Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008357.1 Hibiscus syriacus cultivar Beakdansim tig00111096_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: 1459476
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:561300 original size:22 final size:22
Alignment explanation
Indices: 561275--561351 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
561265 AATAAAGCTT
* *
561275 TCATATTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
561297 TCATCTTTGTAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
561319 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
561341 TCATCTTTGAA
1 TCATCTTTGAA
561352 GAATGTAGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:561875 original size:54 final size:54
Alignment explanation
Indices: 561714--561875 Score: 216
Period size: 54 Copynumber: 3.0 Consensus size: 54
561704 ATAATCACTG
* * * * * *
561714 GTTTGTAAAACATTTAACAACACGTTCATCATTTCCTGTGGTTTCTGTCCAGAG
1 GTTTGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
* * *
561768 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCCGCGGCTTCTGCCCAGAT
1 GTTTGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
* * *
561822 GTTTGTAAAACATTTGACAATACATTCATCCTTTCTTATGGCTTCTGCCCAGAT
1 GTTTGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
561876 TTCTCAATCA
Statistics
Matches: 93, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 93 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (54 bp):
GTTTGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGCTTCTGCCCAGAT
Found at i:562805 original size:75 final size:75
Alignment explanation
Indices: 562714--562892 Score: 243
Period size: 75 Copynumber: 2.4 Consensus size: 75
562704 CATGATGATG
* ** *
562714 TGGGCCTTCAGCATGCCCCAGCATTTGCTGATATGAACGTTCAAAATACATCAACATTCCTGA-T
1 TGGGCTTTCAGCATGCCCCAGCATTTGCTGATACAAACGTTCAAAATACATCAACATTCC-AATT
562778 TCTGATTGAAA
65 TCTGATTGAAA
* * * * *
562789 TGGGCTTTCAGCATGCCCCAGCATTTGCTGATACAAATGTTCAAAATGCGTTAATATTCCAATTT
1 TGGGCTTTCAGCATGCCCCAGCATTTGCTGATACAAACGTTCAAAATACATCAACATTCCAATTT
562854 CTGATTGAAA
66 CTGATTGAAA
* *
562864 TGGGCTTTCAGCATGCCCTAACATTTGCT
1 TGGGCTTTCAGCATGCCCCAGCATTTGCT
562893 TCTTGCTAAT
Statistics
Matches: 92, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
74 1 0.01
75 91 0.99
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (75 bp):
TGGGCTTTCAGCATGCCCCAGCATTTGCTGATACAAACGTTCAAAATACATCAACATTCCAATTT
CTGATTGAAA
Found at i:569450 original size:46 final size:46
Alignment explanation
Indices: 569383--569470 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
569373 AGGTATAAAT
* *
569383 CCTAACCTCATGCTTTCTAGTTCCATGCTTTGTTTGGAAAAATTAA
1 CCTAACCTCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAATTAA
569429 CCTAA-CTGCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAA
1 CCTAACCT-CATGATTTCTAGTTCCATGCTTTGTTTAGAAAAA
569471 AATGAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 2 0.05
46 37 0.95
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (46 bp):
CCTAACCTCATGATTTCTAGTTCCATGCTTTGTTTAGAAAAATTAA
Found at i:572214 original size:12 final size:13
Alignment explanation
Indices: 572199--572259 Score: 72
Period size: 12 Copynumber: 4.6 Consensus size: 13
572189 TTCTAGCTTG
572199 TAATAATATAT-T
1 TAATAATATATAT
572211 TAATAATATATAT
1 TAATAATATATAT
572224 ATATATATATATATAT
1 -TA-ATA-ATATATAT
*
572240 TAATAATA-ATAA
1 TAATAATATATAT
572252 TAATAATA
1 TAATAATA
572260 ATAAAAGTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
12 22 0.50
13 4 0.09
14 5 0.11
15 5 0.11
16 8 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATAATATATAT
Found at i:572249 original size:6 final size:6
Alignment explanation
Indices: 572211--572286 Score: 66
Period size: 6 Copynumber: 12.0 Consensus size: 6
572201 ATAATATATT
*
572211 TAATAA TATATATA TATATATA TATATAT TAATAA TAATAA TAATAA TAATAA
1 TAATAA TA-ATA-A TA-ATA-A TA-ATAA TAATAA TAATAA TAATAA TAATAA
*
572264 -AAGTAA TAATAA AAATAA -AATAA
1 TAA-TAA TAATAA TAATAA TAATAA
572287 AAAATTAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
5 7 0.11
6 34 0.54
7 7 0.11
8 15 0.24
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (6 bp):
TAATAA
Found at i:578858 original size:18 final size:18
Alignment explanation
Indices: 578849--578913 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 18
578839 CGACCCGTTT
578849 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
*
578867 ACCCGACCCGTT-----T
1 ACCCGACCCGTTGACCCG
* *
578880 TCTCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
578898 ACCCGACCCGTTGACC
1 ACCCGACCCGTTGACC
578914 GTTGACCCGT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
13 10 0.28
18 26 0.72
ACGTcount: A:0.15, C:0.48, G:0.20, T:0.17
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:578872 original size:31 final size:31
Alignment explanation
Indices: 578831--578928 Score: 133
Period size: 31 Copynumber: 3.1 Consensus size: 31
578821 ACCGGTCACA
*
578831 ACCCGGCCCGACCCGTTTACCCGACCCGTTG
1 ACCCGACCCGACCCGTTTACCCGACCCGTTG
* *
578862 ACCCGACCCGACCCGTTTTCTCGACCCGTTG
1 ACCCGACCCGACCCGTTTACCCGACCCGTTG
* *
578893 ACCCGACCCGACCCGTTGACCGTTGACCCGTTG
1 ACCCGACCCGACCCGTTTACC--CGACCCGTTG
578926 ACC
1 ACC
578929 GTTGACCATT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 46 0.79
33 12 0.21
ACGTcount: A:0.14, C:0.46, G:0.21, T:0.18
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTTACCCGACCCGTTG
Found at i:578913 original size:8 final size:8
Alignment explanation
Indices: 578902--578935 Score: 54
Period size: 7 Copynumber: 4.5 Consensus size: 8
578892 GACCCGACCC
578902 GACCCGTT
1 GACCCGTT
578910 GA-CCGTT
1 GACCCGTT
578917 GACCCGTT
1 GACCCGTT
578925 GA-CCGTT
1 GACCCGTT
578932 GACC
1 GACC
578936 ATTAACCGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 14 0.58
8 10 0.42
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:578913 original size:13 final size:13
Alignment explanation
Indices: 578837--578871 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
578827 CACAACCCGG
*
578837 CCCGACCCGTTTA
1 CCCGACCCGTTGA
578850 CCCGACCCGTTGA
1 CCCGACCCGTTGA
578863 CCCGACCCG
1 CCCGACCCG
578872 ACCCGTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.51, G:0.20, T:0.14
Consensus pattern (13 bp):
CCCGACCCGTTGA
Found at i:578922 original size:15 final size:15
Alignment explanation
Indices: 578902--578935 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
578892 GACCCGACCC
578902 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
578917 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
578932 GACC
1 GACC
578936 ATTAACCGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:580280 original size:18 final size:18
Alignment explanation
Indices: 580254--580289 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
580244 TCGAAAGGAC
*
580254 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
580272 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
580290 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:581481 original size:24 final size:24
Alignment explanation
Indices: 581386--581487 Score: 111
Period size: 24 Copynumber: 4.2 Consensus size: 24
581376 ATTTTCGATT
* *
581386 TGATTTCTGATTTGATACTTGACA
1 TGATTTCTGATCTGATACTTGACC
*
581410 TGGA-TTCTGATCTGATA-TCTGACT
1 T-GATTTCTGATCTGATACT-TGACC
*
581434 TGGA-TTCTGATCTGTTACTTGACC
1 T-GATTTCTGATCTGATACTTGACC
*
581458 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATCTGATACTTGACC
581482 TGATTT
1 TGATTT
581488 ATGTTTTGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.04
24 62 0.91
25 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (24 bp):
TGATTTCTGATCTGATACTTGACC
Found at i:583679 original size:13 final size:13
Alignment explanation
Indices: 583660--583774 Score: 131
Period size: 13 Copynumber: 8.3 Consensus size: 13
583650 GTCACAACCC
583660 GACCCGACCCGTT
1 GACCCGACCCGTT
*
583673 TACCCGACCCGTT
1 GACCCGACCCGTT
*
583686 TACCCGACCCGTT
1 GACCCGACCCGTT
*
583699 TACCCGACCCGTT
1 GACCCGACCCGTT
583712 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
583730 GACCCGACCCGTT
1 GACCCGACCCGTT
583743 GACCCGACCCGTT
1 GACCCGACCCGTT
*
583756 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
583771 GACC
1 GACC
583775 GTTGACCGTT
Statistics
Matches: 92, Mismatches: 3, Indels: 12
0.86 0.03 0.11
Matches are distributed among these distances:
13 68 0.74
15 12 0.13
18 12 0.13
ACGTcount: A:0.16, C:0.45, G:0.21, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:583694 original size:31 final size:31
Alignment explanation
Indices: 583656--583753 Score: 143
Period size: 31 Copynumber: 3.3 Consensus size: 31
583646 ACCGGTCACA
583656 ACCCGACCCGACCCGTTTACCCGACCCGTT-
1 ACCCGACCCGACCCGTTTACCCGACCCGTTG
*
583686 ----TACCCGACCCGTTTACCCGACCCGTTG
1 ACCCGACCCGACCCGTTTACCCGACCCGTTG
*
583713 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTTACCCGACCCGTTG
583744 ACCCGACCCG
1 ACCCGACCCG
583754 TTGACCGTTG
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
26 25 0.42
31 35 0.58
ACGTcount: A:0.16, C:0.49, G:0.19, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTTACCCGACCCGTTG
Found at i:583722 original size:44 final size:44
Alignment explanation
Indices: 583674--583759 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
583664 CGACCCGTTT
* *
583674 ACCCGACCCGTTTACCCGACCCGTTTACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCGACCCGTTGACCCGACCCGTTGACCCG
583718 ACCCGACCCGTTGACCCGACCCGTTGACCCGACCCGTTGACC
1 ACCCGACCCGTTGACCCGACCCGTTGACCCGACCCGTTGACC
583760 GTTGACCCGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.16, C:0.48, G:0.20, T:0.16
Consensus pattern (44 bp):
ACCCGACCCGTTGACCCGACCCGTTGACCCGACCCGTTGACCCG
Found at i:583733 original size:8 final size:8
Alignment explanation
Indices: 583722--583788 Score: 71
Period size: 7 Copynumber: 9.5 Consensus size: 8
583712 GACCCGACCC
583722 GACCCGTT
1 GACCCGTT
583730 GACCC---
1 GACCCGTT
583735 GACCCGTT
1 GACCCGTT
583743 GACCC---
1 GACCCGTT
583748 GACCCGTT
1 GACCCGTT
583756 GA-CCGTT
1 GACCCGTT
583763 GACCCGTT
1 GACCCGTT
583771 GA-CCGTT
1 GACCCGTT
583778 GA-CCGTT
1 GACCCGTT
583785 GACC
1 GACC
583789 GGAGTTGACC
Statistics
Matches: 51, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
5 10 0.20
7 21 0.41
8 20 0.39
ACGTcount: A:0.15, C:0.39, G:0.25, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:583753 original size:18 final size:18
Alignment explanation
Indices: 583656--583740 Score: 86
Period size: 18 Copynumber: 4.6 Consensus size: 18
583646 ACCGGTCACA
*
