAAGCATTAGCGGCGCTTTT-CAG
*
9003164 AAAACGCCGCAAAAA
1 AAAACGCCGCTAAAA
9003179 ACCTAAGCCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.08
40 38 0.79
41 6 0.12
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGATCAAGCATTAGCGGCGCTTTTCAG
Found at i:9003272 original size:41 final size:41
Alignment explanation
Indices: 9003214--9003355 Score: 232
Period size: 41 Copynumber: 3.5 Consensus size: 41
9003204 TGAGCTTTCG
* *
9003214 GGGCTTTAGCGGTGTTTTTAGGAAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAGGTAAGTGCCGCTAATGCTCA
9003255 GGGCTTTAGCGGCGTTTTT-GAGTAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAG-GTAAGTGCCGCTAATGCTCA
* *
9003296 GGGATTTAGCAGCGTTTTTAGGTAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTAGGTAAGTGCCGCTAATGCTCA
9003337 GGGCTTTAGCGGCGTTTTT
1 GGGCTTTAGCGGCGTTTTT
9003356 TTGTGAAAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 1 0.01
41 91 0.98
42 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.33
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTAGGTAAGTGCCGCTAATGCTCA
Found at i:9003651 original size:162 final size:157
Alignment explanation
Indices: 9003388--9003715 Score: 485
Period size: 162 Copynumber: 2.1 Consensus size: 157
9003378 ATAATTTTAG
* *
9003388 GGTTTAGGGGTTATTATAATTTAAAGTTTATCAATATGGTTTAGGGTTTTAGGGTTTATTATATA
1 GGTTTAGGGATTATTATAATTTAAAGTTTATCAATATGGTTTAGGGTTTTAGGGTTTATTAAATA
* * *
9003453 ATATTTATTATTTTAGGATTAGAGTTTTGAGTTTAGGGTTTATGATGTAAGTTTAGTGTTTTGGG
66 ATATTTATTATTTTAGGATTAGAGTCTTGAGTTTAGGGTTTATGATGTAAGTTTAGTATTTTGAG
* *
9003518 TTTAGGGTTTTGGGAGTTTGGTGATTAA
131 TTTAGGG-GTTGGGAGTTTGGGGATTAA
* *
9003546 GGTTTAGTGATTATTATAATTTAAAGTTTATCGTATATGGTTTAGGGTTTTAGGGTTAATCATTA
1 GGTTTAGGGATTATTATAATTTAAAGTTTATC-AATATGGTTTAGGGTTTTAGGGTT--T-ATTA
* *
9003611 AATAATGTTTATTATTTTGGGATTAGAGTCTTGAGTTTAGGGTTTATGATGTAAGTTTAGTATTT
62 AATAATATTTATTATTTTAGGATTAGAGTCTTGAGTTTAGGGTTTATGATGTAAGTTTAGTATTT
* *
9003676 TTAGTTTAGGGGTTGGGAGTTTGGGGTTTAA
127 TGAGTTTAGGGGTTGGGAGTTTGGGGATTAA
*
9003707 GATTTAGGG
1 GGTTTAGGG
9003716 TTTGGGGTTT
Statistics
Matches: 151, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
158 30 0.20
159 23 0.15
161 25 0.17
162 73 0.48
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.48
Consensus pattern (157 bp):
GGTTTAGGGATTATTATAATTTAAAGTTTATCAATATGGTTTAGGGTTTTAGGGTTTATTAAATA
ATATTTATTATTTTAGGATTAGAGTCTTGAGTTTAGGGTTTATGATGTAAGTTTAGTATTTTGAG
TTTAGGGGTTGGGAGTTTGGGGATTAA
Found at i:9004259 original size:13 final size:13
Alignment explanation
Indices: 9004243--9004268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9004233 TTTTTAAATA
9004243 ATATATTAATAAT
1 ATATATTAATAAT
9004256 ATATATTAATAAT
1 ATATATTAATAAT
9004269 GTCTTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATTAATAAT
Found at i:9004896 original size:253 final size:254
Alignment explanation
Indices: 9004348--9005007 Score: 955
Period size: 253 Copynumber: 2.6 Consensus size: 254
9004338 TTGAAAATTT
9004348 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGTAAAAACGCCACAAAATCTA
1 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGT-AAAACGCCACAAAATCTA
* * * * *
9004413 AATATTAACGGCGTTTGTTCAGAAAACGCCTAAAAAAAGATA-TAAAAATTAAACAAAACGGCAC
65 AATACTAGCGGCGTTTGTTCGGAAAACGCCGAAAAAAACATATTAAAAATTAAACAAAACGGCAC
* * * * * *
9004477 CGCTTCATTGACGAGTTAAATGTTAGTGGCGTTTTTTTTGTCAAAATGTCGTAACAGTTGTGAAA
130 CGCTTCATTGACGAGTTAAATGTTAGTGGCG-TTTTCTTATCAAAACGCCGCAAAAGTTGTGAAA
*
9004542 CTAGTGACATTTTTTCGTAAGCGCCGCAAATGTTAAAATAGAAAACGACGTCGTTTTAAAC
194 CTAGTGACATTTTTTCGTAAGCGCCGCAAATGTTAAAATAGAAAACGACATCGTTTTAAAC
* *
9004603 ATAAATAATATTAATAAAAAGTTAATCAGTAGCAGCGTTTCCATGTAAAACGCCACCAAATCTAA
1 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGTAAAACGCCACAAAATCTAA
* * * * *
9004668 ATACTAGCGGCATTTGTTTGGAAAACGCCGGAAAAAACATATTAAAAAATAAACAAAACGGCACT
66 ATACTAGCGGCGTTTGTTCGGAAAACGCCGAAAAAAACATATTAAAAATTAAACAAAACGGCACC
9004733 GCTTCATTGACGAGTTAAATGTTAGTGGCG-TTTCTTATCAAAACGCCGCAAAAGTTGTGAAACT
131 GCTTCATTGACGAGTTAAATGTTAGTGGCGTTTTCTTATCAAAACGCCGCAAAAGTTGTGAAACT
* * * * * *
9004797 AGTGGCATTTTTTCGTAAGTGCCGCAAATGTTGAAATGGAAAACGACATCGTTTTTAGC
196 AGTGACATTTTTTCGTAAGCGCCGCAAATGTTAAAATAGAAAACGACATCGTTTTAAAC
* * * *
9004856 ATAAATAATATTAATAGAAAGTTAATCAATAGCGGCGTTTCGATGTAGAACGCCACAAAATCTAA
1 ATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGTAAAACGCCACAAAATCTAA
* * * * * *
9004921 ATACTAGCGGTGTTTGTTCGTAAAATGCCGCAAAGAACATATTAAAAATTAAACAAAACGGTACC
66 ATACTAGCGGCGTTTGTTCGGAAAACGCCGAAAAAAACATATTAAAAATTAAACAAAACGGCACC
* *
9004986 GCTTCGTTGACAAGTTAAATGT
131 GCTTCATTGACGAGTTAAATGT
9005008 CCGCAAAAGT
Statistics
Matches: 361, Mismatches: 43, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
253 214 0.59
254 51 0.14
255 96 0.27
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (254 bp):
ATAAATAATATTAATAAAAAGTTAATCAGTAGCGGCGTTTCCATGTAAAACGCCACAAAATCTAA
