Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 303 of 352
Found at i:99319791 original size:27 final size:28
Alignment explanation
Indices: 99319727--99319791 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
99319717 GTGAATGAAT
*
99319727 AATTAATTTTTTTTAAGAATGAAATAATT
1 AATTAA-TTTTTTTAAGAATGAAATAATC
* * *
99319756 AATT-TTTTTTTTAAGAATG-ATTGATC
1 AATTAATTTTTTTAAGAATGAAATAATC
99319782 AATTAATTTT
1 AATTAATTTT
99319792 ATCTTATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 8 0.27
27 18 0.60
29 4 0.13
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (28 bp):
AATTAATTTTTTTAAGAATGAAATAATC
Found at i:99319791 original size:30 final size:27
Alignment explanation
Indices: 99319719--99319775 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
99319709 AGATATAAGT
99319719 GAATG-AATAATTAA--TTTTTTTTAA
1 GAATGAAATAATTAATTTTTTTTTTAA
99319743 GAATGAAATAATTAATTTTTTTTTTAA
1 GAATGAAATAATTAATTTTTTTTTTAA
99319770 GAATGA
1 GAATGA
99319776 TTGATCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 5 0.17
25 9 0.30
27 16 0.53
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (27 bp):
GAATGAAATAATTAATTTTTTTTTTAA
Found at i:99320300 original size:16 final size:16
Alignment explanation
Indices: 99320267--99320300 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
99320257 AGGAATTGTT
* *
99320267 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
99320283 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
99320299 AA
1 AA
99320301 TACAAAGTGG
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:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:99323125 original size:21 final size:21
Alignment explanation
Indices: 99323099--99323139 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99323089 AGACGAGCAA
* *
99323099 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
99323120 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
99323140 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:99325072 original size:16 final size:16
Alignment explanation
Indices: 99325039--99325072 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
99325029 GGAGATTGTT
* *
99325039 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
99325055 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
99325071 AA
1 AA
99325073 TACAAAGTGG
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:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:99334260 original size:18 final size:19
Alignment explanation
Indices: 99334237--99334274 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
99334227 GGAAGCAAGC
*
99334237 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
99334255 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
99334274 A
1 A
99334275 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:99340711 original size:6 final size:6
Alignment explanation
Indices: 99340694--99340728 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
99340684 TCTGTTACAA
* *
99340694 CATCCT CTTCCT CATCCT CATCCT CGTCCT CATCC
1 CATCCT CATCCT CATCCT CATCCT CATCCT CATCC
99340729 GTTAAAGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.11, C:0.51, G:0.03, T:0.34
Consensus pattern (6 bp):
CATCCT
Found at i:99340717 original size:18 final size:18
Alignment explanation
Indices: 99340694--99340728 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99340684 TCTGTTACAA
*
99340694 CATCCTCTTCCTCATCCT
1 CATCCTCGTCCTCATCCT
99340712 CATCCTCGTCCTCATCC
1 CATCCTCGTCCTCATCC
99340729 GTTAAAGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.51, G:0.03, T:0.34
Consensus pattern (18 bp):
CATCCTCGTCCTCATCCT
Found at i:99342664 original size:12 final size:12
Alignment explanation
Indices: 99342647--99342676 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
99342637 ATTTAGTTTG
99342647 TTTATATTATTT
1 TTTATATTATTT
99342659 TTTATATTATTT
1 TTTATATTATTT
*
99342671 TATATA
1 TTTATA
99342677 AAAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:99342715 original size:25 final size:26
Alignment explanation
Indices: 99342682--99342746 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
99342672 ATATAAAAAT
*
99342682 AAATTTTAAAAATATAAT-ATTTTGA
1 AAATATTAAAAATATAATAATTTTGA
*
99342707 AAATATT-AAAATA-AATAATTTTTA
1 AAATATTAAAAATATAATAATTTTGA
99342731 ATAA-ATTAAAAATATA
1 A-AATATTAAAAATATA
99342747 TTAAAAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
23 3 0.09
24 16 0.47
25 14 0.41
26 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
AAATATTAAAAATATAATAATTTTGA
Found at i:99342724 original size:26 final size:23
Alignment explanation
Indices: 99342682--99342742 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 23
99342672 ATATAAAAAT
* *
99342682 AAATTTTAAAAATATAATATTTTGA
1 AAATATTAAAAAAATAAT-TTTT-A
99342707 AAATATTAAAATAAATAATTTTTA
1 AAATATTAAAA-AAATAATTTTTA
99342731 ATAA-ATTAAAAA
1 A-AATATTAAAAA
99342743 TATATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 1 0.03
24 9 0.28
25 16 0.50
26 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATATTAAAAAAATAATTTTTA
Found at i:99344210 original size:3 final size:3
Alignment explanation
Indices: 99344202--99344261 Score: 68
Period size: 3 Copynumber: 19.0 Consensus size: 3
99344192 AATATGGGTG
*
99344202 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATAA ACA ATA ATA CATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA
99344248 TATA TATA ATA ATA
1 -ATA -ATA ATA ATA
99344262 GTAGTCAGAA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.75
4 11 0.22
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:99344349 original size:3 final size:3
Alignment explanation
Indices: 99344336--99344415 Score: 51
Period size: 3 Copynumber: 26.3 Consensus size: 3
99344326 GAGGGCATAT
**
99344336 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA ATA
* *
99344383 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
99344416 AAAAATAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
2 8 0.13
3 42 0.70
4 9 0.15
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:99344358 original size:12 final size:12
Alignment explanation
Indices: 99344334--99344416 Score: 69
Period size: 12 Copynumber: 6.6 Consensus size: 12
99344324 GAGAGGGCAT
99344334 ATATAATATAATA
1 ATATAA-ATAATA
99344347 ATATAAATAATA
1 ATATAAATAATA
**
99344359 ATATATACATGAGGA
1 ATATA-A-AT-AATA
99344374 ATA-ATAATAATA
1 ATATA-AATAATA
99344386 ATATAAATAATA
1 ATATAAATAATA
* *
99344398 GTAAAAATAATA
1 ATATAAATAATA
*
99344410 AAATAAA
1 ATATAAA
99344417 AAAATAAAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
12 37 0.65
13 10 0.18
14 5 0.09
15 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:99344406 original size:27 final size:27
Alignment explanation
Indices: 99344334--99344422 Score: 71
Period size: 27 Copynumber: 3.4 Consensus size: 27
99344324 GAGAGGGCAT
* *
99344334 ATATAATATAATAATATAAATAATAAT-
1 ATATAA-ATAATAGTAAAAATAATAATA
* * * *
99344361 ATATACAT--GAGGAATAATAATAATA
1 ATATAAATAATAGTAAAAATAATAATA
99344386 ATATAAATAATAGTAAAAATAATAA-A
1 ATATAAATAATAGTAAAAATAATAATA
*
99344412 ATA-AAAAAATA
1 ATATAAATAATA
99344423 AAACAAAGCT
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
24 11 0.23
25 14 0.29
26 6 0.12
27 17 0.35
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (27 bp):
ATATAAATAATAGTAAAAATAATAATA
Found at i:99344854 original size:31 final size:31
Alignment explanation
Indices: 99344816--99344902 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
99344806 AGGCAAGTAA
*
99344816 AGTGGTTGGGGTGGTTTAGTGGAGTGGTTGG
1 AGTGGTTGGAGTGGTTTAGTGGAGTGGTTGG
* *
99344847 AGTGGTTGGAATGGTTTAGTAGAGTGGTTGG
1 AGTGGTTGGAGTGGTTTAGTGGAGTGGTTGG
99344878 AGTGGTTGGAGTGGTTTAGTGGAGT
1 AGTGGTTGGAGTGGTTTAGTGGAGT
99344903 AAAGTTATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.15, C:0.00, G:0.49, T:0.36
Consensus pattern (31 bp):
AGTGGTTGGAGTGGTTTAGTGGAGTGGTTGG
Found at i:99344856 original size:9 final size:9
Alignment explanation
Indices: 99344835--99344893 Score: 73
Period size: 9 Copynumber: 6.1 Consensus size: 9
99344825 GGTGGTTTAG
99344835 TGGAGTGGT
1 TGGAGTGGT
99344844 TGGAGTGGT
1 TGGAGTGGT
*
99344853 TGGAATGGTT
1 TGGAGTGG-T
99344863 TAGTAGAGTGGT
1 T-G--GAGTGGT
99344875 TGGAGTGGT
1 TGGAGTGGT
99344884 TGGAGTGGT
1 TGGAGTGGT
99344893 T
1 T
99344894 TAGTGGAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 33 0.75
10 2 0.05
11 2 0.05
12 2 0.05
13 5 0.11
ACGTcount: A:0.15, C:0.00, G:0.49, T:0.36
Consensus pattern (9 bp):
TGGAGTGGT
Found at i:99345223 original size:44 final size:44
Alignment explanation
Indices: 99345159--99346168 Score: 844
Period size: 44 Copynumber: 23.0 Consensus size: 44
99345149 TGAGTTCTTG
* * *
99345159 ATCTGCT-TCTTCGACCTGTTCCCCATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
99345202 ATCTGCTGTCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* * *
99345246 ATCTGTTATCTTC-AACTTGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * *
99345288 ATGCTGAAATCTTCGATCTGCTTCACC-GTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTC-CCTATAAGCACAGGGATGCCAA
* *
99345334 ATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAAGGATGCCAA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
* * * *
99345378 ATCTACTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * * *
99345420 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
99345466 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
99345510 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
99345552 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
99345598 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
99345642 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGTTGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
99345684 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
