Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 17 of 325
Found at i:6723997 original size:21 final size:20
Alignment explanation
Indices: 6723960--6723998 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
6723950 TGACAAACTG
*
6723960 TTGTTATTATAAGTAAAAAA
1 TTGTTATAATAAGTAAAAAA
*
6723980 TTGTTATAAATAATTAAAA
1 TTGTTAT-AATAAGTAAAA
6723999 TAAAACCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (20 bp):
TTGTTATAATAAGTAAAAAA
Found at i:6751887 original size:27 final size:28
Alignment explanation
Indices: 6751857--6751923 Score: 109
Period size: 27 Copynumber: 2.4 Consensus size: 28
6751847 TAATATATCG
6751857 AATTTTAAAAAAATATAAAATA-TTTAA
1 AATTTTAAAAAAATATAAAATATTTTAA
6751884 AATTTTAAAAAAATATAAAATATTTTAA
1 AATTTTAAAAAAATATAAAATATTTTAA
*
6751912 ACATTATAAAAA
1 A-ATTTTAAAAA
6751924 TTAAAAATAG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 22 0.59
28 6 0.16
29 9 0.24
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (28 bp):
AATTTTAAAAAAATATAAAATATTTTAA
Found at i:6752561 original size:12 final size:12
Alignment explanation
Indices: 6752524--6752562 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6752514 AAAGTGATAA
*
6752524 TGATGATGACGA
1 TGATGATGACGG
* *
6752536 CGATGATGATGG
1 TGATGATGACGG
6752548 TGATGATGACGG
1 TGATGATGACGG
6752560 TGA
1 TGA
6752563 ATTAAACAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.08, G:0.38, T:0.26
Consensus pattern (12 bp):
TGATGATGACGG
Found at i:6754383 original size:46 final size:46
Alignment explanation
Indices: 6754262--6754383 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 46
6754252 TTTGACGTGA
* * * * *
6754262 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCACGT
6754308 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTC-TGTCACGT
6754354 TGCCATGGTATCTTTCAACCATGGTCTTAT
1 TGCCATGGTATCTTTCAACCATGGTCTTAT
6754384 GTAACACCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 5 0.07
46 65 0.93
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCTGTCACGT
Found at i:6755413 original size:38 final size:39
Alignment explanation
Indices: 6755329--6755463 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
6755319 ACCAATATGG
*
6755329 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
6755368 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
6755406 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
6755447 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
6755464 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:6757041 original size:5 final size:5
Alignment explanation
Indices: 6757031--6757058 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6757021 TTTATATATA
6757031 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATA
6757059 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:6757455 original size:46 final size:46
Alignment explanation
Indices: 6757384--6757494 Score: 195
Period size: 46 Copynumber: 2.4 Consensus size: 46
6757374 GGTTGTTACA
* * *
6757384 TCTTACACATCTCATATCAGTTTGCCATGGTATCTTTCAACCATGG
1 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACAATGG
6757430 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACAATGG
1 TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACAATGG
6757476 TCTTACACATTTCATATCA
1 TCTTACACATTTCATATCA
6757495 AAGGGCACAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (46 bp):
TCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACAATGG
Found at i:6759578 original size:11 final size:11
Alignment explanation
Indices: 6759562--6759609 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
6759552 CTTTATATAC
6759562 TAATAAAATAA
1 TAATAAAATAA
*
6759573 TAATAAAATATCT
1 TAATAAAATA--A
* *
6759586 TATTAAAATAT
1 TAATAAAATAA
6759597 TAATAAAATAA
1 TAATAAAATAA
6759608 TA
1 TA
6759610 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:6760860 original size:20 final size:18
Alignment explanation
Indices: 6760824--6760868 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
6760814 AAACCTTGAA
6760824 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
6760842 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
6760862 -TTTCCCT
1 TTTTCCCT
6760869 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:6761103 original size:20 final size:20
Alignment explanation
Indices: 6761080--6761119 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6761070 TATAATTATT
6761080 TAATTAATAAATATATTTTA
1 TAATTAATAAATATATTTTA
6761100 TAATTAATAAATATATTTTA
1 TAATTAATAAATATATTTTA
6761120 ATACTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTAATAAATATATTTTA
Found at i:6761121 original size:18 final size:19
Alignment explanation
Indices: 6761068--6761118 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 19
6761058 AAAATATTAT
6761068 AATATAATTATTTAATTAATA
1 AATAT-ATT-TTTAATTAATA
6761089 AATATATTTTATAATTAATA
1 AATATATTTT-TAATTAATA
6761109 AATATATTTT
1 AATATATTTT
6761119 AATACTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 2 0.07
20 22 0.76
21 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATATTTTTAATTAATA
Found at i:6764557 original size:6 final size:6
Alignment explanation
Indices: 6764546--6764574 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6764536 TTAAGGGTTA
6764546 TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAA
6764575 AAAGGGACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:6764612 original size:13 final size:13
Alignment explanation
Indices: 6764596--6764621 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6764586 CCTAATCTAC
6764596 AAATAAACCAAAA
1 AAATAAACCAAAA
6764609 AAATAAACCAAAA
1 AAATAAACCAAAA
6764622 GTTTAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.15, G:0.00, T:0.08
Consensus pattern (13 bp):
AAATAAACCAAAA
Found at i:6768401 original size:22 final size:24
Alignment explanation
Indices: 6768371--6768420 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
6768361 ACAAATACAC
*
6768371 GAATTTCC-ACCCAAACACA-CCA
1 GAATGTCCAACCCAAACACACCCA
6768393 GAATGTCCAACCCAAACACACCCA
1 GAATGTCCAACCCAAACACACCCA
6768417 GAAT
1 GAAT
6768421 ATTTTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 7 0.28
23 11 0.44
24 7 0.28
ACGTcount: A:0.42, C:0.38, G:0.08, T:0.12
Consensus pattern (24 bp):
GAATGTCCAACCCAAACACACCCA
Found at i:6769487 original size:14 final size:14
Alignment explanation
Indices: 6769463--6769495 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6769453 TCCCTGATTC
6769463 GTTTCTGTTTCTTTT
1 GTTTCTGTTTC-TTT
6769478 GTTT-TGTTTCTTT
1 GTTTCTGTTTCTTT
6769491 GTTTC
1 GTTTC
6769496 CTTAATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.41
14 6 0.35
15 4 0.24
ACGTcount: A:0.00, C:0.12, G:0.15, T:0.73
Consensus pattern (14 bp):
GTTTCTGTTTCTTT
Found at i:6769875 original size:21 final size:22
Alignment explanation
Indices: 6769845--6769892 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
6769835 ATATAAAAAC
*
6769845 ATAATGTTAAT-TAATAATTATA
1 ATAATGTTAATATAA-AATCATA
6769867 ATAAT-TTAATATAAAATCATA
1 ATAATGTTAATATAAAATCATA
6769888 ATAAT
1 ATAAT
6769893 AATCATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATGTTAATATAAAATCATA
Found at i:6770342 original size:30 final size:29
Alignment explanation
Indices: 6770277--6770343 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
6770267 GTGTTTAAAC
* *
6770277 AAGCCCTTAACTTATTTTTGTAGTTAAAT
1 AAGCCCTTAACTTATTTTTGTACTCAAAT
6770306 AAGCCCTTAACTTATGATTTT-TACTCATAA-
1 AAGCCCTTAACTTAT--TTTTGTACTCA-AAT
6770336 AAGCCCTT
1 AAGCCCTT
6770344 TATTTTAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 15 0.45
30 12 0.36
31 6 0.18
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.40
Consensus pattern (29 bp):
AAGCCCTTAACTTATTTTTGTACTCAAAT
Found at i:6772422 original size:13 final size:13
Alignment explanation
Indices: 6772404--6772429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6772394 ATAAAATAGT
6772404 TATTAATTAAAAA
1 TATTAATTAAAAA
6772417 TATTAATTAAAAA
1 TATTAATTAAAAA
6772430 AAGCTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAATTAAAAA
Found at i:6776223 original size:19 final size:19
Alignment explanation
Indices: 6776199--6776235 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6776189 TTAAATAAAA
**
6776199 ATATTAAATTAAAAAAATG
1 ATATTAAACAAAAAAAATG
6776218 ATATTAAACAAAAAAAAT
1 ATATTAAACAAAAAAAAT
6776236 TAATAAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (19 bp):
ATATTAAACAAAAAAAATG
Found at i:6784158 original size:17 final size:16
Alignment explanation
Indices: 6784130--6784168 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
6784120 TCATTCATTC
* *
6784130 ATTTATTTGTTTGTAT
1 ATTTATTCGTTTATAT
6784146 ATGTTATTCGTTTATAT
1 AT-TTATTCGTTTATAT
6784163 ATTTAT
1 ATTTAT
6784169 GTTAATTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (16 bp):
ATTTATTCGTTTATAT
Found at i:6784607 original size:25 final size:26
Alignment explanation
Indices: 6784561--6784637 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 26
6784551 TTTGTATATA
*
6784561 TCTTTTATATGTTA-ATGATTTTAAAT
1 TCTTTTATATGTTATTTG-TTTTAAAT
*
6784587 TCTTTTAT-TGTTATTTGTTTTGAA-
1 TCTTTTATATGTTATTTGTTTTAAAT
* *
6784611 -CTTTCTATATATTATTTATTTTAAAT