ATACTAGCGGCGTTTGTTCGGAAAACGCCGAAAAAAACATATTAAAAATTAAACAAAACGGCACC
GCTTCATTGACGAGTTAAATGTTAGTGGCGTTTTCTTATCAAAACGCCGCAAAAGTTGTGAAACT
AGTGACATTTTTTCGTAAGCGCCGCAAATGTTAAAATAGAAAACGACATCGTTTTAAAC
Found at i:9005995 original size:122 final size:122
Alignment explanation
Indices: 9005778--9006021 Score: 391
Period size: 122 Copynumber: 2.0 Consensus size: 122
9005768 CAACTGCTTT
* *
9005778 CCCTGACATACAACATTAGGATTCTATGTTACATACACTTTGAAACTTTCTGCATTCAGGATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTACATACACTTTGAAACTTTCTGCATTCAGCATTGA
* *
9005843 CTTGAAAACTGGGAATCTAAGCTCAGAAATTGGGA-ATGGATCAAGTGGCACCTCATA
66 CTAGAAAACTAGGAATCTAAGCTCAGAAATTGGGACA-GGATCAAGTGGCACCTCATA
* * *
9005900 CCCTGACATGCAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCATTCAGCATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTACATACACTTTGAAACTTTCTGCATTCAGCATTGA
* *
9005965 CTAGAAAACTAGGAATCTAAGCTCAGAAATTGTGACAGTATCAAGTGGCACCTCATA
66 CTAGAAAACTAGGAATCTAAGCTCAGAAATTGGGACAGGATCAAGTGGCACCTCATA
9006022 TAGCATGCAT
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
122 111 0.99
123 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (122 bp):
CCCTGACATACAACATTAGGATTCAATGTTACATACACTTTGAAACTTTCTGCATTCAGCATTGA
CTAGAAAACTAGGAATCTAAGCTCAGAAATTGGGACAGGATCAAGTGGCACCTCATA
Found at i:9008003 original size:43 final size:43
Alignment explanation
Indices: 9007906--9008026 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 43
9007896 GATATGTTTT
* * * * *
9007906 TAGCGGCGTTTGTGTGAAAAGTGCCGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCAGGATCTA
* * *
9007948 TAGAGGCGTTTGTGGGAAAAGCCCCGCTAAAAGTCAGGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCAGGATCTA
*
9007991 TAGCGGCGTTTGTAAGAAAAGCGCCGCTAAAAGTCA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCA
9008027 TTTTGTGTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 30 0.45
43 37 0.55
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCAGGATCTA
Found at i:9008102 original size:38 final size:37
Alignment explanation
Indices: 9008028--9008132 Score: 102
Period size: 38 Copynumber: 2.7 Consensus size: 37
9008018 TAAAAGTCAT
* *
9008028 TTTGTGTAAAAGCGCCGCTAAAGGTCCTGATCTATAGCTGCG
1 TTTGTGGAAAAGCGCCGCTAAAGGT-C----CTATAGCGGCG
* * *
9008070 TTTGTGGAAAAAGTGCTGCTAAAGGTCCTATAGGGGCG
1 TTTGTGG-AAAAGCGCCGCTAAAGGTCCTATAGCGGCG
*
9008108 TTTGTGGGAAAGCGCCGCTAAAGGT
1 TTTGTGGAAAAGCGCCGCTAAAGGT
9008133 TATGATCTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
37 15 0.28
38 16 0.30
42 7 0.13
43 16 0.30
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (37 bp):
TTTGTGGAAAAGCGCCGCTAAAGGTCCTATAGCGGCG
Found at i:9016244 original size:62 final size:59
Alignment explanation
Indices: 9016178--9016296 Score: 175
Period size: 62 Copynumber: 2.0 Consensus size: 59
9016168 TATTTTATTA
* * * *
9016178 ATTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAG
1 ATTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATACTATATTAATTTAATAAG
9016240 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATACTATATTAATTTAATA
1 ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATACTATATTAATTTAATA
9016297 TTAAAGTATA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.42
60 1 0.02
61 1 0.02
62 29 0.55
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (59 bp):
ATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATACTATATTAATTTAATAAG
Found at i:9026860 original size:19 final size:19
Alignment explanation
Indices: 9026824--9026859 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9026814 TTATTTCATT
*
9026824 TTTAGTTTTAGAATTTTTA
1 TTTAGATTTAGAATTTTTA
9026843 TTTAGATTT-GAATTTTT
1 TTTAGATTTAGAATTTTT
9026860 TTAGGATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (19 bp):
TTTAGATTTAGAATTTTTA
Found at i:9029755 original size:23 final size:24
Alignment explanation
Indices: 9029721--9029768 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
9029711 GCCCGGCCTA
*
9029721 TTTTTAATTAAAATTAAAATTAAT
1 TTTTTAATTAAAATTAAAACTAAT
9029745 TTTTTAA-TAAAATTAAAACTAAT
1 TTTTTAATTAAAATTAAAACTAAT
9029768 T
1 T
9029769 GTTGTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTTTAATTAAAATTAAAACTAAT
Found at i:9029780 original size:22 final size:21
Alignment explanation
Indices: 9029728--9029782 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 21
9029718 CTATTTTTAA
* *
9029728 TTAAAATTAAAATTAATTTTT
1 TTAAAATTAAAACTAATTTTG
9029749 TAATAAAATTAAAACTAATTGTTG
1 T--TAAAATTAAAACTAATT-TTG
9029773 TTAAAATTAA
1 TTAAAATTAA
9029783 TTGTTAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 1 0.03
22 9 0.31
23 16 0.55
24 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
TTAAAATTAAAACTAATTTTG
Found at i:9029793 original size:16 final size:16
Alignment explanation
Indices: 9029757--9029797 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9029747 TTTAATAAAA
*
9029757 TTAAAACTAATTGTTG
1 TTAAAATTAATTGTTG
9029773 TTAAAATTAATTGTTAG
1 TTAAAATTAATTGTT-G
