Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000014.1 Hibiscus syriacus cultivar Beakdansim tig00000029_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 188288
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Found at i:13352 original size:22 final size:23
Alignment explanation
Indices: 13327--13377 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
13317 TCAAAATTTC
13327 TATATTTTA-TTTTTAAAATATA
1 TATATTTTAGTTTTTAAAATATA
* *
13349 TATAATTTTAGTTTTTTAATTATA
1 TAT-ATTTTAGTTTTTAAAATATA
13373 TATAT
1 TATAT
13378 ATATATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.12
23 8 0.32
24 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATATTTTAGTTTTTAAAATATA
Found at i:14018 original size:46 final size:46
Alignment explanation
Indices: 13930--14018 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
13920 ACGCCATTCC
* **
13930 AATTTAAATATCATCTCAAACTACAGAAAAAGAATTTTAATATTTA
1 AATTTAAATATCATCTCAAACTACAGAAAAAGAAATCAAATATTTA
*
13976 AATTTAAATATCATCTCAAACTACAGAAAAATAAATCAAATAT
1 AATTTAAATATCATCTCAAACTACAGAAAAAGAAATCAAATAT
14019 AATTTAAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.31
Consensus pattern (46 bp):
AATTTAAATATCATCTCAAACTACAGAAAAAGAAATCAAATATTTA
Found at i:17438 original size:20 final size:20
Alignment explanation
Indices: 17413--17454 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
17403 TCAGTTTTAA
*
17413 TTTGGGTTAACCTTTAAATT
1 TTTGGGTCAACCTTTAAATT
* *
17433 TTTGGGTCAACGTTTAGATT
1 TTTGGGTCAACCTTTAAATT
17453 TT
1 TT
17455 CAAGTCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.50
Consensus pattern (20 bp):
TTTGGGTCAACCTTTAAATT
Found at i:17481 original size:20 final size:20
Alignment explanation
Indices: 17425--17484 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
17415 TGGGTTAACC
* * **
17425 TTTAAATTTTTGGGTCAACG
1 TTTAGATTTTCGGGTCAATT
**
17445 TTTAGATTTTCAAGTCAATT
1 TTTAGATTTTCGGGTCAATT
17465 TTTAGATTTTCGGGTCAATT
1 TTTAGATTTTCGGGTCAATT
17485 ATTATCGCTC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTAGATTTTCGGGTCAATT
Found at i:21230 original size:12 final size:13
Alignment explanation
Indices: 21207--21235 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21197 AATTTGAAAC
21207 TGTTTAGACAAAA
1 TGTTTAGACAAAA
21220 TGTTT-GACAAAA
1 TGTTTAGACAAAA
21232 TGTT
1 TGTT
21236 GCAGAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTTTAGACAAAA
Found at i:26493 original size:21 final size:22
Alignment explanation
Indices: 26453--26500 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
26443 GGTACTGATA
26453 CCCCTCTATGGGTATCAATACT
1 CCCCTCTATGGGTATCAATACT
* *
26475 CCCCTTTAT-GGTATTAATACT
1 CCCCTCTATGGGTATCAATACT
*
26496 TCCCT
1 CCCCT
26501 GAGTATCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.21, C:0.31, G:0.10, T:0.38
Consensus pattern (22 bp):
CCCCTCTATGGGTATCAATACT
Found at i:41984 original size:23 final size:23
Alignment explanation
Indices: 41916--41976 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
41906 ACATTTTATA
*
41916 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* * *
41939 CGACACTTCAGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
41962 TGGCACTTCGGTGCA
1 TGGCACTTCGGTGCA
41977 TTTATACGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:48148 original size:2 final size:2
Alignment explanation
Indices: 48141--48167 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48131 ATCTTAGCCC
48141 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
48168 GAAGTCGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49534 original size:24 final size:24
Alignment explanation
Indices: 49506--49574 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
49496 TCCCCCTTAC
49506 TTTAACACTTCTCCCATTTATCAT
1 TTTAACACTTCTCCCATTTATCAT
*
49530 TTTAAAAC--C-CCC--TTA-C--
1 TTTAACACTTCTCCCATTTATCAT
49546 TTTAACACTTCTCCCATTTATCAT
1 TTTAACACTTCTCCCATTTATCAT
49570 TTTAA
1 TTTAA
49575 AACACAACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 16
0.66 0.04 0.30
Matches are distributed among these distances:
16 7 0.20
18 2 0.06
19 6 0.17
21 6 0.17
22 2 0.06
24 12 0.34
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTAACACTTCTCCCATTTATCAT
Found at i:49541 original size:40 final size:40
Alignment explanation
Indices: 49497--49577 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
49487 TGAAATTACT
49497 CCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAA
1 CCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAA
49537 CCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAA
1 CCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAA
49577 C
1 C
49578 ACAACACTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (40 bp):
CCCCCTTACTTTAACACTTCTCCCATTTATCATTTTAAAA
Found at i:51890 original size:20 final size:20
Alignment explanation
Indices: 51861--51898 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51851 CCTATTCAAA
*
51861 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
51881 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
51899 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:61088 original size:25 final size:25
Alignment explanation
Indices: 61054--61103 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
61044 GATCAGGGGT