** *
99345730 ATCTATTATCTTCGATCTATTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
99345774 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
99345816 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
99345862 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * * *
99345906 ATCTGCTATCTTC-AACTTGTTCCCTATAAGCATAGGAATGTCAG
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * *
99345950 ATCTATTATCTTCGATCTGTTTCCTATAAGCACGGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
99345994 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
99346036 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
** *
99346082 ATCTATTATCTTCGATCTATTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
99346126 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCA
99346169 TGCTGAATCT
Statistics
Matches: 774, Mismatches: 151, Indels: 83
0.77 0.15 0.08
Matches are distributed among these distances:
42 12 0.02
43 78 0.10
44 586 0.76
45 86 0.11
46 12 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:99345425 original size:132 final size:132
Alignment explanation
Indices: 99345188--99346036 Score: 1287
Period size: 132 Copynumber: 6.4 Consensus size: 132
99345178 TCCCCATAAA
* * * * * * *
99345188 CACAGGGATGCCAAATCTGCTGTCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAAATCTGT
1 CACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGC
* * * *
99345252 TATCTTCAACTTGTTCCCTATAAGCACAGGGATTCCATGCTGAAATCTTCGATCTGCTTCACCGT
65 TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
99345317 AAG
130 AAG
* * *
99345320 CACAGGAATGTCAGATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAAGGATGCCAAATCTAC
1 CACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGC
99345384 TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
65 TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
99345449 AAG
130 AAG
*
99345452 CACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
99345517 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
99345582 AG
131 AG
99345584 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
99345649 GTTTTCAACTTGTTCCCTATAAGCACAGGGTTGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
99345714 AG
131 AG
** *
99345716 CACAGGAATGTCAGATCTATTATCTTCGATCTATTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
99345781 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
99345846 AG
131 AG
*
99345848 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGTCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
* * * * * * *
99345913 ATCTTCAACTTGTTCCCTATAAGCATAGGAATGTCA-GATCT-ATTATCTTCGATCTGTTTC-CT
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG--CTGA-AATCTTCGATCTGCTTCACT
*
99345975 ATAAG
128 GTAAG
* * * * * * *
99345980 CACGGGGATGCCAAATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCA
1 CACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCA
99346037 TGCTGAAATC
Statistics
Matches: 670, Mismatches: 42, Indels: 10
0.93 0.06 0.01
Matches are distributed among these distances:
131 3 0.00
132 648 0.97
133 19 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
AG
Found at i:99346070 original size:264 final size:263
Alignment explanation
Indices: 99345166--99346168 Score: 1240
Period size: 264 Copynumber: 3.8 Consensus size: 263
99345156 TTGATCTGCT
* * * * * *
99345166 TCTTCGACCTG-TTCCCCATAAACACAGGGATGCCAAATCTGCTGTCTTCAA-CTTGTTCCCTAT
1 TCTTCGATCTGCTTCACTATAAGCACAGGAATGCCAAATCTGCTATCTTCAATC-TGTTCCCTAT
* * *
99345229 AAACACAGGGATGCCAAATCTGTTATCTTCAACTTGTTCCCTATAAGCACAGGGATTCCATGCTG
65 AAGCACAGGGATGCC-AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
*
99345294 AAATCTTCGATCTGCTTCACCGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCT
129 AAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCT
* *
99345359 ATAAGCACAAGGATGCCAAATCTACTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
194 ATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
99345424 TGAAA
259 TGAAA
* * * * *
99345429 TCTTCGATCTGCTTCACTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATA
1 TCTTCGATCTGCTTCACTATAAGCACAGGAATGCCAAATCTGCTATCTTCAATCTGTTCCCTATA
* *
99345494 AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
66 AGCACAGGGATGCC-AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
*
99345559 AATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCTGTTCCCT
130 AATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACT-TGTTCCCT
*
99345623 ATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGTTGCCATGC
194 ATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
99345688 TGAAA
259 TGAAA
* * * ** * *
99345693 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTATTATCTTCGATCTATTCCCTATA
1 TCTTCGATCTGCTTCACTATAAGCACAGGAATGCCAAATCTGCTATCTTCAATCTGTTCCCTATA
* *
99345758 AGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
66 AGCACAGGGATGCC-AATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
*
99345823 AATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCTGTTCCCT
130 AATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACT-TGTTCCCT
* * * * * *
99345887 ATAAGCACAGGGATGTCAAATCTGCTATCTTCAACTTGTTCCCTATAAGCATAGGAATGTCA-GA
194 ATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG-
*
99345951 TCT-ATTA
258 -CTGA-AA
* * * * *
99345958 TCTTCGATCTGTTTC-CTATAAGCACGGGGATGCCAAATCTGCTGTTTTCAA-CTTGTTCCCTAT
1 TCTTCGATCTGCTTCACTATAAGCACAGGAATGCCAAATCTGCTATCTTCAATC-TGTTCCCTAT
** * * * * *
99346021 AAGCACAGGGATGCC-ATGCTGAAATCTTCGA-TCTGCTTCACTGTAAGCACAGGAATGTCA-GA
65 AAGCACAGGGATGCCAAT-CTGCTATCTTCAACT-TG-TTCCCTATAAGCACAGGGATGCCATG-
* * * * * * * * *
99346083 TCT-ATTATCTTCGATCT-ATTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGT
126 -CTGA-AATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGT
99346146 TCCCTATAAGCACAGGGATGCCA
189 TCCCTATAAGCACAGGGATGCCA
99346169 TGCTGAATCT
Statistics
Matches: 661, Mismatches: 65, Indels: 27
0.88 0.09 0.04
Matches are distributed among these distances:
262 3 0.00
263 24 0.04
264 602 0.91
265 32 0.05
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (263 bp):
TCTTCGATCTGCTTCACTATAAGCACAGGAATGCCAAATCTGCTATCTTCAATCTGTTCCCTATA
AGCACAGGGATGCCAATCTGCTATCTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AAA
Found at i:99346476 original size:206 final size:205
Alignment explanation
Indices: 99346175--99346559 Score: 581
Period size: 206 Copynumber: 1.9 Consensus size: 205
99346165 GCCATGCTGA
* *
99346175 ATCTTCGATCTGCTTCAGTATAAACATTTGAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGA
1 ATCTTCGATCTACTTCAGTATAAACATCTGAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGA
* *
99346240 AGTGGAGATACCAGGCTTCAATTAGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTT
66 AATGGAGATACCAGACTTCAATTAGTTCTCTGACAATACAGAGATG-CCAAATCATCTTAGATTT
* ** * * *
99346305 GCTTTAATGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAG
130 GCTTCAACATAAACACGCGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCTTGTAAGCACAAG
99346370 GATGCCAAACC
195 GATGCCAAACC
* * * * *
99346381 ATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCTTCCGTCGA
1 ATCTTCGATCTACTTCAGTATAAACATCTGAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGA
* * * *
99346446 AATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTG
66 AATGGAGATACCAGACTTCAATTAGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTG
*
99346511 CTTCAACATAAACACGCGAAAGCTAAATCAGCTATGTCTTCGATCTGCT
131 CTTCAACATAAACACGCGAAAGCCAAATCAGCTATGTCTTCGATCTGCT
99346560 TCAGTATAAA
Statistics
Matches: 159, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
205 61 0.38
206 98 0.62
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
ATCTTCGATCTACTTCAGTATAAACATCTGAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGA
AATGGAGATACCAGACTTCAATTAGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTG
CTTCAACATAAACACGCGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCCTTGTAAGCACAAGG
ATGCCAAACC
Found at i:99346641 original size:164 final size:166
Alignment explanation
Indices: 99346382--99346716 Score: 503
Period size: 165 Copynumber: 2.0 Consensus size: 166
99346372 TGCCAAACCA
* * * * * *
99346382 TCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCTTCCGTCGAA
1 TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
* *
99346447 ATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATG-CCAAATCATCTTAGATTTG
66 ATGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
* *
99346511 CTTCAACATAAACACGCGAAAGCTAAATCAGCTATG
131 CTTCAACATAAACACGCAAAAGCCAAATCAGCTATG
* *
99346547 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATC-AA
1 TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
*
99346611 GTGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
66 ATGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
* * * *
99346676 CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATG
131 CTTCAACATAAACACGCAAAAGCCAAATCAGCTATG
99346712 TCTTC
1 TCTTC
99346717 AATTTGTTCA
Statistics
Matches: 152, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
164 44 0.29
165 108 0.71
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (166 bp):
TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
ATGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
CTTCAACATAAACACGCAAAAGCCAAATCAGCTATG
Found at i:99346772 original size:370 final size:371
Alignment explanation
Indices: 99346176--99346929 Score: 1339
Period size: 370 Copynumber: 2.0 Consensus size: 371
99346166 CCATGCTGAA
*
99346176 TCTTCGATCTGCTTCAGTATAAACATTTGAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
1 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
*
99346241 GTGGAGATACCAGGCTTCAATTAGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
66 GTGGAGATACCAGACTTCAATTAGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