9029790 -TAAAATTA
1 TTAAAATTA
9029798 TCAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 22 0.96
17 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (16 bp):
TTAAAATTAATTGTTG
Found at i:9029903 original size:9 final size:9
Alignment explanation
Indices: 9029870--9029897 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9029860 TTTATCAAAT
9029870 TATTAATTG
1 TATTAATTG
9029879 TATTAATTG
1 TATTAATTG
9029888 TATTAATTG
1 TATTAATTG
9029897 T
1 T
9029898 TATAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:9029908 original size:68 final size:68
Alignment explanation
Indices: 9029786--9029995 Score: 361
Period size: 68 Copynumber: 3.1 Consensus size: 68
9029776 AAATTAATTG
* *
9029786 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAATATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
9029849 TGA
66 TGA
*
9029852 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTATAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
9029917 TGA
66 TGA
* *
9029920 TTAGTAAATTTATCAAATTATCAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
9029985 TGA
66 TGA
9029988 TTAGTAAA
1 TTAGTAAA
9029996 ACAAACTTGA
Statistics
Matches: 136, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
66 26 0.19
68 110 0.81
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.46
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:9030102 original size:22 final size:24
Alignment explanation
Indices: 9030062--9030105 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9030052 AAATAAACTT
9030062 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
9030086 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
9030106 AATATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:9034882 original size:97 final size:97
Alignment explanation
Indices: 9034623--9034871 Score: 399
Period size: 97 Copynumber: 2.6 Consensus size: 97
9034613 ATCGATATCA
*
9034623 CAACACATTTAAATCAACAGAAAACGACTAACTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
* *
9034688 CCATTAAGTTCGCGAAGAATTATTAAGGCTTT
66 CCATTAAGTTCGCGAAGAACTATTAAAGCTTT
* *
9034720 CAACACATTTAAAGCAACAGAAATCGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
*
9034785 CCATTATGTTCGCGAAGAACTATTAAAGCTTT
66 CCATTAAGTTCGCGAAGAACTATTAAAGCTTT
* * * * *
9034817 CAACGCATTTAAATCAACAGAAACCGACTAATTTTTCTCCAATCTATTTCAAATT
1 CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATT
9034872 TAGAGTTTAG
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 140 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (97 bp):
CAACACATTTAAATCAACAGAAAACGACTAATTTTTCTCGAATGTGTTTCAAATTCAGGATTTAG
CCATTAAGTTCGCGAAGAACTATTAAAGCTTT
Found at i:9039668 original size:28 final size:26
Alignment explanation
Indices: 9039636--9039706 Score: 67
Period size: 28 Copynumber: 2.7 Consensus size: 26
9039626 CAAATTTATC
9039636 ATTAAGCCA-TTAAAATATTATTATTTGT
1 ATTAA-CCATTTAAAATATTATT-TTT-T
* *
9039664 ATTAACTATTTTAAATATTATTTTTT
1 ATTAACCATTTAAAATATTATTTTTT
*
9039690 ATT-A-TATTTAAAATATT
1 ATTAACCATTTAAAATATT
9039707 TCATGTATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
24 12 0.31
25 1 0.03
26 4 0.10
27 5 0.13
28 17 0.44
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (26 bp):
ATTAACCATTTAAAATATTATTTTTT
Found at i:9040451 original size:11 final size:11
Alignment explanation
Indices: 9040430--9040531 Score: 88
Period size: 11 Copynumber: 9.5 Consensus size: 11
9040420 ATAAATCCTT
9040430 TCTCTAATTTCC
1 TCTC-AATTTCC
9040442 TCTCAATTTCC
1 TCTCAATTTCC
*
9040453 TCTCAATTTGC
1 TCTCAATTTCC
9040464 TCTCAATTTCC
1 TCTCAATTTCC
*
9040475 TCTCAA-ATCC
1 TCTCAATTTCC
* **
9040485 T-T--ACTTAA
1 TCTCAATTTCC
*
9040493 TCTCAATTTGC
1 TCTCAATTTCC
*
9040504 TTTCAATTTCC
1 TCTCAATTTCC
9040515 TCTCAAATTT-C
1 TCTC-AATTTCC
9040526 TCTCAA
1 TCTCAA
9040532 ATCCCTATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
7 1 0.01
8 2 0.03
9 2 0.03
10 6 0.08
11 53 0.73
12 9 0.12
ACGTcount: A:0.23, C:0.30, G:0.02, T:0.45
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:9042396 original size:18 final size:18
Alignment explanation
Indices: 9042373--9042415 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9042363 TGCCAGGTGC
* *
9042373 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
9042391 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
9042409 GTTTCCT
1 GTATCCT
9042416 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:9042695 original size:21 final size:22
Alignment explanation
Indices: 9042671--9042720 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
9042661 AAATACCCTA
*
9042671 CCGGAAG-AACCAGAATCCC-CG
1 CCGGAAGCAACCACAA-CCCTCG
9042692 CCGG-AGCAACCACAACCCTCG
1 CCGGAAGCAACCACAACCCTCG
9042713 CCGGAAGC
1 CCGGAAGC
9042721 TGGACAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 17 0.68
22 3 0.12
ACGTcount: A:0.30, C:0.42, G:0.24, T:0.04
Consensus pattern (22 bp):
CCGGAAGCAACCACAACCCTCG
