Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007931.1 Hibiscus syriacus cultivar Beakdansim tig00110339_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: 2341804
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:1830402 original size:22 final size:22
Alignment explanation
Indices: 1830369--1830419 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
1830359 AGTATATTTT
1830369 AAATATCTTTAT-TAAAATATTA
1 AAATATCTTTATAT-AAATATTA
*
1830391 AAATAT-TATTATATTAATATTA
1 AAATATCT-TTATATAAATATTA
1830413 AATATAT
1 AA-ATAT
1830420 AAATAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 1 0.04
22 19 0.76
23 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATCTTTATATAAATATTA
Found at i:1832624 original size:12 final size:12
Alignment explanation
Indices: 1832607--1832640 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
1832597 TACTAGGGAC
1832607 AATTCCA-TCAAG
1 AATTCCACT-AAG
1832619 AATTCCACTAAG
1 AATTCCACTAAG
1832631 AATTCCACTA
1 AATTCCACTA
1832641 TCCACTTTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.41, C:0.26, G:0.06, T:0.26
Consensus pattern (12 bp):
AATTCCACTAAG
Found at i:1833230 original size:23 final size:23
Alignment explanation
Indices: 1833204--1833268 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
1833194 TGGTAGCAAG
1833204 TGGAGGTGTTGTGGCAAAATGTA
1 TGGAGGTGTTGTGGCAAAATGTA
*
1833227 TGGAGGTGTTGTGGCAAAGTGTA
1 TGGAGGTGTTGTGGCAAAATGTA
* *
1833250 TGGAGATGTCGTGG-AAAAT
1 TGGAGGTGTTGTGGCAAAAT
1833269 TATATTGTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
22 4 0.11
23 34 0.89
ACGTcount: A:0.26, C:0.05, G:0.40, T:0.29
Consensus pattern (23 bp):
TGGAGGTGTTGTGGCAAAATGTA
Found at i:1833854 original size:21 final size:20
Alignment explanation
Indices: 1833830--1833868 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1833820 TAAGGAATTA
1833830 AACATCATAAACAAAACAAAT
1 AACATCATAAA-AAAACAAAT
*
1833851 AACATCATACAAAAACAA
1 AACATCATAAAAAAACAA
1833869 CCATCCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.21, G:0.00, T:0.13
Consensus pattern (20 bp):
AACATCATAAAAAAACAAAT
Found at i:1847633 original size:21 final size:20
Alignment explanation
Indices: 1847595--1847633 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1847585 TAATGAATGG
*
1847595 TTGTTTTTGTATGTTGTTAT
1 TTGTTTTTGTATGATGTTAT
*
1847615 TTGTTTTGTTTATGATGTT
1 TTGTTTT-TGTATGATGTT
1847634 TATTGCCTTA
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:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (20 bp):
TTGTTTTTGTATGATGTTAT
Found at i:1848102 original size:20 final size:19
Alignment explanation
Indices: 1848034--1848108 Score: 70
Period size: 20 Copynumber: 4.1 Consensus size: 19
1848024 ATCATATTGT
*
1848034 CCAGGGGTAAAGATTCCCC
1 CCAGGGGTACAGATTCCCC
1848053 CCAGGGGGTATC-GATT--CC
1 CCA-GGGGTA-CAGATTCCCC
*
1848071 CC--GGGAACAGATTCCCCC
1 CCAGGGGTACAGATT-CCCC
1848089 CCAGGGGTACAGATTCCCC
1 CCAGGGGTACAGATTCCCC
1848108 C
1 C
1848109 TGCATGGTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
14 1 0.02
15 8 0.18
18 8 0.18
19 8 0.18
20 20 0.44
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.16
Consensus pattern (19 bp):
CCAGGGGTACAGATTCCCC
Found at i:1848252 original size:21 final size:21
Alignment explanation
Indices: 1848223--1848262 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1848213 TTGAATATAT
1848223 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTATCGATTCCC
*
1848244 TATGGAGGGGTATCGATTC
1 TATGAAGGGGTATCGATTC
1848263 TCCCCATTCT
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:0.23, C:0.15, G:0.33, T:0.30
Consensus pattern (21 bp):
TATGAAGGGGTATCGATTCCC
Found at i:1848616 original size:33 final size:34
Alignment explanation
Indices: 1848546--1848618 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 34
1848536 CCTTTTGTAA
* * *
1848546 AGGGGAAAGGTTCTAGCTTATCCCGTATAAAAGCT
1 AGGGAAAAGGTTCTAGCTTAGCCCG-AGAAAAGCT
*
1848581 AGGGAAAAGGTTCTAGTTTAGCCCG-GAAAAGCT
1 AGGGAAAAGGTTCTAGCTTAGCCCGAGAAAAGCT
1848614 AGGGA
1 AGGGA
1848619 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 12 0.35
35 22 0.65
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (34 bp):
AGGGAAAAGGTTCTAGCTTAGCCCGAGAAAAGCT
Found at i:1849715 original size:19 final size:20
Alignment explanation
Indices: 1849691--1849728 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1849681 TAAAGATAAT
1849691 TTGATTTT-AAAAGCAAAAG
1 TTGATTTTGAAAAGCAAAAG
*
1849710 TTGATTTTGAAAATCAAAA
1 TTGATTTTGAAAAGCAAAA
1849729 TGAAATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.34
Consensus pattern (20 bp):
TTGATTTTGAAAAGCAAAAG
Found at i:1851082 original size:20 final size:20
Alignment explanation
Indices: 1851057--1851164 Score: 69
Period size: 20 Copynumber: 5.8 Consensus size: 20
1851047 AAATTATCCA
1851057 GGGGTACAGATTCCCCCCAG
1 GGGGTACAGATTCCCCCCAG
1851077 GGGGTATC-GATT--CCCC--
1 GGGGTA-CAGATTCCCCCCAG
*
1851093 -GGGTACAGATTCCTCCCAG
1 GGGGTACAGATTCCCCCCAG
*
1851112 GGGGTATC-TATT--CCCC--
1 GGGGTA-CAGATTCCCCCCAG
* *
1851128 -GGGAACATATTCCCCCCCAG
1 GGGGTACAGATT-CCCCCCAG
1851148 GGGGTACAGATTCCCCC
1 GGGGTACAGATTCCCCC
1851165 TACATGATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 30
0.65 0.06 0.29
Matches are distributed among these distances:
14 2 0.03
15 17 0.25
17 3 0.04
18 11 0.16
20 23 0.34
21 11 0.16
ACGTcount: A:0.19, C:0.34, G:0.27, T:0.20
Consensus pattern (20 bp):
GGGGTACAGATTCCCCCCAG
Found at i:1851104 original size:35 final size:35
Alignment explanation
Indices: 1851058--1851163 Score: 151
Period size: 35 Copynumber: 3.0 Consensus size: 35
1851048 AATTATCCAG
1851058 GGGTACAGATTCCCCCCAGGGGGTATCGATTCCCC
1 GGGTACAGATTCCCCCCAGGGGGTATCGATTCCCC
* *
1851093 GGGTACAGATTCCTCCCAGGGGGTATCTATTCCCC
1 GGGTACAGATTCCCCCCAGGGGGTATCGATTCCCC
* *
1851128 GGGAACATATTCCCCCCCAGGGGGTA-CAGATTCCCC
1 GGGTACAGATT-CCCCCCAGGGGGTATC-GATTCCCC
1851164 CTACATGATT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
35 43 0.68
36 20 0.32
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (35 bp):
GGGTACAGATTCCCCCCAGGGGGTATCGATTCCCC
Found at i:1851302 original size:21 final size:21
Alignment explanation
Indices: 1851276--1851317 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1851266 ATTTGAATAT
*
1851276 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1851297 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1851318 CCCATTTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1857874 original size:36 final size:35
Alignment explanation
Indices: 1857826--1857904 Score: 133
Period size: 36 Copynumber: 2.3 Consensus size: 35
1857816 AACTTTATAC
1857826 AATATA-TTTTATACCTCTACTATATATTTATCAA
1 AATATACTTTTATACCTCTACTATATATTTATCAA
*
1857860 AATATACTATTTATACCTCTACTATGTATTTATCAA
1 AATATACT-TTTATACCTCTACTATATATTTATCAA
1857896 AATATACTT
1 AATATACTT
1857905 GAATAATTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
34 6 0.14
35 2 0.05
36 34 0.81
ACGTcount: A:0.38, C:0.15, G:0.01, T:0.46
Consensus pattern (35 bp):
AATATACTTTTATACCTCTACTATATATTTATCAA
Found at i:1857976 original size:23 final size:23
Alignment explanation
Indices: 1857936--1857980 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
1857926 TTAAAATCCC
1857936 ATTTAAAAGCTTGAAAAATAAATA
1 ATTTAAAAGCTTGAAAAA-AAATA
1857960 ATTTAAAAG-TTGAAAAAAAAT
1 ATTTAAAAGCTTGAAAAAAAAT
1857981 TAGGCAGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 8 0.38
24 9 0.43
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (23 bp):
ATTTAAAAGCTTGAAAAAAAATA
Found at i:1869626 original size:5 final size:5
Alignment explanation
Indices: 1869616--1869650 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
1869606 AGATAAAAAG
1869616 GAAGA GAAGA GAAGA GAAGA GAAGA GAGAGA GAAG
1 GAAGA GAAGA GAAGA GAAGA GAAGA GA-AGA GAAG
1869651 GGCCTTAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:1869821 original size:23 final size:25
Alignment explanation
Indices: 1869795--1869840 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
1869785 CGCCGATGAT
1869795 TATTA-ATTATTTTA-TTTTTTTCG
1 TATTATATTATTTTAGTTTTTTTCG
* *
1869818 TATTATGTTTTTTTAGTTTTTTT
1 TATTATATTATTTTAGTTTTTTT
1869841 TTAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 7 0.37
25 7 0.37
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (25 bp):
TATTATATTATTTTAGTTTTTTTCG
Found at i:1869885 original size:23 final size:24
Alignment explanation
Indices: 1869859--1869919 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
1869849 TAATAAGAAA
*
1869859 TTTTA-TCTTTGTGAC-ACGTTTTT
1 TTTTACTC-TTGTGACAAAGTTTTT
1869882 TTTTACTCTTGTGACATAAGTTTTT
1 TTTTACTCTTGTGACA-AAGTTTTT
*
1869907 TTTTACCCTTGTG
1 TTTTACTCTTGTG
1869920 GCACGATCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 12 0.36
24 2 0.06
25 19 0.58
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.57
Consensus pattern (24 bp):
TTTTACTCTTGTGACAAAGTTTTT
Found at i:1870364 original size:20 final size:21
Alignment explanation
Indices: 1870339--1870379 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1870329 TCGTTAAAAA
1870339 TGATAAT-AAAATATATTTTT
1 TGATAATAAAAATATATTTTT
1870359 TGATAATAAAAATATATTTTT
1 TGATAATAAAAATATATTTTT
1870380 AGAAGTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (21 bp):
TGATAATAAAAATATATTTTT
Found at i:1873712 original size:18 final size:18
Alignment explanation
Indices: 1873686--1873779 Score: 143
Period size: 18 Copynumber: 5.2 Consensus size: 18
1873676 AATTTTAAAT
* *
1873686 ATTTACAATTATCAGATG
1 ATTTTCAATTGTCAGATG
*
1873704 ATTTTCAATTATCAGATG
1 ATTTTCAATTGTCAGATG
*
1873722 ATTTTCAATTGTCATATG
1 ATTTTCAATTGTCAGATG
*
1873740 ATTTTCAATTGTCATATG
1 ATTTTCAATTGTCAGATG
1873758 ATTTTCAATTGTCAGATG
1 ATTTTCAATTGTCAGATG
1873776 ATTT
1 ATTT
1873780 ACAGTTAACA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 72 1.00
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.47
Consensus pattern (18 bp):
ATTTTCAATTGTCAGATG
Found at i:1873969 original size:41 final size:41
Alignment explanation
Indices: 1873911--1873989 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
1873901 AAGTGAATAC
*
1873911 TTATCAGTTTAGATTTGGTACATTCGTGTATCAATGTTTAA
1 TTATCAGTTCAGATTTGGTACATTCGTGTATCAATGTTTAA
* * *
1873952 TTATCAGTTCAGCTTTGGTATATTCGTGTATTAATGTT
1 TTATCAGTTCAGATTTGGTACATTCGTGTATCAATGTT
1873990 CAGCACTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.48
Consensus pattern (41 bp):
TTATCAGTTCAGATTTGGTACATTCGTGTATCAATGTTTAA
Found at i:1876323 original size:18 final size:19
Alignment explanation
Indices: 1876285--1876323 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
