Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold268
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: 336603
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 3
Found at i:13817 original size:20 final size:20
Alignment explanation
Indices: 13770--13844 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
13760 AAAAAGACAT
*
13770 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
13789 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
13810 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
13830 AATGTATCGATACAT
1 AATGTATCGATACAT
13845 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:13838 original size:40 final size:39
Alignment explanation
Indices: 13767--13844 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
13757 GGTAAAAAGA
* *
13767 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
13806 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
13845 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:19489 original size:13 final size:13
Alignment explanation
Indices: 19466--19508 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
19456 TAACACAACA
19466 TAAAAAA-ATAAT
1 TAAAAAATATAAT
19478 TAAAAAATATAA-
1 TAAAAAATATAAT
19490 TATAAAAATATAAT
1 TA-AAAAATATAAT
19504 ATAAA
1 -TAAA
19509 TACTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 9 0.33
13 14 0.52
14 2 0.07
15 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAAATATAAT
Found at i:19543 original size:13 final size:14
Alignment explanation
Indices: 19484--19552 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 14
19474 TAATTAAAAA
*
19484 ATATAATATAAA-A
1 ATATAATATAAATT
19497 ATATAATATAAA-T
1 ATATAATATAAATT
19510 ACT-T--TA-AAATTT
1 A-TATAATATAAA-TT
19522 ATATAATATAAATT
1 ATATAATATAAATT
*
19536 AT-TAATATAAAAT
1 ATATAATATAAATT
19549 ATAT
1 ATAT
19553 TAAATATGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
10 3 0.07
11 3 0.07
12 3 0.07
13 26 0.57
14 8 0.17
15 3 0.07
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (14 bp):
ATATAATATAAATT
Found at i:19550 original size:25 final size:25
Alignment explanation
Indices: 19487--19558 Score: 62
Period size: 25 Copynumber: 2.9 Consensus size: 25
19477 TTAAAAAATA
19487 TAATATAAAAATATAATATAAATACTT
1 TAATAT-AAAATATAATATAAATAC-T
* **
19514 TAAAAT-TTATATAATATAAATTA-T
1 TAATATAAAATATAATATAAA-TACT
19538 TAATATAAAATAT-AT-TAAATA
1 TAATATAAAATATAATATAAATA
19559 TGATTGTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
22 2 0.05
23 4 0.11
24 8 0.22
25 16 0.43
26 2 0.05
27 5 0.14
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (25 bp):
TAATATAAAATATAATATAAATACT
Found at i:19553 original size:15 final size:14
Alignment explanation
Indices: 19514--19555 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
19504 ATAAATACTT
19514 TAAAATTTATATAATA
1 TAAAA-TTAT-TAATA
19530 T-AAATTATTAATA
1 TAAAATTATTAATA
19543 TAAAATATATTAA
1 TAAAAT-TATTAA
19556 ATATGATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.25
14 8 0.33
15 9 0.38
16 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAAATTATTAATA
Found at i:23156 original size:377 final size:376
Alignment explanation
Indices: 22460--23210 Score: 1484
Period size: 377 Copynumber: 2.0 Consensus size: 376
22450 TATTACCCCC
22460 CCTTTTTTTTTCCCTTTTTTTTTGCAAATGTGCAGTGTGTACTCTGATTCGAGTTCTTAGATTTT
1 CCTTTTTTTTTCCCTTTTTTTTTGCAAATGTGCAGTGTGTACTCTGATTCGAGTTCTTAGATTTT
22525 GTAGTAATTAGGCATGTTGGAATACGATGAAGATTACATTATAATAATAACAATTTCCTTCCAGT
66 GTAGTAATTAGGCATGTTGGAATACGATGAAGATTACATTATAATAATAACAATTTCCTTCCAGT
22590 CACGCAAAGTAATGCATTACATTCAGATTTTGTCTCTATTAATAAAATAAAATTGTGATGAAAGT
131 CACGCAAAGTAATGCATTACATTCAGATTTTGTCTCTATTAATAAAATAAAATTGTGATGAAAGT
22655 TCCTCAGTCGTGCAAGGTATTTTGGTTATATGATCAAAGATGACTAACTTGCTCATGTTGCTTAT
196 TCCTCAGTCGTGCAAGGTATTTTGGTTATATGATCAAAGATGACTAACTTGCTCATGTTGCTTAT
22720 GATGTCCAGTTTGTGGGAGATGTTTGGCACTATGAATATGCATGGACATTTTAAAGTGAGCTAAT
261 GATGTCCAGTTTGTGGGAGATGTTTGGCACTATGAATATGCATGGACATTTTAAAGTGAGCTAAT
22785 TATGGTAGGGTGCATTGTCTATCTCATCCCTCAAGTTTCTGTATGCTTGGA
326 TATGGTAGGGTGCATTGTCTATCTCATCCCTCAAGTTTCTGTATGCTTGGA
22836 CCTTTTTTTTTCCCTTTTTTTTTTGCAAATGTGCAGTGTGTACTCTGATTCGAGTTCTTAGATTT
1 CCTTTTTTTTTCCC-TTTTTTTTTGCAAATGTGCAGTGTGTACTCTGATTCGAGTTCTTAGATTT
*
22901 TGTAGTAATTAGGCATGTTGGAATACGTTGAAGATTACATTATAATAATAACAATTTCCTTCCAG
65 TGTAGTAATTAGGCATGTTGGAATACGATGAAGATTACATTATAATAATAACAATTTCCTTCCAG
22966 TCACGCAAAGTAATGCATTACATTCAGATTTTGTCTCTATTAATAAAATAAAATTGTGATGAAAG
130 TCACGCAAAGTAATGCATTACATTCAGATTTTGTCTCTATTAATAAAATAAAATTGTGATGAAAG
23031 TTCCTCAGTCGTGCAAGGTATTTTGGTTATATGATCAAAGATGACTAACTTGCTCATGTTGCTTA
195 TTCCTCAGTCGTGCAAGGTATTTTGGTTATATGATCAAAGATGACTAACTTGCTCATGTTGCTTA
23096 TGATGTCCAGTTTGTGGGAGATGTTTGGCACTATGAATATGCATGGACATTTTAAAGTGAGCTAA
260 TGATGTCCAGTTTGTGGGAGATGTTTGGCACTATGAATATGCATGGACATTTTAAAGTGAGCTAA
23161 TTATGGTAGGGTGCATTGTCTATCTCATCCCTCAAGTTTCTGTATGCTTG
325 TTATGGTAGGGTGCATTGTCTATCTCATCCCTCAAGTTTCTGTATGCTTG
23211 TAGCTGTAAG
Statistics
Matches: 373, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
376 14 0.04
377 359 0.96
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (376 bp):
CCTTTTTTTTTCCCTTTTTTTTTGCAAATGTGCAGTGTGTACTCTGATTCGAGTTCTTAGATTTT
GTAGTAATTAGGCATGTTGGAATACGATGAAGATTACATTATAATAATAACAATTTCCTTCCAGT
CACGCAAAGTAATGCATTACATTCAGATTTTGTCTCTATTAATAAAATAAAATTGTGATGAAAGT
TCCTCAGTCGTGCAAGGTATTTTGGTTATATGATCAAAGATGACTAACTTGCTCATGTTGCTTAT
GATGTCCAGTTTGTGGGAGATGTTTGGCACTATGAATATGCATGGACATTTTAAAGTGAGCTAAT
TATGGTAGGGTGCATTGTCTATCTCATCCCTCAAGTTTCTGTATGCTTGGA
Found at i:31037 original size:17 final size:18
Alignment explanation
Indices: 31015--31048 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31005 CATGTGTTTA
*
31015 ATTATTTAAA-ATTTTTT
1 ATTATTAAAAGATTTTTT
31032 ATTATTAAAAGATTTTT
1 ATTATTAAAAGATTTTT
31049 AAAAGATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTATTAAAAGATTTTTT
Found at i:31068 original size:8 final size:8
Alignment explanation
Indices: 31055--31146 Score: 51
Period size: 8 Copynumber: 11.0 Consensus size: 8
31045 TTTTAAAAGA
31055 TTATATTT
1 TTATATTT
31063 TTATATTT
1 TTATATTT
*
31071 ATATA-TT
1 TTATATTT
*
31078 TGATATGTT
1 TTATAT-TT
* *
31087 TAATTTTT
1 TTATATTT
31095 TTAATATTT
1 TT-ATATTT
31104 TTATATATT
1 TTATAT-TT
*
31113 TAAAATATTT
1 T--TATATTT
* ***
31123 TTAAAAAA
1 TTATATTT
31131 TTATATTT
1 TTATATTT
31139 TTATATTT
1 TTATATTT
31147 ATATTTAAAT
Statistics
Matches: 61, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
7 5 0.08
8 33 0.54
9 16 0.26
10 3 0.05
11 4 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (8 bp):
TTATATTT
Found at i:31126 original size:76 final size:74
Alignment explanation
Indices: 31009--31150 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 74
30999 TTTTGACATG
*
31009 TGTTTAATTATTTAAAATTTTTTATTATTAAAAGATTTTTAAAAGATTATATTTTTATATTTATA
1 TGTTTAATTATTTAAAATTTTTTATTATTAAAAGATTTTTAAAAAATTATATTTTTATATTTATA
31074 TATTTGATA
66 TATTTGATA
** *
31083 TGTTTAATT-TTTTTAATATTTTTATATATTTAAAATATTTTTAAAAAATTATATTTTTATATTT
1 TGTTTAATTATTTAAAAT-TTTTTAT-TA-TTAAAAGATTTTTAAAAAATTATATTTTTATATTT
31147 ATAT
63 ATAT
31151 TTAAATATAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
73 6 0.10
74 16 0.26
75 2 0.03
76 37 0.61
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (74 bp):
TGTTTAATTATTTAAAATTTTTTATTATTAAAAGATTTTTAAAAAATTATATTTTTATATTTATA
TATTTGATA
Found at i:31215 original size:13 final size:13
Alignment explanation
Indices: 31197--31221 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31187 CATGTTAAGG
31197 ACATGCATCAAAC
1 ACATGCATCAAAC
31210 ACATGCATCAAA
1 ACATGCATCAAA
31222 TAGCAAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.28, G:0.08, T:0.16
Consensus pattern (13 bp):
ACATGCATCAAAC
Found at i:40796 original size:13 final size:14
Alignment explanation
Indices: 40767--40798 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
40757 ATTATCAAAT
40767 AAATTTATTTAATA
1 AAATTTATTTAATA
40781 AAATTT-TTTAATA
1 AAATTTATTTAATA
40794 AAATT
1 AAATT
40799 AAAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATTTATTTAATA
Found at i:42584 original size:15 final size:15
Alignment explanation
Indices: 42549--42586 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
42539 ATGTATTTAC
*
42549 ATAAATTATATATATT
1 ATAAATT-TATATAAT
42565 A-AAATTTATATAAT
1 ATAAATTTATATAAT
42579 ATAAATTT
1 ATAAATTT
42587 TAATATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 11 0.55
16 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAAATTTATATAAT
Found at i:51326 original size:19 final size:19
Alignment explanation
Indices: 51304--51347 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
51294 AAAATATTAC
51304 AATATTTATTTTTATATTT
1 AATATTTATTTTTATATTT
*
51323 AATATATATTTTTATATTT
1 AATATTTATTTTTATATTT
51342 AA-ATTT
1 AATATTT
51348 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATATTTATTTTTATATTT
Found at i:55663 original size:21 final size:20
Alignment explanation
Indices: 55623--55716 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 20
55613 TGTAGGTAGT
* *
55623 TGTTTAGGGTACTGTGGGTTA
1 TGTTT-GGGTACTATAGGTTA
* *
55644 TGTTTGAGGTGCTATAGGTTC
1 TGTTTG-GGTACTATAGGTTA
*
55665 TGTTTGGGTACTATAAGAGCT-
1 TGTTTGGGTACTAT-AG-GTTA
* **
55686 GGTTTGGGTACTATAGGTGC
1 TGTTTGGGTACTATAGGTTA
55706 TGTTTGGGTAC
1 TGTTTGGGTAC
55717 ATCAACTGTG
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
19 1 0.02
20 20 0.34
21 36 0.61
22 2 0.03
ACGTcount: A:0.16, C:0.09, G:0.35, T:0.40
Consensus pattern (20 bp):
TGTTTGGGTACTATAGGTTA
Found at i:55712 original size:20 final size:20
Alignment explanation
Indices: 55644--55716 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 20
55634 CTGTGGGTTA
* *
55644 TGTTTGAGGTGCTATAGGTTC
1 TGTTTG-GGTACTATAGGTGC
* *
55665 TGTTTGGGTACTATAAGAGC
1 TGTTTGGGTACTATAGGTGC
55685 TGGTTTGGGTACTATAGGTGC
1 T-GTTTGGGTACTATAGGTGC
55706 TGTTTGGGTAC
1 TGTTTGGGTAC
55717 ATCAACTGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 21 0.47
21 24 0.53
ACGTcount: A:0.16, C:0.10, G:0.34, T:0.40
Consensus pattern (20 bp):
TGTTTGGGTACTATAGGTGC
Found at i:57567 original size:15 final size:15
Alignment explanation
Indices: 57547--57577 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57537 GTTTCTTGTG
57547 TACATAGTCTTACAT
1 TACATAGTCTTACAT
57562 TACATAGTCTTACAT
1 TACATAGTCTTACAT
57577 T
1 T
57578 TAGTATGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TACATAGTCTTACAT
Found at i:60274 original size:21 final size:22
Alignment explanation
Indices: 60199--60297 Score: 77
Period size: 21 Copynumber: 4.7 Consensus size: 22
60189 ATAAAATAAG
* *
60199 CCTTTGATATGATTTTGA-TGA
1 CCTTTGATATAATTTTGAGTCA
*
60220 CTTTTTG-TATAATTTTGA-T-A
1 C-CTTTGATATAATTTTGAGTCA
*
60240 CCATTGGATATAATTTTG-GTCA
1 CC-TTTGATATAATTTTGAGTCA