1 TCTTT-TATATGTTATTTGTTTTAAAT
6784637 T
1 T
6784638 TTTATCTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
23 4 0.10
24 3 0.07
25 24 0.59
26 10 0.24
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.62
Consensus pattern (26 bp):
TCTTTTATATGTTATTTGTTTTAAAT
Found at i:6784742 original size:52 final size:54
Alignment explanation
Indices: 6784616--6784749 Score: 127
Period size: 52 Copynumber: 2.5 Consensus size: 54
6784606 TTGAACTTTC
* *
6784616 TATATATTATTTATTTTAAA-TTTTTATCTTAAAATTTTACTTTGTATTATATTTA
1 TATATATTATTTATATTAAACTTTTTA--TTAAAATTTTACTTTGTATTATATGTA
* * *
6784671 TATATA-AATTT-TCATTTAAACTCTTTTA-TACATTTTTA-TTT-TATTATATGTA
1 TATATATTATTTAT-A-TTAAACT-TTTTATTAAAATTTTACTTTGTATTATATGTA
6784723 TATATATTATTTATATTAAACTATTTT
1 TATATATTATTTATATTAAACT-TTTT
6784750 TTATTATCAC
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
52 27 0.41
53 9 0.14
54 13 0.20
55 11 0.17
56 1 0.02
57 5 0.08
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (54 bp):
TATATATTATTTATATTAAACTTTTTATTAAAATTTTACTTTGTATTATATGTA
Found at i:6786531 original size:24 final size:22
Alignment explanation
Indices: 6786496--6786557 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 22
6786486 GGCGCGACCC
6786496 ATTTTTTTAATAATATAATTTT
1 ATTTTTTTAATAATATAATTTT
* *
6786518 ATTTTTTTGAAATATTATTATTTT
1 ATTTTTTT--AATAATATAATTTT
6786542 ATTATATTTTAATAAT
1 ATT-T-TTTTAATAAT
6786558 TTTTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 8 0.24
24 20 0.61
25 1 0.03
26 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTTTAATAATATAATTTT
Found at i:6786838 original size:3 final size:3
Alignment explanation
Indices: 6786779--6786820 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
6786769 TGCAGCAGCA
*
6786779 AAG AGAG AA- AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6786821 GAGGAGGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6787488 original size:26 final size:25
Alignment explanation
Indices: 6787455--6787505 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
6787445 TTTATTTCAT
*
6787455 TAAATAAAAAAATTTAAAAATATAA
1 TAAATAAAAAAATTTAAAAACATAA
* *
6787480 TAAATTAAATATATTTAAAAACATAA
1 TAAA-TAAAAAAATTTAAAAACATAA
6787506 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
TAAATAAAAAAATTTAAAAACATAA
Found at i:6787535 original size:21 final size:21
Alignment explanation
Indices: 6787486--6787544 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
6787476 ATAATAAATT
*
6787486 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
6787506 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
6787528 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
6787545 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:6792848 original size:5 final size:5
Alignment explanation
Indices: 6792838--6792869 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
6792828 TTGTGTGTTC
6792838 TTTAT TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
6792870 TCACAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:6792857 original size:14 final size:14
Alignment explanation
Indices: 6792838--6792868 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6792828 TTGTGTGTTC
6792838 TTTATTTTATTTTA
1 TTTATTTTATTTTA
6792852 TTTATTTTATTTTA
1 TTTATTTTATTTTA
6792866 TTT
1 TTT
6792869 TTCACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:6793919 original size:19 final size:20
Alignment explanation
Indices: 6793868--6793922 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 20
6793858 TTAAAAATTA
*
6793868 TTAAAATATAATAATAATAT
1 TTAAAATAAAATAATAATAT
6793888 TTAAAATTTAAAATAATAATAT
1 TTAAAA--TAAAATAATAATAT
6793910 TTAAAA-AAAATAA
1 TTAAAATAAAATAA
6793923 AATTATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 7 0.22
20 6 0.19
22 19 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TTAAAATAAAATAATAATAT
Found at i:6798748 original size:22 final size:22
Alignment explanation
Indices: 6798723--6798766 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6798713 TCATATAAAT
*
6798723 TATAATAAATCTTTAATAGTAA
1 TATAATAAATCTCTAATAGTAA
*
6798745 TATAATAAGTCTCTAATAGTAA
1 TATAATAAATCTCTAATAGTAA
6798767 ACACATAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.39
Consensus pattern (22 bp):
TATAATAAATCTCTAATAGTAA
Found at i:6798774 original size:22 final size:22
Alignment explanation
Indices: 6798726--6798775 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6798716 TATAAATTAT
* *
6798726 AATAAATCTTTAATAGTAATAT
1 AATAAATCTCTAATAGTAATAC
*
6798748 AATAAGTCTCTAATAGTAA-AC
1 AATAAATCTCTAATAGTAATAC
6798769 ACATAAA
1 A-ATAAA
6798776 GGAAAGGAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.32
Consensus pattern (22 bp):
AATAAATCTCTAATAGTAATAC
Found at i:6817375 original size:20 final size:20
Alignment explanation
Indices: 6817362--6817414 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
6817352 TTTTACCATA
6817362 ATTTTTAATATTTTAAATAT
1 ATTTTTAATATTTTAAATAT
*
6817382 ATTTTTAATCA-TTTATATAT
1 ATTTTTAAT-ATTTTAAATAT
*
6817402 -TTTTTAACATTTT
1 ATTTTTAATATTTT
6817415 TTAAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 10 0.34
20 17 0.59
21 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTAATATTTTAAATAT
Found at i:6832862 original size:12 final size:13
Alignment explanation
Indices: 6832845--6832873 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6832835 AAGTAGCCAT
6832845 TTTTCCTTTTC-C
1 TTTTCCTTTTCAC
6832857 TTTTCCTTTTCAC
1 TTTTCCTTTTCAC
6832870 TTTT
1 TTTT
6832874 GTTTTAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCCTTTTCAC
Found at i:6852081 original size:14 final size:14
Alignment explanation
Indices: 6852059--6852088 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6852049 TTTAATTATT
6852059 ATATGTTTAATGAA
1 ATATGTTTAATGAA
*
6852073 ATATTTTTAATGAA
1 ATATGTTTAATGAA
6852087 AT
1 AT
6852089 TAAAATTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (14 bp):
ATATGTTTAATGAA
Found at i:6865401 original size:17 final size:17
Alignment explanation
Indices: 6865379--6865415 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
6865369 TTTCTATCTT
* *
6865379 CTTCTTTATTCCCTTAC
1 CTTCTTTATTACCTGAC
6865396 CTTCTTTATTACCTGAC
1 CTTCTTTATTACCTGAC
6865413 CTT
1 CTT
6865416 TCCTTTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.32, G:0.03, T:0.51
Consensus pattern (17 bp):
CTTCTTTATTACCTGAC
Found at i:6865616 original size:44 final size:45
Alignment explanation
Indices: 6865563--6865666 Score: 138
Period size: 44 Copynumber: 2.3 Consensus size: 45
6865553 TGTCTTTGAC
* * *
6865563 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
6865607 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
6865653 ATGGACTTACATGA
1 ATGGACTTACATGA
6865667 CTCATTTCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:6871628 original size:32 final size:32
Alignment explanation
Indices: 6871587--6871647 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
6871577 TAAAAAGTAC
* *
6871587 AAAAAATTTAAATATATTGTAATATTTGATTT
1 AAAAAATTTAAATACATTGTAAGATTTGATTT
*
6871619 AAAAAATTTAAGTACATTGTAAGATTTGA
1 AAAAAATTTAAATACATTGTAAGATTTGA
6871648 ATTTCTACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.41
Consensus pattern (32 bp):
AAAAAATTTAAATACATTGTAAGATTTGATTT
Found at i:6872192 original size:11 final size:12
Alignment explanation
Indices: 6872162--6872191 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
6872152 CTAGAGAGAG
6872162 AAAAAAATTGAA
1 AAAAAAATTGAA
6872174 AAAAAAATTGAA
1 AAAAAAATTGAA
6872186 AAAAAA
1 AAAAAA
6872192 TCTAGAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:6883805 original size:31 final size:31
Alignment explanation
Indices: 6883770--6883830 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
6883760 TATAATTTTA
6883770 TTATTAAATTATTCAAAAGTTTTTATTTAAG
1 TTATTAAATTATTCAAAAGTTTTTATTTAAG
* *
6883801 TTATTGAATTATTTAAAAGTTTTTATTTAA
1 TTATTAAATTATTCAAAAGTTTTTATTTAA
6883831 ATGATTAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (31 bp):
TTATTAAATTATTCAAAAGTTTTTATTTAAG
Found at i:6888397 original size:60 final size:59
Alignment explanation
Indices: 6888304--6888418 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 59
6888294 AACAAATTTC
* * * *
6888304 AACAAAGTAATAAATATTATTTTGAGAATATTTTTATCTTTTTTATATTAAATATAGAAT
1 AACAAAGTAATAAACATTATTTTGAGAATATTTTTA-CCTTTTAATATAAAATATAGAAT
6888364 AACAAAGTAATAAACATTATTTTGA-AGATATTTTTACCTTTTAATATAAAATATA
1 AACAAAGTAATAAACATTATTTTGAGA-ATATTTTTACCTTTTAATATAAAATATA
6888419 TAAAATATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 17 0.34
60 33 0.66
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.43
Consensus pattern (59 bp):
AACAAAGTAATAAACATTATTTTGAGAATATTTTTACCTTTTAATATAAAATATAGAAT
Found at i:6911529 original size:17 final size:18
Alignment explanation
Indices: 6911497--6911530 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6911487 AAAATTTTCA
*
6911497 TTTAAACTTATTAAATTT
1 TTTAAAATTATTAAATTT
6911515 TTTAAAATT-TTAAATT
1 TTTAAAATTATTAAATT
6911531 AGTAAAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAAAATTATTAAATTT
Found at i:6911871 original size:13 final size:12
Alignment explanation