583656 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
583674 ACCCGACCCGTTTACCC---G
1 ACCCGACCCG---ACCCGTTG
583692 ACCCGTTTACCCGACCCGTTG
1 ACCCG---ACCCGACCCGTTG
583713 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
583731 ACCCGACCCG
1 ACCCGACCCG
583741 TTGACCCGAC
Statistics
Matches: 57, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
18 42 0.74
21 15 0.26
ACGTcount: A:0.16, C:0.49, G:0.19, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:585127 original size:18 final size:18
Alignment explanation
Indices: 585101--585136 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
585091 TCGAAAGGAC
*
585101 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
585119 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
585137 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:586328 original size:24 final size:24
Alignment explanation
Indices: 586233--586334 Score: 111
Period size: 24 Copynumber: 4.2 Consensus size: 24
586223 GATTTCGATT
* *
586233 TGATTTCTGATTTGATACTTGACA
1 TGATTTCTGATCTGATACTTGACC
*
586257 TGGA-TTCTGATCTGATA-TCTGACT
1 T-GATTTCTGATCTGATACT-TGACC
*
586281 TGGA-TTCTGATCTGTTACTTGACC
1 T-GATTTCTGATCTGATACTTGACC
*
586305 TGATTTCTGATATGATACTTGACC
1 TGATTTCTGATCTGATACTTGACC
586329 TGATTT
1 TGATTT
586335 ATGTTTTGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.04
24 62 0.91
25 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.44
Consensus pattern (24 bp):
TGATTTCTGATCTGATACTTGACC
Found at i:588142 original size:11 final size:11
Alignment explanation
Indices: 588101--588145 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
588091 ACTGATTCCC
*
588101 CTGCTACATTA
1 CTGCTACAGTA
*
588112 CTGCTACAATA
1 CTGCTACAGTA
*
588123 CTTCTACAGTA
1 CTGCTACAGTA
588134 CTGCTACAGTA
1 CTGCTACAGTA
588145 C
1 C
588146 CTCGGCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (11 bp):
CTGCTACAGTA
Found at i:588892 original size:21 final size:21
Alignment explanation
Indices: 588866--588925 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
588856 CATATGAAAT
588866 TTGTCCCGAAGGACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
*
588887 TTGTCCCGAAGTACCACTGTA
1 TTGTCCCGAAGGACCACTGTA
*
588908 TTGTCCCGAATGACCACT
1 TTGTCCCGAAGGACCACT
588926 ATAACCCTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (21 bp):
TTGTCCCGAAGGACCACTGTA
Found at i:595563 original size:134 final size:137
Alignment explanation
Indices: 595305--595579 Score: 511
Period size: 134 Copynumber: 2.0 Consensus size: 137
595295 TCTTTCTTCT
595305 AGATTCATCCACTGATACTCTTACCTTTGAATATCTTTGGTATCAACCTGCTTGGATAATCAGTG
1 AGATTCATCCACTGATACTCTTACCTTTGAATA--TTTGGTATCAACCTGCTTGGATAATCAGTG
595370 ACCAAACTAGGTCGATCTTTTACTTCATACTCTAAAATTCCATACTCCAAGAGAAGTTTGACTCG
64 ACCAAACTAGGTCGATCTTTTACTTCATACTCTAAAATTCCATACTCCAAGAGAAGTTTGACTCG
595435 ATGTTTGAA
129 ATGTTTGAA
595444 AGATTCA-CCACTG-TACTCTTACCTTTGAATA-TTGGTATCAACCTGCTTGGATAATCAGTGAC
1 AGATTCATCCACTGATACTCTTACCTTTGAATATTTGGTATCAACCTGCTTGGATAATCAGTGAC
595506 CAAACTAGGTCGATCTTTTACTTCATACTCTAAAATTCCATACTCCAAGAGAAGTTTGACTCGAT
66 CAAACTAGGTCGATCTTTTACTTCATACTCTAAAATTCCATACTCCAAGAGAAGTTTGACTCGAT
595571 GTTTGAA
131 GTTTGAA
595578 AG
1 AG
595580 CAGTGCAGTT
Statistics
Matches: 136, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
134 105 0.77
137 18 0.13
138 6 0.04
139 7 0.05
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (137 bp):
AGATTCATCCACTGATACTCTTACCTTTGAATATTTGGTATCAACCTGCTTGGATAATCAGTGAC
CAAACTAGGTCGATCTTTTACTTCATACTCTAAAATTCCATACTCCAAGAGAAGTTTGACTCGAT
GTTTGAA
Found at i:596173 original size:16 final size:16
Alignment explanation
Indices: 596152--596190 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
596142 TATTCTCGTA
*
596152 ATTCCCTTTTAATGAC
1 ATTCCCTTATAATGAC
596168 ATTCCCTTATAATGAC
1 ATTCCCTTATAATGAC
596184 ATTCCCT
1 ATTCCCT
596191 AGCTGTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTCCCTTATAATGAC
Found at i:598295 original size:145 final size:145
Alignment explanation
Indices: 598032--598322 Score: 564
Period size: 145 Copynumber: 2.0 Consensus size: 145
598022 GCGTAGAAAT
*
598032 CTGCTTTTGGTGACCAAAATGATAGAATACAAAGTACAGGGGCTACAGGTGCAATTTACCCCTGA
1 CTGCTTTTGGTGACCAAAATGATAGAATACAAAGTACAGGGGCTACAGGTGCAATTTACCCATGA
*
598097 GTGAATTTACCCAGAGGCCACTCCCCAAAAAGACGTAGTTTTTGGAGGGGTATAAAAAGACCCTA
66 GTAAATTTACCCAGAGGCCACTCCCCAAAAAGACGTAGTTTTTGGAGGGGTATAAAAAGACCCTA
598162 ACCGACCCTAAAGGG
131 ACCGACCCTAAAGGG
598177 CTGCTTTTGGTGACCAAAATGATAGAATACAAAGTACAGGGGCTACAGGTGCAATTTACCCATGA
1 CTGCTTTTGGTGACCAAAATGATAGAATACAAAGTACAGGGGCTACAGGTGCAATTTACCCATGA
598242 GTAAATTTACCCAGAGGCCACTCCCCAAAAAGACGTAGTTTTTGGAGGGGTATAAAAAGACCCTA
66 GTAAATTTACCCAGAGGCCACTCCCCAAAAAGACGTAGTTTTTGGAGGGGTATAAAAAGACCCTA
598307 ACCGACCCTAAAGGG
131 ACCGACCCTAAAGGG
598322 C
1 C
598323 CAAGTTCTCT
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 144 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (145 bp):
CTGCTTTTGGTGACCAAAATGATAGAATACAAAGTACAGGGGCTACAGGTGCAATTTACCCATGA
GTAAATTTACCCAGAGGCCACTCCCCAAAAAGACGTAGTTTTTGGAGGGGTATAAAAAGACCCTA
ACCGACCCTAAAGGG
Found at i:599198 original size:3 final size:3
Alignment explanation
Indices: 599190--599260 Score: 115
Period size: 3 Copynumber: 23.3 Consensus size: 3
599180 GGCCTCCAAA
* *
599190 AAT AAT AAT AAT AAT AGT AAT AAT AAAT AAT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
599236 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
599261 TATGCAAACT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:607828 original size:3 final size:3
Alignment explanation
Indices: 607820--607844 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
607810 ATCTGTACTT
607820 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
607845 CTAATGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:611387 original size:16 final size:17
Alignment explanation
Indices: 611366--611399 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
611356 ACTATTCACA
611366 TGAATAGT-AAATTTTG
1 TGAATAGTAAAATTTTG
611382 TGAATAGTAAAATTTTG
1 TGAATAGTAAAATTTTG
611399 T
1 T
611400 ATGCGATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (17 bp):
TGAATAGTAAAATTTTG
Found at i:617682 original size:18 final size:19
Alignment explanation
Indices: 617661--617705 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
617651 AAATTTATAT
*
617661 ATTTTTAAAAAATAA-TAG
1 ATTTTTAAAAAAAAATTAG
* *
617679 ATTTATAAAAAAAAATTAT
1 ATTTTTAAAAAAAAATTAG
617698 ATTTTTAA
1 ATTTTTAA
617706 CTTATTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTTTTAAAAAAAAATTAG
Found at i:627652 original size:4 final size:4
Alignment explanation
Indices: 627643--627975 Score: 638
Period size: 4 Copynumber: 84.2 Consensus size: 4
627633 TGACATATTC
627643 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
627691 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
627739 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
627787 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
627835 TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
627881 TATG TATG --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
627927 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
627975 T
1 T
627976 TTACGTATCA
Statistics
Matches: 325, Mismatches: 0, Indels: 8
0.98 0.00 0.02
Matches are distributed among these distances:
2 4 0.01
4 321 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:630704 original size:2 final size:2
Alignment explanation
Indices: 630697--630727 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
630687 CATATCCCTT
630697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
630728 TTGTTCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:635244 original size:50 final size:51
Alignment explanation
Indices: 635167--635278 Score: 172
Period size: 50 Copynumber: 2.2 Consensus size: 51
635157 TCTTTGAGTC
* *
635167 ATTTATTTTCGTTTTTTGAATAAGCATGCGAACTAGATATCATGCGGTTAGG
1 ATTTATTTT-TTTTTTTGAATAAGCATGCGAACTAGATATCATGAGGTTAGG
*
635219 -TTTATTTTTTTTTTTGAATAAGCATGCGAATTAGATATCATGAGGTTAGG
1 ATTTATTTTTTTTTTTGAATAAGCATGCGAACTAGATATCATGAGGTTAGG
*
635269 ATTTCTTTTT
1 ATTTATTTTT
635279 GTGGATAACA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
50 39 0.71
51 16 0.29
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.46
Consensus pattern (51 bp):
ATTTATTTTTTTTTTTGAATAAGCATGCGAACTAGATATCATGAGGTTAGG
Found at i:644924 original size:18 final size:18
Alignment explanation
Indices: 644897--645021 Score: 76
Period size: 18 Copynumber: 7.2 Consensus size: 18
644887 AAGAAGAAAT
644897 AAAA-GAGAAAAAATGAA
1 AAAATGAGAAAAAATGAA
644914 AAAATGAGAAAAAA-G-A
1 AAAATGAGAAAAAATGAA
644930 AAAATGATGGAAAAAAT-AA
1 AAAATGA--GAAAAAATGAA
* * *
644949 AAAGAAGA-AAAAAGAAGGA
1 AAA-ATGAGAAAAA-ATGAA
644968 AAAATG-GAAAATGGAA-GAA
1 AAAATGAGAAAA---AATGAA
644987 AAAAT--G-AAAAATGAA
1 AAAATGAGAAAAAATGAA
645002 AAAA-GAG-AAAAATGAA
1 AAAATGAGAAAAAATGAA
645018 AAAA
1 AAAA
645022 AAAAAGAGAA
Statistics
Matches: 88, Mismatches: 5, Indels: 31
0.71 0.04 0.25
Matches are distributed among these distances:
14 2 0.02
15 7 0.08
16 22 0.25
17 13 0.15
18 24 0.27
19 15 0.17
20 4 0.05
21 1 0.01
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AAAATGAGAAAAAATGAA
Found at i:644943 original size:27 final size:27
Alignment explanation
Indices: 644897--645016 Score: 96
Period size: 26 Copynumber: 4.6 Consensus size: 27
644887 AAGAAGAAAT
*
644897 AAAAG-AGAAAAA--ATGAAAAAATGA
1 AAAAGAAGAAAAATGATGGAAAAATGA
644921 GAAAA-AAGAAAAATGATGGAAAAAAT-A
1 -AAAAGAAGAAAAATGATGG-AAAAATGA
* *
644948 AAAAGAAGAAAAAAGAAGGAAAAATGGA
1 AAAAGAAGAAAAATGATGGAAAAAT-GA
*
644976 AAATGGAAGAAAAA--AT-GAAAAATGA
1 AAA-AGAAGAAAAATGATGGAAAAATGA
645001 AAAA-AGAGAAAAATGA
1 AAAAGA-AGAAAAATGA
645017 AAAAAAAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
23 1 0.01
24 7 0.09
25 16 0.21
26 18 0.23
27 17 0.22
28 10 0.13
29 9 0.12
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.08
Consensus pattern (27 bp):
AAAAGAAGAAAAATGATGGAAAAATGA
Found at i:644977 original size:19 final size:18
Alignment explanation
Indices: 644887--645023 Score: 72
Period size: 16 Copynumber: 7.7 Consensus size: 18
644877 ATTTTACTTG
*
644887 AAGAAGAAATAAAAGAGAAA
1 AAGAAGAAA-AAATGA-AAA
* *
644907 AA-ATGAAAAAATGAGAA
1 AAGAAGAAAAAATGAAAA
644924 AA-AAGAAAAATGATGGAAAA
1 AAGAAGAAAAA--AT-GAAAA
* *
644944 AATAA-AAAGAA-GAAAA
1 AAGAAGAAAAAATGAAAA
*
644960 AAGAAGGAAAAATGGAAAA
1 AAGAAGAAAAAAT-GAAAA
**
644979 TGGAAGAAAAAATGAAAA
1 AAGAAGAAAAAATGAAAA
* *
644997 ATGAA-AAAAGA-GAAAA