Found at i:9046283 original size:126 final size:126
Alignment explanation
Indices: 9046050--9046468 Score: 705
Period size: 126 Copynumber: 3.3 Consensus size: 126
9046040 TTTTATAGCC
* * *
9046050 TCAGGAGTTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAG
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTGACAAAG
*
9046115 TATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
66 CATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
* *
9046176 TCAAGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTAACAAAG
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTGACAAAG
*
9046241 CATCCTGCTCAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
66 CATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
* * *
9046302 TCAGGAGCTACTCTAGCAAAAGCGCGTCCACGT-GAGAGCTTTTTTTAGTACTTCTGTTGACAAA
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGA-AGCTTTTTTCAGTACTTCTGCTGACAAA
*
9046366 GCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTC
65 GCATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
* *
9046428 TCAGGAGCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTT
1 TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTT
9046469 CTTTAAATTA
Statistics
Matches: 274, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
125 2 0.01
126 271 0.99
127 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (126 bp):
TCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTGACAAAG
CATCCTGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTATTTTT
Found at i:9046738 original size:91 final size:92
Alignment explanation
Indices: 9046505--9046824 Score: 399
Period size: 91 Copynumber: 3.4 Consensus size: 92
9046495 AGTAACTGTA
* * * * * * *
9046505 AACCCCAAACCCTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACCCTAAACCTTAAACTAAT
1 AACCCTAAACCCTAA-TT-TTTGA-TTTTTTCTTAAAAACCCTTAACTCTAAATCTTAATCTGAT
* *
9046570 TTATTATAAATTTATAATTAATTTACTCAAGT
63 TT-TTA-AAATTTTTAATTAAATTACTCAAGT
* * *
9046602 AACCCTGAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTTAACTCTAAATCTTAATCTGATT
1 AACCCTAAACCCTAA-TT-TTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCTTAATCTGATT
** *
9046667 TTTAATTTTTTTAAATAAATTACTCAAGT
64 TTTAAAATTTTTAATTAAATTACTCAAGT
* *
9046696 AACCCTAAACCTTAA-TTTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATTTT
1 AACCCTAAACCCTAATTTTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCTTAATCTGATTTT
9046760 TAAAATTTTTAATTAAATTACTCAAGT
66 TAAAATTTTTAATTAAATTACTCAAGT
9046787 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAA
1 AACCCTAAACCCTAATTT--TTGATTTTTTCTTAAAAA
9046825 ATAATAAACA
Statistics
Matches: 197, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
91 83 0.42
92 3 0.02
94 51 0.26
95 3 0.02
96 36 0.18
97 21 0.11
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (92 bp):
AACCCTAAACCCTAATTTTTGATTTTTTCTTAAAAACCCTTAACTCTAAATCTTAATCTGATTTT
TAAAATTTTTAATTAAATTACTCAAGT
Found at i:9046769 original size:47 final size:45
Alignment explanation
Indices: 9046621--9046762 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
9046611 CCCTAATTTA
*
9046621 TTTAATTTTTCCTTAAAAACCCTTAACTCTAAATCTTAATCTGATT
1 TTTAATTTTT-CTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
* * * * *
9046667 TTTAATTTTT-TTAAATAA--ATT-ACTCAAGTAACCCTAAACCTTAATT
1 TTTAATTTTTCTTAAA-AACCCTTAACTCTA--AATCCT-AATC-TGATT
* *
9046713 TTGATTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
1 TTTAATTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
9046758 TTTAA
1 TTTAA
9046763 AATTTTTAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 19
0.68 0.14 0.18
Matches are distributed among these distances:
42 5 0.07
43 2 0.03
44 9 0.12
45 12 0.17
46 27 0.38
47 10 0.14
48 2 0.03
49 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.03, T:0.45
Consensus pattern (45 bp):
TTTAATTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTGATT
Found at i:9047275 original size:21 final size:23
Alignment explanation
Indices: 9047237--9047281 Score: 76
Period size: 21 Copynumber: 2.0 Consensus size: 23
9047227 AATCTCAAAG
9047237 TAAAAAATAATAATAAAGCATAT
1 TAAAAAATAATAATAAAGCATAT
9047260 TAAAAAATAA-AA-AAAGCATAT
1 TAAAAAATAATAATAAAGCATAT
9047281 T
1 T
9047282 TTCACCTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (23 bp):
TAAAAAATAATAATAAAGCATAT
Found at i:9058370 original size:13 final size:13
Alignment explanation
Indices: 9058352--9058376 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9058342 TCAAACGATT
9058352 AAATTTTCACACG
1 AAATTTTCACACG
9058365 AAATTTTCACAC
1 AAATTTTCACAC
9058377 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:9059369 original size:42 final size:41
Alignment explanation
Indices: 9059266--9059389 Score: 173
Period size: 42 Copynumber: 3.0 Consensus size: 41
9059256 TGCTATCATA
*
9059266 TATCGATGCCAATAG--CCAG-CTATGGTCTTACACGAATCTC
1 TATCGATGCCAAT-GTCCCAGAC-ATGGTCTTACACGAATCAC
*