Indices: 6911853--6911878 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6911843 AAGTTAATTT
6911853 TATTTTTTAAAA
1 TATTTTTTAAAA
6911865 TATTTTTTAAAA
1 TATTTTTTAAAA
6911877 TA
1 TA
6911879 AATTATTTCC
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTTTTAAAA
Found at i:6915086 original size:21 final size:21
Alignment explanation
Indices: 6915062--6915101 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6915052 AAAAGGACAT
6915062 AAAA-CAAAACTCAAAAATTCA
1 AAAATCAAAACT-AAAAATTCA
*
6915083 AAAATCATAACTAAAAATT
1 AAAATCAAAACTAAAAATT
6915102 AATATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAATCAAAACTAAAAATTCA
Found at i:6915642 original size:13 final size:13
Alignment explanation
Indices: 6915624--6915649 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6915614 TTTGCAAGTA
6915624 AGTTTTTTTTTCT
1 AGTTTTTTTTTCT
6915637 AGTTTTTTTTTCT
1 AGTTTTTTTTTCT
6915650 CAACTACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.77
Consensus pattern (13 bp):
AGTTTTTTTTTCT
Found at i:6922493 original size:20 final size:19
Alignment explanation
Indices: 6922470--6922567 Score: 56
Period size: 20 Copynumber: 4.8 Consensus size: 19
6922460 TAAAGTTTAA
*
6922470 TTTAAATATATAAACTATAT
1 TTTAAATAT-TAAAATATAT
*
6922490 TTTAGATATTAAAATATAAT
1 TTTAAATATTAAAATAT-AT
6922510 TATTACAA-ATTTAAATATATAAT
1 T-TTA-AATA-TTAAA-ATAT-AT
* * *
6922533 TTTATATATTTAGAATAAAT
1 TTTAAATA-TTAAAATATAT
*
6922553 TTT-AATATGAAAATA
1 TTTAAATATTAAAATA
6922568 ATGGTATACA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
18 6 0.10
19 10 0.16
20 16 0.25
21 8 0.13
22 15 0.24
23 8 0.13
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (19 bp):
TTTAAATATTAAAATATAT
Found at i:6922549 original size:23 final size:22
Alignment explanation
Indices: 6922488--6922560 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
6922478 TATAAACTAT
*
6922488 ATTTTAGATA-TTAAA-ATATA
1 ATTTTACATATTTAAATATATA
*
6922508 ATTATTACAAATTTAAATATATA
1 ATT-TTACATATTTAAATATATA
* *
6922531 ATTTTATATATTTAGA-ATA-A
1 ATTTTACATATTTAAATATATA
6922551 ATTTTA-ATAT
1 ATTTTACATAT
6922561 GAAAATAATG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.09
20 10 0.22
21 8 0.18
22 15 0.33
23 8 0.18
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (22 bp):
ATTTTACATATTTAAATATATA
Found at i:6928765 original size:19 final size:19
Alignment explanation
Indices: 6928706--6928769 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
6928696 TATTTTATAG
* *
6928706 TATTATATATTATG-ATTT
1 TATTAAATATTAAGAATTT
6928724 TATTAAATTCATATAAGAA---
1 TATTAAA-T-AT-TAAGAATTT
6928743 TATTAAATATTAAGAATTT
1 TATTAAATATTAAGAATTT
6928762 TATTAAAT
1 TATTAAAT
6928770 TATATATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
16 6 0.16
17 2 0.05
18 7 0.19
19 16 0.43
20 2 0.05
21 3 0.08
22 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
TATTAAATATTAAGAATTT
Found at i:6928774 original size:120 final size:120
Alignment explanation
Indices: 6928643--6929171 Score: 875
Period size: 120 Copynumber: 4.4 Consensus size: 120
6928633 CAAACTTTAG
6928643 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
* *
6928708 TTATATATTATGATTTTATTAAATTCATATAAGAATATTAAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
*
6928763 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
* *
6928828 TTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAATAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
*
6928883 ATTAAATTATATATTTTTATTAAATTATA-TT--TAATAATTATGTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
*
6928945 TTATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
* *
6929000 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
* * * * * *
6929065 TCATATATTATTATTTTAGTAAATTCAGATAAAAATATTGATTATTAAGAATTTT
66 TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
* *
6929120 ATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTAT-TTTAAAT
6929172 ATGATTAAAT
Statistics
Matches: 385, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
117 110 0.29
118 2 0.01
119 2 0.01
120 266 0.69
121 5 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
TTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTT
Found at i:6928782 original size:18 final size:18
Alignment explanation
Indices: 6928759--6928912 Score: 85
Period size: 18 Copynumber: 8.9 Consensus size: 18
6928749 ATATTAAGAA
6928759 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
6928777 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
6928792 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
6928807 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
6928826 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
6928841 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** *
6928860 GAATATTTAATATTA-ATAA
1 TTTTA-TTAA-ATTATATAT
6928879 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
6928897 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
6928913 TTAATAATTA
Statistics
Matches: 102, Mismatches: 20, Indels: 28
0.68 0.13 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 39 0.38
19 12 0.12
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:6928793 original size:10 final size:10
Alignment explanation
Indices: 6928757--6928936 Score: 52
Period size: 10 Copynumber: 18.9 Consensus size: 10
6928747 AAATATTAAG
*
6928757 AATTTTATTA
1 AATTATATTA
6928767 AATTATA-T-
1 AATTATATTA
* *
6928775 ATTTTTATTA
1 AATTATATTA
*
6928785 AATTATATTT
1 AATTATATTA
6928795 AA-TA-A-T-
1 AATTATATTA
*
6928801 AATTATTTTA
1 AATTATATTA
6928811 AATTATATTA
1 AATTATATTA
*
6928821 TA-TAGTATT-
1 AATTA-TATTA
6928830 -A-TATATTA
1 AATTATATTA
* *
6928838 TGATTTTATTA
1 -AATTATATTA
6928849 AATTCATA-TA
1 AATT-ATATTA
*
6928859 AGAATAT-TTA
1 A-ATTATATTA
6928869 ATATTA-A-T-
1 A-ATTATATTA
*
6928877 AATTTTATTA
1 AATTATATTA
6928887 AATTATA-T-
1 AATTATATTA
* *
6928895 ATTTTTATTA
1 AATTATATTA
6928905 AATTATATTTAA
1 AATTATA-TT-A
*
6928917 TAATTATGTTA
1 -AATTATATTA
6928928 AATTATATT
1 AATTATATT
6928937 TTATAGTATT
Statistics
Matches: 124, Mismatches: 23, Indels: 46
0.64 0.12 0.24
Matches are distributed among these distances:
6 2 0.02
7 10 0.08
8 16 0.13
9 11 0.09
10 63 0.51
11 13 0.10
12 3 0.02
13 6 0.05
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (10 bp):
AATTATATTA
Found at i:6928885 original size:19 final size:19
Alignment explanation
Indices: 6928840--6929029 Score: 69
Period size: 18 Copynumber: 9.9 Consensus size: 19
6928830 ATATATTATG
6928840 ATTTTA-TTAAATTCATATA
1 ATTTTATTTAAATT-ATATA
***
6928859 AGAATATTTAATATTA-ATA
1 ATTTTATTTAA-ATTATATA
6928878 ATTTTA-TTAAATTATATA
1 ATTTTATTTAAATTATATA
*
6928896 TTTTTA-TTAAATTATATTTA
1 ATTTTATTTAAATTATA--TA
*
6928916 ATAATTATGTTAAATTATAT-
1 AT-TTTAT-TTAAATTATATA
* *
6928936 -TTTATAGTATTATA-TATTATG
1 ATTT-TA-T-TTAAATTA-TATA
**
6928957 ATTTTA-GAAAATTCATATA
1 ATTTTATTTAAATT-ATATA
*** *
6928976 AGAATATTTAATATTA-AGA
1 ATTTTATTTAA-ATTATATA
6928995 ATTTTA-TTAAATTATATA
1 ATTTTATTTAAATTATATA
*
6929013 TTTTTA-TTAAATTATAT
1 ATTTTATTTAAATTATAT
6929030 TTAATAATAA
Statistics
Matches: 126, Mismatches: 27, Indels: 37
0.66 0.14 0.19
Matches are distributed among these distances:
17 8 0.06
18 47 0.37
19 26 0.21
20 20 0.16
21 12 0.10
22 3 0.02
23 10 0.08
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (19 bp):
ATTTTATTTAAATTATATA
Found at i:6929064 original size:237 final size:237
Alignment explanation
Indices: 6928643--6929157 Score: 850
Period size: 237 Copynumber: 2.2 Consensus size: 237
6928633 CAAACTTTAG
*
6928643 ATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTA
1 ATTAAATTATATATTTTTATTAAATTATA-TT--TAATAATTATGTTAAATTATATTTTATAGTA
**
6928708 TTATATATTATGATTTTATTAAATTCATATAAGAATATTAAATATTAAGAATTTTATTAAATTAT
63 TTATATATTATGATTTTAGAAAATTCATATAAGAATATTAAATATTAAGAATTTTATTAAATTAT
* * *
6928773 ATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTATATAGTATTATATATTA
128 ATATTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTATATAGTATCATATATTA
* * * * *
6928838 TGATTTTATTAAATTCATATAAGAATATTTAATATTAATAATTTT
193 TGATTTTAGTAAATTCAGATAAAAATATTGAATATTAAGAATTTT
6928883 ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAATTATATTTTATAGTATTA
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAATTATATTTTATAGTATTA
*
6928948 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATTATATA
66 TATATTATGATTTTAGAAAATTCATATAAGAATATTAAATATTAAGAATTTTATTAAATTATATA
* *
6929013 TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTTTATAGTATCATATATTATTA
131 TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTATATAGTATCATATATTATGA
*
6929078 TTTTAGTAAATTCAGATAAAAATATTGATTATTAAGAATTTT
196 TTTTAGTAAATTCAGATAAAAATATTGAATATTAAGAATTTT
* *
6929120 ATTAAATTATATATTTTAATTAAAATATATTTAATAAT
1 ATTAAATTATATATTTTTATTAAATTATATTTAATAAT
6929158 AATTATGTTT
Statistics
Matches: 258, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
237 227 0.88
239 2 0.01
240 29 0.11
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (237 bp):
ATTAAATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAATTATATTTTATAGTATTA
TATATTATGATTTTAGAAAATTCATATAAGAATATTAAATATTAAGAATTTTATTAAATTATATA
TTTTTATTAAATTATATTTAATAATAATTATGTTAAAATATATTATATAGTATCATATATTATGA