1 AAGAAGAAAAAATGAAAA
*
645013 ATGAA-AAAAAA
1 AAGAAGAAAAAA
645024 AAAGAGAAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 18
0.73 0.12 0.14
Matches are distributed among these distances:
16 24 0.26
17 20 0.21
18 14 0.15
19 22 0.23
20 12 0.13
21 2 0.02
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (18 bp):
AAGAAGAAAAAATGAAAA
Found at i:644983 original size:42 final size:41
Alignment explanation
Indices: 644905--645020 Score: 117
Period size: 45 Copynumber: 2.7 Consensus size: 41
644895 ATAAAAGAGA
* * *
644905 AAAAATGAAAAAATGAGAAAAAAGAAAAAT-GATGGAAAAAATA
1 AAAAATGAAAAAA-GAGAAAAATGAAAAATGGA-AGAAAAAA-G
* *
644948 AAAAGAAGAAAAAAGAAGGAAAAATGGAAAATGGAAGAAAAAATG
1 AAAA-ATGAAAAAAG-A-GAAAAATGAAAAATGGAAGAAAAAA-G
644993 AAAAATGAAAAAAGAGAAAAATGAAAAA
1 AAAAATGAAAAAAGAGAAAAATGAAAAA
645021 AAAAAAGAGA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
42 12 0.19
43 6 0.10
44 18 0.29
45 24 0.39
46 2 0.03
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (41 bp):
AAAAATGAAAAAAGAGAAAAATGAAAAATGGAAGAAAAAAG
Found at i:646824 original size:55 final size:55
Alignment explanation
Indices: 646348--646820 Score: 511
Period size: 55 Copynumber: 8.9 Consensus size: 55
646338 AAGCAAATTC
*
646348 GTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACAA
* *
646399 GTTCGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACAA
* * *
646450 GTTCGTTGAA-A--ATT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACAA
* *
646501 GTTCGTTGAAGA---TT-GAGTCATATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACAA
* * * *
646552 GTTTGTTGAAGATTGTTCGAGT-TCTATACTCTTTTAAGGAATAGAGAGCGGACAT
1 GTTTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCGGACAA
** * *
646607 GTTTCATGAAGATTGTTCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACAC
1 GTTTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCGGACAA
* * **
646662 GTTTGTTGAAGATTGTTTGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACCC
1 GTTTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCGGACAA
* * * *
646717 GTTT-TATGAAGATTGTTCGAGT-TCTATACTCCCTGAATGAATAGGGAGCAGACAC
1 GTTTGT-TGAAGATTGTTCGAGTCT-TATACTCTCTGAAGGAATAGGGAGCGGACAA
* * *
646772 GTTTGCTGAAGATTGTTCGAGTCTTATACTCCCTGAACGAATAGGGAGC
1 GTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGC
646821 AGACTCGTCA
Statistics
Matches: 387, Mismatches: 25, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
50 1 0.00
51 158 0.41
52 1 0.00
54 3 0.01
55 223 0.58
56 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (55 bp):
GTTTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACAA
Found at i:648996 original size:16 final size:16
Alignment explanation
Indices: 648977--649010 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
648967 CAATATACGA
648977 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
648993 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
649009 AT
1 AT
649011 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:649084 original size:16 final size:18
Alignment explanation
Indices: 649052--649085 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
649042 TATTAATGTA
649052 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
649070 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
649086 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:649778 original size:130 final size:130
Alignment explanation
Indices: 649545--649792 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
649535 TAATTTCTTC
* *
649545 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
649610 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
649675 TAATTAGGTGGTGACATGTGTCACCATTGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
649740 CCTAATTAAATGCTTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
649793 TATATAAATA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:650985 original size:12 final size:12
Alignment explanation
Indices: 650965--651005 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
650955 ACATTTGTTT
650965 TTAAATTAAAAA
1 TTAAATTAAAAA
* *
650977 TTAATTTAAAGA
1 TTAAATTAAAAA
650989 TGTAAATTAAAAA
1 T-TAAATTAAAAA
651002 TTAA
1 TTAA
651006 TGTGGTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (12 bp):
TTAAATTAAAAA
Found at i:656590 original size:24 final size:21
Alignment explanation
Indices: 656548--656593 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 21
656538 GGATTTGTTT
656548 TTATTTTGTTTTGTTTTTATA
1 TTATTTTGTTTTGTTTTTATA
*
656569 TTATTTATGTATTTTTTATTTATA
1 TTATTT-TGT-TTTGTT-TTTATA
656593 T
1 T
656594 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 3 0.14
23 5 0.24
24 7 0.33
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.74
Consensus pattern (21 bp):
TTATTTTGTTTTGTTTTTATA
Found at i:656705 original size:29 final size:30
Alignment explanation
Indices: 656661--656725 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
656651 AATGTATATT
* *
656661 TATATAGTTTTG-AAAACATTTTGAAGATA
1 TATATAGTTTTGAAAAACATTTTAAAAATA
*
656690 TATATAGTTTTTAAAAACATTTTAAAAATA
1 TATATAGTTTTGAAAAACATTTTAAAAATA
656720 TATATA
1 TATATA
656726 ATATATAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 11 0.34
30 21 0.66
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (30 bp):
TATATAGTTTTGAAAAACATTTTAAAAATA
Found at i:656708 original size:66 final size:67
Alignment explanation
Indices: 656630--656913 Score: 193
Period size: 77 Copynumber: 4.0 Consensus size: 67
656620 TTAAAATATT
** * * * *
656630 TTTTTAGAAAACAATTTTTGAAATGTATAT-TTATATAG-TTTTGAAAACATTTTGAAGATATAT
1 TTTTTAGAAAAC-ATTTTAAAAATATATATAATATATAGTTTTTAAAAACATTTT-AAAATATAT
656693 ATAG
64 ATAG
656697 TTTTTA-AAAACATTTTAAAAATATATATAATATATAGTTTTTAAAAACATTTTAAAATATATAT
1 TTTTTAGAAAACATTTTAAAAATATATATAATATATAGTTTTTAAAAACATTTTAAAATATATAT
*
656761 ATA
66 A-G
* * * * *
656764 TATATATATAGTTTTGAAATCATGTCAAAAACT-TATATAATATATAG-TTTTGAAATCATTTTG
1 T-T-T-T-TA-----GAAAACATTTTAAAAA-TATATATAATATATAGTTTTTAAAAACATTTT-
656827 AAAACTATATATATTG
55 AAAA-TATATATA--G
* * * *
656843 TTTTCAAAAAAC-TTTTGAAAATATATATAATATATGGTTTTTAAAAAAAACATTTTGAAAATAT
1 TTTTTAGAAAACATTTTAAAAATATATATAATATATAGTTTTT---AAAAACATTTT-AAAATAT
656907 ATATAG
62 ATATAG
656913 T
1 T
656914 ATATGATTTT
Statistics
Matches: 173, Mismatches: 22, Indels: 41
0.73 0.09 0.17
Matches are distributed among these distances:
65 14 0.08
66 23 0.13
67 21 0.12
68 2 0.01
69 20 0.12
70 11 0.06
71 2 0.01
72 8 0.05
73 14 0.08
75 1 0.01
76 14 0.08
77 31 0.18
78 10 0.06
79 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (67 bp):
TTTTTAGAAAACATTTTAAAAATATATATAATATATAGTTTTTAAAAACATTTTAAAATATATAT
AG
Found at i:656734 original size:37 final size:37
Alignment explanation
Indices: 656689--656969 Score: 245
Period size: 40 Copynumber: 7.5 Consensus size: 37
656679 TTTTGAAGAT
*
656689 ATATATAGTTTTTAAAAACATTTTAAAAATATATATA
1 ATATATAGTTTTTAAAAACATTTTGAAAATATATATA
656726 ATATATAGTTTTTAAAAACATTTT-AAAATATATATA
1 ATATATAGTTTTTAAAAACATTTTGAAAATATATATA
* * * * **
656762 TATATATATATAGTTTTGAAATCATGTCAAAAACT-TATATA
1 -ATATATA-GT--TTTTAAAAACATTTTGAAAA-TATATATA
* * *
656803 ATATATAG-TTTTGAAATCATTTTGAAAA-CTATAT-
1 ATATATAGTTTTTAAAAACATTTTGAAAATATATATA
*
656837 ATAT-T-GTTTTCAAAAA-ACTTTTGAAAATATATATA
1 ATATATAGTTTTTAAAAACA-TTTTGAAAATATATATA
*
656872 ATATATGGTTTTTAAAAAAAACATTTTGAAAATATATATA
1 ATATATAGTTTTT---AAAAACATTTTGAAAATATATATA
**
656912 GTATATGATTTTTTTTAAAAACATTTTGAAAATATATATA
1 --ATAT-ATAGTTTTTAAAAACATTTTGAAAATATATATA
* * *
656952 GTATATAATTTTAAAAAA
1 ATATATAGTTTTTAAAAA
656970 AACATTAAAA
Statistics
Matches: 204, Mismatches: 20, Indels: 40
0.77 0.08 0.15
Matches are distributed among these distances:
32 2 0.01
33 16 0.08
34 9 0.04
35 9 0.04
36 30 0.15
37 47 0.23
38 4 0.02
40 64 0.31
41 11 0.05
42 5 0.02
43 7 0.03
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (37 bp):
ATATATAGTTTTTAAAAACATTTTGAAAATATATATA
Found at i:656756 original size:25 final size:26
Alignment explanation
Indices: 656709--656757 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
656699 TTTAAAAACA
* *
656709 TTTTAAAAATATATATAATATATAGT
1 TTTTAAAAACATATATAAAATATAGT
*
656735 TTTTAAAAACAT-TTTAAAATATA
1 TTTTAAAAACATATATAAAATATA
656758 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 9 0.45
26 11 0.55
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TTTTAAAAACATATATAAAATATAGT
Found at i:656801 original size:35 final size:34
Alignment explanation
Indices: 656762--656840 Score: 113
Period size: 36 Copynumber: 2.3 Consensus size: 34
656752 AATATATATA
656762 TATATATATATAGTTTTGAAATCATGTCAAAAAC
1 TATATATATATAGTTTTGAAATCATGTCAAAAAC
* **
656796 TTATATAATATATAGTTTTGAAATCATTTTGAAAAC
1 -TATAT-ATATATAGTTTTGAAATCATGTCAAAAAC
656832 TATATATAT
1 TATATATAT
656841 TGTTTTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
34 4 0.10
35 10 0.25
36 26 0.65
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (34 bp):
TATATATATATAGTTTTGAAATCATGTCAAAAAC
Found at i:656846 original size:32 final size:32
Alignment explanation
Indices: 656764--656871 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 32
656754 TATATATATA
* * **
656764 TATATATATAGTTTTGAAATCATGTCAAAAAC
1 TATATATATTGTTTTGAAATCATTTTGAAAAC
656796 TTATATAATATATAGTTTTGAAATCATTTTGAAAAC
1 -TATAT-ATAT-T-GTTTTGAAATCATTTTGAAAAC
* **
656832 TATATATATTGTTTTCAAAAAACTTTTGAAAA-
1 TATATATATTGTTTTGAAATCA-TTTTGAAAAC
656864 TATATATA
1 TATATATA
656872 ATATATGGTT
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
32 17 0.27
33 15 0.23
34 8 0.12
35 5 0.08
36 19 0.30
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (32 bp):
TATATATATTGTTTTGAAATCATTTTGAAAAC
Found at i:656982 original size:13 final size:12
Alignment explanation
Indices: 656962--656987 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
656952 GTATATAATT
656962 TTAAAAAAAACA
1 TTAAAAAAAACA
656974 TTAAAAAAAACA
1 TTAAAAAAAACA
656986 TT
1 TT
656988 TTGAAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
TTAAAAAAAACA
Found at i:656994 original size:14 final size:14
Alignment explanation
Indices: 656959--656995 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
656949 ATAGTATATA
656959 ATTTTAAAAAAAAC
1 ATTTTAAAAAAAAC
656973 A--TTAAAAAAAAC
1 ATTTTAAAAAAAAC
*
656985 ATTTTGAAAAA
1 ATTTTAAAAAA
656996 TTATATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 12 0.60
14 8 0.40
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (14 bp):
ATTTTAAAAAAAAC
Found at i:657047 original size:37 final size:36
Alignment explanation