61054 ACTGAAGCATAAACATATAGTGATA
1 ACTGAAGCATAAACATATAGTGATA
* *
61079 ACTGAAGCATAAATATGTAGTGATA
1 ACTGAAGCATAAACATATAGTGATA
61104 TGGTGCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (25 bp):
ACTGAAGCATAAACATATAGTGATA
Found at i:61639 original size:18 final size:18
Alignment explanation
Indices: 61616--61650 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61606 GGGTTCTACA
61616 TGGTCCTACAGGACATAG
1 TGGTCCTACAGGACATAG
*
61634 TGGTCCTACGGGACATA
1 TGGTCCTACAGGACATA
61651 TCTGTTCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (18 bp):
TGGTCCTACAGGACATAG
Found at i:61669 original size:28 final size:28
Alignment explanation
Indices: 61633--61734 Score: 177
Period size: 28 Copynumber: 3.6 Consensus size: 28
61623 ACAGGACATA
61633 GTGGTCCTACGGGACATATCTGTTCCAT
1 GTGGTCCTACGGGACATATCTGTTCCAT
*
61661 GTGATCCTACGGGACATATCTGTTCCAT
1 GTGGTCCTACGGGACATATCTGTTCCAT
* *
61689 GTGGTCCTACGGGACATATATGTTTCAT
1 GTGGTCCTACGGGACATATCTGTTCCAT
61717 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
61735 GTGGTCCTAG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (28 bp):
GTGGTCCTACGGGACATATCTGTTCCAT
Found at i:62148 original size:26 final size:24
Alignment explanation
Indices: 62101--62148 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
62091 TATGAACAAG
*
62101 ATATAAGAGATAGAAAGGATAATC
1 ATATAAGAGATAGAAAAGATAATC
*
62125 ATATAAGAGTATAAGAAAATATAA
1 ATATAAGAG-AT-AGAAAAGATAA
62149 ATGGTGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 2 0.10
26 9 0.45
ACGTcount: A:0.58, C:0.02, G:0.17, T:0.23
Consensus pattern (24 bp):
ATATAAGAGATAGAAAAGATAATC
Found at i:64397 original size:25 final size:25
Alignment explanation
Indices: 64363--64412 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
64353 GATCAGGGGT
64363 ACTGAAGCATAAACATATAGTGATA
1 ACTGAAGCATAAACATATAGTGATA
*
64388 ACTGAAGCATAAACATGTAGTGATA
1 ACTGAAGCATAAACATATAGTGATA
64413 TGGTGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.24
Consensus pattern (25 bp):
ACTGAAGCATAAACATATAGTGATA
Found at i:64499 original size:4 final size:4
Alignment explanation
Indices: 64490--64556 Score: 107
Period size: 4 Copynumber: 16.8 Consensus size: 4
64480 ACCTATGTAA
* *
64490 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATAT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
*
64538 ATGT ATGT ATAT ATGT ATG
1 ATGT ATGT ATGT ATGT ATG
64557 ATAATAGGTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:65004 original size:18 final size:18
Alignment explanation
Indices: 64981--65016 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
64971 AGGGTTCTAC
*
64981 GTGGTCCTACGGGACATA
1 GTGGTCATACGGGACATA
64999 GTGGTCATACGGGACATA
1 GTGGTCATACGGGACATA
65017 TGTGTTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (18 bp):
GTGGTCATACGGGACATA
Found at i:65330 original size:24 final size:24
Alignment explanation
Indices: 65297--65342 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
65287 TTGTTATGGG
65297 ATATAAATGAAT-ATATATTAATAT
1 ATATAAATGAATGA-ATATTAATAT
*
65321 ATATATATGAATGAATATTAAT
1 ATATAAATGAATGAATATTAAT
65343 GACTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (24 bp):
ATATAAATGAATGAATATTAATAT
Found at i:65338 original size:14 final size:14
Alignment explanation
Indices: 65297--65338 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
65287 TTGTTATGGG
65297 ATATAAATGAATAT
1 ATATAAATGAATAT
*
65311 ATATTAAT-ATATAT
1 ATATAAATGA-ATAT
*
65325 ATATGAATGAATAT
1 ATATAAATGAATAT
65339 TAATGACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 1 0.04
14 22 0.92
15 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (14 bp):
ATATAAATGAATAT
Found at i:68505 original size:25 final size:25
Alignment explanation
Indices: 68471--68518 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
68461 TCAGGGGTAC
68471 TGAAGCATAAACATATAGTGATAAA
1 TGAAGCATAAACATATAGTGATAAA
*
68496 TGAAGCATAAACATGTAGTGATA
1 TGAAGCATAAACATATAGTGATA
68519 TGGTGCTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.25
Consensus pattern (25 bp):
TGAAGCATAAACATATAGTGATAAA
Found at i:68605 original size:4 final size:4
Alignment explanation
Indices: 68596--68638 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
68586 ACCTATGTAA
*
68596 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATAT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
68639 ACAATAGGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:69077 original size:18 final size:18
Alignment explanation
Indices: 69054--69089 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
69044 AGGGTTCTAC
*
69054 GTGGTCCTACGGGACATA
1 GTGGTCCTACGAGACATA
69072 GTGGTCCTACGAGACATA
1 GTGGTCCTACGAGACATA
69090 TGTGTTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (18 bp):
GTGGTCCTACGAGACATA
Found at i:76018 original size:19 final size:19
Alignment explanation
Indices: 75970--76035 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 19
75960 TCAAGTTAAT
* * *
75970 AAAAATTTAAAAAAAGAAA
1 AAAAATATAATAAAATAAA
75989 AGAAAA-A-AATAAAATAAA
1 A-AAAATATAATAAAATAAA
* * *
76007 TACAATATAATATAATAAA
1 AAAAATATAATAAAATAAA
76026 AAAAATATAA
1 AAAAATATAA
76036 ACGATGATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 19 0.53