*
60262 CCTTTGA-ATTAA-TTTGAGTTA
1 CCTTTGATA-TAATTTTGAGTCA
60283 CCTTTGATATAATTT
1 CCTTTGATATAATTT
60298 AGTAATCTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
20 10 0.16
21 43 0.68
22 10 0.16
ACGTcount: A:0.26, C:0.10, G:0.14, T:0.49
Consensus pattern (22 bp):
CCTTTGATATAATTTTGAGTCA
Found at i:60495 original size:11 final size:11
Alignment explanation
Indices: 60479--60505 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
60469 TTTAATAACC
60479 TTTGATATAAT
1 TTTGATATAAT
60490 TTTGATATAAT
1 TTTGATATAAT
60501 TTTGA
1 TTTGA
60506 CAACATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (11 bp):
TTTGATATAAT
Found at i:61211 original size:21 final size:21
Alignment explanation
Indices: 61138--61216 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
61128 GTAACAGTTC
*
61138 ATAACCTTTGATATAATTTCG
1 ATAACCTATGATATAATTTCG
** *
61159 ATAAAGTAT-ATATAATTTTGG
1 ATAACCTATGATATAA-TTTCG
*
61180 GTAACC-ATGATATAATTGT-G
1 ATAACCTATGATATAATT-TCG
*
61200 ATAACCTTTGATATAAT
1 ATAACCTATGATATAAT
61217 ATTGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.41
Consensus pattern (21 bp):
ATAACCTATGATATAATTTCG
Found at i:61613 original size:21 final size:21
Alignment explanation
Indices: 61583--61627 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
61573 TAGAGTCTGA
61583 ATAATGTTGGCAACATTGGAT
1 ATAATGTTGGCAACATTGGAT
* * * *
61604 ATAATTTTGGTAACCTTTGAT
1 ATAATGTTGGCAACATTGGAT
61625 ATA
1 ATA
61628 GCTTTGATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (21 bp):
ATAATGTTGGCAACATTGGAT
Found at i:61633 original size:21 final size:20
Alignment explanation
Indices: 61601--61686 Score: 91
Period size: 21 Copynumber: 4.2 Consensus size: 20
61591 GGCAACATTG
61601 GATATAATTTTGGTAACCTTT
1 GATATAA-TTTGGTAACCTTT
* * *
61622 GATATAGCTTTGATAACTTTT
1 GATATA-ATTTGGTAACCTTT
*
61643 GATATAATTTCGGTAAGCTTT
1 GATATAATTT-GGTAACCTTT
* *
61664 GATGTAATTTGGTAACTTTT
1 GATATAATTTGGTAACCTTT
61684 GAT
1 GAT
61687 GTTATTTTGG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
20 14 0.26
21 39 0.74
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (20 bp):
GATATAATTTGGTAACCTTT
Found at i:61697 original size:21 final size:21
Alignment explanation
Indices: 61607--61704 Score: 76
Period size: 21 Copynumber: 4.7 Consensus size: 21
61597 ATTGGATATA
* *
61607 ATTTTGGTAACCTTTGAT-AT
1 ATTTTGGTAACTTTTGATGTT
* * * *
61627 AGCTTTGATAACTTTTGATATA
1 A-TTTTGGTAACTTTTGATGTT
*
61649 ATTTCGGTAAGC-TTTGATG-T
1 ATTTTGGTAA-CTTTTGATGTT
*
61669 AATTTGGTAACTTTTGATGTT
1 ATTTTGGTAACTTTTGATGTT
*
61690 ATTTTGGTAAATTTT
1 ATTTTGGTAACTTTT
61705 TTATTAACAT
Statistics
Matches: 59, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.02
20 16 0.27
21 40 0.68
22 2 0.03
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (21 bp):
ATTTTGGTAACTTTTGATGTT
Found at i:61699 original size:41 final size:42
Alignment explanation
Indices: 61601--61699 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 42
61591 GGCAACATTG
*
61601 GATATAATTTTGGTAACCTTTGATATAGCTTTGATAACTTTT
1 GATATAATTTTGGTAACCTTTGATATAGATTTGATAACTTTT
* * * *
61643 GATATAATTTCGGTAAGCTTTGATGTA-ATTTGGTAACTTTT
1 GATATAATTTTGGTAACCTTTGATATAGATTTGATAACTTTT
* *
61684 GATGTTATTTTGGTAA
1 GATATAATTTTGGTAA
61700 ATTTTTTATT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 25 0.51
42 24 0.49
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.47
Consensus pattern (42 bp):
GATATAATTTTGGTAACCTTTGATATAGATTTGATAACTTTT
Found at i:61717 original size:22 final size:23
Alignment explanation
Indices: 61692--61748 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
61682 TTGATGTTAT
*
61692 TTTGGTA-AATTTTTTATTAACA
1 TTTGGTATAATTTTTGATTAACA
* *
61714 TTTGATATAA-TTTTGATTACCA
1 TTTGGTATAATTTTTGATTAACA
61736 -TTGGTATAATTTT
1 TTTGGTATAATTTT
61749 AAGAACCATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 8 0.28
22 19 0.66
23 2 0.07
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (23 bp):
TTTGGTATAATTTTTGATTAACA
Found at i:61895 original size:21 final size:21
Alignment explanation
Indices: 61842--61885 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
61832 TTAGTAATTA
*
61842 TTGATATC-TTTGTAATAGTT
1 TTGATAACTTTTGTAATAGTT
61862 TTGATAACTTTTGTAATAGTT
1 TTGATAACTTTTGTAATAGTT
61883 TTG
1 TTG
61886 TTAATATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.55
Consensus pattern (21 bp):
TTGATAACTTTTGTAATAGTT
Found at i:61992 original size:2 final size:2
Alignment explanation
Indices: 61985--62013 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
61975 ATGTATCTAG
61985 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62014 TAAAATAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62795 original size:17 final size:18
Alignment explanation
Indices: 62750--62796 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
62740 TAATTAAAGT
* *
62750 TGTTTAAATGTTATTTAA
1 TGTTAAAATTTTATTTAA
62768 TG-TAAAGATTTTATTT-A
1 TGTTAAA-ATTTTATTTAA
62785 TGTTAAAATTTT
1 TGTTAAAATTTT
62797 TGTTTGCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (18 bp):
TGTTAAAATTTTATTTAA
Found at i:66769 original size:24 final size:25
Alignment explanation
Indices: 66728--66774 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
66718 AAAATGAATT
*
66728 GAAAAAGTTTGGAAGAAA-AATCTA
1 GAAAAAGTTTAGAAGAAATAATCTA
* *
66752 GAAAAATTTTAGAGGAAATAATC
1 GAAAAAGTTTAGAAGAAATAATC
66775 ATTAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.53, C:0.04, G:0.19, T:0.23
Consensus pattern (25 bp):
GAAAAAGTTTAGAAGAAATAATCTA
Found at i:68643 original size:51 final size:51
Alignment explanation
Indices: 68483--68654 Score: 191
Period size: 51 Copynumber: 3.3 Consensus size: 51
68473 GAAATAACGA
* * *
68483 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
68535 AATTGGAGTATCCCCGATTTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGA-TT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
68589 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
68640 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
68655 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
51 39 0.40
52 14 0.14
53 4 0.04
54 30 0.31
55 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:68700 original size:27 final size:28
Alignment explanation
Indices: 68637--68712 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
68627 AAAATAAAGT
*
68637 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
68665 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
68692 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
68713 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:71197 original size:13 final size:13
Alignment explanation
Indices: 71179--71204 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71169 ACAAAGATCC
71179 ATGTATCGATACA
1 ATGTATCGATACA
71192 ATGTATCGATACA
1 ATGTATCGATACA
71205 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:71200 original size:33 final size:33
Alignment explanation
Indices: 71158--71224 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
71148 AAAATTTCCA
***
71158 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
71191 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
71224 A
1 A
71225 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:71268 original size:19 final size:18
Alignment explanation
Indices: 71244--71311 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
71234 CAGTAGCTAA
71244 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
71263 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
71278 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
71295 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
71312 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:71284 original size:13 final size:13
Alignment explanation
Indices: 71266--71290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71256 ACAATACTTA
71266 TGTATCGATACAT
1 TGTATCGATACAT
71279 TGTATCGATACA
1 TGTATCGATACA
71291 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:71288 original size:32 final size:32
Alignment explanation
Indices: 71247--71309 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
71237 TAGCTAATTA
*
71247 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
71279 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
71310 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:71391 original size:21 final size:21
Alignment explanation
Indices: 71367--71423 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
71357 CATTTGTAGG
71367 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
71388 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
71409 ATGTATCGATACATT
1 ATGTATCGATACATT
71424 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:71434 original size:1 final size:1
Alignment explanation
Indices: 71428--71467 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
71418 TACATTTAAA
***
71428 TTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
71468 CAAACACTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.05, C:0.03, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:71456 original size:18 final size:18
Alignment explanation
Indices: 71435--71470 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
71425 AAATTTTTTT
71435 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
71453 TTTTTTTTTTTTTTTCAA
1 TTTTTTTTTTTTTTTCAA
71471 ACACTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTCAA
Found at i:73410 original size:110 final size:111
Alignment explanation
Indices: 73256--73473 Score: 341
Period size: 110 Copynumber: 2.0 Consensus size: 111
73246 GGAAAACACA
**
73256 TAAAATACAGTGACTCCAAAAACATTTCCAAATCTTTTATCAAATCAAAATTATTTCTAAAATTG
1 TAAAATACAGTGACT-CAAAAACATTTCCAAATCTGGTATCAAATCAAAATTATTTCTAAAATTG
* *
73321 TATTTCATTTAAAAAACATATTATGAAATGAGACATATGGATTATACT
65 GATTT-ATTTAAAAAACATATTATGAAATGAGACATAAGGATTATACT
*
73369 TAAAATACAGTGACT-AAAAA-ATTTTCAAATCTGGTATCAAATCAAAATTATTTCTAAAATTGG
1 TAAAATACAGTGACTCAAAAACATTTCCAAATCTGGTATCAAATCAAAATTATTTCTAAAATTGG
* *
73432 ATTTATTTAAAAAACATATTATGCAATGGGACATAAGGATTA
66 ATTTATTTAAAAAACATATTATGAAATGAGACATAAGGATTA
73474 AATTGAAGAA
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
109 35 0.36
110 43 0.44
111 5 0.05
113 15 0.15
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (111 bp):
TAAAATACAGTGACTCAAAAACATTTCCAAATCTGGTATCAAATCAAAATTATTTCTAAAATTGG
ATTTATTTAAAAAACATATTATGAAATGAGACATAAGGATTATACT
Found at i:73887 original size:20 final size:20
Alignment explanation
Indices: 73859--73933 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
73849 TCATACCCTG
73859 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
73879 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
73899 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