9059306 TATCAATGCCAATGTCCCAGACATGGTCTTACACGAATCAC
1 TATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCAC
9059347 GTATCGATGCCAATGTCCCAGACATGGTCTTACACGTAATCAC
1 -TATCGATGCCAATGTCCCAGACATGGTCTTACACG-AATCAC
9059390 ATCTCAGTAT
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
39 1 0.01
40 12 0.16
41 22 0.29
42 35 0.46
43 6 0.08
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (41 bp):
TATCGATGCCAATGTCCCAGACATGGTCTTACACGAATCAC
Found at i:9063538 original size:8 final size:8
Alignment explanation
Indices: 9063525--9063549 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9063515 GGATTTTTTA
9063525 TATTACAT
1 TATTACAT
9063533 TATTACAT
1 TATTACAT
9063541 TATTACAT
1 TATTACAT
9063549 T
1 T
9063550 TTTAATAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (8 bp):
TATTACAT
Found at i:9063728 original size:12 final size:11
Alignment explanation
Indices: 9063707--9063759 Score: 56
Period size: 12 Copynumber: 4.8 Consensus size: 11
9063697 TTTTACACAT
9063707 TTAATTTTTAA
1 TTAATTTTTAA
9063718 TTAACTTTTTAA
1 TTAA-TTTTTAA
*
9063730 ATAATATTTTAA
1 TTAAT-TTTTAA
*
9063742 TT-A-TTGTAA
1 TTAATTTTTAA
9063751 TTAATTTTT
1 TTAATTTTT
9063760 TTTCAATTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 7 0.21
10 1 0.03
11 9 0.26
12 17 0.50
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TTAATTTTTAA
Found at i:9064687 original size:16 final size:16
Alignment explanation
Indices: 9064639--9064690 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
9064629 ATTTGGATCA
* *
9064639 ATTTAGAGTTTGAATA
1 ATTTTGAGTTTGAATT
*
9064655 ATTTTGAGATT-AGATT
1 ATTTTGAGTTTGA-ATT
*
9064671 ATTTTGTGTTTGAATT
1 ATTTTGAGTTTGAATT
9064687 ATTT
1 ATTT
9064691 AGATTCACAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (16 bp):
ATTTTGAGTTTGAATT
Found at i:9065085 original size:29 final size:30
Alignment explanation
Indices: 9065045--9065108 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
9065035 TAATAAAGAT
*
9065045 AAAATTATATTTTAGCCTCT-AAAATTATA
1 AAAATTATATTTAAGCCTCTAAAAATTATA
** *
9065074 AAAATT-TGATTTAATTCTTTAAAAATTATA
1 AAAATTAT-ATTTAAGCCTCTAAAAATTATA
9065104 AAAAT
1 AAAAT
9065109 ATAAATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 14 0.48
30 14 0.48
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (30 bp):
AAAATTATATTTAAGCCTCTAAAAATTATA
Found at i:9070166 original size:22 final size:24
Alignment explanation
Indices: 9070141--9070184 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
9070131 AACCCTGGTA
9070141 TAATTTT-TC-TCAGAATGAAGTT
1 TAATTTTGTCTTCAGAATGAAGTT
*
9070163 TAATTTTGTCTTGAGAATGAAG
1 TAATTTTGTCTTCAGAATGAAG
9070185 GAAGGACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 2 0.11
24 10 0.53
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (24 bp):
TAATTTTGTCTTCAGAATGAAGTT
Found at i:9077497 original size:32 final size:33
Alignment explanation
Indices: 9077452--9077513 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
9077442 TCTTGTTTCA
*
9077452 AAAACATAAAAAAATTATGTTAAAA-AAATTGG
1 AAAACATAAAAAAACTATGTTAAAAGAAATTGG
9077484 AAAACA-AAGAAAAACTATGTTAAAAGAAAT
1 AAAACATAA-AAAAACTATGTTAAAAGAAAT
9077514 GGAGAAGAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 2 0.07
32 21 0.78
33 4 0.15
ACGTcount: A:0.65, C:0.05, G:0.10, T:0.21
Consensus pattern (33 bp):
AAAACATAAAAAAACTATGTTAAAAGAAATTGG
Found at i:9077652 original size:21 final size:20
Alignment explanation
Indices: 9077628--9077670 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
9077618 GAAGGAAAAC
9077628 AAAGAA-AAAAAAAGAAAGTTA
1 AAAGAACAAAAAAA-AAA-TTA
*
9077649 AAAGAACATAAAAAAAATTA
1 AAAGAACAAAAAAAAAATTA
9077669 AA
1 AA
9077671 TTGCTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 9 0.45
22 6 0.30
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (20 bp):
AAAGAACAAAAAAAAAATTA
Found at i:9077657 original size:63 final size:62
Alignment explanation
Indices: 9077560--9077681 Score: 219
Period size: 63 Copynumber: 2.0 Consensus size: 62
9077550 AATGGGAATG
9077560 GGAAAACAAAGAAAAAAAGAAAGTTAAAAGAACAT-AAAAAAATTAAATTGCTCAAAACGAA
1 GGAAAACAAAGAAAAAAAGAAAGTTAAAAGAACATAAAAAAAATTAAATTGCTCAAAACGAA
9077621 GGAAAACAAAGAAAAAAAAAGAAAGTTAAAAGAACATAAAAAAAATTAAATTGCTCAAAAC
1 GGAAAACAAAG--AAAAAAAGAAAGTTAAAAGAACATAAAAAAAATTAAATTGCTCAAAAC
9077682 AAAAAAATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
61 11 0.19
63 24 0.41
64 23 0.40
ACGTcount: A:0.66, C:0.08, G:0.12, T:0.13
Consensus pattern (62 bp):
GGAAAACAAAGAAAAAAAGAAAGTTAAAAGAACATAAAAAAAATTAAATTGCTCAAAACGAA
Found at i:9078282 original size:38 final size:38
Alignment explanation
Indices: 9078210--9078284 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
9078200 AAAAAAAAAT
**
9078210 GCTTTTAAATAGTTACGAGTTGACAAAATTAGAATCTA
1 GCTTTTAAATAGTTACGAGTTGACAAAACCAGAATCTA
* *
9078248 GCTTTTAAA-AGATTACGATTTGACAGAACCAGAATCT
1 GCTTTTAAATAG-TTACGAGTTGACAAAACCAGAATCT