TTTTAGTAAATTCAGATAAAAATATTGAATATTAAGAATTTT
Found at i:6929143 original size:18 final size:17
Alignment explanation
Indices: 6929115--6929149 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6929105 ATTATTAAGA
*
6929115 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6929132 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6929150 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6929340 original size:39 final size:40
Alignment explanation
Indices: 6929297--6929401 Score: 104
Period size: 44 Copynumber: 2.5 Consensus size: 40
6929287 TTCCATTATG
6929297 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* * *** *
6929336 CTATTACGCCTATATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
6929381 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
6929402 ACACCTCTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
39 14 0.27
40 5 0.10
44 17 0.33
45 16 0.31
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:6929399 original size:45 final size:44
Alignment explanation
Indices: 6929295--6929404 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
6929285 TTTTCCATTA
6929295 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * * ***
6929334 TACTATTACGCCTATATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
6929379 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
6929405 CCTCTATTCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 16 0.29
45 24 0.43
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:6929404 original size:16 final size:16
Alignment explanation
Indices: 6929383--6929452 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
6929373 TTGATTTGCT
*
6929383 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
6929399 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
6929415 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
6929431 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
6929447 AATACA
1 ATTACA
6929453 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:6934070 original size:24 final size:25
Alignment explanation
Indices: 6934037--6934096 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
6934027 CATATTTTTC
*
6934037 AAATAGATGAACTAATTTTTTT-AAT
1 AAATAAATGAACT-ATTTTTTTGAAT
*
6934062 -ATTAAATGAACTATTTTTTTGAAT
1 AAATAAATGAACTATTTTTTTGAAT
6934086 AAATAAATGAA
1 AAATAAATGAA
6934097 AAACAAGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 8 0.27
24 13 0.43
25 9 0.30
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (25 bp):
AAATAAATGAACTATTTTTTTGAAT
Found at i:6934088 original size:21 final size:22
Alignment explanation
Indices: 6934031--6934089 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
6934021 GTTAGCCATA
* *
6934031 TTTTTCAAATAGATGAACTAAT
1 TTTTTTAAATAAATGAACTAAT
6934053 TTTTTTAATATTAAATGAACT-AT
1 TTTTTTAA-A-TAAATGAACTAAT
*
6934076 TTTTTTGAATAAAT
1 TTTTTTAAATAAAT
6934090 AAATGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 5 0.16
22 8 0.25
23 10 0.31
24 9 0.28
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (22 bp):
TTTTTTAAATAAATGAACTAAT
Found at i:6934679 original size:14 final size:14
Alignment explanation
Indices: 6934660--6934689 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6934650 AACTAACTAG
6934660 ATCTCCTTCTTCCT
1 ATCTCCTTCTTCCT
6934674 ATCTCCTTCTTCCT
1 ATCTCCTTCTTCCT
6934688 AT
1 AT
6934690 AAAAGTAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.40, G:0.00, T:0.50
Consensus pattern (14 bp):
ATCTCCTTCTTCCT
Found at i:6940861 original size:28 final size:28
Alignment explanation
Indices: 6940816--6940872 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
6940806 ACGAGATGGC
* * * * *
6940816 ATAAAAAATTTGTCTATTGAATTTATAT
1 ATAAAAAACTTATATATTAAATATATAT
6940844 ATAAAAAACTTATATATTAAATATATAT
1 ATAAAAAACTTATATATTAAATATATAT
6940872 A
1 A
6940873 AATACATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (28 bp):
ATAAAAAACTTATATATTAAATATATAT
Found at i:6952870 original size:34 final size:36
Alignment explanation
Indices: 6952802--6952870 Score: 83
Period size: 34 Copynumber: 2.0 Consensus size: 36
6952792 ATTTGTCTCC
*
6952802 TTTTTCTTTTAGTTTTCATTTCCATTTTGATTGAAA
1 TTTTTCTTTTAGTTTTCATGTCCATTTTGATTGAAA
6952838 TTTTT-TTTTA-TTTTCATAGT-CATCTTTG-TTGAA
1 TTTTTCTTTTAGTTTTCAT-GTCCAT-TTTGATTGAA
6952871 TCGAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
34 15 0.50
35 10 0.33
36 5 0.17
ACGTcount: A:0.19, C:0.10, G:0.09, T:0.62
Consensus pattern (36 bp):
TTTTTCTTTTAGTTTTCATGTCCATTTTGATTGAAA
Found at i:6964714 original size:35 final size:31
Alignment explanation
Indices: 6964647--6964708 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6964637 TTGCTTTAAG
6964647 AAATTCCAACAGTTTTTTTTTTCATTCTTGT
1 AAATTCCAACAGTTTTTTTTTTCATTCTTGT
6964678 AAATTCCAACAGTTTTTTTTTTCATTCTTGT
1 AAATTCCAACAGTTTTTTTTTTCATTCTTGT
6964709 CTGTAAGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.06, T:0.55
Consensus pattern (31 bp):
AAATTCCAACAGTTTTTTTTTTCATTCTTGT
Found at i:6965470 original size:21 final size:21
Alignment explanation
Indices: 6965410--6965470 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
6965400 ATTTAATATT
* **
6965410 AATATTAATATAAAATTTAAA
1 AATATTATTATATTATTTAAA
* *
6965431 TATATTATTATATTTTTTAAA
1 AATATTATTATATTATTTAAA
6965452 AATATTATGTAT-TTATTTA
1 AATATTAT-TATATTATTTA
6965471 TTTTTTTGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
21 29 0.91
22 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AATATTATTATATTATTTAAA
Found at i:6965866 original size:8 final size:8
Alignment explanation
Indices: 6965853--6965886 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
6965843 CTAATTTATT
6965853 TTTTTTAA
1 TTTTTTAA
6965861 TTTTTTAA
1 TTTTTTAA
6965869 TTATTTTAA
1 TT-TTTTAA
*
6965878 ATTTTTAA
1 TTTTTTAA
6965886 T
1 T
6965887 ATAACTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTTAA
Found at i:6965958 original size:21 final size:23
Alignment explanation
Indices: 6965933--6965992 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
6965923 GTTTTAAAAA
*
6965933 TTGTTTTAGTA-TTATTTTTAT-
1 TTGTTTTAATATTTATTTTTATG
*
6965954 TTGTTTTAATATTTGTTTTTATG
1 TTGTTTTAATATTTATTTTTATG
*
6965977 TT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
6965993 GATTTATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 16 0.48
22 15 0.45
23 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (23 bp):
TTGTTTTAATATTTATTTTTATG
Found at i:6966013 original size:27 final size:25
Alignment explanation
Indices: 6965962--6966013 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
6965952 ATTTGTTTTA
* *
6965962 ATATTTGTTTTTATGTTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAAT
6965987 ATATTTGATTTATTATATTTTTAAAAT
1 ATATTTG-TTT-TTATATTTTTAAAAT
6966014 TTTTATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 3 0.13
27 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (25 bp):
ATATTTGTTTTTATATTTTTAAAAT
Found at i:6974064 original size:6 final size:7
Alignment explanation
Indices: 6974043--6974067 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6974033 ATGTTTGCTT
6974043 AACCAAA
1 AACCAAA
6974050 AACCAAA
1 AACCAAA
6974057 AACCAAA
1 AACCAAA
6974064 AACC
1 AACC
6974068 TCATCTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCAAA
Found at i:6976558 original size:29 final size:30
Alignment explanation
Indices: 6976525--6976593 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
6976515 TTGTACAAGA
* *
6976525 GTAAATACTT-AAAATTTAAGGGTTAA-AGT
1 GTAAATA-TTAAAAATTAAAGGATTAATAGT
6976554 GTAAATATTAAAAAATTAAAGGATTAATAGT
1 GTAAATATT-AAAAATTAAAGGATTAATAGT
6976585 GTAAATATT
1 GTAAATATT
6976594 TTAAGGGTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 7 0.20
30 14 0.40
31 12 0.34
ACGTcount: A:0.49, C:0.01, G:0.14, T:0.35
Consensus pattern (30 bp):
GTAAATATTAAAAATTAAAGGATTAATAGT
Found at i:6976589 original size:31 final size:30
Alignment explanation
Indices: 6976535--6976593 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
6976525 GTAAATACTT
* *
6976535 AAAATTTAAGGGTTAAAGTGTAAATATTAA
1 AAAATTAAAGGATTAAAGTGTAAATATTAA
6976565 AAAATTAAAGGATTAATAGTGTAAATATT
1 AAAATTAAAGGATTAA-AGTGTAAATATT
6976594 TTAAGGGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.34
Consensus pattern (30 bp):
AAAATTAAAGGATTAAAGTGTAAATATTAA
Found at i:6976977 original size:28 final size:28
Alignment explanation
Indices: 6976937--6976992 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
6976927 GAAAAGAAAG
*
6976937 ATTTTCTGTTCTTTATAATTTGGTCCTT
1 ATTTTCTGTTCTTTACAATTTGGTCCTT
*
6976965 ATTTTTTGTTCTTTACAATTTGGTCCTT
1 ATTTTCTGTTCTTTACAATTTGGTCCTT
6976993 TTATTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.61
Consensus pattern (28 bp):
ATTTTCTGTTCTTTACAATTTGGTCCTT
Found at i:6977868 original size:46 final size:46
Alignment explanation
Indices: 6977798--6977957 Score: 212
Period size: 46 Copynumber: 3.5 Consensus size: 46
6977788 TAGAATTTTT
** * * *
6977798 ATGGTTGAAAGATGTCATGGCAACATGACAGGAAATGAACAATACC
1 ATGGTTGAAAGATACCATGACAACATGACAGGAAATGAATAAGACC
*
6977844 ATGGTTGAAAGATACCATGACAACATGACAGGAAATGAATAAGACA
1 ATGGTTGAAAGATACCATGACAACATGACAGGAAATGAATAAGACC
* * *
6977890 ATGGTTGAAAGATACTATGGCAACATAACAGGAAATGAATAAGACC