* * * * *
99346306 CTTTAATGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGG
131 CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGCTCATTGTAAACACAAGG
*
99346371 ATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGC
196 ATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTGC
*
99346436 CTTCCGTCGAAATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCAT
261 CTTCCGTCGAAATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATACCAAATCAT
99346501 CTTAGATTTGCTTCAACATAAACACGCGAAAGCTAAATCAGCTATG
326 CTTAGATTTGCTTCAACATAAACACGCGAAAGCTAAATCAGCTATG
99346547 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATC-AA
1 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
* *
99346611 GTGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
66 GTGGAGATACCAGACTTCAATTAGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
*
99346676 CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGTTCATTGTAAACACAAGG
131 CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGCTCATTGTAAACACAAGG
* *
99346741 ATGCCAAACTATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTTTGC
196 ATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTGC
*
99346806 CTTCCGTCGAAGTGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATACCAAATCAT
261 CTTCCGTCGAAATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATACCAAATCAT
* *
99346871 CTTAGATTTGCTTCAACGTAAACACGTGAAAGCTAAATCAGCTATG
326 CTTAGATTTGCTTCAACATAAACACGCGAAAGCTAAATCAGCTATG
*
99346917 TCTTTGATCTGCT
1 TCTTCGATCTGCT
99346930 CTCCGCCTGA
Statistics
Matches: 365, Mismatches: 18, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
370 304 0.83
371 61 0.17
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (371 bp):
TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCGAA
GTGGAGATACCAGACTTCAATTAGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTG
CTTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGCTCATTGTAAACACAAGG
ATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTCTGC
CTTCCGTCGAAATGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGATACCAAATCAT
CTTAGATTTGCTTCAACATAAACACGCGAAAGCTAAATCAGCTATG
Found at i:99346891 original size:205 final size:205
Alignment explanation
Indices: 99346547--99346920 Score: 579
Period size: 205 Copynumber: 1.8 Consensus size: 205
99346537 ATCAGCTATG
* * *
99346547 TCTTCGATCTGCTTCAGTATAAACATTTAAAGGTTGAATCTGCTATGTGTCTACCCTCCATCAAG
1 TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTACTATGTGTCTACCCTCCATCAAG
*
99346612 TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGCCCAAATCATCTTAGATTTGC
66 TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGACCAAATCATCTTAGATTTGC
* *
99346677 TTTAACGTAAGCACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGTTCATTGTAAACACAAGGA
131 TTCAACGTAAACACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGTTCATTGTAAACACAAGGA
99346742 TGCCAAACTA
196 TGCCAAACTA
* * * * * * *
99346752 TCTTGGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTACTATGTGTTTGCCTTCCGTCGAA
1 TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTACTATGTGTCTACCCTCCATC-AA
* *
99346817 GTGGAGATGCTAGACTTCGATTTGTTCTCTGACAATACAGAGAT-ACCAAATCATCTTAGATTTG
65 GTGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGACCAAATCATCTTAGATTTG
* *
99346881 CTTCAACGTAAACACGTGAAAGCTAAATCAGCTATGTCTT
130 CTTCAACGTAAACACGTAAAAGCCAAATCAGCTATGTCTT
99346921 TGATCTGCTC
Statistics
Matches: 151, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
205 107 0.71
206 44 0.29
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (205 bp):
TCTTCGATCTACTTCAGTATAAACATCTAAAGGTTGAATCTACTATGTGTCTACCCTCCATCAAG
TGGAGATGCCAGACTTCAATTTGTTCTCTGACAATACAGAGATGACCAAATCATCTTAGATTTGC
TTCAACGTAAACACGTAAAAGCCAAATCAGCTATGTCTTCAATTTGTTCATTGTAAACACAAGGA
TGCCAAACTA
Found at i:99347192 original size:61 final size:64
Alignment explanation
Indices: 99347075--99347199 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 64
99347065 TCATGTATCC
99347075 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* *
99347139 ATGCTTTATGTCAAATAATTAGGATG-T-T-A-TGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
99347200 TTATTGTAGA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 31 0.53
62 1 0.02
63 1 0.02
64 5 0.09
65 20 0.34
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.33
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:99348340 original size:12 final size:12
Alignment explanation
Indices: 99348325--99348358 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
99348315 TTTTAAAAAT
99348325 TTTTGTTTTTTG
1 TTTTGTTTTTTG
99348337 TTTTGTTTTTTG
1 TTTTGTTTTTTG
*
99348349 -TATGTTTTTT
1 TTTTGTTTTTT
99348359 TAGGGCTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.03, C:0.00, G:0.15, T:0.82
Consensus pattern (12 bp):
TTTTGTTTTTTG
Found at i:99351617 original size:19 final size:20
Alignment explanation
Indices: 99351593--99351639 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
99351583 AGTGAAAGTT
99351593 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
99351612 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
99351632 -AATGCAAA
1 TAATGCAAA
99351640 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:99354265 original size:122 final size:120
Alignment explanation
Indices: 99354016--99354241 Score: 284
Period size: 116 Copynumber: 1.9 Consensus size: 120
99354006 TATAATGATA
* * *
99354016 ATAATAATAATATTAAAGTAAAGTAAATAATAATACTATATATAAAATATATATATGTATATAAT
1 ATAATAAAAATATTAAAGTAAAGTAAAAAAAAATACTATATAT-AAATATATATA-GTATATAAT
* * *
99354081 AGAAATACACACTACTATATAATAATAATAATAAATATAGAAATACAAAAAGCAAAT
64 AGAAATACACACTAATATATAATAATAATAATAAATACAAAAATACAAAAAGCAAAT
* *
99354138 ATAATAAAAATATTAAATTAAAGTAATAAAAAAATACTATATAT-AA-ATATATA-TATA-CATA
1 ATAATAAAAATATTAAAGTAAAGTAA-AAAAAAATACTATATATAAATATATATAGTATATAATA
* *
99354199 -AAATATACACTAATATATAATAATAATAGT-AATAGCAAAAATA
65 GAAATACACACTAATATATAATAATAATAATAAATA-CAAAAATA
99354242 ATGAAAATAT
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
115 4 0.04
116 33 0.36
117 3 0.03
118 4 0.04
120 7 0.08
121 2 0.02
122 24 0.26
123 15 0.16
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (120 bp):
ATAATAAAAATATTAAAGTAAAGTAAAAAAAAATACTATATATAAATATATATAGTATATAATAG
AAATACACACTAATATATAATAATAATAATAAATACAAAAATACAAAAAGCAAAT
Found at i:99354315 original size:3 final size:3
Alignment explanation
Indices: 99354307--99354360 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
99354297 AATAGGGGTG
*
99354307 ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA TATA TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA
99354355 ATA ATA
1 ATA ATA
99354361 GTAGTTAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 34 0.74
4 11 0.24
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:99354457 original size:12 final size:12
Alignment explanation
Indices: 99354434--99354512 Score: 69
Period size: 12 Copynumber: 6.9 Consensus size: 12
99354424 AGAGGGCATA
99354434 AATAATAT-AAT
1 AATAATATAAAT
99354445 AATAATATAAAT
1 AATAATATAAAT
99354457 AATAATAT--AT
1 AATAATATAAAT
* *
99354467 ACAT--GAGAAAT
1 A-ATAATATAAAT
99354478 AATAATATAAAT
1 AATAATATAAAT
* *
99354490 AATAGTAAAAAT
1 AATAATATAAAT
*
99354502 AATAAAATAAA
1 AATAATATAAA
99354513 AAAATAAAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
9 1 0.02
10 5 0.09
11 13 0.25
12 34 0.64
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:99354502 original size:21 final size:21
Alignment explanation
Indices: 99354433--99354511 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 21
99354423 GAGAGGGCAT
* *
99354433 AAATAATAT-AATAATAATAT
1 AAATAATATAAATAATAGTAA
*
99354453 AAATAATAATATATACATGAG-AA
1 AAATAAT-ATAAATA-AT-AGTAA
99354476 ATAATAATATAAATAATAGTAA
1 A-AATAATATAAATAATAGTAA
99354498 AAATAATA-AAATAA
1 AAATAATATAAATAA
99354512 AAAAATAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 13 0.27
21 11 0.22
22 8 0.16
23 10 0.20
24 7 0.14
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (21 bp):
AAATAATATAAATAATAGTAA
Found at i:99355583 original size:37 final size:37
Alignment explanation
Indices: 99355518--99355663 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
99355508 TACGTATGAT
* *
99355518 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
99355553 CACCTATCACTTTGTTTCTTGATCACATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
99355590 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
99355627 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
99355664 TAAAGCTATC
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 90 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:99355680 original size:46 final size:46
Alignment explanation
Indices: 99355627--99355843 Score: 281
Period size: 46 Copynumber: 4.6 Consensus size: 46
99355617 TAAGTGTAGC
* * *
99355627 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
99355673 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* *
99355719 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * * *
99355765 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
99355817 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
99355844 AGTACTCAAA
Statistics
Matches: 152, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
46 111 0.73
48 1 0.01
50 1 0.01
52 39 0.26
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
Found at i:99355797 original size:52 final size:52
Alignment explanation
Indices: 99355716--99355829 Score: 149
Period size: 52 Copynumber: 2.2 Consensus size: 52
99355706 TAGCCGAAGC
* **
99355716 TATCACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* * *
99355769 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
99355821 TATCACTTT
1 TATCACTTT
99355830 ATCACTTGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