20 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAAATATAATAAAATAAA
Found at i:77428 original size:33 final size:33
Alignment explanation
Indices: 77384--77478 Score: 122
Period size: 34 Copynumber: 2.8 Consensus size: 33
77374 TTTTCTAACA
*
77384 TACTAAAATTCTAAC-TTTTATTTTATTTGTTCT
1 TACTAACATTCTAACATTTTATTTTATTT-TTCT
*
77417 TACTAACATTCTAACTTTTTATTTTTATTTTTCT
1 TACTAACATTCTAACATTTTA-TTTTATTTTTCT
*
77451 CACTAAC-TTACTAACATTTTATTTTATT
1 TACTAACATT-CTAACATTTTATTTTATT
77479 GCACAAACTA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
33 23 0.41
34 25 0.45
35 8 0.14
ACGTcount: A:0.27, C:0.15, G:0.01, T:0.57
Consensus pattern (33 bp):
TACTAACATTCTAACATTTTATTTTATTTTTCT
Found at i:77650 original size:34 final size:35
Alignment explanation
Indices: 77601--77677 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
77591 ACCCCCTAAG
77601 TTTTA-TTTTATTTGTTCATACTAACATACTAAC-
1 TTTTATTTTTATTTGTTCATACTAACATACTAACA
* *
77634 TTTTCATTTTTA-TTGTTCTTACTAACTTACTAACA
1 TTTT-ATTTTTATTTGTTCATACTAACATACTAACA
77669 TTTTATTTT
1 TTTTATTTT
77678 AGAGAAAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 4 0.10
34 26 0.67
35 9 0.23
ACGTcount: A:0.26, C:0.14, G:0.03, T:0.57
Consensus pattern (35 bp):
TTTTATTTTTATTTGTTCATACTAACATACTAACA
Found at i:77841 original size:41 final size:41
Alignment explanation
Indices: 77796--77914 Score: 159
Period size: 41 Copynumber: 2.9 Consensus size: 41
77786 CACAATACAG
* *
77796 TTTCCAAATTCGCAACGCGAATATGTAAATCACAACACGAT
1 TTTCCAAATTCGCAACGCGAATATGTAAATCGCAACACGAA
*
77837 TTTCCAAATTCGCAACGCGAATATGTAAATCGCAACGCGAA
1 TTTCCAAATTCGCAACGCGAATATGTAAATCGCAACACGAA
** * * *
77878 TTT-GTAATTCGCAACACGAATTTGTAATTCGCAACAC
1 TTTCCAAATTCGCAACGCGAATATGTAAATCGCAACAC
77915 ATAAGTCAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
40 28 0.41
41 41 0.59
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (41 bp):
TTTCCAAATTCGCAACGCGAATATGTAAATCGCAACACGAA
Found at i:77913 original size:20 final size:20
Alignment explanation
Indices: 77802--78014 Score: 148
Period size: 20 Copynumber: 10.6 Consensus size: 20
77792 ACAGTTTCCA
* *
77802 AATTCGCAACGCGAATATGT
1 AATTCGCAACACGAATTTGT
* * * **
77822 AAATCACAACACGATTTTCCA
1 AATTCGCAACACGAATTT-GT
* *
77843 AATTCGCAACGCGAATATGT
1 AATTCGCAACACGAATTTGT
* *
77863 AAATCGCAACGCGAATTTGT
1 AATTCGCAACACGAATTTGT
77883 AATTCGCAACACGAATTTGT
1 AATTCGCAACACGAATTTGT
**
77903 AATTCGCAACAC--ATAAGT
1 AATTCGCAACACGAATTTGT
**
77921 CAAATTCGCAACACTGAATTTCA
1 --AATTCGCAACAC-GAATTTGT
* * *
77944 AATTTGCAACTCG-ATTTCT
1 AATTCGCAACACGAATTTGT
* *
77963 GAATTCGCAACTCGATTTTCG-
1 -AATTCGCAACACGAATTT-GT
77984 AATTCGCAACACGAATTT-T
1 AATTCGCAACACGAATTTGT
78003 AATTTCGCAACA
1 AA-TTCGCAACA
78015 GGTTTTATTT
Statistics
Matches: 150, Mismatches: 32, Indels: 22
0.74 0.16 0.11
Matches are distributed among these distances:
18 4 0.03
19 7 0.05
20 111 0.74
21 26 0.17
23 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.28
Consensus pattern (20 bp):
AATTCGCAACACGAATTTGT
Found at i:77946 original size:101 final size:101
Alignment explanation
Indices: 77828--78014 Score: 238
Period size: 101 Copynumber: 1.9 Consensus size: 101
77818 ATGTAAATCA
* *
77828 CAACACGATTTTCCAAATTCGCAACGCGA-ATATGTAAATCGCAACGCGAATTT-GTAATTCGCA
1 CAACACGAATTTCCAAATTCGCAACGCGATATCTG-AAATCGCAACGCGAATTTCG-AATTCGCA
77891 ACACGAATTTGTAA-TTCGCAACACATAAGTCAAATTCG
64 ACACGAATTT-TAATTTCGCAACACATAAGTCAAATTCG
* * * * * *
77929 CAACACTGAATTT-CAAATTTGCAACTCGATTTCTGAATTCGCAACTCGATTTTCGAATTCGCAA
1 CAACAC-GAATTTCCAAATTCGCAACGCGATATCTGAAATCGCAACGCGAATTTCGAATTCGCAA
77993 CACGAATTTTAATTTCGCAACA
65 CACGAATTTTAATTTCGCAACA
78015 GGTTTTATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
100 3 0.04
101 62 0.84
102 9 0.12
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (101 bp):
CAACACGAATTTCCAAATTCGCAACGCGATATCTGAAATCGCAACGCGAATTTCGAATTCGCAAC
ACGAATTTTAATTTCGCAACACATAAGTCAAATTCG
Found at i:78030 original size:18 final size:18
Alignment explanation
Indices: 77999--78050 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
77989 GCAACACGAA
*
77999 TTTTAATTTCGCAACAGG
1 TTTTATTTTCGCAACAGG
* *
78017 TTTTATTTTAGCAACATG
1 TTTTATTTTCGCAACAGG
78035 TTTTATTTTCGCAACA
1 TTTTATTTTCGCAACA
78051 CAAATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTTATTTTCGCAACAGG
Found at i:78214 original size:16 final size:17
Alignment explanation
Indices: 78189--78226 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
78179 CCCTATCTCT
*
78189 ATTTTTTTTTTACAT-A
1 ATTTTGTTTTTACATAA
*
78205 ATTTTGTTTTTATATAA
1 ATTTTGTTTTTACATAA
78222 ATTTT
1 ATTTT
78227 CAATGATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTGTTTTTACATAA
Found at i:79021 original size:24 final size:24
Alignment explanation
Indices: 78963--79009 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
78953 AGTCGGTATT
*
78963 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
78987 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
79010 TTGAATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:81545 original size:20 final size:20
Alignment explanation
Indices: 81494--81547 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
81484 GTCTTCCTTG
*
81494 AATTTGCAATGCGAAAGTCA
1 AATTTGCATTGCGAAAGTCA
** * *
81514 AATTCACGTTGCGAAATTCA