1 ATGGTTGAAAGATACCATGACAACATGACAGGAAATGAATAAGACC
* * *
6977936 ATAGTTGAAAGACACTATGACA
1 ATGGTTGAAAGATACCATGACA
6977958 TCTGTTGAAC
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 101 1.00
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (46 bp):
ATGGTTGAAAGATACCATGACAACATGACAGGAAATGAATAAGACC
Found at i:6983244 original size:14 final size:14
Alignment explanation
Indices: 6983225--6983254 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6983215 AAACATTAAG
*
6983225 AATATATATATAAT
1 AATATATATAAAAT
6983239 AATATATATAAAAT
1 AATATATATAAAAT
6983253 AA
1 AA
6983255 ACTTATAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATATATAAAAT
Found at i:6985972 original size:789 final size:795
Alignment explanation
Indices: 6983858--6986958 Score: 3793
Period size: 789 Copynumber: 3.9 Consensus size: 795
6983848 GTTCCGACCA
* * * * * * *
6983858 GGATTGGACCACGTAGTGATGGGAGGGGGTGCTCAAATTTTATGGTCATTGAAGAAGCGGAATAT
1 GGATTGGACCACGGAGTAATGGGAAGGGGCGCTCGAATTTTATGGTCACTGAAGAAGCAGAATAT
* ** *
6983923 TCCTTT-AAGTTTTG-GGATAATGAAGGGTTCATGTGTTTAAAAGACCGACTAAG-AAAAACTCA
66 T-CTTTCAAGTTTTGAGG-TAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCA
* * *
6983985 ATTGAAAATTGAAGGTCCTAAAGTGATATCAAAATATTGAACGAAAGAAACAAAAAAAAATCACA
129 AGTGAAAATTGAAGGTCCT-AAGAGATA-CAAAATATTGAACGAAAG--A-AAAAAAAAACCACA
* * *
6984050 ATGGTCCAAAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCAATGCTTAAAAAAA
189 ATTGTCCACAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTTAAAAAAA
* * * *
6984115 AACCCGACTGAAACTCTGGACCCATTTGACGGTTCATATTTGAAGTTGAAAACCAGAGCCCAAAT
254 AACCCGACTGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAAT
* * *
6984180 ACTGACTAGCTCTAGAATTAGTTACCCTTGGTTTGGACCCTCCCATATAATCCGACTCGATAAAA
319 ACTGACTAGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAATCCGACCCGATAAAA
* * * * *
6984245 TATACCCATTTGTTTTCCTTCGGCAACGATGTT--GTGTATAATCCTTTCAACCCGTTTATTCAT
384 TAGACCCATTTGCTTTCCTTCGGTAACGATGTTGCGTGTACAATCCTCTCAACCCGTTTATTCAT
* * *
6984308 TATCTCATTCTCCCCCACTGCGATTCTCGCATTTAAAAAAGGCGTTGTACACTTTACCTTGGTGA
449 TATCTCATTCTCCCCCACTGCGATTCTCGCATTCAAAAATGGCGTCGTACACTTTACCTTGGTGA
* ** * * * *
6984373 AGCTGATGCATTTTTTCTTAGCCGTAACTAAACAAGCTCTCATTTCGATATCTTCGCACTGCTCT
514 AGCCGACACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATCTTCGCACCGCTCT
* * * * * * * *
6984438 CTTTCCATGAAGTCCATTGGTTTCCAACCAATTC-GGGACTGCCACCAACCAAGTTTCCACTTGT
579 CTTTTCGTTAAGTCCATTGATTTCCAACCAA-TCAGGGACTACCACCAAACAGGTTTGCACTTGT
* * *
6984502 TGGAA-CAGTGATG-GTGAACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTT
643 TGGAAGCAGTGATGACT-CACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTC
* * * *
6984565 GCAGGATTTGTAAGCAGCGGCCTAAG-AAGTAAGGTCTTTGAAGGCAAGGATGTATGGACTGGAT
707 GCAGGATTTGTAAGCGGCGACCTAAGAAAG-AAGGTTTTTGAAGGTAAGGATGTATGGACTGGAT
** * *
6984629 GATGGGTTGTCCGAAGTTT-TGTTCA
771 GATGGGTCATCCGAAGTTTCAGTT-G
* ** * **
6984654 GGATTGGACAATAGAGTAAT-AGAAGGGAGCGCTCGAATTTTATGGT-TGTCGAAGAAGCAGAAT
1 GGATTGGACCACGGAGTAATGGGAAGGG-GCGCTCGAATTTTATGGTCACT-GAAGAAGCAGAAT
* *
6984717 ATTC-ATCTAAGTTTT-AGGGTAATGAAGGGTCCACGCCTTTAAAAGACCGACTGAGAAAAAACT
64 ATTCTTTC-AAGTTTTGA-GGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACT
*
6984780 CAAGTGAAAATTGAAGGTCCTAGAGTGATACCAAAATATTGAACGAAAG-AAAAAAAAACCACAA
127 CAAGTGAAAATTGAAGGTCCTA-AGAGATA-CAAAATATTGAACGAAAGAAAAAAAAAACCACAA
* * *
6984844 TTGTCCACAATTGTGGTACAACACCTACAATTGTCCACTTTAGAATTGCTACTACTTAAAAAAAA
190 TTGTCCACAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTTAAAAAAAA
* *
6984909 ACCCGACCGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAACCCAAATA
255 ACCCGACTGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAATA
* * * * *
6984974 CTGACTAGCTCTGAAATTAGTCACCTTTGGTTTGGACCCTCCCATATAATCGGACCCAATAAGAT
320 CTGACTAGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAATCCGACCCGATAAAAT
* * * * * *
6985039 AGACCTATTTGCTTTCCTCCTGTAATGATGTTGCGTGTGCCATCCTCTCAACCCGTTTATTCATT
385 AGACCCATTTGCTTTCCTTCGGTAACGATGTTGCGTGTACAATCCTCTCAACCCGTTTATTCATT
* * * * *
6985104 ATCTCTTTCTCCCCTACTGCGATTCTTGCATTCAAAAATAGCGTCGTACACTTTACCTTGGAGAA
450 ATCTCATTCTCCCCCACTGCGATTCTCGCATTCAAAAATGGCGTCGTACACTTTACCTTGGTGAA
** * * * *
6985169 GCCGACGTATTTTTCCCTAGCTGTAACCAAACAAGCTCCCATTTCGATATCTTCGCACCGCTCTC
515 GCCGACACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATCTTCGCACCGCTCTC
* *
6985234 TTTTCGTTAAGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACATGTTTGAACTTGTTG
580 TTTTCGTTAAGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACAGGTTTGCACTTGTTG
* * * *
6985299 GAAGCAGTGATGACTCACCCAATTTGTGCGCCTTCATCGCATTGAAGTATGATTTTTGATTCGCA
645 GAAGCAGTGATGACTCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTCGCA
* *
6985364 GGATTTGTAAGCGGCAACCTAAGAAAGAAGGTTTTTGAAGGTAAGGATGTATGGACTGGATGATA
710 GGATTTGTAAGCGGCGACCTAAGAAAGAAGGTTTTTGAAGGTAAGGATGTATGGACTGGATGATG
*
6985429 GGTCATTCGAAGTTTCAGTTG
775 GGTCATCCGAAGTTTCAGTTG
* *
6985450 GGATTGGACCATGGAGTAATGGGAAGGGGCGCTCGAATTTTATGGTCACTGAAAAAGC-GAAATA
1 GGATTGGACCACGGAGTAATGGGAAGGGGCGCTCGAATTTTATGGTCACTGAAGAAGCAG-AATA
* *
6985514 TTCTTTCAAGTTTTGAGGTAATGAAGGGTCCATACCTTTAAAAGATCGACTGA-AAAAAACTCAA
65 TTCTTTCAAGTTTTGAGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAA
* * *
6985578 GTGAAAATTGAAGGTTCT-AGAGAT-TAAAATATTGAACGAAAG-AAAAAAAAACTACAATTGTC
130 GTGAAAATTGAAGGTCCTAAGAGATACAAAATATTGAACGAAAGAAAAAAAAAACCACAATTGTC
* * * * *
6985640 CACAATTGTGGTACAACACCCATAATTTTCCATTTTAAAATTGCCACTGCTT-AAAAAAAA-TCG
195 CACAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTTAAAAAAAAACCCG
* * * * *
6985703 ACTAAAACTTTAGACCCACGTGACGGTTCCCATTTGAAGTTGAGAACCGGAGCCCAAATACTGAC
260 ACTGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAATACTGAC
* * * *
6985768 TAGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCTCAAATAATCTGACCCGATAAGATAGACC
325 TAGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAATCCGACCCGATAAAATAGACC
* * * * * *
6985833 CATTTGCTTTTCTACGGTAACGATGTTGCGTGTACCATCTTTTCAACACGTTTATTCATTATCT-
390 CATTTGCTTTCCTTCGGTAACGATGTTGCGTGTACAATCCTCTCAACCCGTTTATTCATTATCTC
* * * * *
6985897 ACTTCTCCCCCACTGTGATTCTCGCATTCAGAAACGGTGTCGTACACTTTACCTTGGTGAAGCCA
455 A-TTCTCCCCCACTGCGATTCTCGCATTCAAAAATGGCGTCGTACACTTTACCTTGGTGAAGCCG
* * * * * *
6985962 ACACATTTTTCATTAGCCACAACCAAACAAGCTTTCGTTTCGATA-CGTTCACACTGCTCTCTTT
519 ACACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATC-TTCGCACCGCTCTCTTT
* * * *
6986026 TCGTTAAGTCCATTGATTTCCAACCAATCAGGGACTGCCACCAAGCGGGTTTGCACTTGTTAGAA
583 TCGTTAAGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACAGGTTTGCACTTGTTGGAA
* * * * * * * *
6986091 GCAATAATGGCACACCCAATTCGTGCACATTCCTCGCATTGAAACATGATTTTTGTTTCACAGGA
648 GCAGTGATGACTCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTCGCAGGA
* *
6986156 TTTGTAAGCGGCGACCCAA-AAAGGAA-GTTCTTTGAAGGTAAGGATGTATGGACCGGATGATGG
713 TTTGTAAGCGGCGACCTAAGAAA-GAAGGTT-TTTGAAGGTAAGGATGTATGGACTGGATGATGG
* *
6986219 GTCATCCGAAGTTCCAGTCG
776 GTCATCCGAAGTTTCAGTTG
* * *
6986239 GGATTGGACCACCGAGTAATGGGAATGGGCACTCGAATTTTATAGTTGTC-C--AAGAAGCAGAA
1 GGATTGGACCACGGAGTAATGGGAAGGGGCGCTCGAATTTTAT-G--GTCACTGAAGAAGCAGAA
* * * * ** * * *
6986301 TATTCCTCCAGGTTTTGGGGTAATGAACAGTCCATGCCTTTAAAAGATCAACTGAGAAAAAATTC
63 TATTCTTTCAAGTTTTGAGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTC
* * *
6986366 AAGTGAAAATTAAAGGTCCTAAAGTGATACCAAAATATTGAACGAAAGAAAAAAAAAACCAAAAT
128 AAGTGAAAATTGAAGGTCCT-AAGAGATA-CAAAATATTGAACGAAAGAAAAAAAAAACCACAAT
* * * *
6986431 TGTCTACAATTGTGGTACAAGACCTACAATTGTCCACTTTAGAATTGCTACTGCTT-AAAAAAAA
191 TGTCCACAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTTAAAAAAAAA
* * * * * * * *
6986495 -CTGACTGAAACTCCAGACCCATGTAAAGGTTCACAATTAAAGTTGAGAACCGGAGCCCAAATAT
256 CCCGACTGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAATAC
* * * * **
6986559 TGACTAGCTCTGGAATTAGTCACCATTGGTTTAGACCCTCCTATATAATCCAACTTGATAAAATA
321 TGACTAGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAATCCGACCCGATAAAATA
* * ** * * *
6986624 TACCTATTTGCTTTCCTTCGAAAACAATGCTGCGTGTATAATCCTCTCAACCCGTTTATTCATTA
386 GACCCATTTGCTTTCCTTCGGTAACGATGTTGCGTGTACAATCCTCTCAACCCGTTTATTCATTA
* ** * * * **
6986689 TCTCCTTCTCCCTTACTGCGATTCTTGCATTTAAAAATGGCGTTGTACACTTTACCTTGGCAAAG
451 TCTCATTCTCCCCCACTGCGATTCTCGCATTCAAAAATGGCGTCGTACACTTTACCTTGGTGAAG
* * * *
6986754 CCG--ACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCGTTTCAATATATTCGCACCACTCTCT
516 CCGACACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATCTTCGCACCGCTCTCT
* *
6986817 TTTCGTTAAGTCTATTGATTTCCAACCAATCAGGGACTACCACCAAACGGGTTTGCACTTGTTGG
581 TTTCGTTAAGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACAGGTTTGCACTTGTTGG
* * *
6986882 AAGCAGTGATGACGCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTTGCAA
646 AAGCAGTGATGACTCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTCGCAG
*
6986947 TATTTGTAAGCG
711 GATTTGTAAGCG
6986959 AAGAGGACCA
Statistics
Matches: 1983, Mismatches: 286, Indels: 75
0.85 0.12 0.03
Matches are distributed among these distances:
788 7 0.00
789 552 0.28
790 36 0.02
791 82 0.04
792 8 0.00
793 397 0.20
794 20 0.01
795 515 0.26
796 295 0.15
797 71 0.04
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (795 bp):