Indices: 656980--657050 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
656970 AACATTAAAA
656980 AAAACATTTTGAAAAATTATATAATATATAGTTTTG
1 AAAACATTTTGAAAAATTATATAATATATAGTTTTG
* * *
657016 AAAACTTTTTTAAAAATATATATAATGTATAGTTT
1 AAAACATTTTGAAAAAT-TATATAATATATAGTTT
657051 CAAAATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 15 0.48
37 16 0.52
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (36 bp):
AAAACATTTTGAAAAATTATATAATATATAGTTTTG
Found at i:657062 original size:36 final size:36
Alignment explanation
Indices: 656980--657062 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
656970 AACATTAAAA
* * *
656980 AAAACATTTTGAAAAATTATATAATATATAGTTTTG
1 AAAATATTTTTAAAAATTATATAATATATAGTTTTC
*
657016 AAAACT-TTTTTAAAAATATATATAATGTATAG-TTTC
1 AAAA-TATTTTTAAAAAT-TATATAATATATAGTTTTC
657052 AAAATATTTTT
1 AAAATATTTTT
657063 TGATTATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
35 1 0.03
36 26 0.65
37 13 0.32
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
AAAATATTTTTAAAAATTATATAATATATAGTTTTC
Found at i:657062 original size:37 final size:36
Alignment explanation
Indices: 656986--657063 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 36
656976 AAAAAAAACA
* * *
656986 TTTTGAAAAATTATATAATATATAGTTTTGAAAACT
1 TTTTTAAAAATTATATAATATATAGTTTTCAAAAAT
*
657022 TTTTTAAAAATATATATAATGTATAG-TTTCAAAATAT
1 TTTTTAAAAAT-TATATAATATATAGTTTTCAAAA-AT
657059 TTTTT
1 TTTTT
657064 GATTATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 17 0.47
37 19 0.53
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (36 bp):
TTTTTAAAAATTATATAATATATAGTTTTCAAAAAT
Found at i:657094 original size:16 final size:15
Alignment explanation
Indices: 657066--657116 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 15
657056 TATTTTTTGA
657066 TTATTATTATTATTAT
1 TTATTATT-TTATTAT
657082 TTATTCATTTTATATAT
1 TTATT-ATTTTAT-TAT
657099 TT-TTAAATTTTATTAT
1 TTATT--ATTTTATTAT
657115 TT
1 TT
657117 TTTCCAAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTATTTTATTAT
Found at i:657117 original size:16 final size:15
Alignment explanation
Indices: 657075--657118 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
657065 ATTATTATTA
*
657075 TTATTATTTATTCATT
1 TTATTATTT-TTAATT
657091 TTATATATTTTTAAATT
1 TTAT-TATTTTT-AATT
657108 TTATTATTTTT
1 TTATTATTTTT
657119 TCCAAGTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTATTTTTAATT
Found at i:657119 original size:17 final size:16
Alignment explanation
Indices: 657075--657119 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
657065 ATTATTATTA
* *
657075 TTATTATTTATTCATT
1 TTATTATTTTTTAATT
*
657091 TTATATATTTTTAAATT
1 TTAT-TATTTTTTAATT
657108 TTATTATTTTTT
1 TTATTATTTTTT
657120 CCAAGTCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTTTTTAATT
Found at i:658500 original size:4 final size:4
Alignment explanation
Indices: 658493--658517 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
658483 TCTTTCTTTG
658493 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
658518 AGTAACTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:662286 original size:94 final size:95
Alignment explanation
Indices: 662171--662362 Score: 314
Period size: 94 Copynumber: 2.0 Consensus size: 95
662161 ATATTATATG
* * *
662171 TATACAATAAAGCTTGAGTTGTCCCTCTATAGCAATTGGTTAAATGCCCCCGCTTTATGGATAAG
1 TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCCGCTTTATGGATAAA
*
662236 ATTCAGCTAGCCTGATAAATGTGATTATAA
66 ATTCAGCTAGCCTGATAAAGGTGATTATAA
* **
662266 TATACAAT-AATCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTGGCTTTATGGATAAA
1 TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCCGCTTTATGGATAAA
662330 ATTCAGCTAGCCTGATAAAGGTGATTATAA
66 ATTCAGCTAGCCTGATAAAGGTGATTATAA
662360 TAT
1 TAT
662363 TGAGATATCC
Statistics
Matches: 90, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
94 82 0.91
95 8 0.09
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (95 bp):
TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCCGCTTTATGGATAAA
ATTCAGCTAGCCTGATAAAGGTGATTATAA
Found at i:664460 original size:18 final size:17
Alignment explanation
Indices: 664406--664454 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
664396 TTGGACCCTT
* *
664406 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
664424 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
664442 AGTGCATTCGATG
1 AGTGCA-TCGATG
664455 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:673141 original size:65 final size:65
Alignment explanation
Indices: 673023--673175 Score: 195
Period size: 65 Copynumber: 2.4 Consensus size: 65
673013 CTAAGAGTGT
* *
673023 GATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCT-GGTGCAT
1 GATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGG-TAGGTGCAT
673086 C
65 C
* * * * *
673087 GATGCATCAAATGTATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGCATGGTATGTGCAT
1 GATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGTAGGTGCAT
673151 C
65 C
*
673152 GATGCATGAAATGCATTCGATGTT
1 GATGCATCAAATGCATTCGATGTT
673176 CAATGGTGCA
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 21 0.27
65 53 0.69
66 3 0.04
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (65 bp):
GATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGTAGGTGCATC
Found at i:673914 original size:85 final size:85
Alignment explanation
Indices: 673560--674267 Score: 913
Period size: 85 Copynumber: 8.3 Consensus size: 85
673550 TAAAGGAACT
* *
673560 ATTTGCAGCATAGCTCAAGGCGAGAATGGCTATCTGTCAACCAAA-ACCTTCGAGTTCGATTACA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACA
673624 CTCAGCTCAAGGACATATCAA
65 CTCAGCTCAAGGACATATCAA
* * * * * *
673645 ATTTGCAGCATAGCTCAAGGCGAGGAGTGTTATCTAGTAGCAA-AAA-ACGTTTGAGTTCGATTA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCT-GT--CAACAAAGACCTTCGAGTTCGATTA
*
673708 CACTCATCTCAAGGACATATCAA
63 CACTCAGCTCAAGGACATATCAA
* * *
673731 ATTTACAGTATAGCTCAAGGCGAGAAGGGCTATCTGTCAGCAAAAAACCTTCGAGTTCGATTACA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACA
673796 CTCAGCTCAAGGACATATCAA
65 CTCAGCTCAAGGACATATCAA
* * *
673817 ATTTATAGCATAGCTCAAGGCGAGAAGGGTTATCTGTCAGCAAAGACCTTC-ATGTTCGATTACA
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGA-GTTCGATTACA
*
673881 CTCAGCTCAAGGATATATCAA
65 CTCAGCTCAAGGACATATCAA
* * * * * *
673902 ATTTACAACATAGCTAAAGGCGATAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTATAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
*
673967 TCAGCTCAAGGGCATATCAA
66 TCAGCTCAAGGACATATCAA
* * *
673987 ATTTACAGCATAGCTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACAC
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
674052 TCAGCTCAAGGACATATCAA
66 TCAGCTCAAGGACATATCAA
* ** * * * *
674072 ATTTACAGCATAGCTCATGAAGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTTGATTATAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
*
674137 TCAGCTCAAGGGCATATCAA
66 TCAGCTCAAGGACATATCAA
* * * * * *
674157 ATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTCGAGTTCGGTTCCAT
1 ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* *
674222 TCAGCTCAATGG-CATGTTAA
66 TCAGCTCAA-GGACATATCAA
* * *
674242 ATTTACAGCATAACTTAAGTCGAGAA
1 ATTTACAGCATAGCTCAAGGCGAGAA
674268 ACTATTTTCT
Statistics
Matches: 546, Mismatches: 68, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
83 2 0.00
84 1 0.00
85 390 0.71
86 150 0.27
88 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (85 bp):
ATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
TCAGCTCAAGGACATATCAA
Found at i:675107 original size:39 final size:37
Alignment explanation
Indices: 675072--675319 Score: 161
Period size: 37 Copynumber: 6.8 Consensus size: 37
675062 AGAAAACGAT
* *
675072 TTTTGAAAATGTATATATTATATAGTTTTTTAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAACA
* *
675109 TTTTGAAAATATATATAATATATAG-TTTTGAAATCA
1 TTTTGAAAATATATATAATATATAGTTTTTTAAAACA
* ** ** *
675145 TGTCAAAAACT-TATATAATATATAG-TTTAGAAATCA
1 TTTTGAAAA-TATATATAATATATAGTTTTTTAAAACA
* *
675181 TTTTG--AAT-TATATATTATATTGTTTTTTAAAAACA
1 TTTTGAAAATATATATAATATATAGTTTTTT-AAAACA
* ** * * *** *
675216 TTTTAAAAATATATATAGCATTTAATTTAAAAAAAACG
1 TTTTGAAAATATATATAATATATAGTTT-TTTAAAACA
* *
675254 TTTTGAAAA-ACTATATAATATATAG-TTTTGAAAACTT
1 TTTTGAAAATA-TATATAATATATAGTTTTTTAAAAC-A
* * *
675291 TTTTAAAAATATATGTAATGTATAGTTTT
1 TTTTGAAAATATATATAATATATAGTTTT
675320 AAAATATTTT
Statistics
Matches: 162, Mismatches: 38, Indels: 21
0.73 0.17 0.10
Matches are distributed among these distances:
33 13 0.08
34 5 0.03
35 9 0.06
36 46 0.28
37 50 0.31
38 39 0.24
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (37 bp):
TTTTGAAAATATATATAATATATAGTTTTTTAAAACA
Found at i:675230 original size:36 final size:34
Alignment explanation
Indices: 675083--675323 Score: 126
Period size: 36 Copynumber: 6.6 Consensus size: 34
675073 TTTGAAAATG
*
675083 TATATATTATATAGTTTTTTAAAACATTTTGAAAATA
1 TATATATTATATAG-TTTTAAAAACATTTT-AAAA-A
* * * * *
675120 TATATAATATATAGTTTTGAAATCATGTCAAAAA
1 TATATATTATATAGTTTTAAAAACATTTTAAAAA
* * * *
675154 CTTATATAATATATAG-TTTAGAAATCATTTT-GAAT
1 --TATATATTATATAGTTTTA-AAAACATTTTAAAAA
*
675189 TATATATTATATTGTTTTTTAAAAACATTTTAAAAA
1 TATATATTATATAG--TTTTAAAAACATTTTAAAAA
* * * * *
675225 TATATATAGCATTTAATTTAAAAAAAACGTTTTGAAAAA
1 TATATAT--TATATAGTTT--TAAAAACATTTT-AAAAA
* * *
675264 CTATATAATATATAGTTTTGAAAACTTTTTTAAAAA
1 -TATATATTATATAGTTTTAAAAAC-ATTTTAAAAA
* *
675300 TATATGTAATGTATAGTTTTAAAA
1 TATA--TATTATATAGTTTTAAAA
675324 TATTTTATTA
Statistics
Matches: 158, Mismatches: 30, Indels: 32
0.72 0.14 0.15
Matches are distributed among these distances:
33 12 0.08
34 1 0.01
35 22 0.14
36 59 0.37
37 33 0.21
38 20 0.13
39 5 0.03
40 6 0.04
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (34 bp):
TATATATTATATAGTTTTAAAAACATTTTAAAAA
Found at i:675342 original size:9 final size:8
Alignment explanation
Indices: 675324--675366 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 8
675314 AGTTTTAAAA
675324 TATTTTAT
1 TATTTTAT
675332 TATTATTAT
1 TATT-TTAT
*
675341 TATTTTTT
1 TATTTTAT
*
675349 TTTTTTAT
1 TATTTTAT
675357 TCATTTTAT
1 T-ATTTTAT
675366 T
1 T
675367 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 14 0.48
9 15 0.52
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (8 bp):
TATTTTAT
Found at i:675415 original size:18 final size:18
Alignment explanation
Indices: 675392--675432 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
675382 TTTCCATGTC
675392 CAAAGTCAAGGTTCAGGT
1 CAAAGTCAAGGTTCAGGT
675410 CAAAGTCAAGGTTCAGGT
1 CAAAGTCAAGGTTCAGGT