52 43 0.80
53 11 0.20
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (52 bp):
TATCACTTTCACTTTATCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:99357876 original size:13 final size:13
Alignment explanation
Indices: 99357858--99357942 Score: 96
Period size: 13 Copynumber: 7.2 Consensus size: 13
99357848 TACAGTTGGG
99357858 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
*
99357871 GTGGTTTAGTGTA
1 GTGGTTTAGTGGA
99357884 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
99357897 GTGG--T--TGGA
1 GTGGTTTAGTGGA
*
99357906 GTGGTTTAGTAGA
1 GTGGTTTAGTGGA
99357919 GTGG--T--TGGA
1 GTGGTTTAGTGGA
99357928 GTGGTTTAGTGGA
1 GTGGTTTAGTGGA
99357941 GT
1 GT
99357943 AAAGATATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
9 15 0.25
11 4 0.07
13 41 0.68
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.39
Consensus pattern (13 bp):
GTGGTTTAGTGGA
Found at i:99357909 original size:22 final size:22
Alignment explanation
Indices: 99357852--99357942 Score: 128
Period size: 22 Copynumber: 4.0 Consensus size: 22
99357842 GGCTATTACA
*
99357852 GTTGGGGTGGTTTAGTGGAGTG
1 GTTGGAGTGGTTTAGTGGAGTG
99357874 GTTTAGTGTAGTGGTTTAGTGGAGTG
1 G-TT-G-G-AGTGGTTTAGTGGAGTG
*
99357900 GTTGGAGTGGTTTAGTAGAGTG
1 GTTGGAGTGGTTTAGTGGAGTG
99357922 GTTGGAGTGGTTTAGTGGAGT
1 GTTGGAGTGGTTTAGTGGAGT
99357943 AAAGATATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
22 37 0.60
23 3 0.05
24 2 0.03
25 3 0.05
26 17 0.27
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.38
Consensus pattern (22 bp):
GTTGGAGTGGTTTAGTGGAGTG
Found at i:99357941 original size:35 final size:35
Alignment explanation
Indices: 99357852--99357942 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
99357842 GGCTATTACA
*
99357852 GTTGGGGTGGTTTAGTGGAGTGGTTTAGTGTAGTG
1 GTTGGAGTGGTTTAGTGGAGTGGTTTAGTGTAGTG
* ** *
99357887 GTT-TAGTGGAGTGGTTGGAGTGGTTTAGTAG-AGTG
1 GTTGGAGTGGTTTAG-TGGAGTGGTTTAGT-GTAGTG
99357922 GTTGGAGTGGTTTAGTGGAGT
1 GTTGGAGTGGTTTAGTGGAGT
99357943 AAAGATATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
34 6 0.14
35 30 0.68
36 8 0.18
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.38
Consensus pattern (35 bp):
GTTGGAGTGGTTTAGTGGAGTGGTTTAGTGTAGTG
Found at i:99359751 original size:27 final size:27
Alignment explanation
Indices: 99359711--99359763 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
99359701 TAAATGGGTT
*
99359711 GAGGGCATGTCAGAGGCGGCACCAGTG
1 GAGGGCATGCCAGAGGCGGCACCAGTG
*
99359738 GAGGGCATGCCAGAGGCTGCACCAGT
1 GAGGGCATGCCAGAGGCGGCACCAGT
99359764 TGTGCCTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.42, T:0.11
Consensus pattern (27 bp):
GAGGGCATGCCAGAGGCGGCACCAGTG
Found at i:99360015 original size:39 final size:43
Alignment explanation
Indices: 99359971--99360053 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 43
99359961 TATTATATAG
*
99359971 TTTGTTTAGTGTTATTT-TTA-T-A-TTTTGT-TTTAAAGTTAT
1 TTTGTTTAGTGTAATTTGTTAGTAAGTTTTGTGTTTAAA-TTAT
*
99360010 TTTGTTTATTGTAATTTGTTAGTAAGTTTTGTGTTTAAATTAT
1 TTTGTTTAGTGTAATTTGTTAGTAAGTTTTGTGTTTAAATTAT
99360053 T
1 T
99360054 GAGAATGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
39 15 0.41
40 3 0.08
41 1 0.03
42 1 0.03
43 11 0.30
44 6 0.16
ACGTcount: A:0.22, C:0.00, G:0.14, T:0.64
Consensus pattern (43 bp):
TTTGTTTAGTGTAATTTGTTAGTAAGTTTTGTGTTTAAATTAT
Found at i:99364006 original size:33 final size:33
Alignment explanation
Indices: 99363969--99364114 Score: 122
Period size: 33 Copynumber: 4.4 Consensus size: 33
99363959 AGTGCCATAG
*
99363969 TGCGGTGGATACGA-CTCAGGAGGAATGGA-T-TAC
1 TGCGGTGGATACGAGC-CAGAAGGAAT--ACTGTAC
*
99364002 TGCGGTGGATACGAGCCAGAAGGACTACTGTAC
1 TGCGGTGGATACGAGCCAGAAGGAATACTGTAC
**
99364035 TGCGGTGGATACGAGCCTAG-AGGAATGTTGTAC
1 TGCGGTGGATACGAGCC-AGAAGGAATACTGTAC
* * * * *
99364068 AGCAGTGGATACGGGCCCGGAA-GAATACTATAC
1 TGCGGTGGATACGAG-CCAGAAGGAATACTGTAC
*
99364101 TGTGGTGGATACGA
1 TGCGGTGGATACGA
99364115 CTCAAAGATA
Statistics
Matches: 91, Mismatches: 16, Indels: 12
0.76 0.13 0.10
Matches are distributed among these distances:
31 1 0.01
32 1 0.01
33 83 0.91
34 6 0.07
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (33 bp):
TGCGGTGGATACGAGCCAGAAGGAATACTGTAC
Found at i:99364270 original size:6 final size:6
Alignment explanation
Indices: 99364261--99364286 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
99364251 AGGCTCGTAA
99364261 TCTGGC TCTGGC TCTGGC TCTGGC TC
1 TCTGGC TCTGGC TCTGGC TCTGGC TC
99364287 GACCTCTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.31, T:0.35
Consensus pattern (6 bp):
TCTGGC
Found at i:99366257 original size:26 final size:26
Alignment explanation
Indices: 99366228--99366338 Score: 74
Period size: 26 Copynumber: 4.4 Consensus size: 26
99366218 GGTATATAAA
*
99366228 AAATAGATAATACATATAAAAATTTG
1 AAATAGATAATACATAAAAAAATTTG
* *
99366254 AAATTGATAATATATAAAAAAA-TT-
1 AAATAGATAATACATAAAAAAATTTG
* *
99366278 -AA-AG-TGAATA-ATAAAACAATTTA
1 AAATAGAT-AATACATAAAAAAATTTG
* *
99366301 AAAT-GAATAATACATAAAACAAGTTTA
1 AAATAG-ATAATACATAAAA-AAATTTG
*
99366328 AAATAAATAAT
1 AAATAGATAAT
99366339 GTATAAAGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
21 9 0.13
22 7 0.10
23 2 0.03
24 3 0.04
25 6 0.09
26 26 0.39
27 14 0.21
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (26 bp):
AAATAGATAATACATAAAAAAATTTG
Found at i:99366293 original size:21 final size:22
Alignment explanation
Indices: 99366262--99366312 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
99366252 TGAAATTGAT
*
99366262 AATATATAAAA-AAATTAAAGTG
1 AATA-ATAAAACAAATTAAAATG
*
99366284 AATAATAAAACAATTTAAAATG
1 AATAATAAAACAAATTAAAATG
99366306 AATAATA
1 AATAATA
99366313 CATAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (22 bp):
AATAATAAAACAAATTAAAATG
Found at i:99366345 original size:27 final size:26
Alignment explanation
Indices: 99366284--99366338 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 26
99366274 AATTAAAGTG
*
99366284 AATA-ATAAAACAATTTAAAATGAAT
1 AATACATAAAACAATTTAAAATAAAT
99366309 AATACATAAAACAAGTTTAAAATAAAT
1 AATACATAAAACAA-TTTAAAATAAAT
99366336 AAT
1 AAT
99366339 GTATAAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 4 0.15
26 9 0.33
27 14 0.52
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (26 bp):
AATACATAAAACAATTTAAAATAAAT
Found at i:99368176 original size:16 final size:18
Alignment explanation
Indices: 99368155--99368193 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
99368145 TATTTAAATA
*
99368155 AAAAAATTAAA-A-ATTT
1 AAAAAATCAAATATATTT
99368171 AAAAAATCAAATATATTT
1 AAAAAATCAAATATATTT
99368189 AAAAA
1 AAAAA
99368194 CATAAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 1 0.05
18 9 0.45
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAAATCAAATATATTT
Found at i:99368228 original size:21 final size:21
Alignment explanation
Indices: 99368179--99368237 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
99368169 TTAAAAAATC
*
99368179 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
99368199 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
99368221 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
99368238 TTCTTAAAAT
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:99370774 original size:12 final size:12
Alignment explanation
Indices: 99370759--99370784 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
99370749 TTCTCTTTTT
99370759 TTTTTTCTTTCC
1 TTTTTTCTTTCC
99370771 TTTTTTCTTTCC
1 TTTTTTCTTTCC
99370783 TT
1 TT
99370785 GTTGCCCTTC
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTCTTTCC
Found at i:99375092 original size:6 final size:6
Alignment explanation
Indices: 99375081--99375105 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
99375071 AGTTAATGTA
99375081 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
99375106 CACCAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:99377590 original size:29 final size:29
Alignment explanation
Indices: 99377552--99377629 Score: 129
Period size: 29 Copynumber: 2.6 Consensus size: 29
99377542 ATGATTTATG
99377552 TATGTAAATTATTTTTTCTTTGATATTCAT
1 TATG-AAATTATTTTTTCTTTGATATTCAT
*
99377582 TATGAAATTATTTCTTCTTTGATATTCAT
1 TATGAAATTATTTTTTCTTTGATATTCAT
99377611 TATGAAATTATTTCTTTCT
1 TATGAAATTATTT-TTTCT
99377630 ATAATTGAGC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 37 0.82
30 8 0.18
ACGTcount: A:0.27, C:0.09, G:0.06, T:0.58
Consensus pattern (29 bp):
TATGAAATTATTTTTTCTTTGATATTCAT
Found at i:99378553 original size:17 final size:18
Alignment explanation
Indices: 99378531--99378565 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
99378521 AATATGTTGA
*
99378531 TAATTAAT-TTAAATTTT
1 TAATTAATATAAAATTTT
99378548 TAATTAATATAAAATTTT
1 TAATTAATATAAAATTTT
99378566 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTAATATAAAATTTT
Found at i:99385737 original size:29 final size:30
Alignment explanation
Indices: 99385694--99385756 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
99385684 ATAGCCTATG
* *
99385694 TTTTTATAATTTTTTAAGGGCTAAATTAAA
1 TTTTTATAATTTTTTAAGGCCAAAATTAAA
*
99385724 TTTTTATAATTTTTT-AGGCCAAAATTTAA
1 TTTTTATAATTTTTTAAGGCCAAAATTAAA
99385753 TTTT
1 TTTT
99385757 ACTATTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (30 bp):
TTTTTATAATTTTTTAAGGCCAAAATTAAA
Found at i:99385765 original size:29 final size:29
Alignment explanation
Indices: 99385694--99385765 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
99385684 ATAGCCTATG
* *
99385694 TTTTTATAATTTTTTAAGGGCTAAATTAAA
1 TTTTTAT-ATTTTTTAAGGCCAAAATTAAA
*
99385724 TTTTTATAATTTTTT-AGGCCAAAATTTAA
1 TTTTTAT-ATTTTTTAAGGCCAAAATTAAA
99385753 -TTTTACTATTTTT
1 TTTTTA-TATTTTT
99385766 GAGTCTCTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 11 0.29
29 12 0.32
30 15 0.39