1 AATTTGCATTGCGAAAGTCA
81534 AATTTGCATTGCGA
1 AATTTGCATTGCGA
81548 TTGTTGTGAA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (20 bp):
AATTTGCATTGCGAAAGTCA
Found at i:83179 original size:21 final size:20
Alignment explanation
Indices: 83129--83184 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
83119 GTAAATGGTG
*
83129 GGAGGGACCTCTTGAACGAT
1 GGAGGGGCCTCTTGAACGAT
* * *
83149 GATAGTGGCCTCTTGAACGGT
1 G-GAGGGGCCTCTTGAACGAT
83170 AGGAGGGGCCTCTTG
1 -GGAGGGGCCTCTTG
83185 TATGATGACA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.20, C:0.20, G:0.38, T:0.23
Consensus pattern (20 bp):
GGAGGGGCCTCTTGAACGAT
Found at i:83357 original size:4 final size:4
Alignment explanation
Indices: 83336--83377 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
83326 GGGCCACTAA
* * *
83336 AAAT AAAT TAAT ACAT AAAT AAGT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
83378 TGCCGAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:83630 original size:21 final size:21
Alignment explanation
Indices: 83606--83646 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
83596 TTCGTCATGT
*
83606 AAAGTACTGACCTCATTACGC
1 AAAGCACTGACCTCATTACGC
83627 AAAGCACTGACCTCATTACG
1 AAAGCACTGACCTCATTACG
83647 TAACTCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (21 bp):
AAAGCACTGACCTCATTACGC
Found at i:85987 original size:11 final size:11
Alignment explanation
Indices: 85969--85999 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
85959 TATTTCGTTC
85969 TATTTTTATTT
1 TATTTTTATTT
*
85980 TGTTTTTATTT
1 TATTTTTATTT
85991 TATTTTTAT
1 TATTTTTAT
86000 CAGTGATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:90857 original size:34 final size:34
Alignment explanation
Indices: 90813--90897 Score: 104
Period size: 34 Copynumber: 2.5 Consensus size: 34
90803 CCACTAACCG
90813 CTAAC-TTTTATTTTATTTGTTCATACTAACATA
1 CTAACATTTTATTTTATTTGTTCATACTAACATA
* * *
90846 CTAGA-TTTTTATTTT-TATTGTTCTTACTAACTTA
1 CTA-ACATTTTATTTTAT-TTGTTCATACTAACATA
90880 CTAACATTTTATTTTATT
1 CTAACATTTTATTTTATT
90898 GCACAAACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
33 5 0.11
34 38 0.86
35 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (34 bp):
CTAACATTTTATTTTATTTGTTCATACTAACATA
Found at i:91031 original size:201 final size:200
Alignment explanation
Indices: 90808--91223 Score: 654
Period size: 201 Copynumber: 2.1 Consensus size: 200
90798 GCTAACCACT
* *
90808 AACCGCTAACTTTTATTTTATTTGTTCATACTAACATACTAGA-TTTTTATTTTTATTGTTCTTA
1 AACC-CTAACTTTTATTTTATTTATTCATACTAACATACTA-ACTTTTCATTTTTATTGTTCTTA
** **
90872 CTAACTTACTAACATTTTATTTTATTGCACAAACTAACCCACTAGTTTTCTAACATTGGAATATT
64 CTAACTTACTAACATTTTATTTTATTGCACAAACTAACCCACTAACTTTCTAACATTCAAATATT
* ** * *
90937 CAACGACTTTGTGGTGACCTGCCCTGGGGGATGATCCGCATTATTTATGGTTCGGGTTAAACGGT
129 CAACGACCTTGCAGTGACCTGCCCTGGGGGACGATCCGCATTATTTATGGTCCGGGTTAAACGGT
91002 TAAAAACA
194 TAAAAA-A
**
91010 CCCCCTAACTTTTATTTTATTTATTCATACTAACATACTAACTTTTCATTTTTATTGTTCTTACT
1 AACCCTAACTTTTATTTTATTTATTCATACTAACATACTAACTTTTCATTTTTATTGTTCTTACT
* *
91075 AACTTACTAACATTTTATTTTATTGCACAAACTAACCCGCTAACTTTCTAACATTCAAATATTTA
66 AACTTACTAACATTTTATTTTATTGCACAAACTAACCCACTAACTTTCTAACATTCAAATATTCA
*
91140 ACGACCTTGCAGTGACCTGCCCTGGGGGACGATCCGCATTATTTATGGTCCGGGTTAAATGGTTA
131 ACGACCTTGCAGTGACCTGCCCTGGGGGACGATCCGCATTATTTATGGTCCGGGTTAAACGGTTA
91205 AAAAA
196 AAAAA
91210 AACCCTAACTTTTA
1 AACCCTAACTTTTA
91224 AATTTATGCA
Statistics
Matches: 195, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
200 14 0.07
201 179 0.92
202 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (200 bp):
AACCCTAACTTTTATTTTATTTATTCATACTAACATACTAACTTTTCATTTTTATTGTTCTTACT
AACTTACTAACATTTTATTTTATTGCACAAACTAACCCACTAACTTTCTAACATTCAAATATTCA
ACGACCTTGCAGTGACCTGCCCTGGGGGACGATCCGCATTATTTATGGTCCGGGTTAAACGGTTA
AAAAA
Found at i:91075 original size:34 final size:32
Alignment explanation
Indices: 91014--91099 Score: 109
Period size: 34 Copynumber: 2.6 Consensus size: 32
91004 AAAACACCCC
*
91014 CTAACTTTTATTTTATTTATTCATACTAACATA
1 CTAACTTTTATTTTA-TTGTTCATACTAACATA
* *
91047 CTAACTTTTCATTTTTATTGTTCTTACTAACTTA
1 CTAACTTTT-A-TTTTATTGTTCATACTAACATA
91081 CTAACATTTTATTTTATTG
1 CTAAC-TTTTATTTTATTG
91100 CACAAACTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
33 17 0.36
34 21 0.45
35 9 0.19
ACGTcount: A:0.28, C:0.15, G:0.02, T:0.55
Consensus pattern (32 bp):
CTAACTTTTATTTTATTGTTCATACTAACATA
Found at i:91257 original size:18 final size:17
Alignment explanation
Indices: 91234--91269 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
91224 AATTTATGCA
91234 ATTTATTTATGTTTATTT
1 ATTTATTTAT-TTTATTT
91252 ATTTATTTATTTTATTT
1 ATTTATTTATTTTATTT
91269 A
1 A
91270 CTTTCCAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
ATTTATTTATTTTATTT
Found at i:91870 original size:16 final size:15
Alignment explanation
Indices: 91851--91888 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
91841 ATCTTATTAT
91851 TTTTTATTTCATTCTA
1 TTTTTATTTC-TTCTA
*
91867 TTTTTATTTCTTTTA
1 TTTTTATTTCTTCTA
91882 TTTTTAT
1 TTTTTAT
91889 CGTTGATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTATTTCTTCTA
Found at i:94498 original size:75 final size:77
Alignment explanation
Indices: 94375--94528 Score: 249