73919 ATGTATCGATACATT
1 ATGTATCGATACATT
73934 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:73926 original size:40 final size:39
Alignment explanation
Indices: 73859--73936 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
73849 TCATACCCTG
* *
73859 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
73899 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
73937 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:74871 original size:23 final size:23
Alignment explanation
Indices: 74844--74899 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
74834 AGCCTTTGAC
74844 CATGCATTTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
74867 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
74889 CATGCATTTTT
1 CATGCATTTTT
74900 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 22 0.69
23 10 0.31
ACGTcount: A:0.18, C:0.11, G:0.09, T:0.62
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:74906 original size:20 final size:21
Alignment explanation
Indices: 74852--74906 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
74842 ACCATGCATT
**
74852 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
74873 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
74895 -TTTTTAACATGT
1 TTTTTTAACATGT
74907 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:81363 original size:37 final size:38
Alignment explanation
Indices: 81316--81388 Score: 98
Period size: 37 Copynumber: 1.9 Consensus size: 38
81306 TAAAATAATA
81316 TTAAAAAATTTTT-TTATCTT-AAT-ATTTATAATTAAAT
1 TTAAAAAATTTTTATTAT-TTAAATAATTTA-AATTAAAT
*
81353 TTAAATAATTTTTATTATTTAAATAATTTAAATTAA
1 TTAAAAAATTTTTATTATTTAAATAATTTAAATTAA
81389 GAATATTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
37 14 0.44
38 13 0.41
39 5 0.16
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (38 bp):
TTAAAAAATTTTTATTATTTAAATAATTTAAATTAAAT
Found at i:81387 original size:18 final size:18
Alignment explanation
Indices: 81351--81387 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
81341 TTATAATTAA
**
81351 ATTTAAATAATTTTTATT
1 ATTTAAATAATTTAAATT
81369 ATTTAAATAATTTAAATT
1 ATTTAAATAATTTAAATT
81387 A
1 A
81388 AGAATATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTAAATAATTTAAATT
Found at i:82405 original size:12 final size:13
Alignment explanation
Indices: 82376--82406 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
82366 AGAATGCTTA
82376 CCAGGTCTTGTCC
1 CCAGGTCTTGTCC
82389 CCAGGTCTTGT-C
1 CCAGGTCTTGTCC
82401 CCAGGT
1 CCAGGT
82407 ACATGAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.10, C:0.35, G:0.26, T:0.29
Consensus pattern (13 bp):
CCAGGTCTTGTCC
Found at i:86155 original size:14 final size:15
Alignment explanation
Indices: 86136--86165 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
86126 ACAAACACTA
86136 TTAATATAA-TATAT
1 TTAATATAATTATAT
86150 TTAATATAATTATAT
1 TTAATATAATTATAT
86165 T
1 T
86166 ATTTATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATATAATTATAT
Found at i:86502 original size:10 final size:10
Alignment explanation
Indices: 86489--86529 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
86479 TATACATTTG
86489 TATAACTTAA
1 TATAACTTAA
86499 TATAACTT-A
1 TATAACTTAA
*
86508 -ATAATTGTAA
1 TATAACT-TAA
86518 TATAACTTAA
1 TATAACTTAA
86528 TA
1 TA
86530 ATTAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
8 5 0.19
9 2 0.08
10 14 0.54
11 5 0.19
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (10 bp):
TATAACTTAA
Found at i:86520 original size:19 final size:19
Alignment explanation
Indices: 86496--86532 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
86486 TTGTATAACT
86496 TAATATAACTTAATAATTG
1 TAATATAACTTAATAATTG
86515 TAATATAACTTAATAATT
1 TAATATAACTTAATAATT
86533 AATTTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (19 bp):
TAATATAACTTAATAATTG
Found at i:86735 original size:22 final size:21
Alignment explanation
Indices: 86709--86764 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
86699 TTTAATTAAA
86709 TTTTAAAAAATAAATAAATATT
1 TTTTAAAAAATAAATAAAT-TT
** *
86731 TTTTAAATGATAAATATATTT
1 TTTTAAAAAATAAATAAATTT
86752 TTTTATAAAAATA
1 TTTTA-AAAAATA
86765 TCTTTTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTTAAAAAATAAATAAATTT
Found at i:88733 original size:2 final size:2
Alignment explanation
Indices: 88726--88755 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
88716 CAAGGCTGCA
88726 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88756 CAGTTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92724 original size:154 final size:152
Alignment explanation
Indices: 92049--92764 Score: 427
Period size: 154 Copynumber: 4.6 Consensus size: 152
92039 CTAAACACAC
* * *
92049 ACCTTTGGCATAAAAACGACCCCGGTGACTATCTAGGACTTGGTT-TCAA-GAAAAATTA-TCAA
1 ACCTTTGGCATAAAAACGA-CCAGGTGACTACCTAAGACTTGGTTCT-AATG--AAATTACT-AA
* * * ** * ** *
92111 AATGTCCT-TCAA-GTATACTTTTGACGTGAAAGTATCTAGGCAACCTTAAAGGACACGT-AAAT
61 AAT-ACCTCT-AAGGTATACCTTCGATATAAAAGTATCTAGATAACCCTAAAGGACA--TAAAAT
* * * * *
92173 GATATAAAAAGACAAACCTATCTTAAAGGCAT
122 AATATAAAAGGA-AAACCTATCCTAAAAGTAT
* ** * * * * **
92205 ACTTTTGGCATAAAAGTGACCTA-ATGATTACCTAAGACTCGGTTTCAAAAAAAATTACTAAAAT
1 ACCTTTGGCATAAAAACGACC-AGGTGACTACCTAAGACTTGG-TTCTAATGAAATTACTAAAAT
* * * * * * **
92269 ACCTCAAAGGTATACTTTTGACT-TAAAAGTATTTGGGT-ATGCTAAAGGACATGAAAATAATAA
64 ACCTCTAAGGTATACCTTCGA-TATAAAAGTATCTAGATAACCCTAAAGGACAT-AAAATAAT-A
* *
92332 GTAAAAAGAAGAACCCATCCTAAAAGTAT
126 -TAAAAGGAA-AACCTATCCTAAAAGTAT
* * * ** * * * *
92361 ATCTTTAGTATAAAAGTGACCCGGTGACTACCTAAGGCTAGGTTCTAAATAAAATTACTAAAATA
1 ACCTTTGGCATAAAAACGACCAGGTGACTACCTAAGACTTGGTTCT-AATGAAATTACTAAAATA
* * * * * *
92426 CCTCTAAGGTATACCTTCGATGTAAAAGTATCTCGATTACCTTAAAAGATACA-AAAATGATATA
65 CCTCTAAGGTATACCTTCGATATAAAAGTATCTAGATAACCCT-AAAG-GACATAAAATAATATA
* *
92490 AAAGGATGAACCTATCTTAAAAGTAT
128 AAAGGA-AAACCTATCCTAAAAGTAT
* * * ** **
92516 ACGTTTGGCATAAAAACGACCA-GTGGCTACCTAAGATTTAATTCTAGGGAAAATTA-TAAAAAT
1 ACCTTTGGCATAAAAACGACCAGGTGACTACCTAAGACTTGGTTCTAATG-AAATTACT-AAAAT
* * **
92579 ACCAT-TAGGGTGTACCTTCGATATTTAAGTATCCTAG-TAACCCTAAAGGACATAAGAATAATA
64 ACC-TCTAAGGTATACCTTCGATATAAAAGTAT-CTAGATAACCCTAAAGGACATAA-AATAATA
*
92642 TAAAAGGACAAACCTATCCTAAAAGCAT
126 TAAAAGGA-AAACCTATCCTAAAAGTAT
* * * *
92670 ACCTTTGGCATAAAAACGACCAGGTGATTACCTAAGACTTGGTTCTAATGAAATTACCAACAT-G
1 ACCTTTGGCATAAAAACGACCAGGTGACTACCTAAGACTTGGTTCTAATGAAATTACTAAAATAC
* * *
92734 CTCCTAAGTTATACCTTCGATGTGAAAGTAT
66 CT-CTAAGGTATACCTTCGATATAAAAGTAT
92765 TTTAATAATC
Statistics
Matches: 431, Mismatches: 99, Indels: 62
0.73 0.17 0.10
Matches are distributed among these distances:
152 5 0.01
153 9 0.02
154 161 0.37
155 118 0.27
156 122 0.28
157 9 0.02
158 4 0.01
159 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (152 bp):
ACCTTTGGCATAAAAACGACCAGGTGACTACCTAAGACTTGGTTCTAATGAAATTACTAAAATAC
CTCTAAGGTATACCTTCGATATAAAAGTATCTAGATAACCCTAAAGGACATAAAATAATATAAAA
GGAAAACCTATCCTAAAAGTAT
Found at i:92778 original size:154 final size:152
Alignment explanation
Indices: 92169--92784 Score: 440
Period size: 154 Copynumber: 4.0 Consensus size: 152
92159 AAGGACACGT
* * * * ** * *
92169 AAATGATATAAAAAGACAAACCTATCTTAAAGGCATACTTTTGGCATAAAAGTGACCTAATGATT
1 AAATAATATAAAAAGACAAACCTATCCTAAAAGCATACCTTTGGCATAAAAACGACC-AGTGACT
* * * * * *
92234 ACCTAAGACTCGGTTTCAAAAAAAATTACTAAAATACCTCAAAGGTATACTTTTGACT-TAAAAG
65 ACCTAAGACTTGG-TTCTAATAAAATTACTAAAATACCTCTAAGGTATACCTTCGA-TGTAAAAG
** * *
92298 TAT-TTGGGT-ATGCTAAAGGACATGA
128 TATCTT-AATAATCCTAAAAGACAT-A
* * * * * ** *
92323 AAATAATAAGTAAAAAGA-AGAACCCATCCTAAAAGTATATCTTTAGTATAAAAGTGACCCGGTG
1 AAATAAT-A-TAAAAAGACA-AACCTATCCTAAAAGCATACCTTTGGCATAAAAACGA-CCAGTG
* *
92387 ACTACCTAAGGCTAGGTTCTAAATAAAATTACTAAAATACCTCTAAGGTATACCTTCGATGTAAA
62 ACTACCTAAGACTTGGTTCT-AATAAAATTACTAAAATACCTCTAAGGTATACCTTCGATGTAAA
** *
92452 AGTATCTCGATTA-CCTTAAAAGATACA-A
126 AGTATCTTAATAATCC-TAAAAG--ACATA
* * ** * * * *
92480 AAATGATATAAAAGGATGAACCTATCTTAAAAGTATACGTTTGGCATAAAAACGACCAGTGGCTA
1 AAATAATATAAAAAGACAAACCTATCCTAAAAGCATACCTTTGGCATAAAAACGACCAGTGACTA
* ** ** * * * **
92545 CCTAAGATTTAATTCTAGGGAAAATTA-TAAAAATACCAT-TAGGGTGTACCTTCGATATTTAAG
66 CCTAAGACTTGGTTCTA-ATAAAATTACT-AAAATACC-TCTAAGGTATACCTTCGATGTAAAAG
* * * *
92608 TATCCTAGTAACCCTAAAGGACATA
128 TATCTTAATAATCCTAAAAGACATA
* *
92633 AGAATAATATAAAAGGACAAACCTATCCTAAAAGCATACCTTTGGCATAAAAACGACCAGGTGAT
1 A-AATAATATAAAAAGACAAACCTATCCTAAAAGCATACCTTTGGCATAAAAACGACCA-GTGAC
* * * * * *
92698 TACCTAAGACTTGGTTCTAATGAAATTACCAACAT-GCTCCTAAGTTATACCTTCGATGTGAAAG
64 TACCTAAGACTTGGTTCTAATAAAATTACTAAAATACCT-CTAAGGTATACCTTCGATGTAAAAG
*
92762 TATTTTAATAATCCTAAAAGACA
128 TATCTTAATAATCCTAAAAGACA
92785 CAAAGATGAT
Statistics
Matches: 358, Mismatches: 82, Indels: 44
0.74 0.17 0.09
Matches are distributed among these distances:
152 4 0.01
153 5 0.01
154 167 0.47
155 64 0.18
156 99 0.28
157 16 0.04
159 3 0.01
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.28
Consensus pattern (152 bp):
AAATAATATAAAAAGACAAACCTATCCTAAAAGCATACCTTTGGCATAAAAACGACCAGTGACTA
CCTAAGACTTGGTTCTAATAAAATTACTAAAATACCTCTAAGGTATACCTTCGATGTAAAAGTAT
CTTAATAATCCTAAAAGACATA
Found at i:94254 original size:15 final size:16
Alignment explanation
Indices: 94229--94261 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
94219 TAAATACTTA
94229 TAAATATTTATGAATT
1 TAAATATTTATGAATT
94245 TAAA-ATTTATGAATT
1 TAAATATTTATGAATT
94260 TA
1 TA
94262 TACCTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
TAAATATTTATGAATT
Found at i:99352 original size:84 final size:85
Alignment explanation
Indices: 99078--99613 Score: 614
Period size: 84 Copynumber: 6.2 Consensus size: 85
99068 TTTTAAAAAA
* * * * *
99078 GGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGTGCTTTAAAAAGAG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGGGCTTTGAAAAGAG
* * *
99143 TTACCACT-AGCTTGTTGGTTTTGAAAAG
60 -TGCCACTGA-CTTGTGGGCTTTG-AAAG
* * * *
99171 AGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
*
99236 CGACTTGTGGGCTTTGAAAG
66 TGACTTGTGGGCTTTGAAAG
* *
99256 GGTGCCATTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC-TTGAAAAGAGTGCCAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
99320 TGACTTGTGGGCTTTGAAAG
66 TGACTTGTGGGCTTTGAAAG
* * * *
99340 GGTGCTACTGACTTGTGGGCTTTGAAAGGGTGCTACTAACTTGTCGGCTTTGAAAAGA-TGCCAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
99404 TGACTTGTGGGCTTTGAAAAG
66 TGACTTGTGGGCTTTG-AAAG
* * * * * * * *
99425 AGTTACCACCGACTCGTGGGCTTTGAAAAGAGTTACCACTGACTCGTGGGCTTTAAAAAG-GTGC
1 -GGTGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGC
99489 CACTGACTTGTGGGCTTTGAAAG
63 CACTGACTTGTGGGCTTTGAAAG
* * * * *
99512 GGTGCCATTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTACTAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