ACGTcount: A:0.32, C:0.06, G:0.07, T:0.56
Consensus pattern (29 bp):
TTTTTATATTTTTTAAGGCCAAAATTAAA
Found at i:99391262 original size:21 final size:21
Alignment explanation
Indices: 99391229--99391281 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
99391219 TTCGAAGTTC
*
99391229 AAGGTTC-GAGTTTAGGGTTT
1 AAGGTTCGGAGTTTAGGATTT
*
99391249 AAGGTTTGGAGTTTAGGATTT
1 AAGGTTCGGAGTTTAGGATTT
*
99391270 TAGGTTCGGAGT
1 AAGGTTCGGAGT
99391282 AAAAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.21, C:0.04, G:0.36, T:0.40
Consensus pattern (21 bp):
AAGGTTCGGAGTTTAGGATTT
Found at i:99392812 original size:22 final size:24
Alignment explanation
Indices: 99392776--99392821 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
99392766 TTTTATGTGT
99392776 TTTTATAATTAATTTTAAATAATA
1 TTTTATAATTAATTTTAAATAATA
*
99392800 TTTTAT-ATT-ATTTTTAATAATA
1 TTTTATAATTAATTTTAAATAATA
99392822 AAACGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 3 0.14
24 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTATAATTAATTTTAAATAATA
Found at i:99401664 original size:21 final size:22
Alignment explanation
Indices: 99401640--99401683 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
99401630 TTATTATGCC
*
99401640 ATTTTTAAAAAGTACATA-AAA
1 ATTTTCAAAAAGTACATACAAA
*
99401661 ATTTTCAAAAAGTTCATACAAA
1 ATTTTCAAAAAGTACATACAAA
99401683 A
1 A
99401684 AAATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.32
Consensus pattern (22 bp):
ATTTTCAAAAAGTACATACAAA
Found at i:99402140 original size:21 final size:21
Alignment explanation
Indices: 99402089--99402144 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
99402079 AATAGCGGTG
*
99402089 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
** * *
99402110 ATGGTAAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
99402131 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
99402145 AACAATGGTG
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.07, G:0.34, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:99403923 original size:9 final size:9
Alignment explanation
Indices: 99403909--99403964 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
99403899 AAAGTCGTAA
99403909 AAAAATTAT
1 AAAAATTAT
99403918 AAAAA-TAT
1 AAAAATTAT
*
99403926 AAAAA-AAT
1 AAAAATTAT
99403934 ATAAAATTGAT
1 A-AAAATT-AT
99403945 AACAAAATTAT
1 -A-AAAATTAT
99403956 AAAAATTAT
1 AAAAATTAT
99403965 TGTTTTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
8 11 0.28
9 17 0.43
10 1 0.03
11 4 0.10
12 7 0.17
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:99403928 original size:19 final size:20
Alignment explanation
Indices: 99403906--99403961 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
99403896 TGTAAAGTCG
99403906 TAAAAAAATTATAAAAAT-A
1 TAAAAAAATTATAAAAATGA
*
99403925 TAAAAAAA-TATAAAATTGA
1 TAAAAAAATTATAAAAATGA
*
99403944 TAACAAAATTATAAAAAT
1 TAAAAAAATTATAAAAAT
99403962 TATTGTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.25
19 16 0.50
20 8 0.25
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAAAATTATAAAAATGA
Found at i:99403931 original size:10 final size:10
Alignment explanation
Indices: 99403906--99403939 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
99403896 TGTAAAGTCG
99403906 TAAAAAAAT-
1 TAAAAAAATA
*
99403915 TATAAAAATA
1 TAAAAAAATA
99403925 TAAAAAAATA
1 TAAAAAAATA
99403935 TAAAA
1 TAAAA
99403940 TTGATAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:99404151 original size:18 final size:18
Alignment explanation
Indices: 99404130--99404165 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
99404120 TTTTTATGCG
99404130 TTTTATAAATTTTATACAT
1 TTTTAT-AATTTTATACAT
*
99404149 TTTTATAATTTTTTACA
1 TTTTATAATTTTATACA
99404166 AATTTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATAATTTTATACAT
Found at i:99404152 original size:10 final size:9
Alignment explanation
Indices: 99404130--99404213 Score: 57
Period size: 10 Copynumber: 9.1 Consensus size: 9
99404120 TTTTTATGCG
*
99404130 TTTTATAAA
1 TTTTATAAT
99404139 TTTTATACAT
1 TTTTATA-AT
99404149 TTTTATAATT
1 TTTTATAA-T
*
99404159 TTTTACAAAT
1 TTTTA-TAAT
*
99404169 TTTT-TATT
1 TTTTATAAT
*
99404177 TTTTCTAAT
1 TTTTATAAT
*
99404186 TTTTAATTAT
1 TTTT-ATAAT
99404196 TTTTA-AAT
1 TTTTATAAT
99404204 ATTTT-TAAT
1 -TTTTATAAT
99404213 T
1 T
99404214 AAAATTTAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
8 9 0.15
9 23 0.38
10 26 0.43
11 2 0.03
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:99404177 original size:18 final size:17
Alignment explanation
Indices: 99404156--99404210 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
99404146 CATTTTTATA
99404156 ATTTTTTACAAATTTTTT
1 ATTTTTT-CAAATTTTTT
* *
99404174 ATTTTTTCTAATTTTTA
1 ATTTTTTCAAATTTTTT
*
99404191 ATTATTTTTAAATATTTTT
1 ATT-TTTTCAAAT-TTTTT
99404210 A
1 A
99404211 ATTAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 11 0.37
18 14 0.47
19 5 0.17
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTTTCAAATTTTTT
Found at i:99404186 original size:17 final size:18
Alignment explanation
Indices: 99404156--99404189 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
99404146 CATTTTTATA
99404156 ATTTTTTACAAATTTTTT
1 ATTTTTTACAAATTTTTT
*
99404174 ATTTTTT-CTAATTTTT
1 ATTTTTTACAAATTTTT
99404190 AATTATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTACAAATTTTTT
Found at i:99404732 original size:20 final size:20
Alignment explanation
Indices: 99404709--99404754 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
99404699 TTTTTATCAC
99404709 AAATAATGACATTTTAATTT
1 AAATAATGACATTTTAATTT
* * *
99404729 AAATAATGGCGTTTTATTTT
1 AAATAATGACATTTTAATTT
99404749 AAATAA
1 AAATAA
99404755 ATAAATAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (20 bp):
AAATAATGACATTTTAATTT
Found at i:99415470 original size:3 final size:3
Alignment explanation
Indices: 99415457--99415490 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
99415447 AAGTCAAAGG
*
99415457 TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
99415491 CACTTATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:99424117 original size:15 final size:15
Alignment explanation
Indices: 99424099--99424131 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
99424089 AAAAAAGCTG
99424099 AAAGCAAAATAAAAT
1 AAAGCAAAATAAAAT
*
99424114 AAAGTAAAATAAAAT
1 AAAGCAAAATAAAAT
99424129 AAA
1 AAA
99424132 AGCTAACCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAGCAAAATAAAAT
Found at i:99426861 original size:21 final size:21
Alignment explanation
Indices: 99426814--99426868 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
99426804 ACCGCTGTTT
* * *
99426814 CTAATCTCATCGCTACATTAT
1 CTAATCTCACCGCTACAGTAA
*
99426835 CCAATCTCACCGCTACAGTAA
1 CTAATCTCACCGCTACAGTAA
*
99426856 CTAATCTGACCGC
1 CTAATCTCACCGC
99426869 CATCGCTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.09, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAA
Found at i:99432413 original size:38 final size:39
Alignment explanation
Indices: 99432361--99432442 Score: 130
Period size: 38 Copynumber: 2.1 Consensus size: 39
99432351 ATTAATATCA
* *
99432361 CATTTGATCATCAATAGATTTTGGATCACTTCGGTTTCC
1 CATTTGATCATCAATACATTTTGGATCACTTCGATTTCC
*
99432400 CATTT-ATCATCAATACATTTTGGATCACTTCGATTTCT
1 CATTTGATCATCAATACATTTTGGATCACTTCGATTTCC
99432438 CATTT
1 CATTT
99432443 CATATTATCC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 35 0.88
39 5 0.12
ACGTcount: A:0.24, C:0.21, G:0.11, T:0.44
Consensus pattern (39 bp):
CATTTGATCATCAATACATTTTGGATCACTTCGATTTCC
Found at i:99432859 original size:128 final size:128
Alignment explanation
Indices: 99432656--99432906 Score: 369
Period size: 128 Copynumber: 2.0 Consensus size: 128
99432646 AGAATCAGAG
* *
99432656 TCTGGCAAAATATATCTGCCGAAGAAATGATTAAAGATTCTATCTCAGGTTATTCTAGTGTTTAA
1 TCTGGCAAAATATATCTGCCAAAGAAATGATTAAAGATTCTATCTCAGGTTATTCTAGTATTTAA
* * * * *
99432721 GAAAATGATATGATAAGTAAAGAGTAAGCCTGGTGAGGTTAACCGCTAAAGGTATAGTGTGCC
66 GAAAAGGATATGATAAGTAAAGAGTAAGCATGATGAGGCTAACCACTAAAGGTATAGTGTGCC
* * *
99432784 TCTGGCAAAA-AGTATCTTCCAAAGAAATGATTAAAGATTCTATCTTAGGTTATTCTATTATTTA
1 TCTGGCAAAATA-TATCTGCCAAAGAAATGATTAAAGATTCTATCTCAGGTTATTCTAGTATTTA
* * *
99432848 AGAAAAGGATATGATAAGTAAATAGTAAGCATGATGAGGCTAACTATTAAAGGTATAGT
65 AGAAAAGGATATGATAAGTAAAGAGTAAGCATGATGAGGCTAACCACTAAAGGTATAGT
99432907 ACGCCCAGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
127 1 0.01
128 108 0.99
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (128 bp):
TCTGGCAAAATATATCTGCCAAAGAAATGATTAAAGATTCTATCTCAGGTTATTCTAGTATTTAA
GAAAAGGATATGATAAGTAAAGAGTAAGCATGATGAGGCTAACCACTAAAGGTATAGTGTGCC
Found at i:99434154 original size:23 final size:23
Alignment explanation
Indices: 99434128--99434205 Score: 77
Period size: 23 Copynumber: 3.4 Consensus size: 23
99434118 TTTATGGCGT
* *
99434128 ATTCTGTGTAGCCTTTGTGGATA
1 ATTCTGTATAGCCTTTGTGGAAA
* ** *
99434151 ATTCTATATAGAATTTGTGGCGAA
1 ATTCTGTATAGCCTTTGTGG-AAA
99434175 A-TCTGTATAGCCTTTGTGGAAA
1 ATTCTGTATAGCCTTTGTGGAAA
*
99434197 ATTCGGTAT
1 ATTCTGTAT
99434206 TGTCTCATTG
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
22 3 0.07
23 37 0.88
24 2 0.05
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.40
Consensus pattern (23 bp):
ATTCTGTATAGCCTTTGTGGAAA
Found at i:99439954 original size:24 final size:25
Alignment explanation
Indices: 99439927--99439975 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
99439917 TTGTAAATCA
99439927 GAAAAATATCTCTAGA-AATTTTCT
1 GAAAAATATCTCTAGAGAATTTTCT
* * *
99439951 GAAATATCTCTTTAGAGAATTTTCT
1 GAAAAATATCTCTAGAGAATTTTCT
99439976 CTCTACAACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (25 bp):
GAAAAATATCTCTAGAGAATTTTCT
Found at i:99439955 original size:22 final size:24
Alignment explanation