GGATTGGACCACGGAGTAATGGGAAGGGGCGCTCGAATTTTATGGTCACTGAAGAAGCAGAATAT
TCTTTCAAGTTTTGAGGTAATGAAGGGTCCATGCCTTTAAAAGACCGACTGAGAAAAAACTCAAG
TGAAAATTGAAGGTCCTAAGAGATACAAAATATTGAACGAAAGAAAAAAAAAACCACAATTGTCC
ACAATTGTGGTACAACACCCACAATTGTCCACTTTAGAATTGCCACTGCTTAAAAAAAAACCCGA
CTGAAACTCTAGACCCATGTGACGGTTCACATTTGAAGTTGAGAACCAGAGCCCAAATACTGACT
AGCTCTGGAATTAGTCACCCTTGGTTTGGACCCTCCCATATAATCCGACCCGATAAAATAGACCC
ATTTGCTTTCCTTCGGTAACGATGTTGCGTGTACAATCCTCTCAACCCGTTTATTCATTATCTCA
TTCTCCCCCACTGCGATTCTCGCATTCAAAAATGGCGTCGTACACTTTACCTTGGTGAAGCCGAC
ACATTTTTCCTTAGCCGCAACCAAACAAGCTCTCATTTCGATATCTTCGCACCGCTCTCTTTTCG
TTAAGTCCATTGATTTCCAACCAATCAGGGACTACCACCAAACAGGTTTGCACTTGTTGGAAGCA
GTGATGACTCACCCAATTCGTGCACCTTCCTCGCATTGAAATATGATTTTTGATTCGCAGGATTT
GTAAGCGGCGACCTAAGAAAGAAGGTTTTTGAAGGTAAGGATGTATGGACTGGATGATGGGTCAT
CCGAAGTTTCAGTTG
Found at i:6988301 original size:21 final size:21
Alignment explanation
Indices: 6988276--6988344 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
6988266 TATAATGATT
6988276 ATTATTATGATTTTATATTAA
1 ATTATTATGATTTTATATTAA
*
6988297 ATTATTATAATTATTA-ATT-A
1 ATTATTATGATT-TTATATTAA
* * *
6988317 A-CATTATGGTTTTATATTAG
1 ATTATTATGATTTTATATTAA
6988337 ATTATTAT
1 ATTATTAT
6988345 TATTAGTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.26
20 3 0.08
21 19 0.50
22 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (21 bp):
ATTATTATGATTTTATATTAA
Found at i:6989777 original size:24 final size:24
Alignment explanation
Indices: 6989745--6989810 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
6989735 GATTTAAAAT
6989745 ATTCTGGGTGTGTTTGGGTTGGAC
1 ATTCTGGGTGTGTTTGGGTTGGAC
6989769 ATTCTGGGTGTGTTTGGGTTGGAC
1 ATTCTGGGTGTGTTTGGGTTGGAC
* *
6989793 AATCT-AGTGTGTTTGGGT
1 ATTCTGGGTGTGTTTGGGT
6989811 GGAAATCCGC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 12 0.30
24 28 0.70
ACGTcount: A:0.11, C:0.08, G:0.39, T:0.42
Consensus pattern (24 bp):
ATTCTGGGTGTGTTTGGGTTGGAC
Found at i:6995340 original size:95 final size:94
Alignment explanation
Indices: 6995132--6995321 Score: 254
Period size: 95 Copynumber: 2.0 Consensus size: 94
6995122 TCTCAGCCAT
* * * * ** * *
6995132 TCATTAAGATTACAAGTATTCTCTATCAACATTTATCAATTTGGCATGTTAATTAAGTTATAAAA
1 TCATTAACATTATAAATATTTTC-ATCAACATTTATCAATTTCACATATTAATTAAATTATAAAA
* *
6995197 TATATAACTATTTTCTCACTTGGTTTATAA
65 TATATAACTATTTTCTCACTTGGCTTAAAA
* *
6995227 TCATTAATATTATAAATATCTTTCATCAACATTTATCAATTTCACATATTGATTAAATTATAAAA
1 TCATTAACATTATAAATAT-TTTCATCAACATTTATCAATTTCACATATTAATTAAATTATAAAA
6995292 TATATAACTATTTTCTCACTTGGCTTAAAA
65 TATATAACTATTTTCTCACTTGGCTTAAAA
6995322 CTAGTTGACG
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 80 0.96
96 3 0.04
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (94 bp):
TCATTAACATTATAAATATTTTCATCAACATTTATCAATTTCACATATTAATTAAATTATAAAAT
ATATAACTATTTTCTCACTTGGCTTAAAA
Found at i:7009098 original size:9 final size:9
Alignment explanation
Indices: 7009086--7009117 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
7009076 ACAAATATTA
7009086 AAAATAAAC
1 AAAATAAAC
7009095 AAAATAAAC
1 AAAATAAAC
7009104 AAAATAAAC
1 AAAATAAAC
7009113 AAAAT
1 AAAAT
7009118 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:7016541 original size:20 final size:21
Alignment explanation
Indices: 7016511--7016564 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
7016501 AGGGTCTCAA
*
7016511 TAAAATTTTGAT-CTCATTTT
1 TAAAGTTTTGATACTCATTTT
*
7016531 TTAAGTTTTGATCACTCATTTT
1 TAAAGTTTTGAT-ACTCATTTT
*
7016553 TAAAGATTTGAT
1 TAAAGTTTTGAT
7016565 TCAATCTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.36
22 18 0.64
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (21 bp):
TAAAGTTTTGATACTCATTTT
Found at i:7017928 original size:4 final size:4
Alignment explanation
Indices: 7017919--7017943 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7017909 CGTCTTGGTT
7017919 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
7017944 GTAGTACATA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:7019622 original size:30 final size:30
Alignment explanation
Indices: 7019586--7019645 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
7019576 AAAGCAGCGT
7019586 CTGTGCACCACCATGTCGGCCAAGGACTGC
1 CTGTGCACCACCATGTCGGCCAAGGACTGC
7019616 CTGTGCACCACCATGTCGGCCAAGGACTGC
1 CTGTGCACCACCATGTCGGCCAAGGACTGC
7019646 GGCCACCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.37, G:0.27, T:0.17
Consensus pattern (30 bp):
CTGTGCACCACCATGTCGGCCAAGGACTGC
Found at i:7020336 original size:5 final size:5
Alignment explanation
Indices: 7020328--7020354 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7020318 AAATATAATA
7020328 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
7020355 ATTCAGTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:7030203 original size:8 final size:8
Alignment explanation
Indices: 7030161--7030185 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7030151 ATATAGACTA
7030161 AATAAAAT
1 AATAAAAT
7030169 AATAAAAT
1 AATAAAAT
7030177 AATAAAAT
1 AATAAAAT
7030185 A
1 A
7030186 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:7030209 original size:29 final size:31
Alignment explanation
Indices: 7030158--7030226 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
7030148 TATATATAGA
*
7030158 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
7030187 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
7030218 CTAATTAAA
1 CTAATTAAA
7030227 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:7031697 original size:18 final size:20
Alignment explanation
Indices: 7031655--7031691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7031645 ATATTTTATG
*
7031655 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
7031674 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
7031692 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:7033883 original size:46 final size:46
Alignment explanation
Indices: 7033831--7034151 Score: 408
Period size: 46 Copynumber: 7.0 Consensus size: 46
7033821 AGTGTGCTCT
7033831 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
7033877 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
7033923 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
7033969 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** **
7034015 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
7034061 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * * * *
7034107 ATGACAAAAAAATGAGTAGGACCATAGTTGAAAGACACTATGGCA
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
7034152 TCATGTCAAA
Statistics
Matches: 246, Mismatches: 28, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
46 214 0.87
47 32 0.13
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:7036445 original size:5 final size:5
Alignment explanation
Indices: 7036435--7036460 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7036425 AAGAAAATAT
7036435 TTAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA T
7036461 GTAATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TTAAA
Found at i:7036682 original size:2 final size:2
Alignment explanation
Indices: 7036675--7036793 Score: 84
Period size: 2 Copynumber: 61.5 Consensus size: 2
7036665 AAAGAGATTT
* * * * * *
7036675 GA GA GA GA GA GA AA GA AA AA GG GA GA GA GA GA GA GG GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
7036717 GA -A G- GA GA GG GA GA GA GA GA GA -A GA -A AA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * *
7036755 AA GA AA GA GG GG GA GG GA GA GA GA GA TA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
7036794 GGAGGGATGG
Statistics
Matches: 90, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
1 4 0.04
2 86 0.96
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.01
Consensus pattern (2 bp):
GA
Found at i:7036728 original size:30 final size:30
Alignment explanation
Indices: 7036694--7036865 Score: 119
Period size: 30 Copynumber: 5.8 Consensus size: 30
7036684 AGAAAGAAAA
7036694 AGGGAGAGAGAGAGAGGGAGGGAGAAGGAG
1 AGGGAGAGAGAGAGAGGGAGGGAGAAGGAG
*
7036724 AGGGAGAGAGAGAGA---A--GAAAAGAGAG
1 AGGGAGAGAGAGAGAGGGAGGGAGAAG-GAG
* * * *
7036750 AGAGAAAGAAAGAGGGGGAGGGAG-A-GAG
1 AGGGAGAGAGAGAGAGGGAGGGAGAAGGAG
** *
7036778 AGATAGAGAGAGAGAGGGAGGGATGGAGGGAG
1 AGGGAGAGAGAGAGAGGGAGGGA--GAAGGAG
* * *
7036810 AGGAAGAGGGAGAGAGGG-GGGA-AATGGGGG
1 AGGGAGAGAGAGAGAGGGAGGGAGAA--GGAG
*
7036840 AGGGAGAGAGAGAGAGAGGGGGGAGA
1 AGGGAGAGAGAGAGAG-GGAGGGAGA
7036866 TGGGGTAAGG
Statistics
Matches: 109, Mismatches: 18, Indels: 27
0.71 0.12 0.18
Matches are distributed among these distances:
25 5 0.05
26 14 0.13
27 1 0.01
28 23 0.21
29 1 0.01
30 34 0.31
31 8 0.07
32 22 0.20
33 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.57, T:0.02
Consensus pattern (30 bp):
AGGGAGAGAGAGAGAGGGAGGGAGAAGGAG
Found at i:7036798 original size:4 final size:4
Alignment explanation
Indices: 7036791--7036949 Score: 60
Period size: 4 Copynumber: 39.8 Consensus size: 4
7036781 TAGAGAGAGA
* * * *
7036791 GAGG GAGG GATG GAGG GAGAG GA-A GAGG GAGA GAGG G-GG GAAATG G-GG
1 GAGG GAGG GAGG GAGG GAG-G GAGG GAGG GAGG GAGG GAGG G--AGG GAGG
* * * * * *
7036839 GAGG GAGA GAGA GAGA GAGG G-GG GAGATG G-GG TAAG GAGG GAGG GAGA