1876275 TCTCTAAAAA
1876285 TGGTATCGATACCTACCTAT
1 TGGTATCGATACC-ACCTAT
1876305 TGGTATCGATACC-CCTAT
1 TGGTATCGATACCACCTAT
1876323 T
1 T
1876324 ACCGATACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
20 13 0.68
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (19 bp):
TGGTATCGATACCACCTAT
Found at i:1892521 original size:19 final size:18
Alignment explanation
Indices: 1892497--1892553 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
1892487 TAATTGCTTT
1892497 GAAGAAGAAGAAAAAGAA
1 GAAGAAGAAGAAAAAGAA
1892515 GGAAGAAGAAGAAAAACAGAA
1 -GAAGAAGAAG-AAAA-AGAA
* *
1892536 GAAGAGGAGGAAAAAGAA
1 GAAGAAGAAGAAAAAGAA
1892554 AAAGCCACGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 4 0.12
19 14 0.41
20 12 0.35
21 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.32, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAGAAAAAGAA
Found at i:1892552 original size:26 final size:27
Alignment explanation
Indices: 1892505--1892556 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
1892495 TTGAAGAAGA
*
1892505 AGAAAAAGAAGGAAGAAGAAGAAAAAC
1 AGAAAAAGAAGGAAGAAAAAGAAAAAC
* *
1892532 AGAAGAAG-AGGAGGAAAAAGAAAAA
1 AGAAAAAGAAGGAAGAAAAAGAAAAA
1892557 GCCACGTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.29, T:0.00
Consensus pattern (27 bp):
AGAAAAAGAAGGAAGAAAAAGAAAAAC
Found at i:1900988 original size:40 final size:44
Alignment explanation
Indices: 1900939--1901023 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
1900929 TTAAATGATT
*
1900939 TTCAATTGA-T-TTTTTTACATA-TAT-TTT-TTATTTATTTATA
1 TTCAATTGATTATTTTTTA-ATACTATATTTATTATTTATATATA
*
1900979 TTCATTTGATTATTTTTTAATACTATATTTATTATTTATATATA
1 TTCAATTGATTATTTTTTAATACTATATTTATTATTTATATATA
1901023 T
1 T
1901024 ATATATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
40 8 0.21
41 4 0.11
42 10 0.26
43 3 0.08
44 13 0.34
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (44 bp):
TTCAATTGATTATTTTTTAATACTATATTTATTATTTATATATA
Found at i:1901016 original size:19 final size:19
Alignment explanation
Indices: 1900957--1901025 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
1900947 ATTTTTTTAC
* *
1900957 ATATATTTTTTATTTATTT
1 ATATATTTATTATTTATAT
*
1900976 ATATTCATTTGATTATTTTTTAAT
1 ATA-T-ATTT-ATTA-TTTAT-AT
1901000 ACTATATTTATTATTTATAT
1 A-TATATTTATTATTTATAT
1901020 ATATAT
1 ATATAT
1901026 ATATATATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
19 8 0.20
20 4 0.10
21 8 0.20
22 7 0.17
23 8 0.20
24 3 0.08
25 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (19 bp):
ATATATTTATTATTTATAT
Found at i:1901261 original size:19 final size:19
Alignment explanation
Indices: 1901240--1901275 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1901230 TTTTGGTTTT
*
1901240 TTTTTATATTA-TATTATA
1 TTTTCATATTACTATTATA
1901258 TTTTCATATTACTATTAT
1 TTTTCATATTACTATTAT
1901276 TATTATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCATATTACTATTATA
Found at i:1901322 original size:2 final size:2
Alignment explanation
Indices: 1901315--1901341 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1901305 TTTACTCATT
1901315 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
1901342 TAATATTTCA
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:1901362 original size:8 final size:8
Alignment explanation
Indices: 1901345--1901428 Score: 55
Period size: 8 Copynumber: 10.1 Consensus size: 8
1901335 TATATATTAA
1901345 TATTTCATT
1 TATTT-ATT
1901354 TATTTATT
1 TATTTATT
1901362 TATTTATT
1 TATTTATT
*
1901370 T-TTCTTTT
1 TATT-TATT
1901378 TATTTTATT
1 TA-TTTATT
* *
1901387 TTTTTACT
1 TATTTATT
*
1901395 TATTTTTAT
1 TATTTAT-T
*
1901404 TCTTTATT
1 TATTTATT
1901412 T-TTTCATT
1 TATTT-ATT
*
1901420 TATTCATT
1 TATTTATT
1901428 T
1 T
1901429 TTTCTTCTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
7 5 0.08
8 35 0.59
9 17 0.29
10 2 0.03
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTATT
Found at i:1901366 original size:12 final size:12
Alignment explanation
Indices: 1901345--1901428 Score: 55
Period size: 12 Copynumber: 6.8 Consensus size: 12
1901335 TATATATTAA
1901345 TATTTCATTTATT
1 TATTT-ATTTATT
1901358 TATTTATTTATT
1 TATTTATTTATT
*
1901370 T-TTCTTTTTATTT
1 TATT-TATTTA-TT
* *
1901383 TATTTTTTTACT
1 TATTTATTTATT
* *
1901395 TATTTTTATTCTT
1 TATTTAT-TTATT
1901408 TATTT-TTTCATT
1 TATTTATTT-ATT
*
1901420 TATTCATTT
1 TATTTATTT
1901429 TTTCTTCTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
11 4 0.07
12 28 0.47
13 25 0.42
14 2 0.03
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTTATTTATT
Found at i:1901384 original size:29 final size:30
Alignment explanation
Indices: 1901352--1901430 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 30
1901342 TAATATTTCA
*
1901352 TTTATTTATTTATTTATTTTTCTT-TTTAT
1 TTTATTTATTTATTTATTTTTATTCTTTAT
* *
1901381 TTTATTTTTTTACTTATTTTTATTCTTTAT
1 TTTATTTATTTATTTATTTTTATTCTTTAT
* *
1901411 TTT-TTCATTTATTCATTTTT
1 TTTATTTATTTATTTATTTTT
1901431 TCTTCTAACA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 34 0.81
30 8 0.19
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (30 bp):
TTTATTTATTTATTTATTTTTATTCTTTAT
Found at i:1901397 original size:17 final size:17
Alignment explanation
Indices: 1901345--1901400 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
1901335 TATATATTAA
* *
1901345 TATTTCATTTATTTATT
1 TATTTTATTTTTTTATT
1901362 TA-TTTATTTTTCTT-TT
1 TATTTTATTTTT-TTATT
*
1901378 TATTTTATTTTTTTACT
1 TATTTTATTTTTTTATT
1901395 TATTTT
1 TATTTT
1901401 TATTCTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTATTTTTTTATT
Found at i:1901422 original size:25 final size:23
Alignment explanation
Indices: 1901374--1901423 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
1901364 TTTATTTTTC
*
1901374 TTTTTATTTTATTTTTTTACTTA
1 TTTTTATTTTATTTTTTCACTTA
*
1901397 TTTTTATTCTTTATTTTTTCATTTA
1 TTTTTA-T-TTTATTTTTTCACTTA
1901422 TT
1 TT
1901424 CATTTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 6 0.26
24 1 0.04
25 16 0.70
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTATTTTATTTTTTCACTTA
Found at i:1905961 original size:16 final size:16
Alignment explanation
Indices: 1905935--1905975 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1905925 AGATCCAATC
1905935 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
1905950 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
*
1905967 AAAAACAAA
1 AAGAACAAA
1905976 GAAAAAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 12 0.52
17 6 0.26
ACGTcount: A:0.78, C:0.10, G:0.12, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:1905983 original size:7 final size:7
Alignment explanation
Indices: 1905941--1906013 Score: 58
Period size: 7 Copynumber: 9.7 Consensus size: 7
1905931 AATCAAGAAC
1905941 AAAAAAG
1 AAAAAAG
1905948 AAAAGAAG
1 AAAA-AAG
1905956 CAAAAAAG
1 -AAAAAAG
*
1905964 CAAAAA-
1 AAAAAAG
*
1905970 AACAAAG
1 AAAAAAG
1905977 AAAAAAG
1 AAAAAAG
1905984 AGAAACAAG
1 A-AAA-AAG
*
1905993 AACAAAAAT
1 -A-AAAAAG
1906002 AAAAAAG
1 AAAAAAG
1906009 AAAAA
1 AAAAA
1906014 GGGACAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
6 4 0.08
7 26 0.49
8 10 0.19
9 9 0.17
10 4 0.08
ACGTcount: A:0.79, C:0.07, G:0.12, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:1906817 original size:22 final size:22
Alignment explanation
Indices: 1906789--1906866 Score: 129
Period size: 22 Copynumber: 3.5 Consensus size: 22
1906779 AGCTACCCCA
*
1906789 CCAAACCGTTGAGCATCAAATG
1 CCAAACCTTTGAGCATCAAATG
*
1906811 CCAAACCTATGAGCATCAAATG
1 CCAAACCTTTGAGCATCAAATG
1906833 CCAAACCTTTGAGCATCAAATG
1 CCAAACCTTTGAGCATCAAATG
*
1906855 TCAAACCTTTGA
1 CCAAACCTTTGA
1906867 CCAAACATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (22 bp):
CCAAACCTTTGAGCATCAAATG
Found at i:1907881 original size:106 final size:106
Alignment explanation
Indices: 1907671--1909681 Score: 3032
Period size: 106 Copynumber: 19.0 Consensus size: 106
1907661 ATATCGTGCC
* * * * * * *
1907671 ACTCAAGACAACAC-AGTTCAACTTCACAATGAAGGGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
1907735 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGAAATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1907776 ACTCCAGACAACGCAAGTTCAAGTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1907841 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
1907882 ATTCCAGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTAGTTGTCAACAAACGAA-TTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAAC-AACTTCC
*
1907946 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1907988 ACTCCAGACAACGCAAGCTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
1908053 AATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1908094 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGGCCGCTGGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1908159 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
1908200 ACTCCAGACAACGCAAGTTCAACTTCACAACAAAGGGACCGCTGGTTGTCAACAAACGACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
1908265 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
1908306 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
1908371 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1908412 ACTCCAGACAACGCAAGTTCAACTTTACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
1908477 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1908518 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
1908583 AATTTCAGAGCCAATTTCAACTTTACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
1908624 ACTCCAGACAACGCAAGTTCAACTTCACAATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
1908689 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1908730 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1908795 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1908836 ACTCCAGACAACGCAAGTTCAACTTCACTACGAAGGGACCGCTGGTTGTCAACAAATAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
1908901 AATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1908942 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
1909007 AATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
1909048 ACTCAAGACAACGCAAGTTTACCTTCACGACGAATGGACCACTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1909113 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1909154 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGATCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
1909219 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
1909260 ACTCCAGACAACGCAAGTTCAATTTCACGACGAATGGACCACTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
1909325 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