Indices: 99439930--99439975 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
99439920 TAAATCAGAA
99439930 AAATATCTC-TAGA-AATTTTCTG
1 AAATATCTCTTAGAGAATTTTCTG
99439952 AAATATCTCTTTAGAGAATTTTCT
1 AAATATCTC-TTAGAGAATTTTCT
99439976 CTCTACAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (24 bp):
AAATATCTCTTAGAGAATTTTCTG
Found at i:99440166 original size:20 final size:20
Alignment explanation
Indices: 99440141--99440189 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
99440131 TTAAATTAAA
*
99440141 TTTAATATTAATATAATCAC
1 TTTAATATTAAGATAATCAC
99440161 TTTAATATTAAGATAATCAC
1 TTTAATATTAAGATAATCAC
*
99440181 TTTAGTATT
1 TTTAATATT
99440190 TTATTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (20 bp):
TTTAATATTAAGATAATCAC
Found at i:99448539 original size:6 final size:6
Alignment explanation
Indices: 99448528--99448557 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
99448518 CGAAATTAAT
99448528 AATAAA AATAAA AATAAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA
99448558 CTTTCTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:99450671 original size:55 final size:55
Alignment explanation
Indices: 99450609--99450730 Score: 163
Period size: 55 Copynumber: 2.2 Consensus size: 55
99450599 CATTTGACAA
** *
99450609 GTTCGACCACGGGTGTTCGACACGGGCGTGTCGCACGCCCGTGCTGTTTTAACAG
1 GTTCGACCACGGGTCCTCCACACGGGCGTGTCGCACGCCCGTGCTGTTTTAACAG
* * * * *
99450664 GTTCGACCATGGTTCCTCCACACGGGCGTGTTGCACGCCCGTGTTGTTTTGACAG
1 GTTCGACCACGGGTCCTCCACACGGGCGTGTCGCACGCCCGTGCTGTTTTAACAG
*
99450719 GCTCGACCACGG
1 GTTCGACCACGG
99450731 CCATGTCGCA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.14, C:0.30, G:0.31, T:0.25
Consensus pattern (55 bp):
GTTCGACCACGGGTCCTCCACACGGGCGTGTCGCACGCCCGTGCTGTTTTAACAG
Found at i:99455774 original size:122 final size:127
Alignment explanation
Indices: 99455607--99456106 Score: 391
Period size: 127 Copynumber: 4.0 Consensus size: 127
99455597 GTCAAATGCT
* * * *
99455607 AAATCGAAACCCAGCAC-GTAGGGCACAATTTCTCGAAATTTCCAAACA-CGAAATATTACATTT
1 AAATCGAAACCCAGCACATTAGGGCACAATTTCTCGAAATTCCCAAACATC-AAACATCACATTT
* * * *
99455670 -TTTT-GAG-GA-AAAACGCAGACGAAATTTTAAAGGGATATTTGATTATTTAGATAAACAAA
65 GTTTTAGAGCGAGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAACAAA
* * *
99455729 AAATCGAAACCCAGCACATTAGGGCACAATTTC-CTG-AATTCCCAAACATCAACCATCGCTTTT
1 AAATCGAAACCCAGCACATTAGGGCACAATTTCTC-GAAATTCCCAAACATCAAACATCACATTT
* * * *
99455792 GTTTTAGAGCTTAGAAAACGCGGACGAAATTTAAAAGGGAAATCTGATTATTTGGACAAATAAA
65 GTTTTAGAGC-GAGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAACAAA
* * ** ** * * *
99455856 AGATCGAAACCCAACACATTAGGGCATGATCCCTCG-AATTTCTAAACATCAAACATCGC-TTTC
1 AAATCGAAACCCAGCACATTAGGGCACAATTTCTCGAAATTCCCAAACATCAAACATCACATTT-
* * * * * *
99455919 GTTTTA-AG-GTTTAGAAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACGA
65 GTTTTAGAGCG---AGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAACAA
99455982 A
127 A
* * * * * * * * * * *
99455983 AGACCGAAACCCAACACATTAGGGTACAATCTATCG-AATTTCTAAACATCAAACATCGCCTTCG
1 AAATCGAAACCCAGCACATTAGGGCACAATTTCTCGAAATTCCCAAACATCAAACATCACATTTG
* * * * *
99456047 TTTTA-AG-GTTTAGAAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAAC
66 TTTTAGAGCG---AGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAAC
99456107 GAAAGACCGA
Statistics
Matches: 323, Mismatches: 41, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
122 37 0.11
123 20 0.06
124 3 0.01
126 6 0.02
127 254 0.79
128 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (127 bp):
AAATCGAAACCCAGCACATTAGGGCACAATTTCTCGAAATTCCCAAACATCAAACATCACATTTG
TTTTAGAGCGAGAAAACGCAGACGAAATTTAAAAGGGAAATCTGATTATTTAGACAAACAAA
Found at i:99455831 original size:127 final size:127
Alignment explanation
Indices: 99455679--99456118 Score: 555
Period size: 127 Copynumber: 3.5 Consensus size: 127
99455669 TTTTTGAGGA
* * * * * * *
99455679 AAAACGCAGACGAAATTTTAAAGGGATATTTGATTATTTAGATAAACAAAAAATCGAAACCCAGC
1 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATCGAAACCCAAC
* * * * *
99455744 ACATTAGGGCACAATTTCCTGAATTCCCAAACATCAACCATCGCTTTTGTTTT-AGAGCTTAG
66 ACATTAGGGCACAATTTCCTGAATTTCTAAACATCAAACATCGCTTTCGTTTTAAG-GTTTAG
* ** * * * * *
99455806 AAAACGCGGACGAAATTTAAAAGGGAAATCTGATTATTTGGACAAATAAAAGATCGAAACCCAAC
1 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATCGAAACCCAAC
** *
99455871 ACATTAGGGCATGA-TCCCTCGAATTTCTAAACATCAAACATCGCTTTCGTTTTAAGGTTTAG
66 ACATTAGGGCACAATTTCCT-GAATTTCTAAACATCAAACATCGCTTTCGTTTTAAGGTTTAG
* *
99455933 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACGAAAGACCGAAACCCAAC
1 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATCGAAACCCAAC
* *
99455998 ACATTAGGGTACAATCTAT-C-GAATTTCTAAACATCAAACATCGCCTTCGTTTTAAGGTTTAG
66 ACATTAGGGCACAAT-T-TCCTGAATTTCTAAACATCAAACATCGCTTTCGTTTTAAGGTTTAG
* *
99456060 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACGAAAGACCGAAA
1 AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATCGAAA
99456119 TAAGTCGACT
Statistics
Matches: 276, Mismatches: 32, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
126 4 0.01
127 268 0.97
128 2 0.01
129 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (127 bp):
AAAACACACACGAAATTTTAAAGGGAAATTTGACTATTTAGACAAACAAAAGATCGAAACCCAAC
ACATTAGGGCACAATTTCCTGAATTTCTAAACATCAAACATCGCTTTCGTTTTAAGGTTTAG
Found at i:99459056 original size:11 final size:11
Alignment explanation
Indices: 99459040--99459064 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
99459030 TGACTGGAAT
99459040 CTATGAAACTC
1 CTATGAAACTC
99459051 CTATGAAACTC
1 CTATGAAACTC
99459062 CTA
1 CTA
99459065 AGCTAGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (11 bp):
CTATGAAACTC
Found at i:99461006 original size:32 final size:32
Alignment explanation
Indices: 99460969--99461032 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
99460959 TATTAGAGAA
99460969 AGGTTAGACAAGGAAGTGGCAAATAATGACTG
1 AGGTTAGACAAGGAAGTGGCAAATAATGACTG
99461001 AGGTTAGACAAGGAAGTGGCAAATAATGACTG
1 AGGTTAGACAAGGAAGTGGCAAATAATGACTG
99461033 GCTCAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (32 bp):
AGGTTAGACAAGGAAGTGGCAAATAATGACTG
Found at i:99467471 original size:78 final size:78
Alignment explanation
Indices: 99467384--99467548 Score: 176
Period size: 78 Copynumber: 2.1 Consensus size: 78
99467374 GAATTTAAAA
* * * * * *
99467384 CCCGG-TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAG-CCTGGACATATTTCTAGCACGTA
1 CCCGGATATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGTCC-GGACATAATTCCAGCACATA
* *
99467445 GCCTGTGGACCTTAAG
63 GCCTGCGGACCCTAAG
* *
99467461 CCCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCC
1 CCCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGTCCGGACATAATTCCAGCACATAGCC
99467526 TGCGGACCCTAAG
66 TGCGGACCCTAAG
*
99467539 TCCGGATATA
1 CCCGGATATA
99467549 CATCACTGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
77 9 0.12
78 62 0.85
79 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (78 bp):
CCCGGATATAATACCAGCACATAGCCTGCGGACCCTAAGTCCGGACATAATTCCAGCACATAGCC
TGCGGACCCTAAG
Found at i:99467480 original size:39 final size:39
Alignment explanation
Indices: 99467437--99467548 Score: 179
Period size: 39 Copynumber: 2.9 Consensus size: 39
99467427 ACATATTTCT
* * *
99467437 AGCACGTAGCCTGTGGACCTTAAGCCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGCCCGGATATAATTCC
*
99467476 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGCCCGGATATAATTCC
*
99467515 AGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 AGCACATAGCCTGCGGACCCTAAGCCCGGATATA
99467549 CATCACTGAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCCTAAGCCCGGATATAATTCC
Found at i:99475897 original size:39 final size:39
Alignment explanation
Indices: 99475840--99475965 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
99475830 GGACTTTAGC
* * * * *
99475840 CCGGACATATTTCCAGCACGTAGCCTGCGGAACTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
* *
99475879 CCAGATATAATTCTAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
99475918 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
99475957 CCGGATATA
1 CCGGATATA
99475966 CATCACTGAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:99476589 original size:5 final size:5
Alignment explanation
Indices: 99476579--99476611 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
99476569 TTGTGTGTTC
99476579 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
99476612 TTACAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:99484453 original size:22 final size:23
Alignment explanation
Indices: 99484426--99484469 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
99484416 ATTGTATTAT
99484426 ATTATTATAATATTCTT-TAATC
1 ATTATTATAATATTCTTATAATC
* *
99484448 ATTATTATTATTTTCTTATAAT
1 ATTATTATAATATTCTTATAAT
99484470 ATAAGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTATTATAATATTCTTATAATC
Found at i:99487267 original size:44 final size:45
Alignment explanation
Indices: 99487192--99487298 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 45
99487182 CTTTAAGAAC
* * *
99487192 TCGCACACTTAGTG-CATAATTGTTTAGCTGAAGCTATAAT-GATA
1 TCGCACACTTAGTGCCATAATTATTAAACTGAAGCTAT-ATCGATA
* * *
99487236 TCGCACACTTAGTGCCATCA-TATTAAACTGAAGCTATCTCGGTA
1 TCGCACACTTAGTGCCATAATTATTAAACTGAAGCTATATCGATA
*
99487280 TCGTACACTTAGTGCCATA
1 TCGCACACTTAGTGCCATA
99487299 CAAAACCAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 48 0.91
45 4 0.08
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (45 bp):
TCGCACACTTAGTGCCATAATTATTAAACTGAAGCTATATCGATA
Found at i:99491311 original size:23 final size:23
Alignment explanation
Indices: 99491284--99491329 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
99491274 AGTGATCAAA
99491284 ATCAAGAATTAGAGATTCAAATT
1 ATCAAGAATTAGAGATTCAAATT
99491307 ATCAAGAATTAGAGATTCAAATT