1 GAGG GAGG GAGG GAGG GAGG GAGG GAG--G GAGG GAGG GAGG GAGG GAGG
** * * * * *
7036887 GAAT GAGG GAGG GAGG GAAG GAGG GAAG GAGG GAGA GAGA GAGA GAGG
1 GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG GAGG
*
7036935 G-GG AGAGA GAGG GAG
1 GAGG -GAGG GAGG GAG
7036950 ATAGGGAGAA
Statistics
Matches: 116, Mismatches: 27, Indels: 24
0.69 0.16 0.14
Matches are distributed among these distances:
3 13 0.11
4 94 0.81
5 5 0.04
6 4 0.03
ACGTcount: A:0.34, C:0.00, G:0.63, T:0.03
Consensus pattern (4 bp):
GAGG
Found at i:7036799 original size:72 final size:71
Alignment explanation
Indices: 7036676--7036857 Score: 185
Period size: 72 Copynumber: 2.6 Consensus size: 71
7036666 AAGAGATTTG
* * *
7036676 AGAGAGAGAGAAAGAAAA-AGGGA--GAGAGAGAGAGGGAGGGAGAAGGAGAGGGA-GAGAGAGA
1 AGAGAGAGAGAAAGAAAAGGGGGAGGGAGAGAGAGAGAGAGAGAGAAGGAGAGGGATG-GAGAGA
7036737 GAAGAAA
65 GAAGAAA
* *
7036744 AGAGAGAGAGAAAGAAAGAGGGGGAGGGAGAGAGAGATAGAGAGAGAGAGG-GAGGGATGGAGGG
1 AGAGAGAGAGAAAGAAA-AGGGGGAGGGAGAGAGAGAGAGAGAGAGA-AGGAGAGGGATGGAGAG
* *
7036808 AGAGGAAG
64 AGAAGAAA
* *** *
7036816 AGGGAGAGAGGGGGGAAATGGGGGAGGGAGAGAGAGAGAGAG
1 AGAGAGAGA-GAAAGAAAAGGGGGAGGGAGAGAGAGAGAGAG
7036858 GGGGGAGATG
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
68 17 0.18
69 1 0.01
70 4 0.04
72 63 0.67
73 9 0.10
ACGTcount: A:0.45, C:0.00, G:0.54, T:0.02
Consensus pattern (71 bp):
AGAGAGAGAGAAAGAAAAGGGGGAGGGAGAGAGAGAGAGAGAGAGAAGGAGAGGGATGGAGAGAG
AAGAAA
Found at i:7036806 original size:36 final size:35
Alignment explanation
Indices: 7036766--7036982 Score: 118
Period size: 32 Copynumber: 6.3 Consensus size: 35
7036756 AGAAAGAGGG
*
7036766 GGAGGGAGAGAGAGATAGAGAGAGAGAGGGAGGGAT
1 GGAGGGAGAGAGAGA-AGAGAGAGAGAGGGAGGGAA
*
7036802 GGA-GG-GAGAG-GAAGAGGGAGAGAGGG-GGGAAA
1 GGAGGGAGAGAGAGAAGAGAGAGAGAGGGAGGG-AA
* * *
7036834 TGG-GGGAGGGAGAGAGAGAGAGAGGGGGGAGATGGGGTAA
1 -GGAGGGAGAGAGAGA-AGAGAGAGAGAGG-GA--GGG-AA
* *
7036874 GGAGGGAGGGAGAGAA-TGAG-G-GAGGGAGGGAA
1 GGAGGGAGAGAGAGAAGAGAGAGAGAGGGAGGGAA
* *
7036906 GGAGGGA-AG-GAG-GGAGAGAGAGAGAGAGGG--
1 GGAGGGAGAGAGAGAAGAGAGAGAGAGGGAGGGAA
* * * * ** *
7036936 GGAGAGAGAGGGAGATAGGGAGAAAGAGGGAGATAG
1 GGAGGGAGAGAGAGA-AGAGAGAGAGAGGGAGGGAA
7036972 GGAGGGAGAGA
1 GGAGGGAGAGA
7036983 TATGAGTTGA
Statistics
Matches: 139, Mismatches: 22, Indels: 40
0.69 0.11 0.20
Matches are distributed among these distances:
30 12 0.09
31 7 0.05
32 34 0.24
33 9 0.06
34 21 0.15
35 6 0.04
36 25 0.18
37 2 0.01
38 3 0.02
39 3 0.02
40 17 0.12
ACGTcount: A:0.36, C:0.00, G:0.60, T:0.04
Consensus pattern (35 bp):
GGAGGGAGAGAGAGAAGAGAGAGAGAGGGAGGGAA
Found at i:7036869 original size:32 final size:33
Alignment explanation
Indices: 7036747--7036942 Score: 127
Period size: 32 Copynumber: 5.7 Consensus size: 33
7036737 GAAGAAAAGA
* * * *
7036747 GAGAGAGAAAGAAAGAGGGG-GA-GGGAGAGAGA
1 GAGAGAGAGAGAGAGGGGGGAGATGGGAG-GAGG
* *
7036779 GATAGAGAGAGAGAGGGAGG-GAT-GGAGGGAGAG
1 GAGAGAGAGAGAGAGGGGGGAGATGGGA-GGAG-G
* *
7036812 GA-AGAGGGAGAGAGGGGGGAAATGGG-GGAGG
1 GAGAGAGAGAGAGAGGGGGGAGATGGGAGGAGG
7036843 GAGAGAGAGAGAGAGGGGGGAGATGGGGTAAGGAGG
1 GAGAGAGAGAGAGAGGGGGGAGAT-GGG--AGGAGG
*
7036879 GAGGGAGAGAATGAGGGAGGGAGGGAAGGA-GGGAAGGAGG
1 GA--GAGAG-A-GAGAGAGGG-GGG-A-GATGGG-AGGAGG
7036919 GAGAGAGAGAGAGAGGGGGAGAGA
1 GAGAGAGAGAGAGAGGGGG-GAGA
7036943 GAGGGAGATA
Statistics
Matches: 133, Mismatches: 13, Indels: 34
0.74 0.07 0.19
Matches are distributed among these distances:
31 3 0.02
32 61 0.46
33 8 0.06
34 4 0.03
35 3 0.02
36 16 0.12
37 1 0.01
38 10 0.08
39 1 0.01
40 17 0.13
41 6 0.05
42 1 0.01
43 2 0.02
ACGTcount: A:0.37, C:0.00, G:0.60, T:0.03
Consensus pattern (33 bp):
GAGAGAGAGAGAGAGGGGGGAGATGGGAGGAGG
Found at i:7036881 original size:40 final size:40
Alignment explanation
Indices: 7036794--7036933 Score: 121
Period size: 40 Copynumber: 3.5 Consensus size: 40
7036784 AGAGAGAGAG
* * * *
7036794 GGAGGGATGGAGGGAGAG-GAAGAGGGAGAG-AGGGGGGAAA
1 GGAGGGAGGGAGAGAGAGAG-AGAGGGAGGGAAGGAGGG-AA
*
7036834 TGG-GGGAGGGAGAGAGAGAGAGAGGG-GGGAGATGG-GGTAA
1 -GGAGGGAGGGAGAGAGAGAGAGAGGGAGGGA-A-GGAGGGAA
*
7036874 GGAGGGAGGGAGAGA-ATGAGGGAGGGAGGGAAGGAGGGAA
1 GGAGGGAGGGAGAGAGA-GAGAGAGGGAGGGAAGGAGGGAA
*
7036914 GGAGGGAGAGAGAGAGAGAG
1 GGAGGGAGGGAGAGAGAGAG
7036934 GGGGAGAGAG
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
39 7 0.08
40 63 0.76
41 11 0.13
42 2 0.02
ACGTcount: A:0.34, C:0.00, G:0.62, T:0.04
Consensus pattern (40 bp):
GGAGGGAGGGAGAGAGAGAGAGAGGGAGGGAAGGAGGGAA
Found at i:7037076 original size:95 final size:99
Alignment explanation
Indices: 7036971--7037183 Score: 274
Period size: 107 Copynumber: 2.1 Consensus size: 99
7036961 GAGGGAGATA
*
7036971 GGGAGGGAGAGATATGAGTTGAGATGGAATGG-A-AA-AA-T-GGTTTATATAAGAAAAAAAAGT
1 GGGAGAGAGAGATATGAGTTGAGATGGAATGGAAGAATAATTAGGTTTATATAAG-AAAAAAAGT
* *
7037031 AGTCATTAGTAGGGGTTAAATGGATAGAGAGAGGG
65 AGTCATTAGTAGCGGTTAAATGGAGAGAGAGAGGG
7037066 GGGAGAGAGAGATATGAGTTGAGATGGAATGGAAAAATGAATTGAATTAAGGGTTTATATAAGAA
1 GGGAGAGAGAGATATGAGTTGAGATGGAATGG---AA-GAA-T-AATT-A-GGTTTATATAAGAA
*
7037131 AAAAAGTAGTCATTAGTAGCGGTTAAGTGGAGAGAGAGAGGG
58 AAAAAGTAGTCATTAGTAGCGGTTAAATGGAGAGAGAGAGGG
7037173 GGGAGAGAGAG
1 GGGAGAGAGAG
7037184 TGTGAGAGGG
Statistics
Matches: 101, Mismatches: 4, Indels: 14
0.85 0.03 0.12
Matches are distributed among these distances:
95 31 0.31
99 1 0.01
101 2 0.02
104 2 0.02
105 1 0.01
107 52 0.51
108 12 0.12
ACGTcount: A:0.41, C:0.01, G:0.37, T:0.21
Consensus pattern (99 bp):
GGGAGAGAGAGATATGAGTTGAGATGGAATGGAAGAATAATTAGGTTTATATAAGAAAAAAAGTA
GTCATTAGTAGCGGTTAAATGGAGAGAGAGAGGG
Found at i:7037167 original size:2 final size:2
Alignment explanation
Indices: 7037160--7037313 Score: 82
Period size: 2 Copynumber: 79.0 Consensus size: 2
7037150 CGGTTAAGTG
* * * * *
7037160 GA GA GA GA GA G- GG GG GA GA GA GA GT GT GA GA GG GA GA G- GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * *
7037200 G- GA AA GA GA GA GG GA GA GG GA GA GA G- GA GG GA GA GA GA AA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * * * * * *
7037240 GA GG GA TA GA GA GG GG GA GA GG GA GA GA GA GA GG GA GG GA GG
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* * * *
7037282 GT GA GA GA GA GT GA GT GA GA GT GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7037314 TTGAGTTGAG
Statistics
Matches: 112, Mismatches: 36, Indels: 8
0.72 0.23 0.05
Matches are distributed among these distances:
1 4 0.04
2 108 0.96
ACGTcount: A:0.38, C:0.00, G:0.58, T:0.05
Consensus pattern (2 bp):
GA
Found at i:7037404 original size:12 final size:12
Alignment explanation
Indices: 7037387--7037449 Score: 72
Period size: 12 Copynumber: 5.2 Consensus size: 12
7037377 AAGTGGAGAT
*
7037387 AGAGAGAGGGGG
1 AGAGAGAGAGGG
7037399 AGAGAGAGAGGG
1 AGAGAGAGAGGG
*
7037411 AGAGGGAGAGGG
1 AGAGAGAGAGGG
* *
7037423 AGAGGGAGAGAG
1 AGAGAGAGAGGG
* *
7037435 AGAGAAAGAGAG
1 AGAGAGAGAGGG
7037447 AGA
1 AGA
7037450 TATGAGTTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAGGG
Found at i:7037407 original size:6 final size:6
Alignment explanation
Indices: 7037382--7037449 Score: 64
Period size: 6 Copynumber: 11.3 Consensus size: 6
7037372 GGGTTAAGTG
* * * * * * *
7037382 GAGATA GAGAGA GGGGGA GAGAGA GAGGGA GAGGGA GAGGGA GAGGGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
*
7037430 GAGAGA GAGAAA GAGAGA GA
1 GAGAGA GAGAGA GAGAGA GA
7037450 TATGAGTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.43, C:0.00, G:0.56, T:0.01
Consensus pattern (6 bp):
GAGAGA
Found at i:7037408 original size:18 final size:18
Alignment explanation
Indices: 7037382--7037449 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 18
7037372 GGGTTAAGTG
* *
7037382 GAGATAGAGAGAGGGGGA
1 GAGAGAGAGAGAGAGGGA
*
7037400 GAGAGAGAGGGAGAGGGA
1 GAGAGAGAGAGAGAGGGA
* * *
7037418 GAGGGAGAGGGAGAGAGA
1 GAGAGAGAGAGAGAGGGA
*
7037436 GAGAAAGAGAGAGA
1 GAGAGAGAGAGAGA
7037450 TATGAGTTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.43, C:0.00, G:0.56, T:0.01
Consensus pattern (18 bp):
GAGAGAGAGAGAGAGGGA
Found at i:7039552 original size:5 final size:5
Alignment explanation
Indices: 7039542--7039567 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7039532 ATTGGAGGGA
7039542 GAGAT GAGAT GAGAT GAGAT GAGAT G
1 GAGAT GAGAT GAGAT GAGAT GAGAT G
7039568 GCTTTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.42, T:0.19
Consensus pattern (5 bp):
GAGAT
Found at i:7042156 original size:36 final size:36
Alignment explanation
Indices: 7042084--7042232 Score: 217
Period size: 36 Copynumber: 4.1 Consensus size: 36
7042074 GCTCAGGATG
* * * **
7042084 CTTATGAGAGGAAAATGAAATGTAAAACAGCATATCA
1 CTTATAAGAGGAAAATGAGAT-TTAAACAGTTTATCA
7042121 CTTATAAGAGGAAAATGAGATTTAAACAGTTTATCA
1 CTTATAAGAGGAAAATGAGATTTAAACAGTTTATCA
*
7042157 CTTATATGAGGAAAATGAGATTTAAACAGTTTATCA
1 CTTATAAGAGGAAAATGAGATTTAAACAGTTTATCA
*
7042193 CTTACAAGAGGAAAATGAGATTTAAAACAGTTTATCA
1 CTTATAAGAGGAAAATGAGATTT-AAACAGTTTATCA
7042230 CTT
1 CTT
7042233 CAGCAATTAT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
36 68 0.66
37 35 0.34
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (36 bp):
CTTATAAGAGGAAAATGAGATTTAAACAGTTTATCA
Found at i:7081311 original size:30 final size:30
Alignment explanation