Period size: 75 Copynumber: 2.0 Consensus size: 77
94365 AGGTCCCGAG
* **
94375 TTCGAGCACTAAGAATTAGGTGTGTATTCGATTCAGTTTGATTTGA-T-TTTTTTATTAAAAATA
1 TTCGAGCACTAAGAATTAGGTGTGTATTCGATTCAATTCAATTTGATTATTTTTTATTAAAAATA
94438 TGAACCGAACTA
66 TGAACCGAACTA
94450 TTCGAGCACTAAGAATTAGGTGTGTATTCGATTCAATTCAATTTGATTTGATTTTTTATTAAAAA
1 TTCGAGCACTAAGAATTAGGTGTGTATTCGATTCAATTCAATTTGA-TT-ATTTTTTATTAAAAA
94515 TATGAACCGAACTA
64 TATGAACCGAACTA
94529 CACTTTGTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
75 43 0.60
77 1 0.01
79 28 0.39
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (77 bp):
TTCGAGCACTAAGAATTAGGTGTGTATTCGATTCAATTCAATTTGATTATTTTTTATTAAAAATA
TGAACCGAACTA
Found at i:97531 original size:20 final size:20
Alignment explanation
Indices: 97506--97545 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
97496 TGTGTGTGTG
97506 TATATATATTATATACTGCAAC
1 TATATATA-TATATA-TGCAAC
97528 TATATATATATATATGCA
1 TATATATATATATATGCA
97546 TGTTTCGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 8 0.44
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (20 bp):
TATATATATATATATGCAAC
Found at i:99978 original size:29 final size:29
Alignment explanation
Indices: 99943--100009 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
99933 ATTTAAGGTA
99943 TTTTAAAAGTATCTTA-TTATTTT-TTAAC
1 TTTTAAAA-TATCTTATTTATTTTCTTAAC
* *
99971 TTATTAAATATATTTTATTTTTTTTCTTAAC
1 TT-TTAAA-ATATCTTATTTATTTTCTTAAC
100002 TTTTAAAA
1 TTTTAAAA
100010 ATATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 2 0.06
29 12 0.36
30 12 0.36
31 7 0.21
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTAAAATATCTTATTTATTTTCTTAAC
Found at i:100094 original size:13 final size:13
Alignment explanation
Indices: 100078--100102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100068 AATACAAAAA
100078 TAAAATATATTTT
1 TAAAATATATTTT
100091 TAAAATATATTT
1 TAAAATATATTT
100103 AATAAGTTAA
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:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAAATATATTTT
Found at i:100122 original size:43 final size:40
Alignment explanation
Indices: 100053--100131 Score: 113
Period size: 43 Copynumber: 1.9 Consensus size: 40
100043 TTAAGAATAC
* *
100053 AATATATTTTAATTTAATACAAAAATAAAATATATTTTTAA
1 AATATATTTTAAGTTAAGACAAAAATAAAA-ATATTTTTAA
100094 AATATATTTAATAAGTTAAGACAAAAATAAAAATATTT
1 AATATATTT--TAAGTTAAGACAAAAATAAAAATATTT
100132 AATAAGCTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
41 9 0.26
42 6 0.18
43 19 0.56
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (40 bp):
AATATATTTTAAGTTAAGACAAAAATAAAAATATTTTTAA
Found at i:100132 original size:29 final size:30
Alignment explanation
Indices: 100091--100199 Score: 170
Period size: 28 Copynumber: 3.7 Consensus size: 30
100081 AATATATTTT
*
100091 TAAAATATATTTAATAAGTTAAGACAAAAA
1 TAAAATATATTTAATAAGTTAAGATAAAAA
*
100121 TAAAA-ATATTTAATAAGCTAAGATAAAAA
1 TAAAATATATTTAATAAGTTAAGATAAAAA
*
100150 T-AAA-ATATTTAATAAATTAAGATAAAAA
1 TAAAATATATTTAATAAGTTAAGATAAAAA
100178 TAAAATATATTTAATAAGTTAA
1 TAAAATATATTTAATAAGTTAA
100200 AAAAATATTT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
28 26 0.36
29 26 0.36
30 20 0.28
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (30 bp):
TAAAATATATTTAATAAGTTAAGATAAAAA
Found at i:100666 original size:851 final size:847
Alignment explanation
Indices: 99373--101061 Score: 3292
Period size: 851 Copynumber: 2.0 Consensus size: 847
99363 GTGACCACTC
99373 AACTATTGTCAAGAATCATTTTGACCATCGATATTACGATTTGATCAATTAGACCACCTAACTAT
1 AACTATTGTCAAGAATCATTTTGACCATCGATATTACGATTTGATCAATTAGACCACCTAACTAT
99438 TTAAATATTTCAATCAAGTCACCTGTCGTTATCATTTAATGGAATAAATGACGTGACAATTAAAA
66 TTAAATATTTCAATCAAGTCACCTGTCGTTATCATTTAATGGAATAAATGACGTGACAATTAAAA
99503 AAAATTTGGTATAATTACACAATATGTCTTGTTACTTATATATTCGTTTAACTTGGTCCTAATTT
131 AAAATTTGGTATAATTACACAATATGTCTTGTTACTTATATATTCGTTTAACTTGGTCCTAATTT
99568 TAAAAAATTAAAATAAATTTAACCCTCGAATCGAGAGGTACCATGTGTCACCCTCTTGAAAGAAA
196 TAAAAAATTAAAATAAATTTAACCCTCGAATCGAGAGGTACCATGTGTCACCCTCTTGAAAGAAA
99633 ATAAACCCACGATGCATAAGGTGGATAAGAGGAGTCAAACCCATAACTTTTGGCTAGAAACAGTA
261 ATAAACCCACGATGCATAAGGTGGATAAGAGGAGTCAAACCCATAACTTTTGGCTAGAAACAGTA
99698 GATGCTAAACCACTAAGCCAATGTAACCATTTATATATATTTTTACAACAGATGATATATATCTT
326 GATGCTAAACCACTAAGCCAATGTAACCATTTATATATATTTTTACAACAGATGATATATATCTT
99763 GTATTATAGTATGTAAATGCTATACTCAAAATTTATAATATTTTATATATATTAAATTTTAAAAA
391 GTATTATAGTATGTAAATGCTATACTCAAAATTTATAATATTTTATATATATTAAATTTTAAAAA
99828 TATCATTTATTTTTTTATTTATTAAATATATTTTTTTGTCTTAACTTATTAAATAGATTTTATTT
456 TATCATTTA-TTTTTTATTTATTAAATATA-TTTTTTGTCTTAACTTATTAAATAGATTTTA-TT
99893 TTATTTTAATATAAAATTATATATTTGAAAATATATTTTAATTTAAGGTATTTTAAAAGTATCTT
518 TTATTTTAATATAAAA-T-TATATTTGAAAATATATTTTAATTTAAGGTATTTTAAAAGTATCTT
99958 ATTATTTTTTAACTTATTAAATATATTTTATTTTTTTTCTTAACTTTTAAAAATATATTTAAACA
581 ATTATTTTTTAACTTATTAAATATATTTTATTTTTTTTCTTAACTTTTAAAAATATATTTAAACA
100023 TCTTAACTTATATATTTAACTTAAGAATACAATATATTTTAATTTAATACAAAAATAAAATATAT
646 TCTTAACTTATATATTTAACTTAAGAATACAATATATTTTAATTTAATACAAAAATAAAATATAT
100088 TTTTAAAATATATTTAATAAGTTAAGACAAAAATAAAAATATTTAATAAGCTAAGATAAAAATAA
711 TTTTAAAATATATTTAATAAGTTAAGACAAAAATAAAAA-ATTTAATAAGCTAAGATAAAAATAA
100153 AATATTTAATAAATTAAGATAAAAATAAAATATATTTAATAAGTT-AAAAAA-ATATTTTAAAAA