* *
99576 TGACTTGTGGACTTTGACAG
66 TGACTTGTGGGCTTTGAAAG
99596 GGTGCCACTGACTTGTGG
1 GGTGCCACTGACTTGTGG
99614 AACATTCTAG
Statistics
Matches: 381, Mismatches: 54, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
83 4 0.01
84 158 0.41
85 63 0.17
86 53 0.14
87 25 0.07
88 44 0.12
89 9 0.02
90 4 0.01
91 10 0.03
92 1 0.00
93 10 0.03
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (85 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
TGACTTGTGGGCTTTGAAAG
Found at i:99614 original size:28 final size:28
Alignment explanation
Indices: 99153--99613 Score: 564
Period size: 28 Copynumber: 16.2 Consensus size: 28
99143 TTACCACTAG
* * *
99153 CTTGTTGGTTTTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
* * *
99182 CTTATGGGCTTTGAAAGGGTGCCATTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* *
99210 CTTGTGGGCTTTGAAAAGAGTGCCACCGA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
*
99239 CTTGTGGGCTTTGAAAGGGTGCCATTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
99267 CTTGTGGGCTTTGAAAGGATGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
99295 CTTGTGGGC-TTGAAAAGAGTGCCACTGA
1 CTTGTGGGCTTTG-AAAGGGTGCCACTGA
*
99323 CTTGTGGGCTTTGAAAGGGTGCTACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* *
99351 CTTGTGGGCTTTGAAAGGGTGCTACTAA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
99379 CTTGTCGGCTTTGAAAAGATGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* * *
99407 CTTGTGGGCTTTGAAAAGAGTTACCACCGA
1 CTTGTGGGCTTTG-AAAG-GGTGCCACTGA
* * *
99437 CTCGTGGGCTTTGAAAAGAGTTACCACTGA
1 CTTGTGGGCTTTG-AAAG-GGTGCCACTGA
* * *
99467 CTCGTGGGCTTTAAAAAGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
99495 CTTGTGGGCTTTGAAAGGGTGCCATTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
*
99523 CTTATGGGCTTTGAAAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* *
99551 CTTGTGGGCTTTGAAAGGGTACTACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
* *
99579 CTTGTGGACTTTGACAGGGTGCCACTGA
1 CTTGTGGGCTTTGAAAGGGTGCCACTGA
99607 CTTGTGG
1 CTTGTGG
99614 AACATTCTAG
Statistics
Matches: 377, Mismatches: 50, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
27 3 0.01
28 283 0.75
29 43 0.11
30 48 0.13
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (28 bp):
CTTGTGGGCTTTGAAAGGGTGCCACTGA
Found at i:100830 original size:1 final size:1
Alignment explanation
Indices: 100824--100916 Score: 51
Period size: 1 Copynumber: 93.0 Consensus size: 1
100814 CCCCTTTCTG
* * * ** * * * ** * *
100824 TTTTTTTGTTATTTTTTTTCTTGGTTTTTTGTTTTTATTTTTGTTTTTTTTTGGTTTTTTTTCTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
100889 TTTTTCTGTTTGTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
100917 GGTATGAAAG
Statistics
Matches: 66, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (1 bp):
T
Found at i:100839 original size:12 final size:11
Alignment explanation
Indices: 100824--100916 Score: 89
Period size: 11 Copynumber: 8.3 Consensus size: 11
100814 CCCCTTTCTG
100824 TTTTTTTGTTAT
1 TTTTTTTGTT-T
* *
100836 TTTTTTTCTTG
1 TTTTTTTGTTT
*
100847 GTTTTTTGTTT
1 TTTTTTTGTTT
100858 TTATTTTTGTTT
1 TT-TTTTTGTTT
*
100870 TTTTTTGGTTT
1 TTTTTTTGTTT
* *
100881 TTTTTCTATTT
1 TTTTTTTGTTT
*
100892 TTCTGTTTGTTT
1 TT-TTTTTGTTT
100904 TTTTTTT-TTT
1 TTTTTTTGTTT
100914 TTT
1 TTT
100917 GGTATGAAAG
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
10 6 0.09
11 31 0.48
12 28 0.43
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:100869 original size:43 final size:44
Alignment explanation
Indices: 100822--100917 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 44
100812 GACCCCTTTC
*
100822 TGTTTTTTTGTT-ATTTTTTTTCT-TGGTTTTTTGTTT-TTATTTT
1 TGTTTTTTTGTTGATTTTTTTTCTAT--TTTTCTGTTTGTTATTTT
* *
100865 TGTTTTTTT-TTGGTTTTTTTTCTATTTTTCTGTTTGTTTTTTT
1 TGTTTTTTTGTTGATTTTTTTTCTATTTTTCTGTTTGTTATTTT
*
100908 TTTTTTTTTG
1 TGTTTTTTTG
100918 GTATGAAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
42 11 0.24
43 33 0.73
44 1 0.02
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.82
Consensus pattern (44 bp):
TGTTTTTTTGTTGATTTTTTTTCTATTTTTCTGTTTGTTATTTT
Found at i:100874 original size:23 final size:21
Alignment explanation
Indices: 100824--100916 Score: 87
Period size: 23 Copynumber: 4.1 Consensus size: 21
100814 CCCCTTTCTG
*
100824 TTTTTTTGTTATTTTTTTTCTTG
1 TTTTTTTGTT-TTTTTTTT-TTT
*
100847 GTTTTTTGTTTTTATTTTTGTTT
1 TTTTTTTGTTTTT-TTTTT-TTT
*
100870 TTTTTTGGTTTTTTTTCTATTTT
1 TTTTTTTGTTTTTTTT-T-TTTT
* *
100893 TCTGTTTGTTTTTTTTTTTTT
1 TTTTTTTGTTTTTTTTTTTTT
100914 TTT
1 TTT
100917 GGTATGAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
21 6 0.10
22 7 0.12
23 44 0.76
24 1 0.02
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (21 bp):
TTTTTTTGTTTTTTTTTTTTT
Found at i:100899 original size:30 final size:29
Alignment explanation
Indices: 100836--100916 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 29
100826 TTTTTGTTAT
*
100836 TTTTTTTCTTGGTTTTTTGTTTTTATTTTTG
1 TTTTTTT-TTGGTTTTTT-TTTTTATTTCTG
100867 TTTTTTTTTGGTTTTTTTTCTATT-TTTCTG
1 TTTTTTTTTGGTTTTTTTT-T-TTATTTCTG
*
100897 TTTGTTTTT--TTTTTTTTTTT
1 TTTTTTTTTGGTTTTTTTTTTT
100917 GGTATGAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
26 2 0.04
27 1 0.02
28 8 0.17
29 2 0.04
30 24 0.52
31 9 0.20
ACGTcount: A:0.02, C:0.04, G:0.10, T:0.84
Consensus pattern (29 bp):
TTTTTTTTTGGTTTTTTTTTTTATTTCTG
Found at i:100909 original size:28 final size:25
Alignment explanation
Indices: 100824--100914 Score: 76
Period size: 26 Copynumber: 3.4 Consensus size: 25
100814 CCCCTTTCTG
* *
100824 TTTTTTTGTTATTTTT-TTTCTTGGTT
1 TTTTTTTTTTATTTTTGTTTGTT--TT
* *
100850 TTTTGTTTTTATTTTTGTTTTTTTT
1 TTTTTTTTTTATTTTTGTTTGTTTT
100875 TGGTTTTTTTTCTATTTTTCTGTTTGTTTT
1 T--TTTTTTTT-TA-TTTT-TGTTTGTTTT
100905 TTTTTTTTTT
1 TTTTTTTTTT
100915 TTGGTATGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
25 3 0.06
26 14 0.26
27 13 0.24
28 10 0.19
29 4 0.07
30 10 0.19
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (25 bp):
TTTTTTTTTTATTTTTGTTTGTTTT
Found at i:110106 original size:20 final size:20
Alignment explanation
Indices: 110081--110206 Score: 90
Period size: 20 Copynumber: 5.8 Consensus size: 20
110071 TTTTAACTAG
110081 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
110101 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G-----A-A-A-A
** *
110132 ATGTATCGATGTATTGAAGA
1 ATGTATCGATACATTGAAAA
* * * *
110152 ATGTATCAATACATTCATAC
1 ATGTATCGATACATTGAAAA
110172 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
110192 ATGTATCGATACATT
1 ATGTATCGATACATT
110207 TGGGTATTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
20 59 0.73
21 1 0.01
22 1 0.01
23 2 0.02
28 2 0.02
29 1 0.01
30 2 0.02
31 13 0.16
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:110852 original size:10 final size:10
Alignment explanation
Indices: 110837--110862 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
110827 AAAGTTGTTT
110837 AAAAAAAAGA
1 AAAAAAAAGA
110847 AAAAAAAAGA
1 AAAAAAAAGA
110857 AAAAAA
1 AAAAAA
110863 GTGAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:111252 original size:13 final size:14
Alignment explanation
Indices: 111234--111262 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
111224 ATGGGTGAGA
111234 AAGAAGGAA-GAAG
1 AAGAAGGAAGGAAG
111247 AAGAAGGAAGGAAG
1 AAGAAGGAAGGAAG
111261 AA
1 AA
111263 AAAAAAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (14 bp):
AAGAAGGAAGGAAG
Found at i:111855 original size:6 final size:7
Alignment explanation
Indices: 111834--111872 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
111824 TTAAAAGTAT
111834 AAATAAA
1 AAATAAA
111841 AAATAAA
1 AAATAAA
111848 AAATAAA
1 AAATAAA
111855 AAATAATA
1 AAATAA-A
111863 ATAATAAA
1 A-AATAAA
111871 AA
1 AA
111873 GCGTTTTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 21 0.70
8 4 0.13
9 5 0.17
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAATAAA
Found at i:119930 original size:13 final size:13
Alignment explanation
Indices: 119912--119937 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
119902 CAATTTTTTG
119912 TGTATCGATACAT
1 TGTATCGATACAT
119925 TGTATCGATACAT
1 TGTATCGATACAT
119938 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:120022 original size:20 final size:20
Alignment explanation
Indices: 119997--120069 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
119987 CATCCTTTTT
119997 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
120017 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
120038 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
120058 ATGTATCGATAC
1 ATGTATCGATAC
120070 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:120042 original size:21 final size:21
Alignment explanation
Indices: 119976--120052 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
119966 CTGCCAAGAA
*
119976 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
119997 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
120017 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
120038 ATGTATCGATACATT
1 ATGTATCGATACATT
120053 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:120042 original size:41 final size:41
Alignment explanation
Indices: 119976--120069 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
119966 CTGCCAAGAA
119976 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
120017 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
120058 ATGTATCGATAC
1 ATGTATCGATAC
120070 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:120675 original size:48 final size:48
Alignment explanation
Indices: 120620--120715 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
120610 AAATTTTACG
120620 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
*
120668 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCATGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
120716 TTATCTCCCC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (48 bp):
AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
Found at i:122578 original size:13 final size:13
Alignment explanation
Indices: 122556--122594 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
122546 ATAATCACCC
*
122556 TGTATCGATACAG
1 TGTATCGATACAA
*
122569 TGTATTGATACAA
1 TGTATCGATACAA
122582 TGTATCGATACAA
1 TGTATCGATACAA
122595 GGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:124693 original size:15 final size:15
Alignment explanation
Indices: 124673--124703 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
124663 ATTTCGTTTG
*
124673 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
124688 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
124703 G
1 G
124704 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:128783 original size:13 final size:13
Alignment explanation