1909366 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
1909431 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
1909472 AC-CCAATACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAT-AA-AA-TT-T
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
* * *
1909532 C-A-TTCAGAGTCAATTTCAACTTCACAGCAAATGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
1909572 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
** * * *
1909637 GGTTCCAGAGCCAATTTCAACTTCACAACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
1909678 ACTC
1 ACTC
1909682 AGAACAATGC
Statistics
Matches: 1743, Mismatches: 152, Indels: 21
0.91 0.08 0.01
Matches are distributed among these distances:
100 77 0.04
101 4 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 17 0.01
106 1633 0.94
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:1911039 original size:19 final size:19
Alignment explanation
Indices: 1910950--1911040 Score: 60
Period size: 19 Copynumber: 4.6 Consensus size: 19
1910940 TTTTTTACAC
*
1910950 TATATAT-TA-TTATTATC
1 TATATATATATTTATTATT
* *
1910967 TATACATATATTTTTTATT
1 TATATATATATTTATTATT
* *
1910986 TATTTATATTCATTTGGTTATTT
1 TATATATA-T-ATTT-ATTA-TT
*
1911009 TTTAATACTATATTTATTATT
1 TAT-ATA-TATATTTATTATT
1911030 TATATATATAT
1 TATATATATAT
1911041 ATATATACTT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
17 6 0.11
18 2 0.04
19 17 0.30
20 4 0.07
21 8 0.14
22 6 0.11
23 8 0.14
24 3 0.05
25 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (19 bp):
TATATATATATTTATTATT
Found at i:1911414 original size:16 final size:16
Alignment explanation
Indices: 1911363--1911431 Score: 66
Period size: 17 Copynumber: 4.1 Consensus size: 16
1911353 TATTTATTTA
*
1911363 TTTATTTTTCCTTTTAT
1 TTTATTTTTCATTTT-T
* *
1911380 TTTATTTTTTACTTATT
1 TTTATTTTTCA-TTTTT
*
1911397 TTTATTCTTCATTTTT
1 TTTATTTTTCATTTTT
*
1911413 TTCATTTATTCATTTTT
1 TTTATTT-TTCATTTTT
1911430 TT
1 TT
1911432 CCCTCTGACA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
16 9 0.21
17 30 0.71
18 3 0.07
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATTTTTCATTTTT
Found at i:1912212 original size:2 final size:2
Alignment explanation
Indices: 1912205--1912238 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1912195 CGGAGTTTTG
1912205 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
1912239 TGGGTCTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1914696 original size:27 final size:27
Alignment explanation
Indices: 1914658--1914770 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 27
1914648 CAAGCCTGGA
* * *
1914658 TGCAAGGTGTTCTCAATCACCAATAAC
1 TGCAAGATGCTCTCAATCACCAAAAAC
*
1914685 TGCAAGATGTTCTCAATCACCAAAAAC
1 TGCAAGATGCTCTCAATCACCAAAAAC
* * * *
1914712 TGAAAGATGCTCTGAATCACCAAGAAT
1 TGCAAGATGCTCTCAATCACCAAAAAC
* *
1914739 TGCAAGATGCTCTGAATCACCAAAAAT
1 TGCAAGATGCTCTCAATCACCAAAAAC
1914766 TGCAA
1 TGCAA
1914771 AGCCAAGGAC
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (27 bp):
TGCAAGATGCTCTCAATCACCAAAAAC
Found at i:1915088 original size:78 final size:78
Alignment explanation
Indices: 1914954--1915245 Score: 332
Period size: 78 Copynumber: 3.7 Consensus size: 78
1914944 ATGGAACCAT
* * * *
1914954 GCGATGATCATCATCTGCATCTCGGGCTAGAGTCTCAGTGTCAGGATACCATAGAGAATGAGATT
1 GCGACGATCATCATCAGCATCTCGGGCTAGAGTCTCAGTCTCAGGATACTATAGAGAATGAGATT
1915019 GGTGAAGAAGAGG
66 GGTGAAGAAGAGG
* * ** * *
1915032 GCGACGATCATCACCAGCATCTCGGGCTAGAGTCTAAGTCTCATAATACTGTAGAGAATAAGATT
1 GCGACGATCATCATCAGCATCTCGGGCTAGAGTCTCAGTCTCAGGATACTATAGAGAATGAGATT
* **
1915097 GGTGTAGAAGAAA
66 GGTGAAGAAGAGG
* * * *
1915110 TCGATGATCGTCATCAGCATCTCGGGCTAGATTCTCAGTCTCAGGATACTATAGAGAATGAGATT
1 GCGACGATCATCATCAGCATCTCGGGCTAGAGTCTCAGTCTCAGGATACTATAGAGAATGAGATT
1915175 GGTGAAGAAGAGG
66 GGTGAAGAAGAGG
* * ** * * ** * * *
1915188 GCGACGGTAATCGGCAACATCTCGAGCTAGACACTGAGTCTCACGATACTTTAGAGAA
1 GCGACGATCATCATCAGCATCTCGGGCTAGAGTCTCAGTCTCAGGATACTATAGAGAA
1915246 GTCATCAACA
Statistics
Matches: 174, Mismatches: 40, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
78 174 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (78 bp):
GCGACGATCATCATCAGCATCTCGGGCTAGAGTCTCAGTCTCAGGATACTATAGAGAATGAGATT
GGTGAAGAAGAGG
Found at i:1915243 original size:156 final size:156
Alignment explanation
Indices: 1914955--1915245 Score: 429
Period size: 156 Copynumber: 1.9 Consensus size: 156
1914945 TGGAACCATG
* *
1914955 CGATGATCATCATCTGCATCTCGGGCTAGAGTCTCAGTGTCAGGATACCATAGAGAATGAGATTG
1 CGATGATCATCATCAGCATCTCGGGCTAGAGTCTCAGTCTCAGGATACCATAGAGAATGAGATTG
* * * ** *
1915020 GTGAAGAAGAGGGCGACGATCATCACCAGCATCTCGGGCTAGAGTCTAAGTCTCATAATACTGTA
66 GTGAAGAAGAGGGCGACGATAATCACCAACATCTCGAGCTAGACACTAAGTCTCACAATACTGTA
1915085 GAGAATAAGATTGGTGTAGAAGAAAT
131 GAGAATAAGATTGGTGTAGAAGAAAT
* * *
1915111 CGATGATCGTCATCAGCATCTCGGGCTAGATTCTCAGTCTCAGGATACTATAGAGAATGAGATTG
1 CGATGATCATCATCAGCATCTCGGGCTAGAGTCTCAGTCTCAGGATACCATAGAGAATGAGATTG
* ** * * *
1915176 GTGAAGAAGAGGGCGACGGTAATCGGCAACATCTCGAGCTAGACACTGAGTCTCACGATACTTTA
66 GTGAAGAAGAGGGCGACGATAATCACCAACATCTCGAGCTAGACACTAAGTCTCACAATACTGTA
1915241 GAGAA
131 GAGAA
1915246 GTCATCAACA
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
156 118 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (156 bp):
CGATGATCATCATCAGCATCTCGGGCTAGAGTCTCAGTCTCAGGATACCATAGAGAATGAGATTG
GTGAAGAAGAGGGCGACGATAATCACCAACATCTCGAGCTAGACACTAAGTCTCACAATACTGTA
GAGAATAAGATTGGTGTAGAAGAAAT
Found at i:1918548 original size:44 final size:44
Alignment explanation
Indices: 1918485--1918571 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
1918475 TGTTGGTGTT
1918485 AAAAGCAACTCAATCACAAAATTCATAATCATATGATATCACTC
1 AAAAGCAACTCAATCACAAAATTCATAATCATATGATATCACTC
**
1918529 AAAAGCAACTCTGTCACAAAATTCATAATCATATGATATCACT
1 AAAAGCAACTCAATCACAAAATTCATAATCATATGATATCACT
1918572 TCTATTATGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (44 bp):
AAAAGCAACTCAATCACAAAATTCATAATCATATGATATCACTC
Found at i:1920632 original size:45 final size:45
Alignment explanation
Indices: 1920582--1921124 Score: 789
Period size: 45 Copynumber: 12.1 Consensus size: 45
1920572 ATGAAAGACT
*
1920582 AAATGCATAACGGTGAATTAAAGGCATGAAAGGATGCCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* *
1920627 AAATGCATAACGGTGCATTAAATGCATAAAAGGATGCCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* *
1920672 AAATGCATAACGGTGTATTAAAGGCATGAAAGGATGTCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* *
1920717 AAATGCATAACGGTGCATTAAAAGCATGAAAGGATGTCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* * *
1920762 AAATACATAACGGTGCATTAAAGGCATGAAAGGATGTCATAAATA
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* *
1920807 AAATGCATAACGGTGCATTAAAGTCATGAAAGTATGCCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* * * *
1920852 AAATGCATAACGGTGTATTAAAGACATGAAATGATACCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
*
1920897 AAATGCATAACGGTGCATTAAAGGCATAAAAGGATGCCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* * * * *
1920942 AAATGCATAATGATGCATTAAACGCATGAAAGAATGCCATAAATA
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* * * * *
1920987 AAATGCACAATGGTGCATTATAGGCATGAAAGAATGCCATAAAAG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* * *
1921032 AAATGCATAACGGTGCATTATAGGCATGAAAGAATGCCATAAAAG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
* * *
1921077 AAATTCATAACGGTGTATTAAAGGCATGAAAAGATGCCATAAATG
1 AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
1921122 AAA
1 AAA
1921125 ATAATGAATA
Statistics
Matches: 451, Mismatches: 47, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 451 1.00
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (45 bp):
AAATGCATAACGGTGCATTAAAGGCATGAAAGGATGCCATAAATG
Found at i:1924348 original size:24 final size:23
Alignment explanation
Indices: 1924289--1924348 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
1924279 TGGGCTCTAT
1924289 TTGGGTCC-GATTTTGGTTGTAA
1 TTGGGTCCGGATTTTGGTTGTAA
*
1924311 ATGGAGCTCCGGATTTT-GTTGTCAA
1 TTGG-G-TCCGGATTTTGGTTGT-AA
1924336 TTGGGTCCTGGAT
1 TTGGGTCC-GGAT
1924349 CTGTATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
22 3 0.10
23 4 0.13
24 13 0.42
25 11 0.35
ACGTcount: A:0.15, C:0.13, G:0.32, T:0.40
Consensus pattern (23 bp):
TTGGGTCCGGATTTTGGTTGTAA
Found at i:1924400 original size:3 final size:3
Alignment explanation
Indices: 1924394--1924452 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
1924384 ATTTAACAAC
*
1924394 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1924442 AAT AAT AAT AA
1 AAT AAT AAT AA
1924453 ATGGGACAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1924912 original size:20 final size:20
Alignment explanation
Indices: 1924860--1924909 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1924850 AAATATCGAT
1924860 GTTCAATTTTAAGGTTCAGG
1 GTTCAATTTTAAGGTTCAGG
1924880 GTTCAATTTTAAGGTTCAGG
1 GTTCAATTTTAAGGTTCAGG
1924900 GTTCATATTT
1 GTTCA-ATTT
1924910 AAGAAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (20 bp):
GTTCAATTTTAAGGTTCAGG
Found at i:1931712 original size:17 final size:18
Alignment explanation
Indices: 1931690--1931724 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1931680 TACTATAGTA
1931690 GTACTGT-GTACATCGAT
1 GTACTGTAGTACATCGAT
*
1931707 GTACTGTAGTGCATCGAT
1 GTACTGTAGTACATCGAT
1931725 ACATAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (18 bp):
GTACTGTAGTACATCGAT
Found at i:1931798 original size:21 final size:20
Alignment explanation
Indices: 1931773--1931836 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
1931763 TGTTCACGGT
1931773 ACTGTAGCAGTGCATAGGTAC
1 ACTGTAGCAGTGCAT-GGTAC
* * *
1931794 ACTGTTAACTGTTCATGGT--
1 ACTG-TAGCAGTGCATGGTAC
1931813 ACTGTAGCAGTGCATTGGTAC
1 ACTGTAGCAGTGCA-TGGTAC
1931834 ACT
1 ACT
1931837 ATTTACTGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
21 10 0.30
22 8 0.24
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (20 bp):
ACTGTAGCAGTGCATGGTAC
Found at i:1931816 original size:40 final size:40
Alignment explanation
Indices: 1931761--1931853 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
1931751 GCATCGATGC
*
1931761 ACTGTTCACGGTACTGTAGCAGTGCATAGGTACACTGTTA
1 ACTGTTCACGGTACTGTAGCAGTGCATAGGTACACTATTA
* * *
1931801 ACTGTTCATGGTACTGTAGCAGTGCATTGGTACACTATTT
1 ACTGTTCACGGTACTGTAGCAGTGCATAGGTACACTATTA
1931841 ACTGTTCACGGTA
1 ACTGTTCACGGTA
1931854 TTGTTCATCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (40 bp):
ACTGTTCACGGTACTGTAGCAGTGCATAGGTACACTATTA
Found at i:1931831 original size:19 final size:19
Alignment explanation