775 AATATTTAATAAATTAAGATAAAAATAAAATATATTTAATAAGTTAAAAAAAGATATTTTAAAAA
100216 AACATCTT
840 AACATCTT
100224 AACTATTGTCAAGAATCATTTTGACCATCGATATTACGATTTGATCAATTAGACCACCTAACTAT
1 AACTATTGTCAAGAATCATTTTGACCATCGATATTACGATTTGATCAATTAGACCACCTAACTAT
100289 TTAAATATTTCAATCAAGTCACCTGTCGTTATCATTTAATGGAATAAATGACGTGACAATTAAAA
66 TTAAATATTTCAATCAAGTCACCTGTCGTTATCATTTAATGGAATAAATGACGTGACAATTAAAA
*
100354 AAATTTTGGTATAATTACACAATATGTCTTGTTACTTATATATTCGTTTAACTTGGTCCTAATTT
131 AAAATTTGGTATAATTACACAATATGTCTTGTTACTTATATATTCGTTTAACTTGGTCCTAATTT
*
100419 TAAAAAATTAAAATAAATTTAACCCTCGAATCGGGAGGTACCATGTGTCACCCTCTTGAAAGAAA
196 TAAAAAATTAAAATAAATTTAACCCTCGAATCGAGAGGTACCATGTGTCACCCTCTTGAAAGAAA
100484 ATAAACCCACGATGCATAAGGTGGATAAGAGGAGTCAAACCCATAACTTTTGGCTAGAAACAGTA
261 ATAAACCCACGATGCATAAGGTGGATAAGAGGAGTCAAACCCATAACTTTTGGCTAGAAACAGTA
100549 GATGCTAAACCACTAAGCCAATGTAACCATTTATATATATTTTTACAACAGATGATATATATCTT
326 GATGCTAAACCACTAAGCCAATGTAACCATTTATATATATTTTTACAACAGATGATATATATCTT
100614 GTATTATAGTATGTAAATGCTATACTCAAAATTTATAATATTTTATATATATTAAATTTTAAAAA
391 GTATTATAGTATGTAAATGCTATACTCAAAATTTATAATATTTTATATATATTAAATTTTAAAAA
100679 TATCATTTATTTTTTATTTATTAAATATATTTTTTGTCTTAACTTATTAAATAGATTTTATTTTA
456 TATCATTTATTTTTTATTTATTAAATATATTTTTTGTCTTAACTTATTAAATAGATTTTATTTTA
100744 TTTTAATATAAAATTATATTTGAAAATATATTTTAATTTAAGGTATTTTAAAAGTATCTTATTAT
521 TTTTAATATAAAATTATATTTGAAAATATATTTTAATTTAAGGTATTTTAAAAGTATCTTATTAT
100809 TTTTTAACTTATTAAATATATTTTATTTTTTTTCTTAACTTTTAAAAATATATTTAAACATCTTA
586 TTTTTAACTTATTAAATATATTTTATTTTTTTTCTTAACTTTTAAAAATATATTTAAACATCTTA
100874 ACTTATATATTTAACTTAAGAATACAATATATTTTAATTTAATACAAAAATAAAATATATTTTTA
651 ACTTATATATTTAACTTAAGAATACAATATATTTTAATTTAATACAAAAATAAAATATATTTTTA
100939 AAATATATTTAATAAGTTAAGACAAAAATAAAAAATTTAATAAGCTAAGATAAAAATAAAATATT
716 AAATATATTTAATAAGTTAAGACAAAAATAAAAAATTTAATAAGCTAAGATAAAAATAAAATATT
101004 TAATAAATTAAGATAAAAATAAAATATATTTAATAAGTTAAAAAAAGATATTTTAAAA
781 TAATAAATTAAGATAAAAATAAAATATATTTAATAAGTTAAAAAAAGATATTTTAAAA
101062 TTTAAGTTAT
Statistics
Matches: 834, Mismatches: 2, Indels: 8
0.99 0.00 0.01
Matches are distributed among these distances:
845 70 0.08
846 221 0.26
847 12 0.01
848 18 0.02
849 31 0.04
850 20 0.02
851 462 0.55
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (847 bp):
AACTATTGTCAAGAATCATTTTGACCATCGATATTACGATTTGATCAATTAGACCACCTAACTAT
TTAAATATTTCAATCAAGTCACCTGTCGTTATCATTTAATGGAATAAATGACGTGACAATTAAAA
AAAATTTGGTATAATTACACAATATGTCTTGTTACTTATATATTCGTTTAACTTGGTCCTAATTT
TAAAAAATTAAAATAAATTTAACCCTCGAATCGAGAGGTACCATGTGTCACCCTCTTGAAAGAAA
ATAAACCCACGATGCATAAGGTGGATAAGAGGAGTCAAACCCATAACTTTTGGCTAGAAACAGTA
GATGCTAAACCACTAAGCCAATGTAACCATTTATATATATTTTTACAACAGATGATATATATCTT
GTATTATAGTATGTAAATGCTATACTCAAAATTTATAATATTTTATATATATTAAATTTTAAAAA
TATCATTTATTTTTTATTTATTAAATATATTTTTTGTCTTAACTTATTAAATAGATTTTATTTTA
TTTTAATATAAAATTATATTTGAAAATATATTTTAATTTAAGGTATTTTAAAAGTATCTTATTAT
TTTTTAACTTATTAAATATATTTTATTTTTTTTCTTAACTTTTAAAAATATATTTAAACATCTTA
ACTTATATATTTAACTTAAGAATACAATATATTTTAATTTAATACAAAAATAAAATATATTTTTA
AAATATATTTAATAAGTTAAGACAAAAATAAAAAATTTAATAAGCTAAGATAAAAATAAAATATT
TAATAAATTAAGATAAAAATAAAATATATTTAATAAGTTAAAAAAAGATATTTTAAAAAAACATC
TT
Found at i:100824 original size:29 final size:29
Alignment explanation
Indices: 100789--100855 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
100779 ATTTAAGGTA
100789 TTTTAAAAGTATCTTA-TTATTTT-TTAAC
1 TTTTAAAA-TATCTTATTTATTTTCTTAAC
* *
100817 TTATTAAATATATTTTATTTTTTTTCTTAAC
1 TT-TTAAA-ATATCTTATTTATTTTCTTAAC
100848 TTTTAAAA
1 TTTTAAAA
100856 ATATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 2 0.06
29 12 0.36
30 12 0.36
31 7 0.21
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTAAAATATCTTATTTATTTTCTTAAC
Found at i:100940 original size:13 final size:13
Alignment explanation
Indices: 100924--100948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
100914 AATACAAAAA
100924 TAAAATATATTTT
1 TAAAATATATTTT
100937 TAAAATATATTT
1 TAAAATATATTT
100949 AATAAGTTAA
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:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAAATATATTTT
Found at i:101049 original size:28 final size:29
Alignment explanation
Indices: 100937--101044 Score: 157
Period size: 28 Copynumber: 3.7 Consensus size: 29
100927 AATATATTTT
*
100937 TAAAATATATTTAATAAGTTAAGACAAAAA
1 TAAAA-ATATTTAATAAGTTAAGATAAAAA
*
100967 TAAAAA-ATTTAATAAGCTAAGATAAAAA
1 TAAAAATATTTAATAAGTTAAGATAAAAA
*
100995 T-AAAATATTTAATAAATTAAGATAAAAA
1 TAAAAATATTTAATAAGTTAAGATAAAAA
101023 TAAAATATATTTAATAAGTTAA
1 TAAAA-ATATTTAATAAGTTAA
101045 AAAAAGATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
27 4 0.06
28 42 0.60
29 4 0.06
30 20 0.29
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (29 bp):
TAAAAATATTTAATAAGTTAAGATAAAAA
Found at i:101066 original size:22 final size:25
Alignment explanation
Indices: 100937--101059 Score: 72
Period size: 28 Copynumber: 4.6 Consensus size: 25
100927 AATATATTTT
100937 TAAAATATATTTAATAAGTTAAGACAA
1 TAAAATATATTTAATAAGTTAA-A-AA
* * *
100964 AAATAAAAAATTTAATAAGCTAAGATAAAAA
1 TAA-AATATATTTAATAAG-T----TAAAAA
*
100995 TAAAATAT-TTAATAAATTAAGATAAAAA
1 TAAAATATATT--T-AA-TAAGTTAAAAA
101023 TAAAATATATTTAATAAGTTAAAAA
1 TAAAATATATTTAATAAGTTAAAAA
*
101048 -AAGATAT-TTTAA