9078285 GGCTATTGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 2 0.06
38 30 0.94
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (38 bp):
GCTTTTAAATAGTTACGAGTTGACAAAACCAGAATCTA
Found at i:9086967 original size:27 final size:27
Alignment explanation
Indices: 9086937--9086988 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
9086927 AAATATAGGT
*
9086937 AAAATTTTAGAAAATTAAAAAAATATA
1 AAAATTTAAGAAAATTAAAAAAATATA
* *
9086964 AAAATTTAAGAAAATTCAAATAATA
1 AAAATTTAAGAAAATTAAAAAAATA
9086989 GTTTCATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (27 bp):
AAAATTTAAGAAAATTAAAAAAATATA
Found at i:9091771 original size:29 final size:30
Alignment explanation
Indices: 9091733--9091797 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
9091723 GAAATTTAGG
*
9091733 AATTTAATCTGTT-T-ACTTTTA-TTTTATAA
1 AATTTAATCT-TTCTAACTTTTAGATTT-TAA
*
9091762 AATTTCATCTTTCTAACTTTTAGATTTTAA
1 AATTTAATCTTTCTAACTTTTAGATTTTAA
9091792 AATTTA
1 AATTTA
9091798 GATTGTTAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 2 0.07
29 10 0.33
30 15 0.50
31 3 0.10
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.55
Consensus pattern (30 bp):
AATTTAATCTTTCTAACTTTTAGATTTTAA
Found at i:9093826 original size:18 final size:18
Alignment explanation
Indices: 9093803--9093871 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
9093793 AGCTCTCAGG
9093803 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
9093821 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
** ***
9093839 CGGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
*
9093857 CACTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
9093872 CTTCATTCCT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.12, C:0.45, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:9096019 original size:13 final size:13
Alignment explanation
Indices: 9096001--9096028 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9095991 CTTGTACAAG
9096001 TAAACTTCATAAA
1 TAAACTTCATAAA
9096014 TAAACTTCATAAA
1 TAAACTTCATAAA
9096027 TA
1 TA
9096029 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:9096456 original size:14 final size:14
Alignment explanation
Indices: 9096433--9096472 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
9096423 ACAAAAAAGT
*
9096433 AAAACATTTTTC-A
1 AAAACATTTTACGA
9096446 AAAATCATTTTACGA
1 AAAA-CATTTTACGA
9096461 AAAACATTTTAC
1 AAAACATTTTAC
9096473 TAGCAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 15 0.62
15 5 0.21
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACGA
Found at i:9099440 original size:25 final size:25
Alignment explanation
Indices: 9099406--9099454 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
9099396 TAACAGTGAA
9099406 TAATACATAATAAATTTCAAAACAG
1 TAATACATAATAAATTTCAAAACAG
* * *
9099431 TAATGCATAATAGATTTTAAAACA
1 TAATACATAATAAATTTCAAAACA
9099455 AATGTATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.53, C:0.10, G:0.06, T:0.31
Consensus pattern (25 bp):
TAATACATAATAAATTTCAAAACAG
Found at i:9099463 original size:23 final size:24
Alignment explanation
Indices: 9099411--9099463 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
9099401 GTGAATAATA
9099411 CATAATAAATTTCAAAACAGTAATG
1 CATAATAAATTTCAAAACAG-AATG
* *
9099436 CATAATAGATTTTAAAACA-AATG
1 CATAATAAATTTCAAAACAGAATG
*
9099459 TATAA
1 CATAA
9099464 ATAATCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
25 17 0.68
ACGTcount: A:0.53, C:0.09, G:0.08, T:0.30
Consensus pattern (24 bp):
CATAATAAATTTCAAAACAGAATG
Found at i:9100201 original size:20 final size:20
Alignment explanation
Indices: 9100173--9100212 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9100163 GGCCAACCTG
9100173 GGTCACCGGACCACC-GTGGC
1 GGTCACCGG-CCACCAGTGGC
*
9100193 GGTCGCCGGCCACCAGTGGC
1 GGTCACCGGCCACCAGTGGC
9100213 TCCGTTCGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.12, C:0.40, G:0.38, T:0.10
Consensus pattern (20 bp):
GGTCACCGGCCACCAGTGGC
Found at i:9101153 original size:50 final size:50
Alignment explanation
Indices: 9101052--9101157 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
9101042 TGGGAAACAA
* ***
9101052 GATTCGCTATTGTAGCTTCAATCTGTTCCACTAAACTGCCCGGGAAGTAG
1 GATTCGCTATTGTAGATTCAATCTGTTCCACTAAACTGCCAAAGAAGTAG
* *
9101102 GATTCGCTGTTGTAGATTCAATCTGTTCCACTGTAA-TGCCAAAG-AGATAG
1 GATTCGCTATTGTAGATTCAATCTGTTCCACT-AAACTGCCAAAGAAG-TAG
9101152 GATTCG
1 GATTCG
9101158 TTGGCCACAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
49 2 0.04
50 44 0.92
51 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (50 bp):
GATTCGCTATTGTAGATTCAATCTGTTCCACTAAACTGCCAAAGAAGTAG
Found at i:9101613 original size:132 final size:132
Alignment explanation
Indices: 9101362--9101730 Score: 544
Period size: 132 Copynumber: 2.8 Consensus size: 132
9101352 TACAGGAAGG
* * * * * *
9101362 CAAGATCTGCTATTTTCAACCTACTCCAATGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATAT
1 CAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCT
* * * *
9101427 GCTTCCCTACTACCTTGAGAAGATAAGATTCGCCATAC-TCGATCTGCTCCACTACTGCTTAGGG
66 GCTTCCCTACTTCCTTGGGAAGATAATATTCGCCGT-CTTCGATCTGCTCCACTACTGCTTAGGG
9101491 AGA
130 AGA
* *
9101494 C-AGAATCTACAATCTTCAACCTACTCCACTATTGCTCAGGGAGATAGGACTGATGGCTTAAATC
1 CAAG-ATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATC
* *
9101558 TGCTTCCCTGCTTCCTTGGGAAGATAATATTCGCCGTCTTCGATCTGCTCTACTACTGCTTAGGG
65 TGCTTCCCTACTTCCTTGGGAAGATAATATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
9101623 AGA
130 AGA
* *
9101626 CAAGATCTACAATCTTTAACCTACTCCACTACTGTTCAGGGAGATAGGACTGGTGGCTTAAATCT
1 CAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCT
* *
9101691 ACTTCCCTACTTCCTTGGGAAGATAATATTCGTCGTCTTC
66 GCTTCCCTACTTCCTTGGGAAGATAATATTCGCCGTCTTC
9101731 TTCAATCCAC
Statistics
Matches: 213, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
131 3 0.01
132 208 0.98
133 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
CAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCT
GCTTCCCTACTTCCTTGGGAAGATAATATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
GA
Found at i:9104320 original size:55 final size:55
Alignment explanation
Indices: 9104236--9104341 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
9104226 TACCAAGGGT
* *
9104236 TATCATCCTTTTTTCCCTATTCGATATTGTGACAATGAGTTGGGGTTTCATGGGC
1 TATCATCCTTTTCTCCCTATTCGATATTGTGACAATAAGTTGGGGTTTCATGGGC
*
9104291 TATCATCCTTTTCTCCCTCTTCGATATTGTGACAATAAGTTGGGGTTTCAT
1 TATCATCCTTTTCTCCCTATTCGATATTGTGACAATAAGTTGGGGTTTCAT
9104342 AGATACTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (55 bp):
TATCATCCTTTTCTCCCTATTCGATATTGTGACAATAAGTTGGGGTTTCATGGGC
Found at i:9117772 original size:18 final size:19
Alignment explanation
Indices: 9117749--9117799 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
9117739 TTAATTTCAC
9117749 CAAATTATATCATTATCA-
1 CAAATTATATCATTATCAT
* *
9117767 CAAATT-TTTAATT-TCAT
1 CAAATTATATCATTATCAT
*
9117784 CGAATTATATCATTAT
1 CAAATTATATCATTAT
9117800 ATTTTCTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
16 3 0.12
17 10 0.40
18 11 0.44
19 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (19 bp):
CAAATTATATCATTATCAT
Found at i:9117772 original size:35 final size:35
Alignment explanation
Indices: 9117733--9117799 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
9117723 CATAAGTAAG
9117733 AAATTTTTAATTTCACCAAATTATATCATTATCAC
1 AAATTTTTAATTTCACCAAATTATATCATTATCAC
* *
9117768 AAATTTTTAATTTCATCGAATTATATCATTAT
1 AAATTTTTAATTTCACCAAATTATATCATTAT
9117800 ATTTTCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.39, C:0.13, G:0.01, T:0.46
Consensus pattern (35 bp):
AAATTTTTAATTTCACCAAATTATATCATTATCAC
Found at i:9123462 original size:14 final size:14
Alignment explanation
Indices: 9123443--9123469 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9123433 TTCTCTTTCA
9123443 CACTTGTATTTTAC
1 CACTTGTATTTTAC
9123457 CACTTGTATTTTA
1 CACTTGTATTTTA
9123470 TTTTATCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
CACTTGTATTTTAC
Found at i:9125460 original size:13 final size:15
Alignment explanation
Indices: 9125441--9125479 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
9125431 TTACTCATTA
9125441 CAAGAGAAGTAA-AG
1 CAAGAGAAGTAAGAG
*
9125455 -AAGAGAAGGAAGAG
1 CAAGAGAAGTAAGAG
9125469 CAAGAGAAGTA
1 CAAGAGAAGTA
9125480 GTCAAGAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.56, C:0.05, G:0.33, T:0.05
Consensus pattern (15 bp):
CAAGAGAAGTAAGAG
Found at i:9126900 original size:28 final size:28
Alignment explanation
Indices: 9126855--9126910 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
9126845 CTTACTCATT
*
9126855 GCAAGAGAAGCTGAGAAGAGAAAGAAAA
1 GCAAGAGAAGCAGAGAAGAGAAAGAAAA
* *
9126883 GCAAGAGAAGCAGGGAAGAGAAATAAAA
1 GCAAGAGAAGCAGAGAAGAGAAAGAAAA
9126911 AATAGAGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.07, G:0.32, T:0.04
Consensus pattern (28 bp):
GCAAGAGAAGCAGAGAAGAGAAAGAAAA
Found at i:9127832 original size:28 final size:28
Alignment explanation
Indices: 9127800--9127878 Score: 126
Period size: 28 Copynumber: 2.8 Consensus size: 28
9127790 CTCATTTATT
9127800 GCAAGAGAAGCAGAGAAGAA-AAAGAAGA
1 GCAAGAGAAGCAGAGAA-AAGAAAGAAGA
9127828 GCAAGAGAAGCA-ACGAAAAGAAAGAAGA
1 GCAAGAGAAGCAGA-GAAAAGAAAGAAGA
9127856 GCAAGAGAAGCAGAGAAAAGAAA
1 GCAAGAGAAGCAGAGAAAAGAAA
9127879 TAAAGAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
27 3 0.06
28 44 0.92
29 1 0.02
ACGTcount: A:0.61, C:0.09, G:0.30, T:0.00
Consensus pattern (28 bp):
GCAAGAGAAGCAGAGAAAAGAAAGAAGA
Found at i:9127867 original size:9 final size:9
Alignment explanation
Indices: 9127800--9127872 Score: 53
Period size: 9 Copynumber: 8.0 Consensus size: 9
9127790 CTCATTTATT
9127800 GCAAGAGAA
1 GCAAGAGAA
9127809 GC-AGAGAA
1 GCAAGAGAA
* *
9127817 GAAAAAGAAGA
1 GCAAGAG-A-A
9127828 GCAAGAGAA
1 GCAAGAGAA
*
9127837 GCAACGAAAA
1 GCAA-GAGAA