1 ATCAAGAATTAGAGATTCAAATT
99491330 TCCATACTCC
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:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (23 bp):
ATCAAGAATTAGAGATTCAAATT
Found at i:99506652 original size:19 final size:20
Alignment explanation
Indices: 99506628--99506676 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
99506618 TATAAAAGTT
* *
99506628 TATAATTTTTTTA-TATTTC
1 TATAATTTTTCTAGGATTTC
*
99506647 TATAATTTTTCTAGGATTTT
1 TATAATTTTTCTAGGATTTC
99506667 TATAATTTTT
1 TATAATTTTT
99506677 AATAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
TATAATTTTTCTAGGATTTC
Found at i:99506685 original size:20 final size:19
Alignment explanation
Indices: 99506626--99506704 Score: 63
Period size: 19 Copynumber: 4.1 Consensus size: 19
99506616 TTTATAAAAG
*
99506626 TTTATAATTTTTTTATATT
1 TTTATAATTTTTTTAAATT
* * *
99506645 TCTATAATTTTTCTAGGATT
1 TTTATAATTTTTTTA-AATT
*
99506665 TTTATAATTTTTAATAAA-T
1 TTTATAATTTTT-TTAAATT
99506684 TTTA-AATATTTTATTAAATT
1 TTTATAAT-TTTT-TTAAATT
99506704 T
1 T
99506705 AATCATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
18 3 0.06
19 27 0.55
20 17 0.35
21 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTATAATTTTTTTAAATT
Found at i:99506686 original size:19 final size:19
Alignment explanation
Indices: 99506664--99506715 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
99506654 TTTCTAGGAT
99506664 TTTTATAATTTTTAATAAA
1 TTTTATAATTTTTAATAAA
*
99506683 TTTTA-AATATTTTATTAAA
1 TTTTATAAT-TTTTAATAAA
* *
99506702 TTTAATCATTTTTA
1 TTTTATAATTTTTA
99506716 TGACTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.11
19 23 0.82
20 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTATAATTTTTAATAAA
Found at i:99509094 original size:21 final size:22
Alignment explanation
Indices: 99509054--99509095 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
99509044 TGTCAATGTG
99509054 GGATAAAAATTAACTTTTTAAA
1 GGATAAAAATTAACTTTTTAAA
*
99509076 GGATTAAAATTAA-TTTTTAA
1 GGATAAAAATTAACTTTTTAA
99509096 TGCAAAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
GGATAAAAATTAACTTTTTAAA
Found at i:99509394 original size:20 final size:21
Alignment explanation
Indices: 99509369--99509409 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
99509359 TAATGAATGT
99509369 GGGATTAAAATTAA-TTTTAA
1 GGGATTAAAATTAACTTTTAA
99509389 GGGATTAAAATTAACTTTTAA
1 GGGATTAAAATTAACTTTTAA
99509410 TGAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.39
Consensus pattern (21 bp):
GGGATTAAAATTAACTTTTAA
Found at i:99509494 original size:93 final size:94
Alignment explanation
Indices: 99509391--99509580 Score: 249
Period size: 96 Copynumber: 2.0 Consensus size: 94
99509381 AATTTTAAGG
* * * *
99509391 GATTAAAATTAACTTTTAATGAAAATATTGAAGT-A-AGTTATGATAGTATTCCCTAGTTAGTGC
1 GATTAAAATTAACTTTTAATGAAAATAGTGAA-TAAGAGTTATGATAGTATTCCCGAGTCAATGC
99509454 GAGATTAAAACTAACTTTTTAATGAAAATA
65 GAGATTAAAACTAACTTTTTAATGAAAATA
* * * *
99509484 GATTAAAATTAATTTTTAATTAAAATAGTGAATAAATGAGTTATGGTAGTATTCTCGAGTCAATG
1 GATTAAAATTAACTTTTAATGAAAATAGTGAAT-AA-GAGTTATGATAGTATTCCCGAGTCAATG
* *
99509549 TGGGATTAAAACTAACTTTTTAATGAAAATA
64 CGAGATTAAAACTAACTTTTTAATGAAAATA
99509580 G
1 G
99509581 TGAATAAGTG
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
92 1 0.01
93 29 0.35
94 1 0.01
96 52 0.63
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.37
Consensus pattern (94 bp):
GATTAAAATTAACTTTTAATGAAAATAGTGAATAAGAGTTATGATAGTATTCCCGAGTCAATGCG
AGATTAAAACTAACTTTTTAATGAAAATA
Found at i:99509508 original size:27 final size:28
Alignment explanation
Indices: 99509455--99509511 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
99509445 AGTTAGTGCG
99509455 AGATTAAAACTAACTTTTTAATGAAAAT
1 AGATTAAAACTAACTTTTTAATGAAAAT
* *
99509483 AGATTAAAATTAA-TTTTTAATTAAAAT
1 AGATTAAAACTAACTTTTTAATGAAAAT
99509510 AG
1 AG
99509512 TGAATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.39
Consensus pattern (28 bp):
AGATTAAAACTAACTTTTTAATGAAAAT
Found at i:99509618 original size:69 final size:68
Alignment explanation
Indices: 99509484--99509619 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 68
99509474 AATGAAAATA
* * * * * *
99509484 GATTAAAATTAATTTTTAATTAAAATAGTGAATAAATGAGTTATGGTAGTATTCTCGAGTCAATG
1 GATTAAAACTAATTTTTAATGAAAATAGTGAATAAATGAGCTATGATAGTATTCTCGAATAAATG
99509549 TGG
66 TGG
* *
99509552 GATTAAAACTAACTTTTTAATGAAAATAGTGAATAAGTGAGCTATGATAGTATTCTCTAATAAAT
1 GATTAAAACTAA-TTTTTAATGAAAATAGTGAATAAATGAGCTATGATAGTATTCTCGAATAAAT
99509617 GTG
65 GTG
99509620 ATCAAAATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 11 0.19
69 48 0.81
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.37
Consensus pattern (68 bp):
GATTAAAACTAATTTTTAATGAAAATAGTGAATAAATGAGCTATGATAGTATTCTCGAATAAATG
TGG
Found at i:99512622 original size:39 final size:39
Alignment explanation
Indices: 99512577--99512678 Score: 141
Period size: 39 Copynumber: 2.6 Consensus size: 39
99512567 TGGTGTATTG
* * *
99512577 TATCGGGCCTTGAGCCTAGCAGGCCTCGTGCCGGTGACT
1 TATCGGGCTTTGAGCCTAGCAGGCCTCATGCCAGTGACT
* *
99512616 TATCGGGCTTTGAGCCTAGCAAGCTTCATGCCAGTGACT
1 TATCGGGCTTTGAGCCTAGCAGGCCTCATGCCAGTGACT
**
99512655 TATCAAGCTTTGAGCCTAGCAGGC
1 TATCGGGCTTTGAGCCTAGCAGGC
99512679 TTTGTGCCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (39 bp):
TATCGGGCTTTGAGCCTAGCAGGCCTCATGCCAGTGACT
Found at i:99518461 original size:33 final size:33
Alignment explanation
Indices: 99518400--99518510 Score: 93
Period size: 33 Copynumber: 3.4 Consensus size: 33
99518390 TAGATAGACT
* * * *
99518400 GTTGGGACAATAAACACATAATATAGATAATCC
1 GTTGGGACAGTAAACATAGAATAAAGATAATCC
* * **
99518433 GTTGTGACAGTAAACATAGAATAAAGATAGTTT
1 GTTGGGACAGTAAACATAGAATAAAGATAATCC
* * *
99518466 GCTGAGACAGTAAACATAG-A-AGAGA-AAGTCC
1 GTTGGGACAGTAAACATAGAATAAAGATAA-TCC
99518497 GTTGGGACAGTAAA
1 GTTGGGACAGTAAA
99518511 TATGGGGCAA
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
30 1 0.02
31 17 0.28
32 1 0.02
33 42 0.69
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.23
Consensus pattern (33 bp):
GTTGGGACAGTAAACATAGAATAAAGATAATCC
Found at i:99518509 original size:31 final size:33
Alignment explanation
Indices: 99518430--99518510 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 33
99518420 ATATAGATAA
* *
99518430 TCCGTTGTGACAGTAAACATAGAATAAAGATAG
1 TCCGTTGAGACAGTAAACATAGAATAAAGAAAG
** * *
99518463 TTTGCTGAGACAGTAAACATAG-A-AGAGAAAG
1 TCCGTTGAGACAGTAAACATAGAATAAAGAAAG
*
99518494 TCCGTTGGGACAGTAAA
1 TCCGTTGAGACAGTAAA
99518511 TATGGGGCAA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 19 0.50
32 1 0.03
33 18 0.47
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.22
Consensus pattern (33 bp):
TCCGTTGAGACAGTAAACATAGAATAAAGAAAG
Found at i:99519944 original size:20 final size:20
Alignment explanation
Indices: 99519922--99520005 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 20
99519912 TCCGAAATTC
99519922 AAAATATTTATAAAAATTT-
1 AAAATATTTATAAAAATTTA
* ***
99519941 CAAAT-TTTAT-ATTTTTTA
1 AAAATATTTATAAAAATTTA
*
99519959 AAAA-AATTATAAAAATTCTA
1 AAAATATTTATAAAAATT-TA
* *
99519979 AAAATATATATACAAATTTA
1 AAAATATTTATAAAAATTTA
99519999 AAAATAT
1 AAAATAT
99520006 AAATTTTTTT
Statistics
Matches: 48, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
17 4 0.08
18 12 0.25
19 7 0.15
20 15 0.31
21 10 0.21
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATATTTATAAAAATTTA
Found at i:99520006 original size:20 final size:20
Alignment explanation
Indices: 99519955--99520006 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
99519945 TTTTATATTT
*
99519955 TTTAAAAAAAT-TATAAAAA
1 TTTAAAAATATATATAAAAA
*
99519974 TTCTAAAAATATATATACAAA
1 TT-TAAAAATATATATAAAAA
99519995 TTTAAAAATATA
1 TTTAAAAATATA
99520007 AATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 18 0.62
21 9 0.31
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTAAAAATATATATAAAAA
Found at i:99524506 original size:17 final size:17
Alignment explanation
Indices: 99524478--99524511 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
99524468 AGGTCACTTT
99524478 ATAAATAATTATCAAAAA
1 ATAAATAATTAT-AAAAA
99524496 ATAAA-AATTATAAAAA
1 ATAAATAATTATAAAAA
99524512 GTTATTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAATAATTATAAAAA
Found at i:99529727 original size:17 final size:18
Alignment explanation
Indices: 99529705--99529740 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
99529695 GAAGCAAGCA
*
99529705 ATGATTGAAGA-AATCAG
1 ATGATTGAAAAGAATCAG
99529722 ATGATTGAAAAGAATCAG
1 ATGATTGAAAAGAATCAG
99529740 A
1 A
99529741 CCTGGAGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAGAATCAG
Found at i:99533996 original size:46 final size:46
Alignment explanation
Indices: 99533926--99534107 Score: 240
Period size: 46 Copynumber: 4.0 Consensus size: 46
99533916 GTTGACATGA
* * * * * * *
99533926 TGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
99533972 TGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
99534018 TGGCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
99534064 TTCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
99534108 AGAGCACACT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 116 0.97
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:99534093 original size:92 final size:92
Alignment explanation
Indices: 99533936--99534107 Score: 265
Period size: 92 Copynumber: 1.9 Consensus size: 92
99533926 TGCCATAGTG
* * * * * *
99533936 TCTTTCAACTATGGTTTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTTAACCATGGTCTTA
1 TCTTTCAACCATGGTTTTACACATTTTCTATCAGGTTGCCATGATATCTTTCAACCATGGTCTTA
99534001 CACATTTCATATCAGGTTGGCATGGTA
66 CACATTTCATATCAGGTTGGCATGGTA
*
99534028 TCTTTCAACCATGGTTTTACACA-TTTCATATCAGGTTTCCATGATATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTTTTACACATTTTC-TATCAGGTTGCCATGATATCTTTCAACCATGGTCTT