675428 CAAAG
1 CAAAG
675433 CCAAACCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.20
Consensus pattern (18 bp):
CAAAGTCAAGGTTCAGGT
Found at i:676541 original size:5 final size:5
Alignment explanation
Indices: 676528--676622 Score: 58
Period size: 5 Copynumber: 19.6 Consensus size: 5
676518 TTAATTATTA
* * * * *
676528 TTTAA TTTAT TTTAT TATT-T TTT-T TTTAA CTT-T TTTAT TTCAT TTCCAT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT-TAT
* *
676577 TTT-T TTTAT TTT-T TCTCT TTTAT TTTAT TTT-T TATTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTT
676623 TTCCTTCTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
4 17 0.24
5 46 0.64
6 9 0.12
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:676590 original size:29 final size:28
Alignment explanation
Indices: 676547--676622 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 28
676537 TTTTATTATT
**
676547 TTTTTTTTAACTTTTTTATTTCATTTCCA
1 TTTTTTTTATTTTTTTTATTTCATTT-CA
* * * *
676576 TTTTTTTTATTTTTTCTCTTTTATTTTA
1 TTTTTTTTATTTTTTTTATTTCATTTCA
676604 TTTTTTATTATTTTATTTT
1 TTTTTT-TTATTTT-TTTT
676623 TTCCTTCTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 7 0.18
29 28 0.74
30 3 0.08
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (28 bp):
TTTTTTTTATTTTTTTTATTTCATTTCA
Found at i:676602 original size:20 final size:21
Alignment explanation
Indices: 676579--676623 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
676569 ATTTCCATTT
*
676579 TTTTTATTTTTT-CTCTTTTA
1 TTTTTATTTTTTACTATTTTA
*
676599 -TTTTATTTTTTATTATTTTA
1 TTTTTATTTTTTACTATTTTA
676619 TTTTT
1 TTTTT
676624 TCCTTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 11 0.52
20 6 0.29
21 4 0.19
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTATTTTTTACTATTTTA
Found at i:676618 original size:34 final size:34
Alignment explanation
Indices: 676537--676625 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 34
676527 ATTTAATTTA
*
676537 TTTTATTATTTT-TTTTTTAACTTTTTTATTTCATT
1 TTTTATTATTTTATTTTTT--CTCTTTTATTTCATT
* *
676572 TCCATT-TT-TTTTATTTTTTCTCTTTTATTTTATT
1 T--TTTATTATTTTATTTTTTCTCTTTTATTTCATT
676606 TTTTATTATTTTATTTTTTC
1 TTTTATTATTTTATTTTTTC
676626 CTTCTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
32 2 0.04
33 2 0.04
34 26 0.58
35 5 0.11
36 8 0.18
37 2 0.04
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.78
Consensus pattern (34 bp):
TTTTATTATTTTATTTTTTCTCTTTTATTTCATT
Found at i:676676 original size:16 final size:17
Alignment explanation
Indices: 676635--676680 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
676625 CCTTCTAAAA
*
676635 TTTAACATTTTTTTATT
1 TTTAACATTTTTTTACT
*
676652 TTGTTACATTTTTTT-CT
1 TT-TAACATTTTTTTACT
676669 TTTAACATTTTT
1 TTTAACATTTTT
676681 AGCACTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 9 0.36
17 5 0.20
18 11 0.44
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTAACATTTTTTTACT
Found at i:681516 original size:22 final size:22
Alignment explanation
Indices: 681487--681554 Score: 81
Period size: 19 Copynumber: 3.2 Consensus size: 22
681477 ATTTTTATAA
681487 TATT-AAAATATATTATTTAAT
1 TATTAAAAATATATTATTTAAT
*
681508 TATTAAAAATATA--A-TAAAT
1 TATTAAAAATATATTATTTAAT
681527 TATTATAAAATATATTATTTTAAT
1 TATTA-AAAATATATTA-TTTAAT
681551 TATT
1 TATT
681555 TTTAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 9 0.23
20 9 0.23
21 4 0.10
22 9 0.23
24 8 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTAAAAATATATTATTTAAT
Found at i:686932 original size:3 final size:3
Alignment explanation
Indices: 686924--686959 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
686914 GTAAAGATTA
686924 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
686960 TTACTATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:688212 original size:22 final size:22
Alignment explanation
Indices: 688187--688272 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 22
688177 TCGGATAGCG
*
688187 AAAGTTCCTTAGCACTAATACT
1 AAAGTGCCTTAGCACTAATACT
* * ** *
688209 AAAGTGCCTCAACACTGGTACG
1 AAAGTGCCTTAGCACTAATACT
* * * *
688231 GAAGTGCGTTCGCACTGATACT
1 AAAGTGCCTTAGCACTAATACT
*
688253 AAAGTGTCTTAGCACTAATA
1 AAAGTGCCTTAGCACTAATA
688273 GAAGAAAATA
Statistics
Matches: 46, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (22 bp):
AAAGTGCCTTAGCACTAATACT
Found at i:699703 original size:135 final size:135
Alignment explanation
Indices: 699491--700048 Score: 746
Period size: 135 Copynumber: 4.1 Consensus size: 135
699481 CATGTTTATC
* * * * *
699491 ATGCA-CCATTATGCATTTTAAACTATAACAT-CTTTTCTGTTGATAATGCACCCGTATGCATTT
1 ATGCACCCA-TATGCA-TTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCATATACATTT
*
699554 CAACTATAGTATACTTTTCTTTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTCT
64 CAACTATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTCT
699619 GTTGATA
129 GTTGATA
* * * *
699626 ATGTACCCATATACATTTCAAC-CATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTC
1 ATGCACCCATATGCATTTCAACTC-TAGCATACTTTTCTGTTGATAATGCACCCATATACATTTC
* * * *
699690 AACTCTAGCATACTTTTTTGTTGATAATGTTCCCATATACATTTCAACCATAGTATACTTTTCTG
65 AACTATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTCTG
699755 TTGATA
130 TTGATA
* * *
699761 ATGCACCCATATGCATTTAAACTCTAGCGTACTTTTCTGTTGATAATGTACCCATATACATTTCA
1 ATGCACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCA
* ** *
699826 ACCATAGTATGTTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTTTACTTTTCTGT
66 ACTATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTCTGT
699891 TGATA
131 TGATA
* *
699896 ATGCACCCATATGCATTTCAACTCTAGCATACTTTTATGTTGATAATGTACCCATATACATTTCA
1 ATGCACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCA
* * ** * * * *
699961 ATTAAAGTATGTTTTTCTGTTGATAATGTACCCATATACATTTCAACTATGGCAT-CCTTTCATG
66 ACTATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTC-TG
***
700025 CCAATA
130 TTGATA
700031 ATGCACCCATATGCATTT
1 ATGCACCCATATGCATTT
700049 TTCTTGTATA
Statistics
Matches: 377, Mismatches: 41, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
134 15 0.04
135 358 0.95
136 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.40
Consensus pattern (135 bp):
ATGCACCCATATGCATTTCAACTCTAGCATACTTTTCTGTTGATAATGCACCCATATACATTTCA
ACTATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATACTTTTCTGT
TGATA
Found at i:700033 original size:45 final size:45
Alignment explanation
Indices: 699522--700007 Score: 681
Period size: 45 Copynumber: 10.8 Consensus size: 45
699512 ACTATAACAT
* * * *
699522 CTTTTCTGTTGATAATGCACCCGTATGCATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
*
699567 CTTTTCTTTTGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
699612 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* * *
699657 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAGCATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAAC-CATAGTATA
* *
699702 CTTTTTTGTTGATAATGTTCCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* * * **
699747 CTTTTCTGTTGATAATGCACCCATATGCATTTAAACTC-TAGCGTA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAAC-CATAGTATA
*
699792 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATG
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* *
699837 TTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTTTA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
* * *
699882 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTC-TAGCATA
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAAC-CATAGTATA
* ** * *
699927 CTTTTATGTTGATAATGTACCCATATACATTTCAATTAAAGTATG
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
*
699972 TTTTTCTGTTGATAATGTACCCATATACATTTCAAC
1 CTTTTCTGTTGATAATGTACCCATATACATTTCAAC
700008 TATGGCATCC
Statistics
Matches: 389, Mismatches: 46, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
44 2 0.01
45 384 0.99
46 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
Found at i:700039 original size:45 final size:45
Alignment explanation
Indices: 699479--700048 Score: 496
Period size: 45 Copynumber: 12.7 Consensus size: 45
699469 ATAACATCCA
* * * * *
699479 TTCATGTTTATCATGCA-CCATTATGCATTTTAAACTATAACAT-CTT
1 TTCATGTTGATAATGCACCCA-TATACA-TTTCAACTATAGCATAC-T
* * *
699525 TTC-TGTTGATAATGCACCCGTATGCATTTCAACTATAGTATACTT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATAC-T
* * * *
699570 TTC-TTTTGATAATGTACCCATATACATTTCAACCATAGTATACTT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATAC-T
* * *
699615 TTC-TGTTGATAATGTACCCATATACATTTCAACCATAGTATACTT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATAC-T
* *
699660 TTC-TGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATACT
** ** * *
699704 TTTTTGTTGATAATGTTCCCATATACATTTCAACCATAGTATACTT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATAC-T
* * * *
699750 TTC-TGTTGATAATGCACCCATATGCATTTAAACTCTAGCGTACTT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATAC-T
* * * **
699795 TTC-TGTTGATAATGTACCCATATACATTTCAACCATAGTATGTTT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCAT-ACT
* * **
699840 TTC-TGTTGATAATGTACCCATATACATTTCAACCATAGTTTACTT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATAC-T
* *
699885 TTC-TGTTGATAATGCACCCATATGCATTTCAACTCTAGCATACT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATACT
* * * * * **
699929 TTTATGTTGATAATGTACCCATATACATTTCAATTAAAGTATGTTT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCAT-ACT
* * *
699975 TTC-TGTTGATAATGTACCCATATACATTTCAACTATGGCATCCT
1 TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATACT
*** *
700019 TTCATGCCAATAATGCACCCATATGCATTT
1 TTCATGTTGATAATGCACCCATATACATTT
700049 TTCTTGTATA
Statistics
Matches: 443, Mismatches: 72, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
44 22 0.05
45 410 0.93
46 11 0.02
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (45 bp):
TTCATGTTGATAATGCACCCATATACATTTCAACTATAGCATACT
Found at i:700715 original size:19 final size:19
Alignment explanation
Indices: 700687--700737 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
700677 CCTTTGCTAT
*
700687 GGTACCGATACCCCCTCTA
1 GGTACTGATACCCCCTCTA
700706 GGTACTGATACCCCCTCTA
1 GGTACTGATACCCCCTCTA
700725 GGTA-TCGATACCC
1 GGTACT-GATACCC
700738 AAATTAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 1 0.03
19 29 0.97
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.24
Consensus pattern (19 bp):
GGTACTGATACCCCCTCTA
Found at i:704037 original size:16 final size:17
Alignment explanation
Indices: 704004--704038 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