Indices: 1931770--1931833 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
1931760 CACTGTTCAC
*
1931770 GGTACTGTAGCAGTGCATA
1 GGTACTGTAGCAGTGCATT
* * *
1931789 GGTACACTGTTAACTGTTCA-T
1 GGT--ACTG-TAGCAGTGCATT
1931810 GGTACTGTAGCAGTGCATT
1 GGTACTGTAGCAGTGCATT
1931829 GGTAC
1 GGTAC
1931834 ACTATTTACT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
18 7 0.21
19 13 0.38
21 7 0.21
22 7 0.21
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (19 bp):
GGTACTGTAGCAGTGCATT
Found at i:1938695 original size:21 final size:22
Alignment explanation
Indices: 1938654--1938698 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1938644 TAATAATAAT
1938654 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
1938676 AACATATAA-AATTAAA-ATATA
1 AACA-ATAATAATTAAATATATA
1938697 AA
1 AA
1938699 TAAACAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:1940021 original size:9 final size:9
Alignment explanation
Indices: 1940007--1940136 Score: 131
Period size: 9 Copynumber: 14.7 Consensus size: 9
1939997 GACCTGTTTG
*
1940007 TAATAATAC
1 TAATAATAA
1940016 TAATAATAA
1 TAATAATAA
1940025 TAATAATAA
1 TAATAATAA
1940034 TAATAATAA
1 TAATAATAA
1940043 TAATAATAA
1 TAATAATAA
1940052 TAATAATAA
1 TAATAATAA
*
1940061 TAATAATAG
1 TAATAATAA
1940070 TAATAA-AA
1 TAATAATAA
* * *
1940078 TATTAAGAG
1 TAATAATAA
1940087 T-ATAAATAA
1 TAAT-AATAA
* *
1940096 -GATAATAT
1 TAATAATAA
*
1940104 TAATATTAA
1 TAATAATAA
*
1940113 TATTAATAA
1 TAATAATAA
*
1940122 TAATATTAA
1 TAATAATAA
*
1940131 AAATAA
1 TAATAA
1940137 ATAAAAAAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
8 11 0.11
9 88 0.89
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
TAATAATAA
Found at i:1940025 original size:6 final size:6
Alignment explanation
Indices: 1940007--1940136 Score: 131
Period size: 6 Copynumber: 22.0 Consensus size: 6
1939997 GACCTGTTTG
*
1940007 TAATAA TACTAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * * *
1940055 TAATAA TAATAA TAGTAA TAA-AA TATTAA GAGT-A TAAATAA -GATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA T-AATAA TAATAA
* * * * *
1940101 TATTAA TATTAA TATTAA TAATAA TATTAA AAATAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
1940137 ATAAAAAAAA
Statistics
Matches: 104, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
5 9 0.09
6 94 0.90
7 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.35
Consensus pattern (6 bp):
TAATAA
Found at i:1940813 original size:123 final size:123
Alignment explanation
Indices: 1940509--1941195 Score: 879
Period size: 122 Copynumber: 5.7 Consensus size: 123
1940499 GAATCAAATT
* * *
1940509 AAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCTTCTTCATATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* * * * * * * * *
1940574 GAACTCTCTCTGGAAATGCTGAGGCTGATCTATCTCTTTTTGCGATAGAGTCGAGC-A
66 GAACTTTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
* * * *
1940631 AATGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCTTTTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
1940696 GAACTTTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
66 GAACTTTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
* *
1940754 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTTTCAGATGATTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* *
1940819 GAACTTTCTCTGGAAATATTGATGCTGATCTATCTCCTTCTAGGATAAAATCAAGCAA
66 GAACTTTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
*
1940877 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
*
1940942 GAACTCT-TCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
66 GAACTTTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
* * * * *
1940999 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCTTCTTCATATGAGATCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
* * * ** * * * *
1941064 GAACTCTAC-CTGG-CA-----ATGCTGATCCA--T-C--GAGTGATGAATTCGAGCAA
66 GAACT-TTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
* *
1941111 AAGGTTTAACAAGTTCTTCTCATTATGAACTTCTCCTT-TT-TTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
*
1941174 GAACTCTTC-C-GAAAATGTTGAT
66 GAACT-TTCTCTGGAAATGTTGAT
1941196 CCATGGAATG
Statistics
Matches: 504, Mismatches: 52, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
109 1 0.00
110 30 0.06
111 2 0.00
112 47 0.09
114 1 0.00
115 3 0.01
117 10 0.02
122 220 0.44
123 190 0.38
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (123 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTTTCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
Found at i:1940955 original size:245 final size:244
Alignment explanation
Indices: 1940509--1941195 Score: 920
Period size: 245 Copynumber: 2.9 Consensus size: 244
1940499 GAATCAAATT
*
1940509 AAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCTTCTTCATATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCATATGAGTTCTTCTCATTAT
* * * * * * * *
1940574 GAACTCTCTCTGGAAATGCTGAGGCTGATCTATCT-CTTTTTGCGATAGAGTCGAGC-AAATGTT
66 GAACTTTCTCTGGAAAT-ATGATGCTGATCTATCTCCTTCTAGCGATAAAATCGAGCAAAAGGTT
* * *
1940637 GAACAAATTCTTCTCATTATGAACTTATTCTTCTTTTTCAGATGAGTTCTTCTCATTATGAACTT
130 GAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTTTCAGATGAGTTCTTCTCATTATGAACTC
1940702 TCTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
194 T-TCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
* * * *
1940754 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTTTCAGATGATTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCATATGAGTTCTTCTCATTAT
*
1940819 GAACTTTCTCTGGAAATATTGATGCTGATCTATCTCCTTCTAG-GATAAAATCAAGCAAAAGGTT
66 GAACTTTCTCTGGAAATA-TGATGCTGATCTATCTCCTTCTAGCGATAAAATCGAGCAAAAGGTT
*
1940883 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAACTC
130 GAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTTTCAGATGAGTTCTTCTCATTATGAACTC
1940948 TTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
194 TTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
* * *
1940999 AAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTCCTTCTTCATATGAGATCTTCTTATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCATATGAGTTCTTCTCATTAT
* * * * * * *
1941064 GAACTCTAC-CTGG---CA--ATGCTG----A--TCCATCGAGTGATGAATTCGAGCAAAAGGTT
66 GAACT-TTCTCTGGAAATATGATGCTGATCTATCTCCTTCTAGCGATAAAATCGAGCAAAAGGTT
* *
1941117 TAACAAGTTCTTCTCATTATGAACTTCTCCTT-TTTTCAGATGAGTTCTTCTCATTATGAACTCT
130 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTTCAGATGAGTTCTTCTCATTATGAACTCT
* *
1941181 TCCGAAAATGTTGAT
195 TCTGGAAATGTTGAT
1941196 CCATGGAATG
Statistics
Matches: 399, Mismatches: 37, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
232 44 0.11
233 7 0.02
234 48 0.12
235 1 0.00
239 6 0.02
242 1 0.00
245 218 0.55
246 73 0.18
247 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (244 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCATATGAGTTCTTCTCATTAT
GAACTTTCTCTGGAAATATGATGCTGATCTATCTCCTTCTAGCGATAAAATCGAGCAAAAGGTTG
AACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTTCAGATGAGTTCTTCTCATTATGAACTCTT
CTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAA
Found at i:1941754 original size:22 final size:23
Alignment explanation
Indices: 1941609--1941758 Score: 206
Period size: 22 Copynumber: 6.8 Consensus size: 23
1941599 AATAAAGCTT
*
1941609 TCATCTTTGAAAAGAT-AATCTA
1 TCATCTTTGAAGAGATGAATCTA
1941631 TCATCTTTGAAGAGA-GAATCTA
1 TCATCTTTGAAGAGATGAATCTA
1941653 TCATCTTTGAAGAGA-GAATCTA
1 TCATCTTTGAAGAGATGAATCTA
* * *
1941675 TTATCATTAAAGAGA-GAATCTA
1 TCATCTTTGAAGAGATGAATCTA
*
1941697 TCATCTTTGAAGA-ATGAATATA
1 TCATCTTTGAAGAGATGAATCTA
1941719 TCATCTTTGAAGA-ATGAATCTA
1 TCATCTTTGAAGAGATGAATCTA
1941741 TCATCTTTGAAGA-ATGAA
1 TCATCTTTGAAGAGATGAA
1941759 GATGTAGATA
Statistics
Matches: 117, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
21 1 0.01
22 116 0.99
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (23 bp):
TCATCTTTGAAGAGATGAATCTA
Found at i:1953953 original size:8 final size:8
Alignment explanation
Indices: 1953921--1953959 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
1953911 AATTTTAAGA
1953921 AAATATAT
1 AAATATAT
*
1953929 TAATATAT
1 AAATATAT
*
1953937 ATATATAT
1 AAATATAT
1953945 AAATATAT
1 AAATATAT
1953953 AAGATAT
1 AA-ATAT
1953960 TTATTTACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (8 bp):
AAATATAT
Found at i:1954138 original size:148 final size:150
Alignment explanation
Indices: 1953920--1954189 Score: 404
Period size: 148 Copynumber: 1.8 Consensus size: 150
1953910 TAATTTTAAG
*
1953920 AAAATATATTAATATATATATATATAAATATATAAGATATTTATTTACTTAGAAATATCAGAAAA
1 AAAATAAATTAATATATATATATATAAATATATAAGATATTTATTTACTTAGAAATATCAGAAAA
* *
1953985 AGACTTCTAGGTTCTTTAAGACAACCAATTTCTTAATATTAAA-AAATAAATAAATACTAATAAA
66 AGACTTCTAGGTGCTTTAAGACAACCAATTTCTTAATATAAAATAAATAAATAAATACTAATAAA
1954049 ACATTTCTCTAAAAATAATT
131 ACATTTCTCTAAAAATAATT
* * *
1954069 AAAATAAATTAATATATATAATTTATAAA-A-ATAGGATATTTATTTATTTA-AGAATATCAGAA
1 AAAATAAATTAATATATAT-ATATATAAATATATAAGATATTTATTTACTTAGA-AATATCAGAA
* * * *
1954131 AAGGACTTGTAGGTGCTTTAAGACAGCCCATTTCTTAATATAAAATAAATAAATAAATA
64 AAAGACTTCTAGGTGCTTTAAGACAACCAATTTCTTAATATAAAATAAATAAATAAATA
1954190 TTAAAATATG
Statistics
Matches: 108, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
147 1 0.01
148 67 0.62
149 32 0.30
150 8 0.07
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.36
Consensus pattern (150 bp):
AAAATAAATTAATATATATATATATAAATATATAAGATATTTATTTACTTAGAAATATCAGAAAA
AGACTTCTAGGTGCTTTAAGACAACCAATTTCTTAATATAAAATAAATAAATAAATACTAATAAA
ACATTTCTCTAAAAATAATT
Found at i:1955797 original size:3 final size:3
Alignment explanation
Indices: 1955789--1955888 Score: 116
Period size: 3 Copynumber: 33.7 Consensus size: 3
1955779 GATCTGTTTG
* * *
1955789 TAA TAA TAA TAA TAT TAA TAA TAA TTA TTA TAA TAA TATA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* *
1955835 TAA T-A TAA TAA TAA TAA TAG T-A TAAA TAA -AA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
1955878 TAA TAA TAA TA
1 TAA TAA TAA TA
1955889 TTAAAAAACA
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
2 5 0.06
3 74 0.88
4 5 0.06
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1956970 original size:17 final size:18
Alignment explanation
Indices: 1956929--1956970 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1956919 TTCTCTTAAA
*
1956929 TTTAAAAAAACTCTAAAT
1 TTTAAAAAAACTCAAAAT
*
1956947 TCCTAAAAAAA-TCAAAAT
1 T-TTAAAAAAACTCAAAAT
1956965 TTTAAA
1 TTTAAA
1956971 TCCCTCACCC
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 4 0.20
18 8 0.40
19 8 0.40
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (18 bp):
TTTAAAAAAACTCAAAAT