Indices: 7081277--7081335 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
7081267 ATTATTATGT
7081277 CTATTTTCTAATGGAAGAAACAAAATAGGC
1 CTATTTTCTAATGGAAGAAACAAAATAGGC
7081307 CTATTTTCTAATGGAAGAAACAAAATAGG
1 CTATTTTCTAATGGAAGAAACAAAATAGG
7081336 TAAATGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (30 bp):
CTATTTTCTAATGGAAGAAACAAAATAGGC
Found at i:7085173 original size:32 final size:30
Alignment explanation
Indices: 7085137--7085208 Score: 87
Period size: 32 Copynumber: 2.4 Consensus size: 30
7085127 CAAATTTTAA
7085137 ATATATTTTTATAATTTT-TTTGAGTATTTTCT
1 ATATATTTTTA-AATTTTATTT-A-TATTTTCT
7085169 ATATATTTTTGAAATTTTATTTATATTTTCT
1 ATATATTTTT-AAATTTTATTTATATTTTCT
7085200 -TA-ATTTTTA
1 ATATATTTTTA
7085209 GAATCATGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
28 1 0.03
29 6 0.16
30 2 0.05
31 8 0.21
32 17 0.45
33 4 0.11
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (30 bp):
ATATATTTTTAAATTTTATTTATATTTTCT
Found at i:7085696 original size:15 final size:16
Alignment explanation
Indices: 7085676--7085708 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7085666 ATATATTTTT
7085676 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
7085691 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
7085708 T
1 T
7085709 ATAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:7085781 original size:21 final size:22
Alignment explanation
Indices: 7085755--7085813 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
7085745 ATTTTAAGAA
*
7085755 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
7085776 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
7085798 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
7085814 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:7085844 original size:25 final size:26
Alignment explanation
Indices: 7085784--7085832 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
7085774 ATTTGTTTTA
*
7085784 ATATTTG-TTT-TTATGTTTTTAAAT
1 ATATTTGATTTATTATATTTTTAAAT
7085808 ATATTTGATTTATTATATTTTTAAA
1 ATATTTGATTTATTATATTTTTAAA
7085833 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
ATATTTGATTTATTATATTTTTAAAT
Found at i:7088162 original size:13 final size:13
Alignment explanation
Indices: 7088144--7088184 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
7088134 ACTAGTAGTG
7088144 ACAATTTTATTGA
1 ACAATTTTATTGA
7088157 ACAATTTT-TATGA
1 ACAATTTTAT-TGA
7088170 GACAATTTTA-TGA
1 -ACAATTTTATTGA
7088183 AC
1 AC
7088185 CATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 3 0.12
13 14 0.56
14 8 0.32
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (13 bp):
ACAATTTTATTGA
Found at i:7095710 original size:18 final size:19
Alignment explanation
Indices: 7095680--7095727 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
7095670 TGGTTTTGGT
*
7095680 ATTTGAATTTGATAATTAA
1 ATTTGATTTTGATAATTAA
**
7095699 ATTT-ATTTTGATTTTTAA
1 ATTTGATTTTGATAATTAA
7095717 ATTTGATTTTG
1 ATTTGATTTTG
7095728 TCAAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.58
Consensus pattern (19 bp):
ATTTGATTTTGATAATTAA
Found at i:7107587 original size:5 final size:5
Alignment explanation
Indices: 7107577--7107611 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
7107567 TCCACCCAGG
7107577 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT
7107612 TGTTGGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
ATTGT
Found at i:7115524 original size:14 final size:14
Alignment explanation
Indices: 7115486--7115539 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
7115476 TTGTTTTAAA
7115486 TTATATAAT-TAAT
1 TTATATAATATAAT
*
7115499 GATATATAAATATAAT
1 -TTATAT-AATATAAT
7115515 TTATATAATATGAAT
1 TTATATAATAT-AAT
7115530 TTATGATAAT
1 TTAT-ATAAT
7115540 TAAAATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 10 0.29
15 15 0.44
16 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (14 bp):
TTATATAATATAAT
Found at i:7116038 original size:14 final size:14
Alignment explanation
Indices: 7115999--7116031 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7115989 AATATAAAAC
*
7115999 AAATAAATTAAATT
1 AAATAAATTAAAGT
7116013 AAATAAATTAAAGT
1 AAATAAATTAAAGT
7116027 AAATA
1 AAATA
7116032 GAATAAAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AAATAAATTAAAGT
Found at i:7116570 original size:12 final size:12
Alignment explanation
Indices: 7116553--7116595 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
7116543 TTGAGTAGAA
7116553 ATTTAATTAATT
1 ATTTAATTAATT
7116565 ATTTAAATTAATT
1 ATTT-AATTAATT
* * *
7116578 CTGTAATTAATA
1 ATTTAATTAATT
7116590 ATTTAA
1 ATTTAA
7116596 AATGTTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (12 bp):
ATTTAATTAATT
Found at i:7116978 original size:23 final size:23
Alignment explanation
Indices: 7116950--7116995 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7116940 AATGGCATGC
7116950 CATTGGATTTGTGATGTGATGAG
1 CATTGGATTTGTGATGTGATGAG
7116973 CATTGGATTTGTGATGTGATGAG
1 CATTGGATTTGTGATGTGATGAG
7116996 GAGATTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.04, G:0.35, T:0.39
Consensus pattern (23 bp):
CATTGGATTTGTGATGTGATGAG
Found at i:7117109 original size:27 final size:27
Alignment explanation
Indices: 7117071--7117136 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
7117061 TTTAATGCCT
7117071 TATTGGTGTGTTTGGGAGGATATGA-TA
1 TATTGGTGTGTTTGGGAGGATAT-ATTA
*
7117098 TATTGGTGTGTTTGGGAGGCTATATTA
1 TATTGGTGTGTTTGGGAGGATATATTA
*
7117125 TACTGGTGTGTT
1 TATTGGTGTGTT
7117137 ATGGAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.18, C:0.03, G:0.35, T:0.44
Consensus pattern (27 bp):
TATTGGTGTGTTTGGGAGGATATATTA
Found at i:7128966 original size:12 final size:12
Alignment explanation
Indices: 7128949--7128973 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7128939 TGATTTTTAG
7128949 AAAGAATCTACC
1 AAAGAATCTACC
7128961 AAAGAATCTACC
1 AAAGAATCTACC
7128973 A
1 A
7128974 CATCCATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAGAATCTACC
Found at i:7132015 original size:21 final size:19
Alignment explanation
Indices: 7131959--7132015 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 19
7131949 TATTATTAAA
7131959 TATTTAATTAAAATAATTTT
1 TATTTAA-TAAAATAATTTT
*
7131979 TA-TTAAAAATATATAATCTTT
1 TATTTAATAA-A-ATAAT-TTT
7132000 TATTTAATAAAGATAA
1 TATTTAATAAA-ATAA
7132016 ATTCATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.07
19 5 0.17
20 7 0.23
21 10 0.33
22 6 0.20
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
TATTTAATAAAATAATTTT
Found at i:7146573 original size:19 final size:19
Alignment explanation
Indices: 7146549--7146601 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
7146539 GATGTTGATT
*
7146549 TAAAAAATTTAAAAATGTA
1 TAAAAAATTTAAAAATATA
* *
7146568 TAAAAATTTTAAAATTATA
1 TAAAAAATTTAAAAATATA
* *
7146587 TGAAAAATTCAAAAA
1 TAAAAAATTTAAAAA
7146602 GCATATATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (19 bp):
TAAAAAATTTAAAAATATA
Found at i:7148737 original size:20 final size:21
Alignment explanation
Indices: 7148712--7148757 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
7148702 AGAAATATAC
*
7148712 TATACAT-AATATTCAAAATA
1 TATACATAAATAGTCAAAATA
7148732 TATACATGAAATAGTCAAAATA
1 TATACAT-AAATAGTCAAAATA
7148754 TATA
1 TATA
7148758 TACTACTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
22 16 0.70
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (21 bp):
TATACATAAATAGTCAAAATA
Found at i:7149501 original size:24 final size:22
Alignment explanation
Indices: 7149441--7149502 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
7149431 AACAATAGTA
7149441 ATAAAGATAAAAA-ATATATATAC
1 ATAAA-ATAAAAATA-ATATATAC
** *
7149464 ATAAAATAGTAATAATATATAT
1 ATAAAATAAAAATAATATATAC
7149486 ATAACTAATAAAAATAA
1 ATAA--AATAAAAATAA
7149503 AAATAAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 16 0.52
23 6 0.19
24 9 0.29
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (22 bp):
ATAAAATAAAAATAATATATAC
Found at i:7149902 original size:23 final size:22
Alignment explanation
Indices: 7149876--7149948 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
7149866 AATATATACG
7149876 TAATATATATATAGTAGTAACTA
1 TAATATATATATAGTAGTAA-TA
* *
7149899 TAATAAATATATATTAGTAATA
1 TAATATATATATAGTAGTAATA
* * *
7149921 -AATATAAAAATAATAGT-A-A
1 TAATATATATATAGTAGTAATA
7149940 TAATATATA
1 TAATATATA
7149949 AAAAGAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
19 1 0.02
20 8 0.19
21 13 0.31
22 2 0.05
23 18 0.43
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.37
Consensus pattern (22 bp):
TAATATATATATAGTAGTAATA
Found at i:7149951 original size:21 final size:22
Alignment explanation
Indices: 7149882--7149951 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 22
7149872 TACGTAATAT
*
7149882 ATATATAGTAGTAACTATAATAAA
1 ATATATAGTAATAA-TAT-ATAAA
7149906 TATATATTAGTAATAA-ATATAAA
1 -ATATA-TAGTAATAATATATAAA
7149929 A-ATAATAGTAATAATATATAAA
1 ATAT-ATAGTAATAATATATAAA
7149951 A
1 A
7149952 AGAAAATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 11 0.27
22 10 0.24
23 5 0.12
24 2 0.05
25 5 0.12
26 8 0.20
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (22 bp):
ATATATAGTAATAATATATAAA
Done.