703994 CTTCAAATTT
704004 TATAACTAATATTATTA
1 TATAACTAATATTATTA
*
704021 TATAACT-ATATTGTTA
1 TATAACTAATATTATTA
704037 TA
1 TA
704039 ACTTGTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (17 bp):
TATAACTAATATTATTA
Found at i:721921 original size:17 final size:17
Alignment explanation
Indices: 721899--721952 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
721889 AATGTTAATA
721899 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
721916 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
721933 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
721950 TTT
1 TTT
721953 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:723550 original size:21 final size:21
Alignment explanation
Indices: 723524--723617 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
723514 TATGCCATCT
723524 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
723545 CCGCAGGGTTATATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
723566 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* *
723587 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
723608 CCGCAGGGTT
1 CCGCAGGGTT
723618 TTATACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:723557 original size:42 final size:42
Alignment explanation
Indices: 723500--723617 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
723490 TCAAATGCCA
* * *
723500 AGCCCACCAGTTTATATGCC-ATCTCCGCAGGGTTACATTCCG
1 AGCCCGCCAGGTTATATGCCGAGC-CCGCAGGGTTACATTCCG
* *
723542 AGCCCG-CAGGGTTATATTCCGAGCCCGCAGGGTTACATTCCT
1 AGCCCGCCA-GGTTATATGCCGAGCCCGCAGGGTTACATTCCG
* *
723584 AGCCCGCCAGGTTACATGCCTAGCCCGCAGGGTT
1 AGCCCGCCAGGTTATATGCCGAGCCCGCAGGGTT
723618 TTATACCATA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.03
42 59 0.91
43 4 0.06
ACGTcount: A:0.19, C:0.33, G:0.25, T:0.23
Consensus pattern (42 bp):
AGCCCGCCAGGTTATATGCCGAGCCCGCAGGGTTACATTCCG
Found at i:724190 original size:34 final size:33
Alignment explanation
Indices: 724140--724235 Score: 113
Period size: 32 Copynumber: 2.9 Consensus size: 33
724130 AAATGTTTTT
*
724140 AAAATACAAATTATATTATTCAAAATTTAAAATA
1 AAAATAAAAATTATATTATTC-AAATTTAAAATA
* *
724174 AAAATAAAAATAATATTATTCAAATTT-AAATT
1 AAAATAAAAATTATATTATTCAAATTTAAAATA
* * *
724206 TAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTC-AAATTTAA
724236 CATTAAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 21 0.40
33 12 0.23
34 20 0.38
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (33 bp):
AAAATAAAAATTATATTATTCAAATTTAAAATA
Found at i:724920 original size:127 final size:128
Alignment explanation
Indices: 724629--725128 Score: 948
Period size: 128 Copynumber: 3.9 Consensus size: 128
724619 TTACCTGATT
*
724629 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGTCATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
724694 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
724757 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
724822 TGATGAAATAATGGAAGGCG-GCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
724884 TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
724949 TGATGAAATAATGGAAGGCGTGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
725012 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
725077 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGT
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
725129 ACTCCGATTA
Statistics
Matches: 365, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
127 126 0.35
128 239 0.65
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:725087 original size:255 final size:256
Alignment explanation
Indices: 724629--725128 Score: 948
Period size: 255 Copynumber: 2.0 Consensus size: 256
724619 TTACCTGATT
* *
724629 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGTCATAATAGGGCAATGATAACATATTCTC
1 TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
724694 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
724759 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
* *
724824 ATGAAATAATGGAAGGCG-GCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
196 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
724884 TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
724949 TGATGAAATAATGGAAGGCGTGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
66 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
725014 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
131 CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
725079 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGT
196 ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGT
725129 ACTCCGATTA
Statistics
Matches: 239, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
255 209 0.87
256 30 0.13
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (256 bp):
TACTAATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTA
CTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTG
ACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATGAATAGTGAAATAATAGG
Found at i:725212 original size:8 final size:8
Alignment explanation
Indices: 725199--725239 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
725189 TCACAATCTT
725199 TCAAATTC
1 TCAAATTC
725207 TCAAATTC
1 TCAAATTC
* *
725215 CCAAACTC
1 TCAAATTC
725223 T-AAATTC
1 TCAAATTC
725230 TCAAATTC
1 TCAAATTC
725238 TC
1 TC
725240 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:729493 original size:2 final size:2
Alignment explanation
Indices: 729488--729542 Score: 94
Period size: 2 Copynumber: 27.5 Consensus size: 2
729478 TATATTTTTC
729488 AT AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
729531 AT AT AT -T AT AT A
1 AT AT AT AT AT AT A
729543 GAGTTGAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.02
2 48 0.94
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:730750 original size:20 final size:20
Alignment explanation
Indices: 730725--730775 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
730715 AATATTATTG
730725 TACTGTATGAATAGTACCGA
1 TACTGTATGAATAGTACCGA
*
730745 TACTGTATAAATAGTACCGA
1 TACTGTATGAATAGTACCGA
*
730765 TACTGTCTGAA
1 TACTGTATGAA
730776 CAATAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
TACTGTATGAATAGTACCGA
Found at i:731421 original size:31 final size:31
Alignment explanation
Indices: 731373--731456 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
731363 GAATGACCAG
* *
731373 TCCATAGGT-CCATAAGAACCTAAGTAATCAA
1 TCCATATGTCCCA-AAGAACATAAGTAATCAA
* * *
731404 TCCATATGTCCCGAAGAACATATGTAATCAG
1 TCCATATGTCCCAAAGAACATAAGTAATCAA
**
731435 TTTATATGTCCCAAAGAACATA
1 TCCATATGTCCCAAAGAACATA
731457 GATAACCCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.26
Consensus pattern (31 bp):
TCCATATGTCCCAAAGAACATAAGTAATCAA
Found at i:734100 original size:14 final size:14
Alignment explanation
Indices: 734081--734107 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
734071 TAGAATTTTC
734081 CTTCTTCTTCCTTT
1 CTTCTTCTTCCTTT
734095 CTTCTTCTTCCTT
1 CTTCTTCTTCCTT
734108 CATGCTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (14 bp):
CTTCTTCTTCCTTT
Found at i:737579 original size:20 final size:20
Alignment explanation
Indices: 737554--737594 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
737544 TAGTATTGTA
737554 TAAATAGTATCAATACTGTG
1 TAAATAGTATCAATACTGTG
* *
737574 TAAATAGTATCGATTCTGTG
1 TAAATAGTATCAATACTGTG
737594 T
1 T
737595 GAACAATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (20 bp):
TAAATAGTATCAATACTGTG
Found at i:737655 original size:19 final size:19
Alignment explanation
Indices: 737631--737681 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
737621 GAATACAAAA
737631 AGTGTATCGATACTACTAT
1 AGTGTATCGATACTACTAT
737650 AGTGTATCGATACTACTAT
1 AGTGTATCGATACTACTAT
*
737669 AGTGTACCGATAC
1 AGTGTATCGATAC
737682 ACTGCTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
AGTGTATCGATACTACTAT
Found at i:738255 original size:31 final size:31
Alignment explanation
Indices: 738220--738295 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
738210 ATAGGTCTAT
* **
738220 AAGAACCTAGGTAATTGGTCCATATGTCCCG
1 AAGAACATAGGTAATCAGTCCATATGTCCCG
738251 AAGAACATAGGTAATCAGTCCATATGTCCCG
1 AAGAACATAGGTAATCAGTCCATATGTCCCG
738282 AAGAACATAGGTAA
1 AAGAACATAGGTAA
738296 CCCTCGACTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (31 bp):
AAGAACATAGGTAATCAGTCCATATGTCCCG
Found at i:738856 original size:17 final size:17
Alignment explanation
Indices: 738834--738894 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
738824 TCTTCACTGG
738834 TGCATCGATACACTTAT
1 TGCATCGATACACTTAT
* *
738851 TGCATCGATACTTCTT-G
1 TGCATCGATAC-ACTTAT
* *
738868 TGTATCGATACACCTAT
1 TGCATCGATACACTTAT
738885 TGCATTCGAT
1 TGCA-TCGAT
738895 GTTTCTTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
16 2 0.06
17 24 0.71
18 8 0.24
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (17 bp):
TGCATCGATACACTTAT
Found at i:739748 original size:56 final size:57
Alignment explanation
Indices: 739679--739787 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
739669 AGTGCATCGA
* *
739679 TGCATCAAGTGCATTCGATG-TTTCA-AAATAGCCAGAGTGCATCGATGCATGGCTGG
1 TGCATCAAATGCATTCGATGTTTTCATAAA-AGCCACAGTGCATCGATGCATGGCTGG
* *
739735 TGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGG
1 TGCATCAAATGCATTCGATGTTTTCATAAAAGCCACAGTGCATCGATGCATGG
739788 TATGTGCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
56 19 0.40
57 25 0.53
58 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (57 bp):
TGCATCAAATGCATTCGATGTTTTCATAAAAGCCACAGTGCATCGATGCATGGCTGG
Found at i:739803 original size:56 final size:55
Alignment explanation
Indices: 739679--739804 Score: 148
Period size: 57 Copynumber: 2.2 Consensus size: 55
739669 AGTGCATCGA
*
739679 TGCATCAAGTGCATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGG
1 TGCATCAA-TGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTGG
* * *
739735 TGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGG-TATG
1 TGCATC-AATGCATTCGATG-TTTCA-AAATAGCCACAGTGCATCGATGCATGGCT-GG
*
739792 TGCATCGATGCAT
1 TGCATCAATGCAT
739805 GAAATGCATT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
56 24 0.39
57 34 0.56
58 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (55 bp):
TGCATCAATGCATTCGATGTTTCAAAATAGCCACAGTGCATCGATGCATGGCTGG
Found at i:744201 original size:22 final size:21
Alignment explanation
Indices: 744176--744218 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
744166 GATTTTACAC
*
744176 GATTATATTAATTCATTTAAAG
1 GATTAAATTAATT-ATTTAAAG
*
744198 GATTAAATTAATTTTTTAAAG