Indices: 128765--128790 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
128755 CAATTTTTTG
128765 TGTATCGATACAT
1 TGTATCGATACAT
128778 TGTATCGATACAT
1 TGTATCGATACAT
128791 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:128875 original size:20 final size:20
Alignment explanation
Indices: 128850--128922 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
128840 CATCCTTTTT
128850 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
128870 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
128891 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
128911 ATGTATCGATAC
1 ATGTATCGATAC
128923 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:128878 original size:41 final size:41
Alignment explanation
Indices: 128829--128922 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
128819 TTGCCAAGAA
128829 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1 ATGTATCGATACAT-CTTTTTCATGTATCGATACATTGCAAC
*
128870 ATGTATCGATACATTTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
128911 ATGTATCGATAC
1 ATGTATCGATAC
128923 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:128895 original size:21 final size:21
Alignment explanation
Indices: 128829--128905 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
128819 TTGCCAAGAA
*
128829 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
128850 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
128870 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
128891 ATGTATCGATACATT
1 ATGTATCGATACATT
128906 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:137306 original size:164 final size:161
Alignment explanation
Indices: 137135--137429 Score: 364
Period size: 164 Copynumber: 1.8 Consensus size: 161
137125 CTTCTCCGTA
* *
137135 AATTTTTTTGAAAAGA-TTTTCATAGGTTTAAAATATTGAAAATTCTTCAAATATTATTATTTAA
1 AATTTTTTTGAAAAGATTTTTC-TAGATTTAAAATATTGAAAATTCATCAAATATTA-TATTTAA
*
137199 -TCACCATTAAATAAGTTTGCAAAAATTCACA-TC-TTTTCATAAATTTTTCAATTTTTTCCTTG
64 TTCA-CATTAAATAAGTTTGCAAAAATT-A-ATTCATTTTCATAAATTTCTC-ATTTTTT-CTTG
137261 AAATTTCTATTCTCGAAATACAGATTTTTCTTTTTTGT
124 AAATTTCTATTCTCGAAATACAGATTTTTCTTTTTTGT
* ** * ** *
137299 AATTTTTTTGGAGGGATTTTTCTTGATTTTTAATATTTAAAATTCATCAAATATTATATTTAATT
1 AATTTTTTTGAAAAGATTTTTCTAGATTTAAAATATTGAAAATTCATCAAATATTATATTTAATT
* * * * *
137364 CATATTAAATTAGTTTTCAAAAATTAATTCATTTTCATGAGTTTCTCATTTTTTCTTGAAATTTC
66 CACATTAAATAAGTTTGCAAAAATTAATTCATTTTCATAAATTTCTCATTTTTTCTTGAAATTTC
137429 T
131 T
137430 TTATTTTTAA
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
161 13 0.12
162 10 0.09
163 40 0.36
164 44 0.39
165 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (161 bp):
AATTTTTTTGAAAAGATTTTTCTAGATTTAAAATATTGAAAATTCATCAAATATTATATTTAATT
CACATTAAATAAGTTTGCAAAAATTAATTCATTTTCATAAATTTCTCATTTTTTCTTGAAATTTC
TATTCTCGAAATACAGATTTTTCTTTTTTGT
Found at i:137463 original size:163 final size:163
Alignment explanation
Indices: 137166--137591 Score: 476
Period size: 164 Copynumber: 2.6 Consensus size: 163
137156 ATAGGTTTAA
* * * *
137166 AATATTGAAAATTCTTCAAATATTATTATTTAA-TCACCATTAAATAAGTTTGCAAAAATTCACA
1 AATATTTAAAATTCATCAAATATTATTATTTAATTCA-TATTAAATAAGTTTTCAAAAATT-A-A
* * * * **
137230 -TC-TTTTCATAAATTTTTCAATTTTTTCCTTGAAATTTCTATTCTCGAAATACAGATTTTTCTT
63 TTCATTTTCATGAGTTTTTC-ATTTTTT-CTTGAAATTTCTATTCTCAAAATACAGAGTTTTCCA
* *
137293 TTTTGT-AATTTTTTTGGAGGGATTTTTCTTGA-TTTTT
126 CTTTGTAAATTTTTTCGG-GGGATTTTTCTTGAGTTTTT
*
137330 AATATTTAAAATTCATCAAATATTA-TATTTAATTCATATTAAATTAGTTTTCAAAAATTAATTC
1 AATATTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATAAGTTTTCAAAAATTAATTC
* * *
137394 ATTTTCATGAGTTTCTCATTTTTTCTTGAAATTTCTTTATTTTTAAAATAC-GAAGTTTTCCACT
66 ATTTTCATGAGTTTTTCATTTTTTCTTGAAATTTC--TATTCTCAAAATACAG-AGTTTTCCACT
* *
137458 TTGTAAATTTTTTCGGGGGATTTTTTTTTAGTTTTT
128 TTGTAAATTTTTTCGGGGGATTTTTCTTGAGTTTTT
* *
137494 AACT-TTTAAAATTCATCAAATAATATTATTTATTTCATATTAAATCAA-TTTTCAAAAATT-AT
1 AA-TATTTAAAATTCATCAAATATTATTATTTAATTCATATTAAAT-AAGTTTTCAAAAATTAAT
*
137556 TCATTTTCATGAGTTTTTTATTTTTTTCTTCGAAAT
64 TCATTTTCATGAGTTTTTCA-TTTTTTCTT-GAAAT
137592 CCCCTAATTT
Statistics
Matches: 226, Mismatches: 23, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
161 12 0.05
162 11 0.05
163 74 0.33
164 83 0.37
165 40 0.18
166 6 0.03
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (163 bp):
AATATTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATAAGTTTTCAAAAATTAATTC
ATTTTCATGAGTTTTTCATTTTTTCTTGAAATTTCTATTCTCAAAATACAGAGTTTTCCACTTTG
TAAATTTTTTCGGGGGATTTTTCTTGAGTTTTT
Found at i:138093 original size:8 final size:9
Alignment explanation
Indices: 138060--138091 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
138050 AAAAAAAGAG
138060 AGAAAATAA
1 AGAAAATAA
138069 AGAAAATAA
1 AGAAAATAA
138078 AGAAAA-AA
1 AGAAAATAA
138086 AGAAAA
1 AGAAAA
138092 AATAGTGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.06
Consensus pattern (9 bp):
AGAAAATAA
Found at i:139815 original size:155 final size:154
Alignment explanation
Indices: 139637--140089 Score: 500
Period size: 155 Copynumber: 2.9 Consensus size: 154
139627 CACCAGGTTC
* *
139637 GCTTTTATACTAAAGGTGAATATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCTT
1 GCTTTTATTCTAAAGGTGGATATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCTT
* * *
139702 TAGGGGTATTTGGTACTTTTACGTCGAAGGTATCCCTTAGAAGTATTTTTGTAATTTTATAAAAC
66 TAGGGGTATTAGGTACTTTTACGTCGAAGGTATCCCTTAG-AGCATTTTCGTAATTTTATAAAAC
*
139767 CAAGC-CTTAGGTTGTCACCGAGTCT
130 CAA-CTCTTAGGTCGTCACCGAGTCT
* *
139792 GCTTTTATGT-TGAAGGTGGATATTTAGGATAGGTTCATCCTTTTTAAAATCCTTTTTAAGTCCT
1 GCTTTTAT-TCTAAAGGTGGATATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCT
* * * * * * *
139856 TTAGGGGCA-TCGAGTACTTTAAGGTCGAAGGTATCCCCTATGAGCATTTTCGTAATTTTCTAGA
65 TTAGGGGTATTAG-GTACTTTTACGTCGAAGGTATCCCTTA-GAGCATTTTCGTAATTTTATAAA
* * * ** * *
139920 ACTAACTCCTAGATCGTCGTCGATTTT
128 ACCAACTCTTAGGTCGTCACCGAGTCT
* * *
139947 GCTTTTATTCTAAAGATGGATATTTAGGGTAGGTTCAT-CCTAGTTAAAATCCTTTTTAAAGTCC
1 GCTTTTATTCTAAAGGTGGATATTTAGGATAGGTTCATCCCT-TTTAAAATCCTTTTT-AAGTCC
* * * * * * * * *
140011 TTTAAGGGTATCAGGTACTTATATGTCGAATGTATCTCCTAAGGGCATTTTCATAATTTTTTAAA
64 TTTAGGGGTATTAGGTACTTTTACGTCGAAGGTATC-CCTTAGAGCATTTTCGTAATTTTATAAA
140076 ACCAACTCTTAGGT
128 ACCAACTCTTAGGT
140090 AACCACCGGG
Statistics
Matches: 246, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
154 6 0.02
155 173 0.70
156 63 0.26
157 4 0.02
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (154 bp):
GCTTTTATTCTAAAGGTGGATATTTAGGATAGGTTCATCCCTTTTAAAATCCTTTTTAAGTCCTT
TAGGGGTATTAGGTACTTTTACGTCGAAGGTATCCCTTAGAGCATTTTCGTAATTTTATAAAACC
AACTCTTAGGTCGTCACCGAGTCT
Found at i:143130 original size:20 final size:19
Alignment explanation
Indices: 143107--143211 Score: 89
Period size: 20 Copynumber: 5.7 Consensus size: 19
143097 CACACCCAGA
143107 TGTATCGATACATTATGCTT
1 TGTATCGATACATTAT-CTT
143127 TGTATCGATAC---A---T
1 TGTATCGATACATTATCTT
143140 TGTATCGATACATTATGCTT
1 TGTATCGATACATTAT-CTT
*
143160 TGTATCGATACATGT-TCAT
1 TGTATCGATACAT-TATCTT
* **
143179 TGTATCGATACATGGATAAT
1 TGTATCGATACAT-TATCTT
143199 TGTATCGATACAT
1 TGTATCGATACAT
143212 GAGATTGGCA
Statistics
Matches: 73, Mismatches: 3, Indels: 18
0.78 0.03 0.19
Matches are distributed among these distances:
13 12 0.16
16 1 0.01
17 1 0.01
19 16 0.22
20 42 0.58
21 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (19 bp):
TGTATCGATACATTATCTT
Found at i:143144 original size:13 final size:13
Alignment explanation
Indices: 143126--143153 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
143116 ACATTATGCT
143126 TTGTATCGATACA
1 TTGTATCGATACA
143139 TTGTATCGATACA
1 TTGTATCGATACA
143152 TT
1 TT
143154 ATGCTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:143191 original size:39 final size:33
Alignment explanation
Indices: 143107--143172 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
143097 CACACCCAGA
143107 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
143140 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCTTTGTATCGATACAT
143173 GTTCATTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATGCTTTGTATCGATACAT
Found at i:143202 original size:39 final size:39
Alignment explanation
Indices: 143137--143212 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
143127 TGTATCGATA
* **
143137 CATTGTATCGATACATTATGCTTTGTATCGATACATGTT
1 CATTGTATCGATACATGATGAATTGTATCGATACATGTT
143176 CATTGTATCGATACATGGAT-AATTGTATCGATACATG
1 CATTGTATCGATACAT-GATGAATTGTATCGATACATG
143213 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 31 0.94
40 2 0.06
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (39 bp):
CATTGTATCGATACATGATGAATTGTATCGATACATGTT
Found at i:143267 original size:20 final size:20
Alignment explanation
Indices: 143241--143294 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
143231 CTACCACTGT
*
143241 TTGTATCGATACATGGTAGAA
1 TTGTATCGATACATGAT-GAA
143262 -TGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
*
143281 TTATATCGATACAT
1 TTGTATCGATACAT
143295 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:151015 original size:20 final size:21
Alignment explanation
Indices: 150990--151043 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
150980 GTTACAAGCA
*
150990 ATGTATCGATACAATT-TATC
1 ATGTATCGATACAATTGTACC
*
151010 ATGTATCGATA-TATTGTACC
1 ATGTATCGATACAATTGTACC
151030 ATGTATCGATACAA
1 ATGTATCGATACAA
151044 ACAGTGGTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 25 0.86
21 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (21 bp):
ATGTATCGATACAATTGTACC
Found at i:151118 original size:19 final size:19
Alignment explanation
Indices: 151072--151127 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
151062 CTGCCAGTTT
**
151072 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
151092 CCTGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
151111 CATGTATCAATACAATG
1 CATGTATCGATACAATG
151128 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:159517 original size:13 final size:13
Alignment explanation
Indices: 159499--159523 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
159489 ACAATAAACA
159499 TGTATCGATACAT
1 TGTATCGATACAT
159512 TGTATCGATACA
1 TGTATCGATACA
159524 AAACATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:159521 original size:32 final size:33
Alignment explanation
Indices: 159480--159544 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
159470 CAATTGTCCC
*
159480 TGTATCGATACAATAA-A-CATGTATCGATACAT
1 TGTATCGATACAA-AACATAATGTATCGATACAT
159512 TGTATCGATACAAAACATAATGTATCGATACAT
1 TGTATCGATACAAAACATAATGTATCGATACAT
159545 CTGGGTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 2 0.07
32 14 0.47
33 14 0.47
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (33 bp):
TGTATCGATACAAAACATAATGTATCGATACAT