Found at i:1958078 original size:2 final size:2
Alignment explanation
Indices: 1958068--1958349 Score: 53
Period size: 2 Copynumber: 143.0 Consensus size: 2
1958058 AATTGAAAAA
*
1958068 AT AT A- AT AT AT AT AT AT AT AT AT A- AT AT A- AGT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * *
1958108 AA ACT AT AT TT AT AT -T AT AA ACT AT AT A- AT -T AT -T AT A- AG
1 AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * * * * *
1958147 CT AT AT AT AT AA AT -T AT GT TT AT GT GA- ACT AT AT AT AT AA ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T AT AT AT AT AT A-T
* * * * * *
1958190 AT GT AT AT AA ACT AT AT AT GT AT AA ACT AT AA AA AGT AT AT AGT
1 AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT A-T AT AT A-T
* * *
1958234 TT AT A- AA AT AT -T AT TT AT AT -T A- AT AT AGT AT 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
* * * * *
1958273 AT GT AT AT AA ACT AT AT AT GT AT AA ACT AT AT A- AA AT AT AT AGT
1 AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T
* *
1958317 TT AT AT AT -T AT A- AT TT AT AT -T A- AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
1958350 GTATGTATAA
Statistics
Matches: 198, Mismatches: 48, Indels: 68
0.63 0.15 0.22
Matches are distributed among these distances:
1 19 0.10
2 164 0.83
3 15 0.08
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1958095 original size:15 final size:15
Alignment explanation
Indices: 1958068--1958378 Score: 54
Period size: 15 Copynumber: 19.9 Consensus size: 15
1958058 AATTGAAAAA
1958068 ATATA-ATAT-ATAT
1 ATATATATATAATAT
1958081 ATATATATATAATAT
1 ATATATATATAATAT
*
1958096 AAGTTTATATATAAACTAT
1 -A-TATATATAT-AA-TAT
*
1958115 ATTTATATTATAA-ACT
1 ATATATA-TATAATA-T
**
1958131 ATATAATTATTATAAGCT
1 ATAT-A-TA-TATAATAT
1958149 ATATATATA-AAT-T
1 ATATATATATAATAT
* * *
1958162 ATGTTTATGTGAACTAT
1 ATATATATAT-AA-TAT
*
1958179 ATATATA-A-ACTAT
1 ATATATATATAATAT
* *
1958192 GTATATAAACTATATAT
1 ATATATATA-TA-ATAT
* * *
1958209 GTATAAACTATAAAAAGT
1 ATATATA-TAT-AATA-T
* *
1958227 ATATAGTTTATAAAAT
1 ATATA-TATATAATAT
* *
1958243 AT-TATTTATATTA-
1 ATATATATATAATAT
1958256 ATATAGTATAT-ATAT
1 ATATA-TATATAATAT
*
1958271 ATATGTATATAA-ACT
1 ATATATATATAATA-T
*
1958286 ATATATGTATAAACTAT
1 ATATATATAT-AA-TAT
* * *
1958303 ATAAAATATATAGTTT
1 AT-ATATATATAATAT
*
1958319 ATATAT-TATAATTT
1 ATATATATATAATAT
*
1958333 ATAT-TAATATAGTAT
1 ATATAT-ATATAATAT
* * *
1958348 ATGTATGTATAAAAT
1 ATATATATATAATAT
*
1958363 ATTATTTATATTAATA
1 A-TATATATA-TAATA
1958379 AAGTAATAAA
Statistics
Matches: 219, Mismatches: 42, Indels: 70
0.66 0.13 0.21
Matches are distributed among these distances:
13 24 0.11
14 36 0.16
15 48 0.22
16 24 0.11
17 48 0.22
18 36 0.16
19 3 0.01
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (15 bp):
ATATATATATAATAT
Found at i:1958128 original size:18 final size:18
Alignment explanation
Indices: 1958099--1958157 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
1958089 ATAATATAAG
1958099 TTTATA-TATAAACTATA
1 TTTATATTATAAACTATA
1958116 TTTATATTATAAACTATA
1 TTTATATTATAAACTATA
* *
1958134 -TAATTATTATAAGCTATA
1 TTTA-TATTATAAACTATA
*
1958152 TATATA
1 TTTATA
1958158 AATTATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.23
18 26 0.74
19 1 0.03
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (18 bp):
TTTATATTATAAACTATA
Found at i:1958395 original size:83 final size:82
Alignment explanation
Indices: 1958194--1958405 Score: 252
Period size: 83 Copynumber: 2.6 Consensus size: 82
1958184 TAAACTATGT
* *
1958194 ATATAAACTATATATGTATAAACTATAAAAAGTATATAGTTTATAAAATATTATTTATATTAATA
1 ATATAAACTATATATGTATAAACTATATAAA-TATATAGTTTATAAAATATAATTTATATTAATA
**
1958259 TAGTATATATATATATGT
65 TAGTATATATATATATAA
* *
1958277 ATATAAACTATATATGTATAAACTATATAAAATATATAGTTTATATATTATAATTTATATTAATA
1 ATATAAACTATATATGTATAAACTATAT-AAATATATAGTTTATAAAATATAATTTATATTAATA
* *
1958342 TAGTATATGTATGTATAA
65 TAGTATATATATATATAA
* * *
1958360 A-ATATTA-TTTATAT-TAATAAAGTA-ATAAATTATATAGTTTATAAAA
1 ATATA-AACTATATATGT-ATAAACTATATAAA-TATATAGTTTATAAAA
1958406 ACCTTAAACC
Statistics
Matches: 112, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
80 3 0.03
81 17 0.15
82 16 0.14
83 73 0.65
84 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.44
Consensus pattern (82 bp):
ATATAAACTATATATGTATAAACTATATAAATATATAGTTTATAAAATATAATTTATATTAATAT
AGTATATATATATATAA
Found at i:1958625 original size:35 final size:36
Alignment explanation
Indices: 1958555--1958628 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
1958545 ACAATAGTTA
* *
1958555 ATATATGTAACTTATAGTATATGTATACATGTAAACT
1 ATATATGTAACTTATAGTACATGTATA-ATATAAACT
*
1958592 ATATATGTAACTTATAGTACATGTAT-GTATAAACT
1 ATATATGTAACTTATAGTACATGTATAATATAAACT
1958627 AT
1 AT
1958629 GTATAGTGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 9 0.26
37 25 0.74
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (36 bp):
ATATATGTAACTTATAGTACATGTATAATATAAACT
Found at i:1958746 original size:7 final size:7
Alignment explanation
Indices: 1958736--1958816 Score: 90
Period size: 7 Copynumber: 11.6 Consensus size: 7
1958726 TAGTTTATAA
1958736 AAACCCT
1 AAACCCT
*
1958743 AAACCCC
1 AAACCCT
1958750 AAACCCT
1 AAACCCT
**
1958757 AAACTTT
1 AAACCCT
** *
1958764 AGGCACT
1 AAACCCT
**
1958771 AAATACT
1 AAACCCT
1958778 AAACCCT
1 AAACCCT
1958785 AAACCCT
1 AAACCCT
1958792 AAACCCT
1 AAACCCT
1958799 AAACCCT
1 AAACCCT
1958806 AAACCCT
1 AAACCCT
1958813 AAAC
1 AAAC
1958817 ACTATACATA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 61 1.00
ACGTcount: A:0.44, C:0.37, G:0.02, T:0.16
Consensus pattern (7 bp):
AAACCCT
Found at i:1958939 original size:20 final size:20
Alignment explanation
Indices: 1958900--1959006 Score: 101
Period size: 22 Copynumber: 5.1 Consensus size: 20
1958890 CTTATAGTAC
*
1958900 ATGTATCGTATATGTATAAACT
1 ATGTATAGTATA--TATAAACT
1958922 ATGTATAGTATATATAAACT
1 ATGTATAGTATATATAAACT
*
1958942 ATGTATA-TATATATAAGCT
1 ATGTATAGTATATATAAACT
*
1958961 ATAGCATATGTATATATACAATCT
1 AT-GTATA-GTATATATA-AA-CT
*
1958985 ATTTATATGT-TATATAAACT
1 ATGTATA-GTATATATAAACT
1959005 AT
1 AT
1959007 ATATGTAACC
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
19 13 0.18
20 23 0.31
21 2 0.03
22 25 0.34
23 7 0.09
24 4 0.05
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (20 bp):
ATGTATAGTATATATAAACT
Found at i:1959041 original size:21 final size:20
Alignment explanation
Indices: 1959017--1959107 Score: 58
Period size: 21 Copynumber: 4.3 Consensus size: 20
1959007 ATATGTAACC
1959017 TATAGTTTATAATCAATAGTT
1 TATA-TTTATAATCAATAGTT
* *
1959038 TATATTAGTGTACT-ATATAGTT
1 TATATT--TATAATCA-ATAGTT
* * *
1959060 TATACTTTATAACCTATAGTA
1 TATA-TTTATAATCAATAGTT
* *
1959081 TATAATTTATAAACTATAGTT
1 TAT-ATTTATAATCAATAGTT
1959102 TATATT
1 TATATT
1959108 AATGTACTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
20 5 0.09
21 33 0.60
22 15 0.27
23 2 0.04
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (20 bp):
TATATTTATAATCAATAGTT
Found at i:1959158 original size:31 final size:31
Alignment explanation
Indices: 1959117--1959223 Score: 94
Period size: 31 Copynumber: 3.4 Consensus size: 31
1959107 TAATGTACTA
* *
1959117 TATATTTTATATTAATGTTAATTATCTTAAC
1 TATAATTTATATTAATGTTAATTATATTAAC
*
1959148 TATAATTTATATTAATATAGTATATAGTT-TATAAAC
1 TATAATTTATATT-A-AT-GT-TA-A-TTATATTAAC
*
1959184 TAT-A-TTATATTAATATTAATTATATTAAC
1 TATAATTTATATTAATGTTAATTATATTAAC
*
1959213 TATAGTTTATA
1 TATAATTTATA
1959224 AACTATACTA
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
28 2 0.03
29 10 0.16
30 2 0.03
31 18 0.30
32 3 0.05
33 3 0.05
34 9 0.15
35 3 0.05
36 9 0.15
37 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (31 bp):
TATAATTTATATTAATGTTAATTATATTAAC
Found at i:1959205 original size:65 final size:64
Alignment explanation
Indices: 1959123--1959330 Score: 210
Period size: 65 Copynumber: 3.2 Consensus size: 64
1959113 ACTATATATT
* * *
1959123 TTATATTAATGTTAATTATCTTAACTATAATTTATATTAATATAGTATATAGTTTATAAACTATA
1 TTATATTAATATTAATTAT-TTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
* * *
1959188 TTATATTAATATTAATTATATTAACTATAGTTTATA--AACTATACTATATAATTTAT-AACAAA
1 TTATATTAATATTAATTAT-TTAACTATAATTTATATTAA-TATAATATATAATTTATAAAC-TA
1959250 TA
63 TA
* * * *
1959252 GTTTATATTAATATTAATGT-TATAGACTATATTTTATATTAATATTAAT-TATAAATTATAAAA
1 --TTATATTAATATTAAT-TATTTA-ACTATAATTTATATTAATA-TAATATATAATTTATAAAC
1959315 TATA
61 TATA
1959319 TTATATTAATAT
1 TTATATTAATAT
1959331 AAGTTAATAT
Statistics
Matches: 121, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
63 5 0.04
64 18 0.15
65 47 0.39
66 29 0.24
67 15 0.12
68 7 0.06
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.49
Consensus pattern (64 bp):
TTATATTAATATTAATTATTTAACTATAATTTATATTAATATAATATATAATTTATAAACTATA
Found at i:1959237 original size:14 final size:14
Alignment explanation
Indices: 1959177--1959238 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
1959167 GTATATAGTT
1959177 TATAAACTATATTA
1 TATAAACTATATTA
*
1959191 TATTAA-TATTAATTA
1 TATAAACTA-T-ATTA
*
1959206 TATTAACTATAGTT-
1 TATAAACTATA-TTA
*
1959220 TATAAACTATACTA
1 TATAAACTATATTA
1959234 TATAA
1 TATAA
1959239 TTTATAACAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.08
14 22 0.55
15 13 0.32
16 2 0.05
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (14 bp):
TATAAACTATATTA
Found at i:1959267 original size:6 final size:6
Alignment explanation
Indices: 1959256--1959542 Score: 121
Period size: 6 Copynumber: 45.5 Consensus size: 6
1959246 CAAATAGTTT
* * * * *
1959256 ATATTA ATATTA ATGTTA TAGACT- ATATTTT ATATTA ATATTA ATTATAA
1 ATATTA ATATTA ATATTA -ATATTA ATA-TTA ATATTA ATATTA A-TATTA
* * *
1959306 ATTATAAA ATATATT ATATTA ATA-TA A-GTTA ATATTA ATATTA AT-TATA
1 A-TAT-TA ATAT-TA ATATTA ATATTA ATATTA ATATTA ATATTA ATAT-TA
* *
1959355 ATATATA ATTACTATA ATAGTA ATTATAATA ATAGTA ATATTA ATATTA
1 ATAT-TA A-TA-T-TA ATATTA A-TAT--TA ATATTA ATATTA ATATTA
*
1959404 ATTATATT ATATTA ATATTA ATATTA AT-TATA ATATTA A-A-T- ATATTA
1 A-TAT-TA ATATTA ATATTA ATATTA ATAT-TA ATATTA ATATTA ATATTA
* *
1959451 ATA-TA A-GTTA ATATTA ATATTA ATATTA ATTATTTTA ATACTA AT-TATA
1 ATATTA ATATTA ATATTA ATATTA ATATTA A-TA--TTA ATATTA ATAT-TA
* *
1959500 ATATATA ATTATTATA ATATTA ATTATAA ATATTT A-ATTA ATA
1 ATAT-TA A-TA-T-TA ATATTA A-TATTA ATATTA ATATTA ATA
1959543 AAAATTATAT
Statistics
Matches: 222, Mismatches: 27, Indels: 64
0.71 0.09 0.20
Matches are distributed among these distances:
3 1 0.00
4 2 0.01
5 22 0.10
6 114 0.51
7 49 0.22
8 17 0.08
9 17 0.08
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:1959288 original size:31 final size:29