1 GATTAAATTAATTATTTAAAG
744219 AAGCAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (21 bp):
GATTAAATTAATTATTTAAAG
Found at i:747644 original size:3 final size:3
Alignment explanation
Indices: 747638--747686 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
747628 TAACAACAAT
*
747638 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
747685 TA
1 TA
747687 TTTTTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:748121 original size:131 final size:131
Alignment explanation
Indices: 747887--748285 Score: 613
Period size: 131 Copynumber: 3.1 Consensus size: 131
747877 AATCGTCTAA
* * ** * *
747887 GGATGATAACACAGTTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTGACACAACTTCTATG
1 GGATGATAACACAGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACG
* * * *
747952 TGATGAGGAGATCTAGTCGAAGGATGACACGATTCCTACGTGATGGGGATGGCAGGCCATCATTA
66 TGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTA
748017 G
131 G
*
748018 GGATGATAACACAGTTCCTACATGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACG
1 GGATGATAACACAGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACG
* *
748083 TGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGAATGGTAGGCCATCATTA
66 TGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTA
748148 G
131 G
* *
748149 GGATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATTTAA--TTGACACGGCTCCTACG
1 GGATGATAACACAGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACG
* * * *
748212 TGATGAGGAGATCTGGTCGAGGGATGACATGGTTCCTACGCGATGAGGATGACATGCCATCATTA
66 TGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTA
748277 G
131 G
748278 GGATGATA
1 GGATGATA
748286 TAGTTTCAAG
Statistics
Matches: 246, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 85 0.35
131 161 0.65
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (131 bp):
GGATGATAACACAGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACG
TGATGAGGAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTA
G
Found at i:748122 original size:40 final size:40
Alignment explanation
Indices: 748067--748260 Score: 153
Period size: 40 Copynumber: 4.6 Consensus size: 40
748057 TATCTAAGGT
*
748067 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGA
1 TGACACGGTTCCTACGTGATGAGGAGATCTGGTCGAGGGA
* *
748107 TGACACGGTTCCTACGTGATGA-GA-ATGGTAGGCCATCATTAGGGA
1 TGACACGGTTCCTACGTGATGAGGAGAT-CT-GG---TC--GAGGGA
* ***
748152 TGATAACACGGTTCCTACGTGATGAGGACGA-CTGGT-TATTTAA
1 TG---ACACGGTTCCTACGTGATGAGGA-GATCTGGTCGA-GGGA
*
748195 TTGACACGGCTCCTACGTGATGAGGAGATCTGGTCGAGGGA
1 -TGACACGGTTCCTACGTGATGAGGAGATCTGGTCGAGGGA
* *
748236 TGACATGGTTCCTACGCGATGAGGA
1 TGACACGGTTCCTACGTGATGAGGA
748261 TGACATGCCA
Statistics
Matches: 122, Mismatches: 15, Indels: 34
0.71 0.09 0.20
Matches are distributed among these distances:
38 2 0.02
39 3 0.02
40 47 0.39
41 28 0.23
42 3 0.02
43 3 0.02
44 2 0.02
45 8 0.07
48 22 0.18
49 3 0.02
51 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (40 bp):
TGACACGGTTCCTACGTGATGAGGAGATCTGGTCGAGGGA
Found at i:748493 original size:66 final size:67
Alignment explanation
Indices: 748333--748501 Score: 180
Period size: 66 Copynumber: 2.5 Consensus size: 67
748323 AGAGAAGCTG
* * * * *
748333 TCTCAAAAGAGACAAAATTCGTTTCAAGGGAAACGATCTCAAAGATATTTGTTGTTTCATGAGAA
1 TCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAG--ATTTGGTGTTTCATAAGAA
748398 ACGA
64 ACGA
* * * * *
748402 TCTCAAAGAAAATAAAACTTGTTTCATGGGAAACAATCTCAAAG-TTTGGTGTTTCATAAGAAAC
1 TCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTGGTGTTTCATAAGAAAC
748466 TG-
66 -GA
* * *
748468 TCTCGAGGGAGACAAAATTTGTTTCAAGAGAAAC
1 TCTCAAAGGAGACAAAATTTGTTTCAAGGGAAAC
748502 GGACTCAAGC
Statistics
Matches: 81, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
66 44 0.54
67 1 0.01
69 36 0.44
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (67 bp):
TCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTGGTGTTTCATAAGAAAC
GA
Found at i:748545 original size:36 final size:36
Alignment explanation
Indices: 748476--748570 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 36
748466 TGTCTCGAGG
* * * **
748476 GAGACAAAATTTGTTTCAAGAGAAACGGACTCAAGC
1 GAGACAAAATATGTTTCAAGGGAAAAGGACTCAAAA
* *
748512 GAGACAAAATATGTTTCAAGGGAAAATGCCTCAAAA
1 GAGACAAAATATGTTTCAAGGGAAAAGGACTCAAAA
*
748548 GAGAC--AATATGTTTTAAGGGAAA
1 GAGACAAAATATGTTTCAAGGGAAA
748571 CAATCTCAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
34 17 0.33
36 34 0.67
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (36 bp):
GAGACAAAATATGTTTCAAGGGAAAAGGACTCAAAA
Found at i:748610 original size:65 final size:66
Alignment explanation
Indices: 748521--748646 Score: 164
Period size: 65 Copynumber: 1.9 Consensus size: 66
748511 CGAGACAAAA
* * *
748521 TATGTTTCAAGGGAAAATGCCTCAAAAGAGAC-AATATGTTTTAAGGGAAACAATCTCAATGTTT
1 TATGTTTCAAGAGAAAATGCCTCAAAAGAGACAAATATGTTTCAAGAGAAACAATCTCAATGTTT
748585 T
66 T
* * * * *
748586 TATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCGAGAGAAACAATCTCAA
1 TATGTTTCAAGAGAAAATGCCTCAAAAGAGAC-AAATATGTTTCAAGAGAAACAATCTCAA
748647 AGGTATTATA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 28 0.55
67 23 0.45
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (66 bp):
TATGTTTCAAGAGAAAATGCCTCAAAAGAGACAAATATGTTTCAAGAGAAACAATCTCAATGTTT
T
Found at i:749303 original size:12 final size:12
Alignment explanation
Indices: 749286--749311 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
749276 CGTGTCATGT
749286 ATGTATATGTTG
1 ATGTATATGTTG
749298 ATGTATATGTTG
1 ATGTATATGTTG
749310 AT
1 AT
749312 ATGTGAGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (12 bp):
ATGTATATGTTG
Found at i:751768 original size:27 final size:26
Alignment explanation
Indices: 751733--751783 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
751723 AAGAAATTTC
*
751733 ATGTTTATG-AAAATGCTTAAAAATGAA
1 ATGTATATGCAAAATGC--AAAAATGAA
751760 ATGTATATGCAAAATGCAAAAATG
1 ATGTATATGCAAAATGCAAAAATG
751784 CATGAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 8 0.36
28 7 0.32
ACGTcount: A:0.49, C:0.06, G:0.16, T:0.29
Consensus pattern (26 bp):
ATGTATATGCAAAATGCAAAAATGAA
Found at i:753998 original size:3 final size:3
Alignment explanation
Indices: 753984--754030 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
753974 TATATGTAAC
753984 AAT AATT AAT AAT AAT AAT AAT AAT -AT AAT -AT AAT -AT AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
754027 AAT A
1 AAT A
754031 TTTTTTTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 6 0.15
3 31 0.77
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:754022 original size:24 final size:24
Alignment explanation
Indices: 753985--754030 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
753975 ATATGTAACA
753985 ATAATTAATAATAATAATAATAAT
1 ATAATTAATAATAATAATAATAAT
754009 ATAATATAAT-ATAATAATAATA
1 ATAAT-TAATAATAATAATAATA
754031 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAATTAATAATAATAATAATAAT
Found at i:754719 original size:32 final size:32
Alignment explanation
Indices: 754623--754726 Score: 147
Period size: 32 Copynumber: 3.2 Consensus size: 32
754613 TTACTCTTGA
*
754623 GTAGGCTCTT-AGGCCACAAAGTACTCCCTTGG
1 GTAGGCT-TTAAGGCCACAAAGTACTCCCTTAG
754655 GTAGGCTTTAAGGCCACAAAGTACTCCCTTAG
1 GTAGGCTTTAAGGCCACAAAGTACTCCCTTAG
* **
754687 GTAGGCTTTAAGGCCCCAAAGTACTCATTTAG
1 GTAGGCTTTAAGGCCACAAAGTACTCCCTTAG
*
754719 GTTGGCTT
1 GTAGGCTT
754727 CTATACTCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 2 0.03
32 64 0.97
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (32 bp):
GTAGGCTTTAAGGCCACAAAGTACTCCCTTAG
Found at i:760901 original size:5 final size:5
Alignment explanation
Indices: 760865--760911 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
760855 ACGGAAAAGA
* *
760865 AATAT AA-AT AATAT ATATAT ACATAA AATAT AATAT AATAT ACTAT A
1 AATAT AATAT AATAT A-ATAT A-ATAT AATAT AATAT AATAT AATAT A
760912 GCATAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 4 0.11
5 23 0.64
6 9 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:760916 original size:27 final size:26
Alignment explanation
Indices: 760864--760929 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
760854 AACGGAAAAG
760864 AAATATAAATAATATATATATACATA
1 AAATATAAATAATATATATATACATA
*
760890 AAATATAATATAATATACTATA-GCATA
1 AAATATAA-ATAATATA-TATATACATA
*
760917 AATAAATAAATAA
1 AA-ATATAAATAA
760930 AAACTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 8 0.23
27 18 0.51
28 9 0.26
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (26 bp):
AAATATAAATAATATATATATACATA
Found at i:761346 original size:20 final size:20
Alignment explanation
Indices: 761307--761348 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
761297 TACGCCGCCT
* **
761307 CGCCGGCCGCCGTTGGTCGG
1 CGCCGGCCGCCGATCATCGG
761327 CGCCGGCCGCCGATCATCGG
1 CGCCGGCCGCCGATCATCGG
761347 CG
1 CG
761349 GCAAATCCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.43, G:0.40, T:0.12
Consensus pattern (20 bp):
CGCCGGCCGCCGATCATCGG
Found at i:763405 original size:31 final size:31
Alignment explanation
Indices: 763367--763430 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
763357 TTGCTACTAC
*
763367 CATGCACCATTCAGTGTCAAACTTTGATTTT
1 CATGCACCATTCAGTGCCAAACTTTGATTTT
* *
763398 CATGCACCATTCGGTGCCAACCTTTGATTTT
1 CATGCACCATTCAGTGCCAAACTTTGATTTT
763429 CA
1 CA
763431 ACAATCTCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (31 bp):
CATGCACCATTCAGTGCCAAACTTTGATTTT
Found at i:766303 original size:30 final size:29
Alignment explanation
Indices: 766214--766293 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
766204 CCGGTAGAAT
** *
766214 CGGCTGAAAACCGATAAAACCGGGGTGAAC
1 CGGCTGAAAACCGGCAAAA-CAGGGTGAAC
* *
766244 CAGCTGAAAATCGGCAAAATCAGGGTGAAC
1 CGGCTGAAAACCGGCAAAA-CAGGGTGAAC
766274 CGGCTGAAAACCGGCAAAAC
1 CGGCTGAAAACCGGCAAAAC
766294 TGGTTTGAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.39, C:0.24, G:0.28, T:0.10
Consensus pattern (29 bp):
CGGCTGAAAACCGGCAAAACAGGGTGAAC
Found at i:767378 original size:31 final size:31
Alignment explanation
Indices: 767343--767405 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
767333 TCTTTAAACT
767343 ATGCACCATTCGGTGCCAAACTTTGATTTTC
1 ATGCACCATTCGGTGCCAAACTTTGATTTTC
*
767374 ATGCACCATTCGGTGCCAACCTTTGATTTTC
1 ATGCACCATTCGGTGCCAAACTTTGATTTTC
767405 A
1 A
767406 ACCATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (31 bp):
ATGCACCATTCGGTGCCAAACTTTGATTTTC
Found at i:772339 original size:3 final size:3
Alignment explanation