*
9127847 GAAAGA-AGA
1 GCAAGAGA-A
9127856 GCAAGAGAA
1 GCAAGAGAA
9127865 GC-AGAGAA
1 GCAAGAGAA
9127873 AAGAAATAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
8 14 0.27
9 21 0.41
10 10 0.20
11 6 0.12
ACGTcount: A:0.59, C:0.10, G:0.32, T:0.00
Consensus pattern (9 bp):
GCAAGAGAA
Found at i:9131802 original size:3 final size:3
Alignment explanation
Indices: 9131796--9131824 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9131786 TTATTATCAT
9131796 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
9131825 TTATTCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:9132388 original size:117 final size:117
Alignment explanation
Indices: 9132174--9132395 Score: 306
Period size: 117 Copynumber: 1.9 Consensus size: 117
9132164 AAAAGTTTTG
* * *
9132174 ATTTTTTTTAAAAAGAGAAAGTTTAATTTTTTTTAAATAAAAATATGTTTTTTAGTGATATTAAA
1 ATTTTTTTTAAAAAGAGAAAGTTTAA-TTTTTTAAAATAAAAATATATTTTTTAGTCATATTAAA
9132239 GGAAAAGTTTAAATTCTCAAAACAAATATTTTGAT-TTTTAAGAAAAATAGTA
65 GGAAAAGTTTAAATTCTCAAAACAAATATTTTGATCTTTTAAGAAAAATAGTA
* *
9132291 ATTTTTTTTAAAAAAGAGAAAGTTTAGA-TTTTTAAAATAAAAATCTATTTTTTAGTCATTTTAA
1 ATTTTTTTT-AAAAAGAGAAAGTTTA-ATTTTTTAAAATAAAAATATATTTTTTAGTCATATTAA
* * * *
9132355 AGGAAAAGTTTAAAATTTTTAAAATAAA-GTTTTGATCTTTT
64 AGGAAAAGTTT-AAATTCTCAAAACAAATATTTTGATCTTTT
9132396 TCAACTATTT
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
117 58 0.63
118 33 0.36
119 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.44
Consensus pattern (117 bp):
ATTTTTTTTAAAAAGAGAAAGTTTAATTTTTTAAAATAAAAATATATTTTTTAGTCATATTAAAG
GAAAAGTTTAAATTCTCAAAACAAATATTTTGATCTTTTAAGAAAAATAGTA
Found at i:9133162 original size:3 final size:3
Alignment explanation
Indices: 9133156--9133181 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9133146 TATTGTTATT
9133156 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
9133182 GTCAAGGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:9133815 original size:3 final size:3
Alignment explanation
Indices: 9133807--9133838 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9133797 AAATCTATTA
9133807 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9133839 AAGATCAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9141273 original size:23 final size:23
Alignment explanation
Indices: 9141244--9141289 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9141234 CTTTCATACT
*
9141244 GTAGTAATTTTCGGGGTATTACA
1 GTAGTAATTTTCGGGATATTACA
*
9141267 GTAGTAATTTTTGGGATATTACA
1 GTAGTAATTTTCGGGATATTACA
9141290 TTCTCAATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (23 bp):
GTAGTAATTTTCGGGATATTACA
Found at i:9153856 original size:22 final size:23
Alignment explanation
Indices: 9153808--9153855 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
9153798 TTTTGAACAA
* *
9153808 TTTAATTTTTCCTTTTATGTTCT
1 TTTAACTTTCCCTTTTATGTTCT
* *
9153831 TTTAACTTTCCCTTTTTTTTTCT
1 TTTAACTTTCCCTTTTATGTTCT
9153854 TT
1 TT
9153856 ATTTTCCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTAACTTTCCCTTTTATGTTCT
Found at i:9154796 original size:14 final size:15
Alignment explanation
Indices: 9154773--9154805 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9154763 CATAAAGGGG
*
9154773 AAGAAGAAAAA-GAA
1 AAGAAAAAAAAGGAA
9154787 AAGAAAAAAAAGGAA
1 AAGAAAAAAAAGGAA
9154802 AAGA
1 AAGA
9154806 TTAAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAGGAA
Found at i:9155167 original size:29 final size:31
Alignment explanation
Indices: 9155102--9155178 Score: 95
Period size: 29 Copynumber: 2.5 Consensus size: 31
9155092 TAACACTTAG
* * *
9155102 TGACTAAAATGTTACAATACGATAACATAAG
1 TGACTAAAATGTAACATTACGATAACATAAC
* *
9155133 TCACTAAAATGTAACATTTC-A-AACATAAC
1 TGACTAAAATGTAACATTACGATAACATAAC
9155162 TGACTAAAATGTAACAT
1 TGACTAAAATGTAACAT
9155179 GAGACAAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 23 0.57
30 1 0.03
31 16 0.40
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (31 bp):
TGACTAAAATGTAACATTACGATAACATAAC
Found at i:9155197 original size:31 final size:29
Alignment explanation
Indices: 9155135--9155198 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
9155125 AACATAAGTC
** * *
9155135 ACTAAAATGTAACATTTCAAACATAACTG
1 ACTAAAATGTAACATGACAAACAAAAATG
9155164 ACTAAAATGTAACATGAGACAAACAAAAATG
1 ACTAAAATGTAACAT--GACAAACAAAAATG
9155195 ACTA
1 ACTA
9155199 TTTTAATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 15 0.52
31 14 0.48
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.22
Consensus pattern (29 bp):
ACTAAAATGTAACATGACAAACAAAAATG
Found at i:9157114 original size:3 final size:3
Alignment explanation
Indices: 9157106--9157187 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
9157096 TTTGTGTATG
9157106 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
9157154 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
9157188 GGGAATATAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Done.