Found at i:163714 original size:21 final size:22
Alignment explanation
Indices: 163690--163737 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
163680 AATCACATTT
163690 TTGTCCA-AATGTATCGATACA
1 TTGTCCAGAATGTATCGATACA
*
163711 TTGT-TAGAATGTATCGATACA
1 TTGTCCAGAATGTATCGATACA
*
163732 TGGTCC
1 TTGTCC
163738 CAACGGTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (22 bp):
TTGTCCAGAATGTATCGATACA
Found at i:163792 original size:19 final size:19
Alignment explanation
Indices: 163768--163821 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
163758 ATTCAACGAT
*
163768 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
163787 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
163806 TTGTATCGATACATAA
1 TTGTATCGATACATAA
163822 TTAGCTACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:166120 original size:10 final size:10
Alignment explanation
Indices: 166105--166146 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
166095 AAAAGTAAAC
166105 ACAAAAAAAA
1 ACAAAAAAAA
166115 ACAAAAAAAA
1 ACAAAAAAAA
166125 A-AAAAGAAAA
1 ACAAAA-AAAA
*
166135 AGAAACAAAAA
1 ACAAA-AAAAA
166146 A
1 A
166147 ACAACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.14
10 16 0.55
11 8 0.28
12 1 0.03
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:166126 original size:36 final size:35
Alignment explanation
Indices: 166086--166162 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 35
166076 AATGATGATG
166086 AAAAAAGTCAAAAGTAAACACAAAAAAAAACAAAAAAA
1 AAAAAAGTCAAAAG-AAACA-AAAAAAAAAC-AAAAAA
* * * *
166124 AAAAAAG-AAAAAGAAACAAAAAAACAACACACAA
1 AAAAAAGTCAAAAGAAACAAAAAAAAAACAAAAAA
166158 AAAAA
1 AAAAA
166163 GTGCAAAGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
34 9 0.26
35 9 0.26
36 5 0.14
37 5 0.14
38 7 0.20
ACGTcount: A:0.81, C:0.12, G:0.05, T:0.03
Consensus pattern (35 bp):
AAAAAAGTCAAAAGAAACAAAAAAAAAACAAAAAA
Found at i:167328 original size:16 final size:17
Alignment explanation
Indices: 167303--167340 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
167293 TTGTGCTGTA
* *
167303 ATCATGACATC-ATGAC
1 ATCATAACATCAATAAC
167319 ATCATAACATCAATAAC
1 ATCATAACATCAATAAC
167336 ATCAT
1 ATCAT
167341 TATTTGCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (17 bp):
ATCATAACATCAATAAC
Found at i:167520 original size:34 final size:33
Alignment explanation
Indices: 167476--167966 Score: 324
Period size: 34 Copynumber: 15.1 Consensus size: 33
167466 TTTTGTCCCA
*
167476 AAGTCCACGACTCCGTGGCATCTTTTCCTTCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTCCTT-TTT
* * ** **
167510 AAGCCCACGACTCAATGGCATC-TTTCC-TTCA
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTTT
* * **
167541 AAGTCCACGACTCAGTGGCATCTTTT-C-TTCA
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTTT
* * * * *
167572 AAGTCCACGACTCCATGGCACCTTTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTT-T
167606 AAGTCCACAACTCCGTGGCA-C---T-CTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTTT
167634 AAAG-CCACAACTCCGTGGCA-C----CC-TTTT
1 -AAGTCCACAACTCCGTGGCATCTTTTCCTTTTT
* * * *
167661 AAGTCCACGACTCCATGCCCCCATTTTTTCC-TTTT
1 AAGTCCACAACTCCGTG---GCATCTTTTCCTTTTT
*
167696 AAG-CCTAC-ACTTCCGTGGCACCTTGTTCC-TTTT
1 AAGTCC-ACAAC-TCCGTGGCATCTT-TTCCTTTTT
* *
167729 AAGTCCACAACTCTGTGGCATCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTTT
* ** *
167762 AAAGTCCATAACTCTATGGCATCTTTTTCCTTTTA
1 -AAGTCCACAACTCCGTGGCATC-TTTTCCTTTTT
* * *
167797 AAGCCCACAACTTCGTGGCATCTTTTTCCTTTTA
1 AAGTCCACAACTCCGTGGCATC-TTTTCCTTTTT
* *
167831 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTA
1 AAGTCCACAACTCCGTGGCATC-TTTTCCTTTTT
* * * *
167865 AAGCCCACAACTTCGTGGCATTCTTTTTCCATTTA
1 AAGTCCACAACTCCGTGGCA-TC-TTTTCCTTTTT
* *
167900 AAATCCACAACTCCGTGGCACCTTTTCC-TTTT
1 AAGTCCACAACTCCGTGGCATCTTTTCCTTTTT
* *
167932 AAGTCCACAACTTCGTGGCAT-TTTTCTTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTCCT-TTTT
167965 AA
1 AA
167967 ACCCACAAGT
Statistics
Matches: 381, Mismatches: 50, Indels: 53
0.79 0.10 0.11
Matches are distributed among these distances:
26 3 0.01
27 15 0.04
28 18 0.05
29 8 0.02
30 3 0.01
31 54 0.14
32 33 0.09
33 48 0.13
34 144 0.38
35 55 0.14
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCATCTTTTCCTTTTT
Found at i:167552 original size:31 final size:31
Alignment explanation
Indices: 167445--167631 Score: 173
Period size: 31 Copynumber: 5.8 Consensus size: 31
167435 ATACCTTCTT
* *
167445 AAAGTCCACAACTCAGTGGCATTTTGTCC--C
1 AAAGTCCACGACTCAGTGGCATCTT-TCCTTC
*
167475 AAAGTCCACGACTCCGTGGCATCTTTTCCTTC
1 AAAGTCCACGACTCAGTGGCATC-TTTCCTTC
* * *
167507 TTTAAGCCCACGACTCAATGGCATCTTTCCTTC
1 --AAAGTCCACGACTCAGTGGCATCTTTCCTTC
*
167540 AAAGTCCACGACTCAGTGGCATCTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTCCTTC
* *
167571 AAAGTCCACGACTCCA-TGGCACCTTTTTCTTTTC
1 AAAGTCCACGACT-CAGTGGCA--TCTTTC-CTTC
* *
167605 AAAGTCCACAACTCCGTGGCACTCTTT
1 AAAGTCCACGACTCAGTGGCA-TCTTT
167632 TTAAAGCCAC
Statistics
Matches: 130, Mismatches: 17, Indels: 17
0.79 0.10 0.10
Matches are distributed among these distances:
30 23 0.18
31 47 0.36
32 3 0.02
33 18 0.14
34 39 0.30
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.31
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATCTTTCCTTC
Found at i:167647 original size:28 final size:29
Alignment explanation
Indices: 167537--167674 Score: 120
Period size: 31 Copynumber: 4.6 Consensus size: 29
167527 GCATCTTTCC
* * *
167537 TTCAAAGTCCACGACTCAGTGGCATCTTTT
1 TTCAAAGTCCACAACTCCGTGGCA-CTCTT
* *
167567 CTTCAAAGTCCACGACTCCATGGCACCTTTTTCTT
1 -TTCAAAGTCCACAACTCCGTGGCA-C----TCTT
167602 TTCAAAGTCCACAACTCCGTGGCACTCTT
1 TTCAAAGTCCACAACTCCGTGGCACTCTT
* *
167631 TTTAAAG-CCACAACTCCGTGGCACCCTT
1 TTCAAAGTCCACAACTCCGTGGCACTCTT
*
167659 TT--AAGTCCACGACTCC
1 TTCAAAGTCCACAACTCC
167675 ATGCCCCCAT
Statistics
Matches: 93, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 3 0.03
27 9 0.10
28 22 0.24
29 10 0.11
31 23 0.25
33 1 0.01
34 22 0.24
35 3 0.03
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (29 bp):
TTCAAAGTCCACAACTCCGTGGCACTCTT
Found at i:167668 original size:27 final size:29
Alignment explanation
Indices: 167599--167674 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
167589 GCACCTTTTT
167599 CTTTTCAAAGTCCACAACTCCGTGGCACTC
1 CTTTT-AAAGTCCACAACTCCGTGGCACTC
*
167629 TTTTTAAAG-CCACAACTCCGTGGCAC-C
1 CTTTTAAAGTCCACAACTCCGTGGCACTC
*
167656 CTTTT-AAGTCCACGACTCC
1 CTTTTAAAGTCCACAACTCC
167675 ATGCCCCCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.07
27 14 0.33
28 17 0.40
29 4 0.10
30 4 0.10
ACGTcount: A:0.24, C:0.36, G:0.13, T:0.28
Consensus pattern (29 bp):
CTTTTAAAGTCCACAACTCCGTGGCACTC
Found at i:167851 original size:102 final size:101
Alignment explanation
Indices: 167685--167974 Score: 360
Period size: 102 Copynumber: 2.9 Consensus size: 101
167675 ATGCCCCCAT
* *
167685 TTTTTCCTTTT-AAGCCTAC-ACTTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGC
1 TTTTTCCTTTTAAAGCCCACAACTT-CGTGGCA-CTTTTTCCTTTTAAGTCCACAACTCTGTGGC
* *
167748 ATCTTTTTCTTTTTAAAGTCCATAAC-TCTATGGCA-TC
64 ATCTTTTTCTTTTTAAAGCCCACAACTTC-ATGGCATTC
167785 TTTTTCCTTTTAAAGCCCACAACTTCGTGGCATCTTTTTCCTTTTAAAGTCCACAACTCTGTGGC
1 TTTTTCCTTTTAAAGCCCACAACTTCGTGGCA-CTTTTTCCTTTT-AAGTCCACAACTCTGTGGC
* *
167850 ATCTTTTTCCTTTTAAAGCCCACAACTTCGTGGCATTC
64 ATCTTTTTCTTTTTAAAGCCCACAACTTCATGGCATTC
* ** * *
167888 TTTTTCCATTTAAAATCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACT-TCGTGGCA
1 TTTTTCCTTTTAAAGCCCACAACTTCGTGGCACTTTTTCCTTTTAAGTCCACAACTCT-GTGGCA
*
167952 TTTTTCTTC-TTTTAAA-CCCACAA
65 TCTTT-TTCTTTTTAAAGCCCACAA
167975 GTTGGTACAA
Statistics
Matches: 170, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
100 19 0.11
101 54 0.32
102 65 0.38
103 32 0.19
ACGTcount: A:0.21, C:0.28, G:0.11, T:0.40
Consensus pattern (101 bp):
TTTTTCCTTTTAAAGCCCACAACTTCGTGGCACTTTTTCCTTTTAAGTCCACAACTCTGTGGCAT
CTTTTTCTTTTTAAAGCCCACAACTTCATGGCATTC
Found at i:168006 original size:31 final size:33
Alignment explanation
Indices: 167970--168051 Score: 114
Period size: 33 Copynumber: 2.5 Consensus size: 33
167960 CTTTTAAACC
167970 CACAAGTTGGT-ACAACC-CCCTCTAAAGCCCA
1 CACAAGTTGGTGACAACCACCCTCTAAAGCCCA
* * *
168001 CACAAGTCGGTGGCAACCACTCTCTAAAGCCCA
1 CACAAGTTGGTGACAACCACCCTCTAAAGCCCA
*
168034 CACAAGTTGGTGGCAACC
1 CACAAGTTGGTGACAACC
168052 CTTTTAAGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 10 0.22
32 5 0.11
33 30 0.67
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.16
Consensus pattern (33 bp):
CACAAGTTGGTGACAACCACCCTCTAAAGCCCA
Found at i:168028 original size:33 final size:33
Alignment explanation
Indices: 167989--168051 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
167979 GTACAACCCC
167989 CTCTAAAGCCCACACAAGTCGGTGGCAACCACT
1 CTCTAAAGCCCACACAAGTCGGTGGCAACCACT
*
168022 CTCTAAAGCCCACACAAGTTGGTGGCAACC
1 CTCTAAAGCCCACACAAGTCGGTGGCAACC
168052 CTTTTAAGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.35, G:0.19, T:0.16
Consensus pattern (33 bp):
CTCTAAAGCCCACACAAGTCGGTGGCAACCACT
Found at i:168108 original size:49 final size:49
Alignment explanation
Indices: 168054--169054 Score: 1205
Period size: 49 Copynumber: 20.8 Consensus size: 49
168044 TGGCAACCCT
168054 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * *
168102 TTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 -TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
168152 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * *
168200 TTTTAAGTCTAATATAGCTGGCCTTGACTCAGCACATTGGCACCTTCACC
1 -TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
*
168250 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * * * *
168299 TTTATGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
168348 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * * * *
168391 TTTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCGCCTTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
168440 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * * *
168483 TTTAAGTCCAATATAGCTGGCTTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
168532 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * * *
168575 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
**
168624 TTTAAGTCCAATGTAGCTAACCTTGAATCAGCACATTGG------CACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * * * *
168667 TTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTAGCACCTTCATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
*
168716 TTTAAGTCCAATGTA-CTTGGCCTTGAATCAGCACATTAGCACC-TCACC
1 TTTAAGTCCAATGTAGC-TGGCCTTGAATCAGCACATTGGCACCTTCACC
* * * *
168764 TTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCATC
1 -TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
168814 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * * * * *
168862 TTTAAGTCTAATATAGCTAGGCCTTGAATCAGCATATTGGCATCTTTATC
1 TTTAAGTCCAATGTAGCT-GGCCTTGAATCAGCACATTGGCACCTTCACC
* * * *
168912 TTTAAGTCCAATGTAGCTCGCCTTGACTCAGCACATTGGCACCTTAATC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
* * * * * *
168961 TTTAAGTCCAATATCGTTGGCCTTGACTCAGCATATTGGCACCTTCATCATT
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCA-C--C
** * *
169013 TTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 TTT-AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
169055 TTCTTCTCAT
Statistics
Matches: 821, Mismatches: 94, Indels: 70
0.83 0.10 0.07
Matches are distributed among these distances:
43 152 0.19
48 28 0.03
49 572 0.70
50 33 0.04
52 3 0.00
53 33 0.04
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCACC
Found at i:168223 original size:98 final size:97
Alignment explanation
Indices: 168054--169054 Score: 1477
Period size: 98 Copynumber: 10.4 Consensus size: 97
168044 TGGCAACCCT
168054 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTTAAGTCCAATATAG
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACC-TTTAAGTCCAATATAG
168119 CTGGCCTTGAATCAGCATATTGGCACCTTCATC
65 CTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
168152 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTTAAGTCTAATATAG
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACC-TTTAAGTCCAATATAG
* * *
168217 CTGGCCTTGACTCAGCACATTGGCACCTTCACC
65 CTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
168250 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTTTATGTCCAATATAG
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATATAG
*
168315 CTGGCCTTGAATCAGCATATTGGCACCTTTATC
65 CTGGCCTTGAATCAGCATATTGGCACCTTCATC
168348 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
* *
168408 TGGCCTTAAATCAGCATATTGGCGCCTTCATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
168440 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
*
168500 TGGCTTTGAATCAGCATATTGGCACCTTCATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
168532 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CACCTTTAAGTCCAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
*
168592 TGGCCTTGAATCAGCATATTGGCACCTTTATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
** *
168624 TTTAAGTCCAATGTAGCTAACCTTGAATCAGCACATTGG-----CACCTTTAAGTCCAATATAGT
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
*
168684 TGGCCTTGAATCAGCATATTAGCACCTTCATC
66 TGGCCTTGAATCAGCATATTGGCACCTTCATC
*
168716 TTTAAGTCCAATGTA-CTTGGCCTTGAATCAGCACATTAGCACCTCACCTTTTAAGTCCAATATA
1 TTTAAGTCCAATGTAGC-TGGCCTTGAATCAGCACATTGGCACCTCACC-TTTAAGTCCAATATA
*
168780 GCTAGCCTTGAATCAGCATATTGGCACCTTCATC
64 GCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
168814 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCTAATATAGC
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
* *
168879 TAGGCCTTGAATCAGCATATTGGCATCTTTATC
66 T-GGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * *
168912 TTTAAGTCCAATGTAGCTCGCCTTGACTCAGCACATTGGCACCTTAATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATATAG
* *
168977 TTGGCCTTGACTCAGCATATTGGCACCTTCATC
65 CTGGCCTTGAATCAGCATATTGGCACCTTCATC
** * *
169010 ATTTTTAAAACCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA
1 ---TTT-AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
169055 TTCTTCTCAT
Statistics
Matches: 835, Mismatches: 53, Indels: 26
0.91 0.06 0.03
Matches are distributed among these distances:
91 1 0.00
92 349 0.42
97 21 0.03
98 405 0.49
99 24 0.03
101 3 0.00
102 32 0.04
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (97 bp):
TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATATAGC
TGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:169813 original size:19 final size:18
Alignment explanation
Indices: 169788--169855 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
169778 AATTCAACGA
169788 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
169806 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
169822 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
169838 TATTGTATCGATAAATAA
1 T-TTGTATCGATACATAA
169856 TTAGCTACTG
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 1 0.02
19 26 0.62
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:169826 original size:32 final size:32
Alignment explanation
Indices: 169790--169850 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
169780 TTCAACGATT
*
169790 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
169822 TGTATCGATACATAAGTATTGTATCGATA
1 TGTATCGATACATAAGTATTGTATCGATA
169851 AATAATTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:169827 original size:13 final size:13
Alignment explanation
Indices: 169809--169833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
169799 ACATAAGTGT
169809 TGTATCGATACAA
1 TGTATCGATACAA
169822 TGTATCGATACA
1 TGTATCGATACA
169834 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:183722 original size:20 final size:20
Alignment explanation
Indices: 183699--183775 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 20
183689 AAGTACCCAG
* *
183699 ATGTATAGATGCATTCTTCA
1 ATGTATCGATACATTCTTCA
* * * * *
183719 ATGTATTGATATATGCATGA
1 ATGTATCGATACATTCTTCA
*
183739 ATGTATCGATTCATTCTTCA
1 ATGTATCGATACATTCTTCA
183759 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
183776 GTCTTTTTAC
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:197757 original size:32 final size:34
Alignment explanation
Indices: 197716--197789 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 34
197706 CTAAAAAAAT
197716 AAAAAAACAAAAAAAAAACAA-AAAAAAGA-ACA
1 AAAAAAACAAAAAAAAAACAAGAAAAAAGAGACA
* *
197748 AAAAAAAC-AAAAAAAAACAAGAAAAAATAGCCA
1 AAAAAAACAAAAAAAAAACAAGAAAAAAGAGACA
197781 AAAAAAACA
1 AAAAAAACA
197790 TTAAAGGGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 12 0.32
32 15 0.41
33 10 0.27
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (34 bp):
AAAAAAACAAAAAAAAAACAAGAAAAAAGAGACA
Found at i:197761 original size:33 final size:33
Alignment explanation
Indices: 197716--197789 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
197706 CTAAAAAAAT
197716 AAAAAAAC-AAAAAAAA-AACAAAAAAAAGAACA
1 AAAAAAACAAAAAAAAACAACAAAAAAAAG-ACA
* * *
197748 AAAAAAACAAAAAAAAACAAGAAAAAATAGCCA
1 AAAAAAACAAAAAAAAACAACAAAAAAAAGACA
197781 AAAAAAACA
1 AAAAAAACA
197790 TTAAAGGGTC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.22
33 19 0.51
34 10 0.27
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (33 bp):
AAAAAAACAAAAAAAAACAACAAAAAAAAGACA
Found at i:197772 original size:12 final size:11
Alignment explanation
Indices: 197716--197774 Score: 79
Period size: 11 Copynumber: 5.5 Consensus size: 11
197706 CTAAAAAAAT
197716 AAAAAAACAAA
1 AAAAAAACAAA
197727 AAAAAAACAAA
1 AAAAAAACAAA
197738 AAAAAGAAC--A
1 AAAAA-AACAAA
197748 AAAAAAAC-AA
1 AAAAAAACAAA
197758 AAAAAAACAAGA
1 AAAAAAACAA-A
197770 AAAAA
1 AAAAA
197775 TAGCCAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
9 3 0.07
10 15 0.34
11 17 0.39
12 9 0.20
ACGTcount: A:0.88, C:0.08, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:197787 original size:1 final size:1
Alignment explanation
Indices: 197708--197774 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
197698 CTTTATACCT
* * * * * * * *
197708 AAAAAAATAAAAAAACAAAAAAAAAACAAAAAAAAGAACAAAAAAAACAAAAAAAAACAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
197773 AA
1 AA
197775 TAGCCAAAAA
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.88, C:0.07, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:197788 original size:23 final size:20
Alignment explanation
Indices: 197716--197789 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 20
197706 CTAAAAAAAT
*
197716 AAAAAAACAAAAAAAAAACA
1 AAAAAAACAAAAAAAAACCA
* *
197736 AAAAAAAGAACAAAAAAAACAA
1 AAAAAAA-CA-AAAAAAAACCA
197758 AAAAAAACAAGAAAAAATAGCCA
1 AAAAAAACAA-AAAAAA-A-CCA
197781 AAAAAAACA
1 AAAAAAACA
197790 TTAAAGGGTC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 8 0.18
21 8 0.18
22 17 0.39
23 11 0.25
ACGTcount: A:0.84, C:0.11, G:0.04, T:0.01
Consensus pattern (20 bp):
AAAAAAACAAAAAAAAACCA
Found at i:199049 original size:28 final size:28
Alignment explanation
Indices: 199009--200082 Score: 854
Period size: 28 Copynumber: 36.8 Consensus size: 28
198999 CGTTCATCTC
199009 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
199037 TTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
199065 TTTAAAGCCCACACAAGTC-GATGGTAACTCAT
1 TTCAAAG-CC-CACAAGTCAG-TGG-CAC-CCT
* * * *
199097 TTGAAAGCCCACACAAGTCAATGGCATCAT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCT
**
199127 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
*
199159 TTCAAAGCCCACACAAGTCAGTGGTACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCT
* * * *
199189 TTCAAAGTCCACAAGTCAATGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
199217 TTCAAAGCCCACACAAGTCGGTAGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
* * *
199249 TTCAAAGCCCACAAATCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* **
199277 TTCAAAGCCCACACAAGTCGGTGGCAACTTAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
* * * *
199309 TTGAAAGCCCACGCAAGTCAATGGCATCAT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCCT
* ** *
199339 TTTAAAGCCCACACAAGTTGGCGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
**
199371 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
199403 TTCAAAGCCCAC-A--CAAGTGGCACCCT
1 TTCAAAGCCCACAAGTC-AGTGGCACCCT
* *
199429 TTCAAAGCCCACAAGTCAGTGGCATCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
199457 TTCAAAGCCCACACAAGTCGGTGGCAACTCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-AC-CCT
* *
199489 TTCAAAGCCTACACAAGTCAGTGGCATCAT
1 TTCAAAGCC--CACAAGTCAGTGGCACCCT
** * *
199519 TTCAAAGCCTACACAAGTTGGTGGTAACTCAT
1 TTCAAAGCC--CACAAGTCAGTGG-CAC-CCT
**
199551 TTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACCC-T
*
199583 TTCAAAGCCCACACAAGTCAATGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCCT
* * *
199613 TTCAAAGCCCACAAATCGGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** * * *
199641 TTCAAAGTTCACAAGTCGGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
199669 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
199697 TGCAAAG-CC-C-A--C-GTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
** * * *
199721 TTCAAAGCTAACGAGTCGGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
*
199751 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
199779 TTCAAAGCCCACAAGTCAATGGCTCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
199807 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
199835 TTCAAAACCCACAAGTCAGTGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
199863 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