Alignment explanation
Indices: 1959175--1959436 Score: 107
Period size: 31 Copynumber: 9.2 Consensus size: 29
1959165 TAGTATATAG
1959175 TTTATAAACTATA--TTATATTAATATTAA
1 TTTAT-AACTATATTTTATATTAATATTAA
* *
1959203 TTATATTAACTATAGTTTATAAACTATACTATATAA
1 TT-TA-TAACTATA-TTT-TATA-T-TAATAT-TAA
* *
1959239 TTTATAACAAATAGTTTATATTAATATTAA
1 TTTATAAC-TATATTTTATATTAATATTAA
1959269 TGTTATAGACTATATTTTATATTAATATTAA
1 T-TTATA-ACTATATTTTATATTAATATTAA
* ***
1959300 -TTATAAATTATAAAATATATT-ATATTAA
1 TTTAT-AACTATATTTTATATTAATATTAA
*
1959328 --TATAAGT-TA----ATATTAATATTAA
1 TTTATAACTATATTTTATATTAATATTAA
* *
1959350 -TTATAA-TATATAATTACTA-TAATAGTAA
1 TTTATAACTATAT-TTTA-TATTAATATTAA
* *
1959378 -TTATAA-TA-ATAGTAATATTAATATTAA
1 TTTATAACTATAT-TTTATATTAATATTAA
* *
1959405 -TTAT-ATTATA-TTAATATTAATATTAA
1 TTTATAACTATATTTTATATTAATATTAA
1959431 -TTATAA
1 TTTATAA
1959437 TATTAAATAT
Statistics
Matches: 190, Mismatches: 18, Indels: 53
0.73 0.07 0.20
Matches are distributed among these distances:
21 5 0.03
22 8 0.04
23 7 0.04
25 2 0.01
26 25 0.13
27 23 0.12
28 27 0.14
29 26 0.14
30 6 0.03
31 29 0.15
32 4 0.02
33 6 0.03
34 7 0.04
35 10 0.05
36 5 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (29 bp):
TTTATAACTATATTTTATATTAATATTAA
Found at i:1959305 original size:153 final size:146
Alignment explanation
Indices: 1959060--1959354 Score: 310
Period size: 153 Copynumber: 2.0 Consensus size: 146
1959050 CTATATAGTT
* * * *
1959060 TATACTTTATAACCTATAGTATATAATTTATAAACTATAGTTTATATTAATGTACTATATATTTT
1 TATACTTTATAAACTATACTATATAATTTATAAACAATAGTTTATATTAA-GTACTATATATTAT
* * * * * *
1959125 ATATTAATGTTAATTATCTTAACTATAATTTATATTAATATAGTATATAGTTTATA-AACTATAT
65 AGACTAATGTTAATTATATTAACTATAAATTATA-AAATATA-T-TATA-TTAATATAACT-TA-
1959189 TATATTAATATTAATTATATTAAC
124 -ATATTAATATTAATTATATTAAC
* * *
1959213 TATAGTTTATAAACTATACTATATAATTTAT-AACAAATAGTTTATATTAA-TATTA-ATGTTAT
1 TATACTTTATAAACTATACTATATAATTTATAAAC-AATAGTTTATATTAAGTACTATATATTAT
* * *
1959275 AGACTATATTTTATATTAATATTAATTATAAATTATAAAATATATTATATTAATATAAGTTAATA
65 AGACTA-ATGTTA-ATT-ATATTAACTATAAATTATAAAATATATTATATTAATATAACTTAATA
1959340 TTAATATTAATTATA
127 TTAATATTAATTATA
1959355 ATATATAATT
Statistics
Matches: 121, Mismatches: 16, Indels: 16
0.79 0.10 0.10
Matches are distributed among these distances:
147 18 0.15
149 7 0.06
150 16 0.13
151 10 0.08
152 12 0.10
153 58 0.48
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (146 bp):
TATACTTTATAAACTATACTATATAATTTATAAACAATAGTTTATATTAAGTACTATATATTATA
GACTAATGTTAATTATATTAACTATAAATTATAAAATATATTATATTAATATAACTTAATATTAA
TATTAATTATATTAAC
Found at i:1959344 original size:50 final size:48
Alignment explanation
Indices: 1959287--1959528 Score: 175
Period size: 49 Copynumber: 4.9 Consensus size: 48
1959277 ACTATATTTT
*
1959287 ATATTAATATTAATTATAAATTATAAAATATATTATATTAATATAAGTTA
1 ATATTAATATTAATTAT-AATTATAAATTATATTATATTAATATAA-TTA
* *
1959337 ATATTAATATTAATTATAA-TATATAATTACTATAATAGTAATTATAA-TA
1 ATATTAATATTAATTATAATTATA-AATTA-TATTATATTAA-TATAATTA
*
1959386 ATAGTAATATTAA-TATTAATTAT--ATTATATTAATATT-A-AT-ATTA
1 ATATTAATATTAATTA-TAATTATAAATTATATT-ATATTAATATAATTA
*
1959430 AT-TATAATATTAAATATATTAA-TATAAGTTAATATTAATATTAATATTAATT-
1 ATAT-TAATATT-AAT-TA-TAATTATAAATT-ATATT-ATATTAATA-TAATTA
* * *
1959482 ATTTTAATACTAATTATAA-TATATAATTATTATAATATTAATTATAA
1 ATATTAATATTAATTATAATTATA-AATTA-TATTATATTAA-TATAA
1959529 ATATTTAATT
Statistics
Matches: 159, Mismatches: 11, Indels: 45
0.74 0.05 0.21
Matches are distributed among these distances:
43 1 0.01
44 13 0.08
45 2 0.01
46 7 0.04
47 14 0.09
48 8 0.05
49 52 0.33
50 40 0.25
51 9 0.06
52 9 0.06
53 4 0.03
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (48 bp):
ATATTAATATTAATTATAATTATAAATTATATTATATTAATATAATTA
Found at i:1959507 original size:124 final size:125
Alignment explanation
Indices: 1959285--1959523 Score: 321
Period size: 124 Copynumber: 1.9 Consensus size: 125
1959275 AGACTATATT
*
1959285 TTATATTAATATTAATTATAAATTATAAAATATATTATATTAATATAAGTTAATATTAATATTAA
1 TTATATTAATATTAATTATAAATTATAAAATATAATATATTAATATAAGTTAATATTAATATTAA
1959350 TTATAATATATAATTACTATAATAGTAATTATAA-TAATAGTAATATTAATATTAATTATA
66 TTATAATATATAATTACTATAATAGTAATTATAATTAATA-TAATATTAATATTAATTATA
* *
1959410 TTATATTAATATTAA-TATTAATTATAATAT-TAAATATATTAATATAAGTTAATATTAATATTA
1 TTATATTAATATTAATTATAAATTATAAAATAT-AATATATTAATATAAGTTAATATTAATATTA
* * *
1959473 A-TATTAATTATTTTAA-TACTA-ATTA-TAATATATAATTATTATAATATTAAT
65 ATTA-TAA-TA-TATAATTACTATAATAGTAAT-TATAATTAATATAATATTAAT
1959524 TATAAATATT
Statistics
Matches: 102, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
123 7 0.07
124 65 0.64
125 26 0.25
126 4 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (125 bp):
TTATATTAATATTAATTATAAATTATAAAATATAATATATTAATATAAGTTAATATTAATATTAA
TTATAATATATAATTACTATAATAGTAATTATAATTAATATAATATTAATATTAATTATA
Found at i:1959517 original size:28 final size:27
Alignment explanation
Indices: 1959471--1959539 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 27
1959461 ATATTAATAT
*
1959471 TAATATTAATTATTTTAATACTAATTA
1 TAATATTAATTATTATAATACTAATTA
*
1959498 TAATATATAATTATTATAATATTAATTA
1 TAATAT-TAATTATTATAATACTAATTA
1959526 TAAATATTTAATTA
1 T-AATA-TTAATTA
1959540 ATAAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 6 0.16
28 20 0.54
29 10 0.27
30 1 0.03
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TAATATTAATTATTATAATACTAATTA
Found at i:1959534 original size:49 final size:50
Alignment explanation
Indices: 1959290--1959534 Score: 182
Period size: 50 Copynumber: 5.0 Consensus size: 50
1959280 ATATTTTATA
* * *
1959290 TTAATATTAATTATAA-ATTATAA--AATATATTATATTAA-TATAAGTTAATA
1 TTAATATTAATTATAATA-TATAATTAATAT-TAATATTAATTATAA-AT-ATT
* *
1959340 TTAATATTAATTATAATATATAATTACTA-TAATAGTAATTATAATAATAGTAAT
1 TTAATATTAATTATAATATATAATTAATATTAATATTAATTAT-A-AATA-T--T
1959394 ATTAATATTAATTAT-AT-TAT-ATTAATATTAATATTAATTAT-AATA-T
1 -TTAATATTAATTATAATATATAATTAATATTAATATTAATTATAAATATT
* * *
1959440 TAAATA-T-A-T-TAATATA-AGTTAATATTAATATTAA-TATTAATTATT
1 TTAATATTAATTATAATATATAATTAATATTAATATTAATTA-TAAATATT
* *
1959485 TTAATACTAATTATAATATATAATTATTA-TAATATTAATTATAAATATT
1 TTAATATTAATTATAATATATAATTAATATTAATATTAATTATAAATATT
1959534 T
1 T
1959535 AATTAATAAA
Statistics
Matches: 158, Mismatches: 14, Indels: 47
0.72 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 5 0.03
43 20 0.13
44 4 0.03
45 11 0.07
46 2 0.01
47 1 0.01
48 1 0.01
49 24 0.15
50 40 0.25
51 5 0.03
52 12 0.08
53 16 0.10
54 2 0.01
55 14 0.09
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (50 bp):
TTAATATTAATTATAATATATAATTAATATTAATATTAATTATAAATATT
Found at i:1960267 original size:11 final size:11
Alignment explanation
Indices: 1960251--1960279 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
1960241 CCCGAACCCA
1960251 AACCCAACTCG
1 AACCCAACTCG
1960262 AACCCAACTCG
1 AACCCAACTCG
1960273 AACCCAA
1 AACCCAA
1960280 ACCCGAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.45, G:0.07, T:0.07
Consensus pattern (11 bp):
AACCCAACTCG
Found at i:1960338 original size:19 final size:19
Alignment explanation
Indices: 1960297--1960338 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1960287 CTTGAATTTG
* *
1960297 AACCTGAATCCAAAACTCA
1 AACCTGAACCCAAAACCCA
*
1960316 AACCTGAACCCAAAACCCT
1 AACCTGAACCCAAAACCCA
1960335 AACC
1 AACC
1960339 CAATCCCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.38, G:0.05, T:0.12
Consensus pattern (19 bp):
AACCTGAACCCAAAACCCA
Found at i:1960745 original size:100 final size:102
Alignment explanation
Indices: 1960641--1960847 Score: 346
Period size: 102 Copynumber: 2.0 Consensus size: 102
1960631 TTGTTTATAT
* *
1960641 TGTTGATTTGTTTGTGTTGTTGGTTGTTCATT-TGATTGCTTTTATAATGTTATTAGCTGCCTTT
1 TGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCAGATTGCTTTTATAAGGTTATTAGCTGCCTTT
* *
1960705 -TTTACAGTTTAAATAAACTGTTTAATTTGTAGCTAC
66 ATTTAAAATTTAAATAAACTGTTTAATTTGTAGCTAC
*
1960741 TGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCAGATTGCTTTTATAAGGTTGTTAGCTGCCTTT
1 TGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCAGATTGCTTTTATAAGGTTATTAGCTGCCTTT
*
1960806 ATTTAAAATTTAAATAAATTGTTTAATTTGTAGCTAC
66 ATTTAAAATTTAAATAAACTGTTTAATTTGTAGCTAC
1960843 TGTTG
1 TGTTG
1960848 GTTGTTCTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
100 32 0.32
101 29 0.29
102 38 0.38
ACGTcount: A:0.21, C:0.08, G:0.19, T:0.52
Consensus pattern (102 bp):
TGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCAGATTGCTTTTATAAGGTTATTAGCTGCCTTT
ATTTAAAATTTAAATAAACTGTTTAATTTGTAGCTAC
Found at i:1960883 original size:31 final size:31
Alignment explanation
Indices: 1960844--1960915 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
1960834 TGTAGCTACT
*
1960844 GTTGGTTGTTCTTTCGAATTGCTTTTATAAG
1 GTTGGTTGTTCATTCGAATTGCTTTTATAAG
*
1960875 GTTTGTTGTTCATTCGAATTGCTTTTATAAG
1 GTTGGTTGTTCATTCGAATTGCTTTTATAAG
1960906 GTTGGTTGTT
1 GTTGGTTGTT
1960916 AACCCTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.15, C:0.08, G:0.24, T:0.53
Consensus pattern (31 bp):
GTTGGTTGTTCATTCGAATTGCTTTTATAAG
Found at i:1963186 original size:11 final size:11
Alignment explanation
Indices: 1963170--1963194 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1963160 GATGATTTTG
1963170 CTTATTAATTA
1 CTTATTAATTA
1963181 CTTATTAATTA
1 CTTATTAATTA
1963192 CTT
1 CTT
1963195 TTTGTAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (11 bp):
CTTATTAATTA
Found at i:1964021 original size:23 final size:24
Alignment explanation
Indices: 1963990--1964039 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
1963980 TTATTTTTTC
1963990 TTTACATAAATTAAACTATA-TAA
1 TTTACATAAATTAAACTATATTAA
*
1964013 TTTATATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
1964037 TTT
1 TTT
1964040 TCCTTTGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:1964305 original size:16 final size:16
Alignment explanation
Indices: 1964286--1964316 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1964276 TCAGATAAGG
1964286 TCATTAACAGGTCAGA
1 TCATTAACAGGTCAGA
*
1964302 TCATTTACAGGTCAG
1 TCATTAACAGGTCAG
1964317 GTTAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (16 bp):
TCATTAACAGGTCAGA
Found at i:1964329 original size:16 final size:16
Alignment explanation
Indices: 1964310--1964362 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
1964300 GATCATTTAC
1964310 AGGTCAGGTTAAAAAT
1 AGGTCAGGTTAAAAAT
*
1964326 AGGTCAGGTTAAAAAC
1 AGGTCAGGTTAAAAAT
* *
1964342 ATGTCAGGTTGAAAAT
1 AGGTCAGGTTAAAAAT
1964358 AGGTC
1 AGGTC
1964363 GGGTAATACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.25
Consensus pattern (16 bp):