99534092 ACACATTTCATATCAG
65 ACACATTTCATATCAG
99534108 AGAGCACACT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 4 0.06
92 68 0.94
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (92 bp):
TCTTTCAACCATGGTTTTACACATTTTCTATCAGGTTGCCATGATATCTTTCAACCATGGTCTTA
CACATTTCATATCAGGTTGGCATGGTA
Found at i:99536531 original size:29 final size:30
Alignment explanation
Indices: 99536481--99536548 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
99536471 CACCGTTAAA
* * *
99536481 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
99536511 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
99536540 AGTATTTAC
1 A-TATTTAC
99536549 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:99539654 original size:19 final size:20
Alignment explanation
Indices: 99539630--99539667 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
99539620 ATATTAAAAA
99539630 ATATTTTTTT-ATAATTTTG
1 ATATTTTTTTCATAATTTTG
99539649 ATATTTTTTTCATAATTTT
1 ATATTTTTTTCATAATTTT
99539668 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (20 bp):
ATATTTTTTTCATAATTTTG
Found at i:99542345 original size:21 final size:21
Alignment explanation
Indices: 99542315--99542358 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
99542305 TTTATCATTT
99542315 ATTTTCATAT-TAAATAAATAA
1 ATTTTCATATAT-AATAAATAA
* *
99542336 ATTTTTATATATAATATATAA
1 ATTTTCATATATAATAAATAA
99542357 AT
1 AT
99542359 GTAAAATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTCATATATAATAAATAA
Found at i:99547902 original size:47 final size:47
Alignment explanation
Indices: 99547841--99547970 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
99547831 GTGCGAATAA
* *
99547841 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-TTCGGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGG-GAGAAGT
* * * *
99547888 TACCTTGATTTGGCTATGGGCCATAGTATAAGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAGAAGT
* * *
99547935 TACCTTAATTTTGCTACGGACCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
99547971 TATCGATTGT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
47 66 0.94
48 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAGAAGT
Found at i:99550696 original size:25 final size:25
Alignment explanation
Indices: 99550668--99550757 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
99550658 ATGTATATCA
* *
99550668 GGAAGCTCTTGCGAGCCATAAATCG
1 GGAAGCTCATGAGAGCCATAAATCG
* * * *
99550693 GGAAACTCAAGAGAGCCATTAATAG
1 GGAAGCTCATGAGAGCCATAAATCG
*
99550718 GGAAGCTCGTGAGAGCCA-AATATCG
1 GGAAGCTCATGAGAGCCATAA-ATCG
* *
99550743 GGATGCTCAAGAGAG
1 GGAAGCTCATGAGAG
99550758 ATGTGGTGTG
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 1 0.02
25 49 0.98
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.17
Consensus pattern (25 bp):
GGAAGCTCATGAGAGCCATAAATCG
Found at i:99553075 original size:42 final size:42
Alignment explanation
Indices: 99553011--99553173 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
99553001 TGAACGTCTC
* * * *
99553011 TCGATGCCATAGTTCAACTATGGTTTTACACATCTTCACATAA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACAT-A
* *
99553054 T-GATGCCATAGTCCAGTTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACATA
99553095 TCGATGCCATAG-CCTAGCTATGGTCTTACACGTATCACATATCACATA
1 TCGATGCCATAGTCC-AGCTATGGTCTTACAC--AT---AT-TCACATA
*
99553143 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGTCCAGCTATGGTCTTACAC
99553174 GGAAATCACT
Statistics
Matches: 103, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
41 4 0.04
42 58 0.56
43 1 0.01
44 2 0.02
47 2 0.02
48 34 0.33
49 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (42 bp):
TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACATA
Found at i:99553153 original size:48 final size:49
Alignment explanation
Indices: 99553081--99553174 Score: 163
Period size: 48 Copynumber: 1.9 Consensus size: 49
99553071 TATGGTCTTA
* *
99553081 CACATATTCATATATCGATGCCATAGCCTAGCTATGGTCTTACACGTAT
1 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAT
99553130 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG
1 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG
99553175 GAAATCACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 37 0.86
49 6 0.14
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (49 bp):
CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAT
Found at i:99553227 original size:31 final size:31
Alignment explanation
Indices: 99553192--99553340 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
99553182 CTTGTCACTT
*
99553192 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
99553223 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
99553254 GTAGTCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
99553285 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
99553316 GTAGCCGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
99553341 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:99553418 original size:50 final size:50
Alignment explanation
Indices: 99553316--99553492 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
99553306 CACTGATCAG
* *
99553316 GTAGCCGAAGCTATCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
99553367 GTAGCTGGAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * * *
99553417 GTTGCCGAAGCGATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
99553467 GTAGTTGAAGATATCACTTATCACTT
1 GTAGCTGAAGCTATCACTTATCACTT
99553493 GTTTCCATGG
Statistics
Matches: 110, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 87 0.79
51 23 0.21
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (50 bp):
GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:99553850 original size:35 final size:35
Alignment explanation
Indices: 99553798--99553866 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
99553788 GGCATGTGAT
99553798 CAATTTATACACAAGTCATTCATATATTTTTCCTA
1 CAATTTATACACAAGTCATTCATATATTTTTCCTA
**
99553833 CAATTTATACATGAGTCATTCATATATTTTTCCT
1 CAATTTATACACAAGTCATTCATATATTTTTCCT
99553867 CCTCCTCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (35 bp):
CAATTTATACACAAGTCATTCATATATTTTTCCTA
Found at i:99559618 original size:28 final size:28
Alignment explanation
Indices: 99559578--99559644 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
99559568 AAACGTTTAC
99559578 ATTTTGAAAAAGTTCCTAAATGGAAGCA
1 ATTTTGAAAAAGTTCCTAAATGGAAGCA
99559606 ATTTTGAAAAAGTTCCTAAATGGAAGCA
1 ATTTTGAAAAAGTTCCTAAATGGAAGCA
* *
99559634 TTTTTGTAAAA
1 ATTTTGAAAAA
99559645 TTAACCTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (28 bp):
ATTTTGAAAAAGTTCCTAAATGGAAGCA
Found at i:99568776 original size:12 final size:12
Alignment explanation
Indices: 99568759--99568798 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
99568749 GTGAAAAATT
99568759 AAATAAAATAAA
1 AAATAAAATAAA
99568771 AAATAAAAT-AA
1 AAATAAAATAAA
**
99568782 ATTTAAAATAAA
1 AAATAAAATAAA
99568794 AAATA
1 AAATA
99568799 GTTAAACCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:99569781 original size:76 final size:76
Alignment explanation
Indices: 99569655--99569808 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
99569645 AACAGAAAAT
99569655 ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
1 ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
99569720 GCAGTGTTCCC
66 GCAGTGTTCCC
99569731 ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
1 ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
99569796 GCAGTGTTCCC
66 GCAGTGTTCCC
99569807 AT
1 AT
99569809 AAAAACCTTG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (76 bp):
ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
GCAGTGTTCCC
Found at i:99579335 original size:22 final size:23
Alignment explanation
Indices: 99579307--99579354 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
99579297 CTCGATCCTA
*
99579307 TTTT-AAATCTACTCATATTATT
1 TTTTAAAATATACTCATATTATT
* *
99579329 TTTTAAAATATATTTATATTATT
1 TTTTAAAATATACTCATATTATT
99579352 TTT
1 TTT
99579355 AATTTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAAAATATACTCATATTATT
Found at i:99579364 original size:23 final size:24
Alignment explanation
Indices: 99579321--99579372 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
99579311 AAATCTACTC
99579321 ATATTATTTTTTAAAATATATTT-
1 ATATTATTTTTTAAAATATATTTA
**
99579344 ATATTA-TTTTTAATTTAATATTTA
1 ATATTATTTTTTAAAAT-ATATTTA
99579368 ATATT
1 ATATT
99579373 TAATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.32
23 12 0.48
24 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATTATTTTTTAAAATATATTTA
Found at i:99581559 original size:30 final size:30
Alignment explanation
Indices: 99581524--99581582 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
99581514 TATAAAAAGA
*
99581524 TAACTTACATTAGTAGATAATCTAAACGCG
1 TAACTTACATTAATAGATAATCTAAACGCG
99581554 TAACTTACATTAATAGATAATCTAAACGC
1 TAACTTACATTAATAGATAATCTAAACGC
99581583 CTCCTTAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (30 bp):
TAACTTACATTAATAGATAATCTAAACGCG
Found at i:99583916 original size:57 final size:56
Alignment explanation
Indices: 99583811--99583965 Score: 265
Period size: 57 Copynumber: 2.8 Consensus size: 56
99583801 GTTATATTAG
* * *
99583811 GATATTATTATGAGATATTATCTTTTAACAATTTGATTCCTAATGTGATATTATAT
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGTGATATTATAA
*
99583867 GATATTATTATGGGATATTATCTTTTTAGTAATTTGATTCCTAATGTGATATTATAA
1 GATATTATTATGGGATATTATC-TTTTAGCAATTTGATTCCTAATGTGATATTATAA
99583924 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
99583966 CGTAACTACT
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 40 0.43
57 53 0.57
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (56 bp):
GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGTGATATTATAA
Done.