199892 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
199920 TTCAAAGACCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
199948 TTCAAAGCCCACAAGTCAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
199976 TTCAAAGCCCACAAGTTAGTGGAACCAT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
200004 TTCAAAGCCCACAAATCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
200032 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
*
200061 TTCAAAGCCCACAAGCCAGTGG
1 TTCAAAGCCCACAAGTCAGTGG
200083 TAACTCTTTT
Statistics
Matches: 877, Mismatches: 123, Indels: 91
0.80 0.11 0.08
Matches are distributed among these distances:
22 5 0.01
23 2 0.00
24 8 0.01
25 1 0.00
26 15 0.02
27 8 0.01
28 378 0.43
29 64 0.07
30 175 0.20
31 31 0.04
32 188 0.21
33 2 0.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:199348 original size:180 final size:176
Alignment explanation
Indices: 199009--200135 Score: 962
Period size: 180 Copynumber: 6.4 Consensus size: 176
198999 CGTTCATCTC
* * *
199009 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG-CC-CACAAGTCAGTGGCA-TCATTTTAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAA
* * *
199070 AGCCCACACAAGTC-GATGGTAACTCATTTGAAAGCCCACACAAGTCAATGGC-A-TCATTTCAA
66 AGCCCACA-AA-TCAG-TGG-CA-TCATTTCAAAG-CCACACAAGTCAGTGGCAACTCATTTCAA
** * * *
199132 AGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGTAC-CCT
125 AG-CC-CACAAGTCAGTGGC-A-TCATTTCAAAG-CC-CACAAGTCAGTGGAACTCTT
* * * * *
199189 TTCAAAGTCCACAAGTCAATGGCA-TCATTTCAAAGCCCACACAAGTCGGTAGCAACTCATTTCA
1 TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACACAAGTCAGTGGC-ACTCCTTTCA
* * *
199253 AAGCCCACAAATCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTTATTTGAAAGCC
65 AAGCCCACAAATCAGTGGCATCATTTCAAAG-CCACACAAGTCAGTGGCAACTCATTTCAAAGCC
* * ** * * *
199318 CACGCAAGTCAATGGCATCATTTTAAAGCCCACACAAGTTGGCGGCAACCCAT
129 CA--CAAGTCAGTGGCATCATTTCAAAG-CC-CACAAGTCAGTGG-AACTCTT
** *
199371 TTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACAC-A---AGTGGCAC-CCTTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCATTTCAAAGCCCACACAAGTCAGTGGCACTCCTTT
* *
199431 CAAAGCCCACAAGTCAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCAAAG
63 CAAAGCCCACAAATCAGTGGCATCATTTCAAAG-CCACACAAGTCAGTGGCAACTCATTTCAAAG
** *
199496 CCTACACAAGTCAGTGGCATCATTTCAAAGCCTACACAAGTTGGTGGTAACTCAT
127 CC--CACAAGTCAGTGGCATCATTTCAAAGCC--CACAAGTCAGTGG-AACTCTT
** * *
199551 TTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAATGGCAC-CCTTT
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCATTTCAAAGCCCACACAAGTCAGTGGCACTCCTTT
* * ** * *
199615 CAAAGCCCACAAATCGGTGGCATCCTTTCAAAG-TTCACAAGTCGGTGGC-A-TCTTTTCAAAGC
63 CAAAGCCCACAAATCAGTGGCATCATTTCAAAGCCACACAAGTCAGTGGCAACTCATTTCAAAGC
* * *
199677 CCACAAGTCAGTGGCATCCTTGCAAAGCCCAC--GT--G-GCAACTCTT
128 CCACAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGAACTCTT
** * * *
199721 TTCAAAGCTAACGAGTCGGTGGCAACTCTTTTCAAAG-CC-CACAAGTCAGTGGCA-TCCTTTCA
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCATTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCA
* * * * * *
199783 AAGCCCACAAGTCAATGGC-TCCCTTTCAAAGCC-CATAAGTCAGTGGC-A-TCCTTTCAAAACC
65 AAGCCCACAAATCAGTGGCAT-CATTTCAAAGCCACACAAGTCAGTGGCAACTCATTTCAAAGCC
*
199844 CACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACTCTT
129 CACAAGTCAGTGGCA-TCATTTCAAAGCCCACAAGTCAGTGGAACTCTT
* *
199892 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAG-AC-CACAAGTCAGTGGCAC-CCTTTCAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAA
* * * *
199953 AGCCCACAAGTCAGTGGTATCCTTTCAAAGCC-CACAAGTTAGTGG-AAC-CATTTCAAAGCCCA
66 AGCCCACAAATCAGTGGCATCATTTCAAAGCCACACAAGTCAGTGGCAACTCATTTCAAAGCCCA
* * * *
200015 CAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
131 CAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGAACTCTT
* * * * * * * * *
200061 TTCAAAGCCCACAAGCCAGTGGTAACTCTTTTTAAAGCCCACACAATTCGGTGACGACTCTTTTT
1 TTCAAAGCCCACAAGTCAGTGG-CACTCATTTCAAAGCCCACACAAGTCAGTGGC-ACTCCTTTC
200126 AAAGCCCACA
64 AAAGCCCACA
200136 CGAGTCGGTG
Statistics
Matches: 813, Mismatches: 91, Indels: 91
0.82 0.09 0.09
Matches are distributed among these distances:
165 1 0.00
166 98 0.12
167 4 0.00
168 26 0.03
169 150 0.18
170 17 0.02
171 36 0.04
172 2 0.00
173 11 0.01
174 4 0.00
175 14 0.02
176 3 0.00
178 26 0.03
179 2 0.00
180 249 0.31
181 13 0.02
182 64 0.08
183 5 0.01
184 69 0.08
185 2 0.00
186 17 0.02
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (176 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAA
AGCCCACAAATCAGTGGCATCATTTCAAAGCCACACAAGTCAGTGGCAACTCATTTCAAAGCCCA
CAAGTCAGTGGCATCATTTCAAAGCCCACAAGTCAGTGGAACTCTT
Found at i:199434 original size:212 final size:207
Alignment explanation
Indices: 199009--200173 Score: 1126
Period size: 212 Copynumber: 5.7 Consensus size: 207
198999 CGTTCATCTC
* *
199009 TTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA-TCATTTTAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAG
* * * *
199072 CCCACACAAGTCGATGGTAACTCATTTGAAAGCCCACACAAGTCAATGGCATCATTTCAAAGCCC
66 CCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCC
* *
199137 ACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGTACCCTTTCAAAGTCCACA
131 ACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACA
* *
199202 AGTCAATGGCATCAT
196 A---AGTGGCATCCT
* * *
199217 TTCAAAGCCCACACAAGTCGGTAGCAACTCATTTCAAAGCCCACAAATCAGTGGCA-TCATTTCA
1 TTCAAAG-CC-CACAAGTCAGTGGC-ACTCATTTCAAAGCCCACAAGTCAGTGGCACTCATTTCA
* * * * *
199281 AAGCCCACACAAGTCGGTGGCAACTTATTTGAAAGCCCACGCAAGTCAATGGCATCATTTTAAAG
63 AAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAG
* **
199346 CCCACACAAGTTGGCGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGCAACCCATTTCAAAGC
128 CCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGC-ACCC-TTTCAAAGC
*
199411 CCACACAAGTGGCACCCT
191 CCACA-AAGTGGCATCCT
*
199429 TTCAAAGCCCACAAGTCAGTGGCA-TCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCA
1 TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAG-CC-CACAAGTCAGTGGC-ACTCATTTCA
* * * ** *
199493 AAGCCTACACAAGTCAGTGGC-A-TCATTTCAAAGCCTACACAAGTTGGTGGTAACTCATTTCAA
63 AAGCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGG-CA-TCATTTCAA
*
199556 AGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAATGGCACCCTTTCAAAGC
126 AGCCCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGC
199621 CCACAAATCGGTGGCATCCT
191 CCACAAA---GTGGCATCCT
** * * * *
199641 TTCAAAGTTCACAAGTCGGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTGCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAG
* * * * *
199704 --C-C-C-A--C-GTGGCAACTCTTTTCAAAG-CTA-ACGAGTCGGTGGCAACTCTTTTCAAAG-
66 CCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGC-A-TCATTTCAAAGC
** * * *
199758 CC-CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAATGGCTCCCTTTCAAAGCCCA
129 CCACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCA
*
199818 TAAGTCAGTGGCATCCT
194 CAA---AGTGGCATCCT
* *
199835 TTCAAAACCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAG
* * * * *
199899 -CC-CACAAGTCAGTGGC-A-TCCTTTCAAAG-AC-CACAAGTCAGTGGCACCCTTTCAAAG-CC
66 CCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCC
** * * * * *
199957 -CACAAGTCAGTGG-TATCC-TTTCAAAG-CC-CACAAGTTAGTGGAACCATTTCAAAGCCCACA
131 ACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCAC-
*
200017 AATCAGTGGCACCCT
195 AA--AGTGGCATCCT
* * * * *
200032 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGCCAGTGGTAACTCTTTTTAAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTCAGTGG-CACTCATTTCAAA
* * * * * * * * *
200097 GCCCACACAATTCGGTGACGACTCTTTTTAAAGCCCACACGAGTCGGTGGTGACTCTTTTCAAAG
65 GCCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGG-CA-TCATTTCAAAG
*
200162 CTCACACAAGTT
128 CCCACACAAGTT
200174 AATGGCACTT
Statistics
Matches: 819, Mismatches: 93, Indels: 89
0.82 0.09 0.09
Matches are distributed among these distances:
194 86 0.11
195 13 0.02
196 10 0.01
197 106 0.13
198 38 0.05
199 35 0.04
200 31 0.04
201 21 0.03
202 11 0.01
203 10 0.01
204 2 0.00
205 12 0.01
206 1 0.00
207 9 0.01
208 28 0.03
209 15 0.02
210 84 0.10
211 13 0.02
212 276 0.34
213 4 0.00
214 13 0.02
215 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (207 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAGCCCACAAGTCAGTGGCACTCATTTCAAAG
CCCACACAAGTCGGTGGCAACTCATTTCAAAGCCCACACAAGTCAGTGGCATCATTTCAAAGCCC
ACACAAGTTGGTGGCAACCCATTTCAAAGCCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACA
AAGTGGCATCCT
Found at i:199728 original size:24 final size:25
Alignment explanation
Indices: 199699--199762 Score: 67
Period size: 30 Copynumber: 2.4 Consensus size: 25
199689 GGCATCCTTG
199699 CAAAGCCCAC-GTGGCAACTCTTTT
1 CAAAGCCCACGGTGGCAACTCTTTT
*
199723 CAAAGCTAACGAGTCGGTGGCAACTCTTTT
1 CAAAGC---CCA--CGGTGGCAACTCTTTT
199753 CAAAGCCCAC
1 CAAAGCCCAC
199763 AAGTCAGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
24 6 0.19
25 1 0.03
27 4 0.12
29 1 0.03
30 20 0.62
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (25 bp):
CAAAGCCCACGGTGGCAACTCTTTT
Found at i:204436 original size:51 final size:49
Alignment explanation
Indices: 204379--204555 Score: 219
Period size: 51 Copynumber: 3.7 Consensus size: 49
204369 TTTTAACTAG
*
204379 ATGTATCGATACATTGAAAAATGTATCGATACATCCGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACAT-CGGGT-AAAAGACAGA
* *
204430 ATGTATCGATACATTGAAGAATGTATCGATACAT----T--CATAC---
1 ATGTATCGATACATTGAAGAATGTATCGATACATCGGGTAAAAGACAGA
*
204470 ATGTATCGATACATTGAAGAATGTATCGATACATCTGGGTAAGAAGATAGA
1 ATGTATCGATACATTGAAGAATGTATCGATACATC-GGGTAA-AAGACAGA
204521 ATGTATCGATACATTGAAGAATGTATCGATACATC
1 ATGTATCGATACATTGAAGAATGTATCGATACATC
204556 TAGGGTACTT
Statistics
Matches: 109, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
40 34 0.31
43 3 0.03
45 1 0.01
46 1 0.01
48 2 0.02
51 68 0.62
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGTATCGATACATTGAAGAATGTATCGATACATCGGGTAAAAGACAGA
Found at i:204452 original size:20 final size:20
Alignment explanation
Indices: 204427--204554 Score: 125
Period size: 20 Copynumber: 6.8 Consensus size: 20
204417 GTAAAAAGAC
204427 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
204447 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
204467 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
204487 AGAATGTATCGATACATCTG-
1 AGAATGTATCGATACAT-TGA
* *
204507 -G---GTA-AGA-AGA-T--
1 AGAATGTATCGATACATTGA
204518 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
204538 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
204555 CTAGGGTACT
Statistics
Matches: 88, Mismatches: 8, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
12 2 0.02
14 2 0.02
15 5 0.06
16 5 0.06
17 2 0.02
18 1 0.01
19 2 0.02
20 66 0.75
21 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Done.