AGGTCAGGTTAAAAAT
Found at i:1978980 original size:14 final size:15
Alignment explanation
Indices: 1978961--1978994 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1978951 GCATTTATAC
*
1978961 TTTTTTTTGTTTTT-
1 TTTTTTTTCTTTTTG
1978975 TTTTTTTTCTTTTTG
1 TTTTTTTTCTTTTTG
1978990 TTTTT
1 TTTTT
1978995 GATAAGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.91
Consensus pattern (15 bp):
TTTTTTTTCTTTTTG
Found at i:1987483 original size:27 final size:27
Alignment explanation
Indices: 1987416--1987473 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
1987406 GTCTCCCTAA
1987416 GATCCATTCAACAATAATTCTGAAGAT
1 GATCCATTCAACAATAATTCTGAAGAT
1987443 GATCCATTCAACAATAATTCTGAAGAT
1 GATCCATTCAACAATAATTCTGAAGAT
1987470 GATC
1 GATC
1987474 AGTTTGACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (27 bp):
GATCCATTCAACAATAATTCTGAAGAT
Found at i:1988155 original size:2 final size:2
Alignment explanation
Indices: 1988148--1988212 Score: 123
Period size: 2 Copynumber: 33.0 Consensus size: 2
1988138 CACTCTTCAC
1988148 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1988190 CT CT CT CT CT CT CT CT CT C- CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT
1988213 GGAAAAGAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1994197 original size:20 final size:20
Alignment explanation
Indices: 1994149--1994200 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1994139 TAATAAAAAA
* *
1994149 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
1994169 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
1994189 TCGCAACGCGAT
1 TCGCAACGCGAT
1994201 TTACATAGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:1994757 original size:19 final size:19
Alignment explanation
Indices: 1994719--1994785 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1994709 TTCGAGAATG
1994719 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
1994739 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
1994758 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
1994777 AAAATCGCA
1 AAAATCGCA
1994786 TTGCGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 30 0.73
20 11 0.27
ACGTcount: A:0.48, C:0.25, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:1994803 original size:19 final size:19
Alignment explanation
Indices: 1994781--1994965 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
1994771 GAAACCAAAA
* *
1994781 TCGCATTGCGATTTTCTTT
1 TCGCGTTGCGATTTTCATT
1994800 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1994819 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
1994838 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
1994858 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
1994874 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
1994891 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1994905 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
1994924 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
1994944 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1994964 TC
1 TC
1994966 AACCAAAAGA
Statistics
Matches: 137, Mismatches: 16, Indels: 26
0.77 0.09 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 59 0.43
20 49 0.36
21 1 0.01
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1994858 original size:39 final size:38
Alignment explanation
Indices: 1994781--1994965 Score: 158
Period size: 33 Copynumber: 5.1 Consensus size: 38
1994771 GAAACCAAAA
*
1994781 TCGCATTGCGATTTTCTTTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCTTTTCGCGTTGCGATTTTCATT
1994819 TCGCGTTGCGATTTT-TATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCT-TTTCGC-GTTGCGATTTTCATT
* * **
1994858 TCGCGTTGCGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCTTTTCGCGTTGCGATTTTCATT
* **
1994891 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCTTTTCGCGTTGCGATTTTCATT
* * *
1994924 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTC-TTTTCGCGTTGCGATTTTCATT
1994964 TC
1 TC
1994966 AACCAAAAGA
Statistics
Matches: 124, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
31 3 0.02
33 38 0.31
34 10 0.08
35 1 0.01
36 3 0.02
37 1 0.01
38 20 0.16
39 30 0.24
40 18 0.15
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCTTTTCGCGTTGCGATTTTCATT
Found at i:1994942 original size:20 final size:20
Alignment explanation
Indices: 1994908--1994965 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1994898 GCGATTCTCT
**
1994908 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
1994928 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
1994948 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
1994966 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:1997841 original size:20 final size:20
Alignment explanation
Indices: 1997816--1997853 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1997806 AATAGTTTCT
1997816 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
1997836 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
1997854 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:1998374 original size:20 final size:20
Alignment explanation
Indices: 1998349--1998401 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1998339 GATTATGTAT
*
1998349 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
1998369 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
1998389 TATCTCGTTGCGA
1 TATCGCGTTGCGA
1998402 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:1998414 original size:41 final size:43
Alignment explanation
Indices: 1998369--1998504 Score: 133
Period size: 41 Copynumber: 3.3 Consensus size: 43
1998359 CGAAAGTCAG
* * * *
1998369 TATCGCGTTGCGAA-AGTAAGTATCTCGTTGCGATTTT-TTAT
1 TATCGCGTTGCGAATAGTAAGTATCGCATTGCGATTTTCCTAA
*
1998410 TATCGCATTGC-AATAGTAAGTATCGCATTGCGATTTTCCTAA
1 TATCGCGTTGCGAATAGTAAGTATCGCATTGCGATTTTCCTAA
* ** *
1998452 T-TCGCGTTGCG-AT-TTACTTATTCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGAATAGTAAGTA-TCGCATTGCGATTTTCCTAA
1998493 T-TCGCGTTGCGA
1 TATCGCGTTGCGA
1998505 TTTACTTATT
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
40 6 0.08
41 71 0.89
42 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (43 bp):
TATCGCGTTGCGAATAGTAAGTATCGCATTGCGATTTTCCTAA
Found at i:1998476 original size:20 final size:21
Alignment explanation
Indices: 1998432--1998524 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
1998422 ATAGTAAGTA
*
1998432 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTACTAAT
* *
1998453 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACTAAT
* *
1998473 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACTAAT
* *
1998494 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACTAAT
*
1998514 TCACATTGCGA
1 TCGCATTGCGA
1998525 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTACTAAT
Found at i:1998505 original size:41 final size:41
Alignment explanation
Indices: 1998432--1998524 Score: 168
Period size: 41 Copynumber: 2.3 Consensus size: 41
1998422 ATAGTAAGTA
*
1998432 TCGCATTGCGATTTTCCTAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1998473 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
*
1998514 TCACATTGCGA
1 TCGCATTGCGA
1998525 ATTGGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:1999659 original size:86 final size:87
Alignment explanation
Indices: 1999508--1999705 Score: 283
Period size: 86 Copynumber: 2.3 Consensus size: 87
1999498 GATTTGAGCA
* * **
1999508 AAAATACAAATGGGTA-TCGATACCCATTGTGTAGTATTAATATGCCTATGAAGGCGGGTACCGA
1 AAAATGCAAATGGGTACT-GATACCCATTGTATAGTATTAATACCCCTATGAAGGCGGGTACCGA
*
1999572 TACCCCA-TGAGGCCCAAATTAC
65 TACCCCATTAAGGCCCAAATTAC
*
1999594 ATAATGCAAATGGGTACTGATACCCATTGTATAGTATTAATACCCCTATGAAGGCGGGTACCGAT
1 AAAATGCAAATGGGTACTGATACCCATTGTATAGTATTAATACCCCTATGAAGGCGGGTACCGAT
*
1999659 ACCTCATTAAGGCCCAAATTAC
66 ACCCCATTAAGGCCCAAATTAC
* *
1999681 AAAATGCAAAATGAGTACCGATACC
1 AAAATGC-AAATGGGTACTGATACC
1999706 ATGCAAGGGT
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
86 63 0.64
87 21 0.21
88 15 0.15
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (87 bp):
AAAATGCAAATGGGTACTGATACCCATTGTATAGTATTAATACCCCTATGAAGGCGGGTACCGAT
ACCCCATTAAGGCCCAAATTAC
Found at i:2002850 original size:18 final size:19
Alignment explanation
Indices: 2002827--2002882 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 19
2002817 TATATTTTCC
2002827 AACAATTGGTATCTTTTT-
1 AACAATTGGTATCTTTTTA
*
2002845 AACAATTGATATCCTTTTGTA
1 AACAATTGGTAT-CTTTT-TA
2002866 AACAATTGGTAT-TTTTT
1 AACAATTGGTATCTTTTT
2002883 TCATTAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 12 0.36
19 9 0.27
20 1 0.03
21 11 0.33
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (19 bp):
AACAATTGGTATCTTTTTA
Found at i:2002883 original size:21 final size:19
Alignment explanation
Indices: 2002827--2002883 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 19
2002817 TATATTTTCC
2002827 AACAATTGGTA-TCTTTTT
1 AACAATTGGTATTCTTTTT
* *
2002845 AACAATTGATATCCTTTTGT
1 AACAATTGGTATTCTTTT-T
2002865 AAACAATTGGTATT-TTTTT
1 -AACAATTGGTATTCTTTTT
2002884 CATTAAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 10 0.31
19 6 0.19
20 5 0.16
21 11 0.34
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (19 bp):
AACAATTGGTATTCTTTTT
Found at i:2003430 original size:20 final size:21
Alignment explanation
Indices: 2003393--2003431 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2003383 TTTTGCAGAA
2003393 AAATAATCCCCAAACGGCTCC
1 AAATAATCCCCAAACGGCTCC
*
2003414 AAATCATCCCC-AACGGCT
1 AAATAATCCCCAAACGGCT
2003432 ATATACAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAATAATCCCCAAACGGCTCC
Found at i:2004304 original size:60 final size:60
Alignment explanation
Indices: 2004221--2004404 Score: 192
Period size: 60 Copynumber: 3.1 Consensus size: 60
2004211 ATGAATTTAG
* * * ** * *
2004221 GGATAAAATT-GAATGATTTAAAAGTTTGGGGGTTAATTTAGAATAAGGGTCATAGTTTGA
1 GGATGAAATTGGAATG-TTAAAAAGTTTAGGGACTAATTTAAAATAAGGATCATAGTTTGA
* * ** * *
2004281 GGATGAAATTGGAATGTTAAAAAGTTTAAGGACTAATTTATAATGTGTATCATAATTTGA
1 GGATGAAATTGGAATGTTAAAAAGTTTAGGGACTAATTTAAAATAAGGATCATAGTTTGA
* * *
2004341 GGATGAAATTGGAATATTCAAAAGTTTAGGGACCAATTTAAAATGAA-GATCATAGTTTGA
1 GGATGAAATTGGAATGTTAAAAAGTTTAGGGACTAATTTAAAAT-AAGGATCATAGTTTGA
2004401 GGAT
1 GGAT
2004405 ATATGTTGCA
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
60 96 0.95
61 5 0.05
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (60 bp):
GGATGAAATTGGAATGTTAAAAAGTTTAGGGACTAATTTAAAATAAGGATCATAGTTTGA
Found at i:2007239 original size:43 final size:43
Alignment explanation
Indices: 2007103--2007418 Score: 196