Indices: 772331--772403 Score: 123
Period size: 3 Copynumber: 24.7 Consensus size: 3
772321 ATTAATTATT
772331 TAA TAA TAA T-A TAAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
772375 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
772404 TAAGCAAATA
Statistics
Matches: 67, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.06
3 61 0.91
4 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:773304 original size:234 final size:234
Alignment explanation
Indices: 772846--773878 Score: 1592
Period size: 234 Copynumber: 4.4 Consensus size: 234
772836 TGATGAATTT
* * * *
772846 AAGCAAAAAGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTC
* * * *
772911 TCATTATGAACTTTCTCTGGAAAAGTTGATCCATC-AAGTGATGAATTTAAGCAAAAAGTTGAAC
65 TCATTATGAAC-CT-TCTGGAAACGTTGATCCATCGAA-TGATGAATTCAAGCAAAAGGTTGAAC
* * * * *
772975 AAGTTCTTCTCATTATGAAATTCTTC-TTCTTCTTTAGATGAGTTCTTCTCATTATGAACACT-T
127 AAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAA
773038 CTGGAAATGTTAATGCCGATCTATCTTCTTCTGTGATAGAGTC
192 CTGGAAATGTTAATGCCGATCTATCTTCTTCTGTGATAGAGTC
* * *
773081 AAGTAAAAGGTTGAACAAGCTCTTCTTATTATGAACTTCTTATTCCTCTTCAGATAAGTTCTTCT
1 AAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCT
*
773146 CATTATGAACCTTCTGGCAACGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAAT
66 CATTATGAACCTTCTGGAAACGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAAT
773211 TCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
131 TCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
773276 AAATGTTAATGCCGATCTATCTTCTTCTGTGATAGAGTC
196 AAATGTTAATGCCGATCTATCTTCTTCTGTGATAGAGTC
773315 AAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCT
1 AAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCT
773380 CATTATGAACCTTCTGGAAACGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAAT
66 CATTATGAACCTTCTGGAAACGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAAT
773445 TCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
131 TCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
* *
773510 AAATGTTATTGCCGATCTATCTTCTTCTGTGATATAGTC
196 AAATGTTAATGCCGATCTATCTTCTTCTGTGATAGAGTC
773549 AAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCT
1 AAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCT
*
773614 CATTATGAACCTTCTGGCAACGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAAT
66 CATTATGAACCTTCTGGAAACGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAAT
773679 TCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACT-G
131 TCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
* * * * ** * *
773743 ----G-CACTGCTGATCCA-C--C--GAGTGAT-GAATTT
196 AAATGTTAATGCCGATCTATCTTCTTCTGTGATAG-AGTC
* * * *
773772 AAGCAAAAAGTTGAACAAGTTCTTCTCATTGTGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTC
* *
773837 TCATTATGAACTCTTCTGGAAATGTTGATCCATTGAATGATG
65 TCATTATGAAC-CTTCTGGAAACGTTGATCCATCGAATGATG
773879 GATTTGAATC
Statistics
Matches: 752, Mismatches: 40, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
223 50 0.07
224 28 0.04
225 28 0.04
227 1 0.00
228 9 0.01
229 1 0.00
232 66 0.09
233 38 0.05
234 491 0.65
235 40 0.05
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.38
Consensus pattern (234 bp):
AAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCT
CATTATGAACCTTCTGGAAACGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGG
AAATGTTAATGCCGATCTATCTTCTTCTGTGATAGAGTC
Found at i:773449 original size:110 final size:111
Alignment explanation
Indices: 773313--773878 Score: 701
Period size: 113 Copynumber: 5.0 Consensus size: 111
773303 TGTGATAGAG
* *
773313 TCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTT
1 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
773378 CTCATTATGAAC-CTTCTGGAAACGTTGATCCATCGAATGATGAAT
66 CTCATTATGAACTCTTCTGGAAACGTTGATCCATCGAATGATGAAT
* * *
773423 TCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCT
1 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TTCCTCTTCAGATGAGTTCT
* * * *
773488 TCTCATTATGAACTCTAACTGGAAATGTT-ATTGCCGATCTATCTTCTTCTG-TGATAT
65 TCTCATTATGAACTCT-TCTGGAAACGTTGA-T-CC-ATCGA-------ATGATGA-AT
* *
773545 AGTCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTC
1 --TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTC
*
773610 TTCTCATTATGAAC-CTTCTGGCAACGTTGATCCATCGAATGATGAAT
64 TTCTCATTATGAACTCTTCTGGAAACGTTGATCCATCGAATGATGAAT
* * *
773657 TCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCT
1 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TTCCTCTTCAGATGAGTTCT
* * * * *
773722 TCTCATTATGAACTCTAACTGG-CACTGCTGATCCACCGAGTGATGAAT
65 TCTCATTATGAACTCT-TCTGGAAAC-GTTGATCCATCGAATGATGAAT
* * *
773770 TTAAGCAAAAAGTTGAACAAGTTCTTCTCATTGTGAACTTCTTCTTCCTTCTTCAGATGAGTTCT
1 TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCT
* *
773835 TCTCATTATGAACTCTTCTGGAAATGTTGATCCATTGAATGATG
65 TCTCATTATGAACTCTTCTGGAAACGTTGATCCATCGAATGATG
773879 GATTTGAATC
Statistics
Matches: 390, Mismatches: 42, Indels: 46
0.82 0.09 0.10
Matches are distributed among these distances:
110 82 0.21
111 62 0.16
112 33 0.08
113 109 0.28
114 2 0.01
115 4 0.01
119 4 0.01
120 2 0.01
121 13 0.03
122 7 0.02
123 31 0.08
124 41 0.11
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (111 bp):
TCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTT
CTCATTATGAACTCTTCTGGAAACGTTGATCCATCGAATGATGAAT
Found at i:773570 original size:468 final size:459
Alignment explanation
Indices: 772657--773878 Score: 1811
Period size: 468 Copynumber: 2.6 Consensus size: 459
772647 ATTGATCGAT
* * * * * * *
772657 CTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGTAATGCTGATCCATCA
1 CTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAAC-CT-TCTGGCAACGTTGATCCATCG
* * * *
772722 AATGATGAATTCAAACAAAAAGTTGAATAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCA
64 AATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCA
* **
772787 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGT-T--GATCA-TCAAGTGATGAATTTAA
129 GATGAGTTCTTCTCATTATGAACTCTAACTGG-AAAGTATGCGATCACTCAAGTGATGAATTTAA
*
772848 GCAAAAAGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
193 GCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
772913 ATTATGAACTTTCTCTGGAAAAGTTGATCCATC-AAGTGATGAATTTAAGCAAAAAGTTGAACAA
258 ATTATGAACTCT-TCTGGAAAAGTTGATCCATCGAA-TGATGAATTCAAGCAAAAAGTTGAACAA
* * *
772977 GTTCTTCTCATTATGAAATTCTTCTTCTTCTTTAGATGAGTTCTTCTCATTATGAACACTTCTGG
321 ATTCTTCTCATTATGAAATTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACACTACTGG
*
773042 AAATGTTAATGCCGATCTATCTTCTTCTGTGATAGAGTCAAGTAAAAGGTTGAACAAGCTCTTCT
386 AAATGTTAATGCCGATCTATCTTCTTCTGTGATAGAGTCAAGCAAAAGGTTGAACAAGCTCTTCT
*
773107 TATTATGAA
451 CATTATGAA
*
773116 CTTCTTATTCCTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGGCAACGTTGATCCATCGAA
1 CTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGGCAACGTTGATCCATCGAA
773181 TGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGA
66 TGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGA
**
773246 TGAGTTCTTCTCATTATGAACTCTAACTGGAAATGTTAATGCCGATCTATCTTCTTCTGTGAT-A
131 TGAGTTCTTCTCATTATGAACTCTAACTGGAAA-G-T-ATG-CGATC-A-C-TC--AAGTGATGA
* * * * *
773310 GAGTCAAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGT
187 -ATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
* *
773374 TCTTCTCATTATGAAC-CTTCTGGAAACGTTGATCCATCGAATGATGAATTCAAGCAAAAGGTTG
251 TCTTCTCATTATGAACTCTTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCAAAAAGTTG
* *
773438 AACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
316 AACAAATTCTTCTCATTATGAAATTCTTC-TTCTTCTTCAGATGAGTTCTTCTCATTATGAACAC
* *
773503 TAACTGGAAATGTTATTGCCGATCTATCTTCTTCTGTGATATAGTCAAGCAAAAGGTTGAACAAG
380 T-ACTGGAAATGTTAATGCCGATCTATCTTCTTCTGTGATAGAGTCAAGCAAAAGGTTGAACAAG
773568 CTCTTCTCATTATGAA
444 CTCTTCTCATTATGAA
773584 CTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGGCAACGTTGATCCATCGAA
1 CTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGGCAACGTTGATCCATCGAA
773649 TGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGA
66 TGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGA
* * *
773714 TGAGTTCTTCTCATTATGAACTCTAACTGG-CA--CTGCTGATCCAC-CGAGTGATGAATTTAAG
131 TGAGTTCTTCTCATTATGAACTCTAACTGGAAAGTATGC-GAT-CACTCAAGTGATGAATTTAAG
*
773775 CAAAAAGTTGAACAAGTTCTTCTCATTGTGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
194 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
773840 TTATGAACTCTTCTGGAAATGTTGATCCATTGAATGATG
259 TTATGAACTCTTCTGGAAAAGTTGATCCATCGAATGATG
773879 GATTTGAATC
Statistics
Matches: 692, Mismatches: 49, Indels: 44
0.88 0.06 0.06
Matches are distributed among these distances:
456 3 0.00
457 158 0.23
458 31 0.04
459 66 0.10
460 1 0.00
461 2 0.00
462 6 0.01
463 5 0.01
464 1 0.00
466 67 0.10
467 40 0.06
468 262 0.38
469 50 0.07
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (459 bp):
CTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACCTTCTGGCAACGTTGATCCATCGAA
TGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTCTAACTGGAAAGTATGCGATCACTCAAGTGATGAATTTAAGCA
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAGCAAAAAGTTGAACAAATTCT
TCTCATTATGAAATTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACACTACTGGAAATG
TTAATGCCGATCTATCTTCTTCTGTGATAGAGTCAAGCAAAAGGTTGAACAAGCTCTTCTCATTA
TGAA
Found at i:775044 original size:18 final size:18
Alignment explanation
Indices: 775021--775071 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
775011 AAGATAAAAG
*
775021 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCAAA
*
775039 AATAAATTGAATCTCAAA
1 AATAAATTGAATTTCAAA
*
775057 AAAATAATTGAATTT
1 AATA-AATTGAATTT
775072 AGAGAAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 19 0.68
19 9 0.32
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (18 bp):
AATAAATTGAATTTCAAA
Found at i:778998 original size:9 final size:9
Alignment explanation
Indices: 778975--779005 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
778965 GAAAAATAAT
778975 GAATGTAAA
1 GAATGTAAA
778984 -AATGTAAA
1 GAATGTAAA
778992 GAATGTAAA
1 GAATGTAAA
779001 GAATG
1 GAATG
779006 ATTGCCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
GAATGTAAA
Found at i:782963 original size:18 final size:18
Alignment explanation
Indices: 782940--782975 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
782930 TAGAAACTGG
782940 ATCAACGTGATGCTCAAT
1 ATCAACGTGATGCTCAAT
782958 ATCAACGTGATGCTCAAT
1 ATCAACGTGATGCTCAAT
782976 TATTTTTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (18 bp):
ATCAACGTGATGCTCAAT
Done.