Period size: 43 Copynumber: 7.1 Consensus size: 43
2007093 TTATGGAATT
* *
2007103 AAAAAAATTAGGGGCCTTAATTAT-AAGGTAAAAAGTGAGATTGAA
1 AAAAAAATTA-GGGCCTCAATTATAAAGATAAAAAGTGAGATT--A
* * *
2007148 AAAAAAATTAGAGACCTCAATTATAAAGGTAAAAAGTGAAATT-
1 AAAAAAATTAG-GGCCTCAATTATAAAGATAAAAAGTGAGATTA
* * * *
2007191 TAAAAAATCAGGGCATCAATTATAAAGATAAAAAGTTAGATT-
1 AAAAAAATTAGGGCCTCAATTATAAAGATAAAAAGTGAGATTA
* *
2007233 AAAAAAATTAAGAGCCTTAATTATAAAGATAGAAAGTTACTAAGTGAGATT-
1 AAAAAAATT-AGGGCCTCAATTATAAAGAT---AA---A--AAGTGAGATTA
* * * *
2007284 AAAAAAA-TATGGGACTCAATTATAATGGTAAAAGGTGAGATT-
1 AAAAAAATTA-GGGCCTCAATTATAAAGATAAAAAGTGAGATTA
* * * * *
2007326 GAAAAAATTAGGGACCTTAATTATAAAGGTAAAAAGT-ATTATTG
1 AAAAAAATTAGGG-CCTCAATTATAAAGATAAAAAGTGA-GATTA
** * * * *
2007370 AAAAATTTTAGGGCCTCAACTATAAAGGTGAAAAGTGGGATTA
1 AAAAAAATTAGGGCCTCAATTATAAAGATAAAAAGTGAGATTA
*
2007413 CAAAAA
1 AAAAAA
2007419 TTAAAGGCCT
Statistics
Matches: 215, Mismatches: 39, Indels: 36
0.74 0.13 0.12
Matches are distributed among these distances:
42 52 0.24
43 77 0.36
44 12 0.06
45 20 0.09
46 19 0.09
47 2 0.01
49 2 0.01
50 15 0.07
51 16 0.07
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (43 bp):
AAAAAAATTAGGGCCTCAATTATAAAGATAAAAAGTGAGATTA
Found at i:2007304 original size:93 final size:93
Alignment explanation
Indices: 2007181--2007362 Score: 226
Period size: 93 Copynumber: 2.0 Consensus size: 93
2007171 TAAAGGTAAA
* *
2007181 AAGTGAAATTTAAAAAATCAGGGCATCAATTATAAAGATAAAAAGTTAGATTAAAAAAATTA-AG
1 AAGTGAAATTAAAAAAATCAGGGCATCAATTATAAAGATAAAAAGTGAGATTAAAAAAATTAGAG
*
2007245 AGCCTTAATTATAAAGATAGAAAGTTACT
66 A-CCTTAATTATAAAGATAAAAAGTTACT
* * * * *
2007274 AAGTGAGATTAAAAAAAT-ATGGG-ACTCAATTATAATGGTAAAAGGTGAGATTGAAAAAATTAG
1 AAGTGAAATTAAAAAAATCA-GGGCA-TCAATTATAAAGATAAAAAGTGAGATTAAAAAAATTAG
* *
2007337 GGACCTTAATTATAAAGGTAAAAAGT
64 AGACCTTAATTATAAAGATAAAAAGT
2007363 ATTATTGAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
92 2 0.03
93 72 0.95
94 2 0.03
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.26
Consensus pattern (93 bp):
AAGTGAAATTAAAAAAATCAGGGCATCAATTATAAAGATAAAAAGTGAGATTAAAAAAATTAGAG
ACCTTAATTATAAAGATAAAAAGTTACT
Found at i:2010973 original size:59 final size:60
Alignment explanation
Indices: 2010835--2010989 Score: 185
Period size: 58 Copynumber: 2.6 Consensus size: 60
2010825 AAGATATTAT
***
2010835 TTTGTTGAGT-CCTCCAACTATTAAAAGTTACAAAATGGTTTGTCGACTATAGGATACTGC
1 TTTGTTGAGTCCCT-CAACTATTAAAAGTTACAAAATGGTCCCTCGACTATAGGATACTGC
* * *
2010895 TTTGTTAAGACCC-CAACTATTAAAA-TTACAAAATGGTCCC-CTGACTATAGTGA-ATTGC
1 TTTGTTGAGTCCCTCAACTATTAAAAGTTACAAAATGGTCCCTC-GACTATAG-GATACTGC
*
2010953 TTTGTTGAGTCCCTTAACTATTAAAAGTTACAAAATG
1 TTTGTTGAGTCCCTCAACTATTAAAAGTTACAAAATG
2010990 ATCATCAAAC
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
57 1 0.01
58 35 0.43
59 25 0.31
60 18 0.22
61 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (60 bp):
TTTGTTGAGTCCCTCAACTATTAAAAGTTACAAAATGGTCCCTCGACTATAGGATACTGC
Found at i:2011424 original size:5 final size:5
Alignment explanation
Indices: 2011411--2011442 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
2011401 CAAAGGGCGA
*
2011411 TTGTG TTGTT TTGTG TTGTG TTGTG TTGTG TT
1 TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TT
2011443 ACGTTGTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (5 bp):
TTGTG
Found at i:2032970 original size:93 final size:93
Alignment explanation
Indices: 2032781--2032958 Score: 252
Period size: 93 Copynumber: 1.9 Consensus size: 93
2032771 GACAAAACCT
*
2032781 CACCAGCTACAGGAGTTAACTTCTGTTCAGCAGATGAACCTGCTGGAGATGCAACAGGCTTCACT
1 CACCAGCTACAGGAGTAAACTTCTGTTCAGCAGATGAACCTGCTGGAGATGCAACAGGCTTCACT
** * *
2032846 CCATCTTCTATATCCACACATAATGAGC
66 CCATCACCAACATCCACACATAATGAGC
2032874 CACCAGCTACAGGAGTAAACTTTCT-TTCAGCAGATGAACCTGCTGGAGATGCAACAGGCTT-AT
1 CACCAGCTACAGGAGTAAAC-TTCTGTTCAGCAGATGAACCTGCTGGAGATGCAACAGGCTTCA-
* * *
2032937 TTGCATCACCAACATTCACACA
64 CTCCATCACCAACATCCACACA
2032959 AGATGTACCA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 1 0.01
93 70 0.93
94 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (93 bp):
CACCAGCTACAGGAGTAAACTTCTGTTCAGCAGATGAACCTGCTGGAGATGCAACAGGCTTCACT
CCATCACCAACATCCACACATAATGAGC
Found at i:2038562 original size:103 final size:103
Alignment explanation
Indices: 2038383--2038608 Score: 418
Period size: 103 Copynumber: 2.2 Consensus size: 103
2038373 GTCGAGGGTC
*
2038383 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
2038448 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
*
2038486 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACCTAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
2038551 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
2038589 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
2038609 TATTATATGG
Statistics
Matches: 120, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
102 1 0.01
103 119 0.99
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
Found at i:2038647 original size:23 final size:23
Alignment explanation
Indices: 2038617--2038702 Score: 118
Period size: 23 Copynumber: 3.7 Consensus size: 23
2038607 ATTATTATAT
2038617 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
2038640 GGCACTACAGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * * *
2038663 GGCACTCCGGTGCAATTATATGT
1 GGCACTACGGTGCAATTCTACGC
*
2038686 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
2038703 ATATGAGCTG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:2038703 original size:23 final size:23
Alignment explanation
Indices: 2038610--2038707 Score: 110
Period size: 23 Copynumber: 4.3 Consensus size: 23
2038600 TATGGACATT
2038610 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* * *
2038631 ATTCTACGCGGCACTACAGTGCA
1 ATTATATGCGGCACTACGGTGCA
* * *
2038654 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
2038677 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
2038700 ATTATATG
1 ATTATATG
2038708 AGCTGTGGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
21 5 0.08
23 61 0.92
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGTGCA
Found at i:2044569 original size:103 final size:103
Alignment explanation
Indices: 2044344--2044561 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
2044334 GTCGAAGGTC
2044344 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
* *
2044409 TTGATCCCTAGTATATGTTTATGATTCTTAAGGAATGA
66 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
*
2044447 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
2044512 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
2044550 TATGTGGTCCTT
1 TATGTGGTCCTT
2044562 ATGGACATTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATATGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAATATATGTATATGATTCTTAAGGAATGA
Found at i:2044608 original size:23 final size:23
Alignment explanation
Indices: 2044578--2044663 Score: 127
Period size: 23 Copynumber: 3.7 Consensus size: 23
2044568 ATTATTATAT
2044578 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
2044601 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* * * *
2044624 GGCACTCCGGTGCAATTATATGT
1 GGCACTACGGTGCAATTCTACGC
*
2044647 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
2044664 ATATGAGCTG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.26
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:2044664 original size:23 final size:23
Alignment explanation
Indices: 2044571--2044668 Score: 119
Period size: 23 Copynumber: 4.3 Consensus size: 23
2044561 TATGGACATT
2044571 ATTATAT--GGCACTACGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
2044592 ATTCTACGCGGCACTACGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* * *
2044615 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
* *
2044638 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGCGGCACTACGGTGCA
2044661 ATTATATG
1 ATTATATG
2044669 AGCTGTGGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 5 0.07
23 63 0.93
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (23 bp):
ATTATATGCGGCACTACGGTGCA
Found at i:2047683 original size:20 final size:20
Alignment explanation
Indices: 2047655--2047695 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2047645 TAACAATAAT
*
2047655 TATTGTTATCTTAAAAAAAA
1 TATTGTTATATTAAAAAAAA
* *
2047675 TATTTTTATATTATAAAAAA
1 TATTGTTATATTAAAAAAAA
2047695 T
1 T
2047696 TCAAAGATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
TATTGTTATATTAAAAAAAA
Found at i:2050016 original size:29 final size:29
Alignment explanation
Indices: 2049978--2050104 Score: 100
Period size: 29 Copynumber: 4.4 Consensus size: 29
2049968 CATTTTACAG
* *
2049978 AAATATCACCCTTTTTAAAATAATTACCA
1 AAATAGCACCCTTTTCAAAATAATTACCA
* * *
2050007 AAATAGCACCCTTTTCGAATTAATTCCCA
1 AAATAGCACCCTTTTCAAAATAATTACCA
* *
2050036 AAATAGCACCCATTTC-GAATAAATT-CTCA
1 AAATAGCACCCTTTTCAAAAT-AATTAC-CA
* * *
2050065 AAATAGCATCCATTTC-GAATAAATT-CTCA
1 AAATAGCACCCTTTTCAAAAT-AATTAC-CA
2050094 AAATAGCACCC
1 AAATAGCACCC
2050105 GGTCAACGGT
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
28 3 0.03
29 83 0.97
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (29 bp):
AAATAGCACCCTTTTCAAAATAATTACCA
Found at i:2057132 original size:29 final size:28
Alignment explanation
Indices: 2057098--2057261 Score: 165
Period size: 29 Copynumber: 5.8 Consensus size: 28
2057088 ACCTTTTTGA
* *
2057098 AATAATTACCAAAATAACACCATTTTCG
1 AATAATTCCCAAAATAGCACCATTTTCG
* * *
2057126 AAGTAATTCCCAAAATAACACCCTTTTCA
1 AA-TAATTCCCAAAATAGCACCATTTTCG
*
2057155 AATTAATTACCAAAATAGCA-CA-TTTCG
1 AA-TAATTCCCAAAATAGCACCATTTTCG
*
2057182 AATTAATTCCCAAAATAGCA-CTTATTTCG
1 AA-TAATTCCCAAAATAGCACCAT-TTTCG
*
2057211 AATAAATTCCTAAAATAGCATCCA-TTTCG
1 AAT-AATTCCCAAAATAGCA-CCATTTTCG
2057240 AATAAATTCCCAAAATAGCACC
1 AAT-AATTCCCAAAATAGCACC
2057262 CGGTCAACGG
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
27 24 0.21
28 6 0.05
29 86 0.74
31 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.29
Consensus pattern (28 bp):
AATAATTCCCAAAATAGCACCATTTTCG
Found at i:2060986 original size:30 final size:30
Alignment explanation
Indices: 2060952--2061029 Score: 102
Period size: 30 Copynumber: 2.6 Consensus size: 30
2060942 GTCAGTAGTA
2060952 CAATCTTCTAATGCACCTGCATCAACAGTC
1 CAATCTTCTAATGCACCTGCATCAACAGTC
* * *
2060982 CAATCTTCTAATGCTCCTTCATCATCAGTC
1 CAATCTTCTAATGCACCTGCATCAACAGTC
* * *
2061012 CAACCTTCTCATGTACCT
1 CAATCTTCTAATGCACCT
2061030 TCACCAACCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.26, C:0.35, G:0.08, T:0.32
Consensus pattern (30 bp):
CAATCTTCTAATGCACCTGCATCAACAGTC
Done.