1 TAAAATATATTTAA
101060 AATTTAAGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 26
0.68 0.08 0.23
Matches are distributed among these distances:
23 5 0.07
24 6 0.08
25 10 0.13
26 2 0.03
27 3 0.04
28 27 0.36
29 5 0.07
30 3 0.04
31 5 0.07
32 3 0.04
33 7 0.09
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (25 bp):
TAAAATATATTTAATAAGTTAAAAA
Found at i:103782 original size:20 final size:20
Alignment explanation
Indices: 103757--103794 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
103747 ACTTCATTTT
*
103757 TTTTATTCTTAGTGCTATTA
1 TTTTATTCATAGTGCTATTA
103777 TTTTATTCATAGTGCTAT
1 TTTTATTCATAGTGCTAT
103795 AAGTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (20 bp):
TTTTATTCATAGTGCTATTA
Found at i:104176 original size:29 final size:29
Alignment explanation
Indices: 104151--104222 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
104141 TATATAATCA
104151 TTAATA-AAAAAATA-TAAATTAAATAAT
1 TTAATATAAAAAATATTAAATTAAATAAT
* * *
104178 TTAATATAAAAATTATTAAATT-ATTAAA
1 TTAATATAAAAAATATTAAATTAAATAAT
*
104206 TTAATTATAAATAATAT
1 TTAA-TATAAAAAATAT
104223 ATTATATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.16
28 15 0.41
29 16 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
TTAATATAAAAAATATTAAATTAAATAAT
Found at i:106932 original size:11 final size:11
Alignment explanation
Indices: 106916--106945 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
106906 AAATAAGAGC
106916 GTATACTTTTT
1 GTATACTTTTT
106927 GTATACTTTTT
1 GTATACTTTTT
*
106938 GTCTACTT
1 GTATACTT
106946 AAAGAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.13, G:0.10, T:0.60
Consensus pattern (11 bp):
GTATACTTTTT
Found at i:115143 original size:40 final size:40
Alignment explanation
Indices: 115065--115183 Score: 123
Period size: 40 Copynumber: 3.0 Consensus size: 40
115055 CTCGATAGTG
** *
115065 CTATTTTATTGCGGCGTTTACATAAAAACGTCACAAAATTC
1 CTATTTT-TTGCGGCGTTTTTATAAAAACGCCACAAAATTC
*
115106 CTATTTTTTGCGGCGTTTTTA-AAAAACGCCACTAAAATTT
1 CTATTTTTTGCGGCGTTTTTATAAAAACGCCAC-AAAATTC
* * * * * *
115146 TTCTATTTTGTGGCGTTTTTATATAAACGCCGCAAAAT
1 CTATTTTTTGCGGCGTTTTTATAAAAACGCCACAAAAT
115184 AGTAAAATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
39 10 0.15
40 40 0.61
41 16 0.24
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (40 bp):
CTATTTTTTGCGGCGTTTTTATAAAAACGCCACAAAATTC
Found at i:115277 original size:41 final size:42
Alignment explanation
Indices: 115232--115346 Score: 119
Period size: 40 Copynumber: 2.8 Consensus size: 42
115222 ACATATTACG
*
115232 TCTATTGCGGCGTTTGTATAAAAATGCCACTAAT-GGCCAAC
1 TCTATTGCGGCGTTTGTATAAAAATGCCACTAATAGACCAAC
*** * **
115273 TCTATTGCGGCGTTTGT-TGCCAACGCCACT-ATAGATGAAC
1 TCTATTGCGGCGTTTGTATAAAAATGCCACTAATAGACCAAC
* *
115313 TATATTGCGGCGTTTGTTAGAAAAATGCCACTAA
1 TCTATTGCGGCGTTTG-TATAAAAATGCCACTAA
115347 ATTATGACTC
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
39 2 0.04
40 28 0.49
41 18 0.32
42 8 0.14
43 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
TCTATTGCGGCGTTTGTATAAAAATGCCACTAATAGACCAAC
Found at i:116051 original size:21 final size:20
Alignment explanation
Indices: 116025--116063 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
116015 TCTCTTATTA
*
116025 TTTTTTATTTTTTATATAAAT
1 TTTTTTAGTTTTTA-ATAAAT
116046 TTTTTTAGTTTTTAATAA
1 TTTTTTAGTTTTTAATAA
116064 CTCTTATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTTTAGTTTTTAATAAAT
Found at i:127217 original size:8 final size:8
Alignment explanation
Indices: 127204--127231 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
127194 AGATTCTCCC
127204 ATATGTAT
1 ATATGTAT
127212 ATATGTAT
1 ATATGTAT
127220 ATATGTAT
1 ATATGTAT
127228 ATAT
1 ATAT
127232 ATCTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
ATATGTAT
Found at i:131976 original size:55 final size:55
Alignment explanation
Indices: 131809--132541 Score: 559
Period size: 55 Copynumber: 13.6 Consensus size: 55
131799 CCAGCAATTA
* * *
131809 TTGAAGATTGTTCGAGTCTCATACTCTCCGAAGAAATAGGGAGCAGACGCAATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * *
131864 ATGAAGATTG-T-GGGTCTTATACTCTCTGAAGACAA-AGAGGGGCAGACACGATCG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGA-AATAG-GGAGCAGACACGATTG
*
131918 TTGAAGATCGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * * *
131973 TTGAAGA-TATTCGAGT-TC-TATTCTCCTTAAAGAAAGAAGGAGC-GAACCCG--T-
1 TTGAAGATTGTTCGAGTCTCATACTCT-C-TGAAGAAATAGGGAGCAG-ACACGATTG
* * * * *
132024 TTGAAGAGATG-TCTAAGT-TCCATACTCCCT-AGAGAAAGAGGGAGC-GAACCCG--TG
1 TTGAAGA-TTGTTC-GAGTCT-CATACTCTCTGA-AGAAATAGGGAGCAG-ACACGATTG
* * * * * **
132078 -TGAAGA-TATCCGAGTCCCATACTCCCTGAAGAAAAAGGGAGC-GA-AC-CCTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * *
132128 TCGAAGA-TGTTCGAGT-TCTATACTCCCTGAAGAAAGAGGGAG-AGAACCCGTTTG
1 TTGAAGATTGTTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTG
* * * *
132182 TTAAAGATT-TTCAAGT-TCTATACTCCCTGAAGAAATAGGGAGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTC-ATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * * *
132236 ATGAAGATTGTTTGAGTCTTATACTCTCCGAAGGAATGGGGAGCAGACACGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * *
132291 TTGAAAATTGTTCGAGTCTTATACTCTATGCAGAAATAGGGAGCCGACACGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * *
132346 TTGAAGATTGTTCGAGTCTTATACTCTCTGACGAAATAGGGGGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * ** **
132401 ATGAAGATTG-T-GAGTCTTATACTCTCTGAAGAAATGGGGGGCAGACGTGATCA
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* * * * *
132454 TTGAAGATTATTCGAGTCTTATACTCTCTAAAGAAATAGGGGGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
* *
132509 TTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 TTGAAGATTGTTCGAGTCTCATACTCTCTGAAG
132542 GACTATGGAG
Statistics
Matches: 558, Mismatches: 88, Indels: 64
0.79 0.12 0.09
Matches are distributed among these distances:
49 1 0.00
50 4 0.01
51 69 0.12
52 12 0.02
53 102 0.18
54 103 0.18
55 245 0.44
56 22 0.04
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (55 bp):
TTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTG
Found at i:132092 original size:104 final size:102
Alignment explanation
Indices: 131920--132178 Score: 242
Period size: 104 Copynumber: 2.5 Consensus size: 102
131910 CACGATCGTT
* * * *
131920 GAAGATCGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGCAG-ACACGATTGTTGAAGATAT
1 GAAGAT-GTTCAAGTTC-CATACTCCCTGAAGAAAGAGGGAG-AGAACCCG--TG-TGAAGATAT
* * * * * *
131983 TCGAGTTCTATTCTCCTTAAAGAAAGAA-GGAGCGAACCC-GTTT
60 CCGAGTCCCATACTCCCTAAAGAAA-AAGGGAGCGAACCCTG-TC
*
132026 GAAGA-GATGTCTAAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCC
1 GAAGATG-T-TC-AAGTTCCATACTCCCTGA-AGAAAGAGGGAGAGAACCCGTGTGAAGATATCC
*
132089 GAGTCCCATACTCCCTGAAGAAAAAGGGAGCGAACCCTGTC
62 GAGTCCCATACTCCCTAAAGAAAAAGGGAGCGAACCCTGTC
* *
132130 GAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCGT
1 GAAGATGTTCAAGTTCCATACTCCCTGAAGAAAGAGGGAGAGAACCCGT
132179 TTGTTAAAGA
Statistics
Matches: 128, Mismatches: 15, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
102 34 0.27
103 5 0.04
104 47 0.37
105 5 0.04
106 9 0.07
107 26 0.20
108 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.22
Consensus pattern (102 bp):
GAAGATGTTCAAGTTCCATACTCCCTGAAGAAAGAGGGAGAGAACCCGTGTGAAGATATCCGAGT
CCCATACTCCCTAAAGAAAAAGGGAGCGAACCCTGTC
Found at i:132117 original size:51 final size:51
Alignment explanation
Indices: 131919--132224 Score: 244
Period size: 51 Copynumber: 5.8 Consensus size: 51
131909 ACACGATCGT
* * * *
131919 TGAAGATCGTTCGAG-TCTCATACTCTCTGAAGAAATAGGGAGC-AGACACGATTG
1 TGAAGAT-ATTCGAGTTC-CATACTCCCTGAAGAAAAAGGGAGCGA-ACCCG--TG
* * * * *
131973 TTGAAGATATTCGAGTTCTATTCTCCTTAAAGAAAGAA-GGAGCGAACCCGTT
1 -TGAAGATATTCGAGTTCCATACTCCCTGAAGAAA-AAGGGAGCGAACCCGTG
* * *
132025 TGAAGAGATGTCTAAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTG
1 TGAAGATAT-TC-GAGTTCCATACTCCCTGA-AGAAAAAGGGAGCGAACCCGTG
* *
132078 TGAAGATATCCGAGTCCCATACTCCCTGAAGAAAAAGGGAGCGAACCC-TG
1 TGAAGATATTCGAGTTCCATACTCCCTGAAGAAAAAGGGAGCGAACCCGTG
* * * *
132128 TCGAAGATGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGAGAACCCGTTTG
1 T-GAAGATATTCGAGTTCCATACTCCCTGAAGAAAAAGGGAGCGAACCCG--TG
* * * * *
132182 TTAAAGATTTTCAAGTTCTATACTCCCTGAAGAAATAGGGAGC
1 -TGAAGATATTCGAGTTCCATACTCCCTGAAGAAAAAGGGAGC
132225 AGACGCGATT
Statistics
Matches: 206, Mismatches: 32, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
50 3 0.01
51 81 0.39
52 7 0.03
53 38 0.18
54 65 0.32
55 12 0.06
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (51 bp):
TGAAGATATTCGAGTTCCATACTCCCTGAAGAAAAAGGGAGCGAACCCGTG
Found at i:132480 original size:163 final size:164
Alignment explanation
Indices: 132157--132541 Score: 508
Period size: 163 Copynumber: 2.4 Consensus size: 164
132147 ATACTCCCTG
* * * * *
132157 AAGAAAGAGGGAG-AGAACCCGTTTGTTAAAGATT-TTCAAGT-TCTATACTCCCTGAAGAAATA
1 AAGAAATAGGGAGCAG-ACACGATTGTTAAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATA
*
132219 GGGAGCAGACGCGATTGATGAAGATTGTTTGAGTCTTATACTCTCCGAAGGAATGGGGAGCAGAC
64 GGGAGCAGACGCGATTGATGAAGATTG-TTGAGTCTTATACTCTCCGAAGAAATGGGGAGCAGAC
** * *
132284 ACGATTGTTGAAAATTGTTCGAGTCTTATACTCTATG
128 ACGATCATTGAAAATTATTCGAGTCTTATACTCTATA
* * * *
132321 CAGAAATAGGGAGCCGACACGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGACGAAATAGG
1 AAGAAATAGGGAGCAGACACGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGG
* * * **
132386 GGGCAGACGCGATTGATGAAGATTG-TGAGTCTTATACTCTCTGAAGAAATGGGGGGCAGACGTG
66 GAGCAGACGCGATTGATGAAGATTGTTGAGTCTTATACTCTCCGAAGAAATGGGGAGCAGACACG
* *
132450 ATCATTGAAGATTATTCGAGTCTTATACTCTCTA
131 ATCATTGAAAATTATTCGAGTCTTATACTCTATA
* *
132484 AAGAAATAGGGGGCAGACGCGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 AAGAAATAGGGAGCAGACACGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
132542 GACTATGGAG
Statistics
Matches: 191, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
163 114 0.60
164 26 0.14
165 50 0.26
166 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.28
Consensus pattern (164 bp):
AAGAAATAGGGAGCAGACACGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGG
GAGCAGACGCGATTGATGAAGATTGTTGAGTCTTATACTCTCCGAAGAAATGGGGAGCAGACACG
ATCATTGAAAATTATTCGAGTCTTATACTCTATA
Found at i:139625 original size:31 final size:31
Alignment explanation
Indices: 139587--139665 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
139577 TCAAAAAACA
* *
139587 TAAGTTTTAGTCACTTACATTATTGTTTTAT
1 TAAGTTTTGGTCACTTACATTATAGTTTTAT
* * *
139618 TATGTTTTGGTCACTTACGTTATAGTTTTGT
1 TAAGTTTTGGTCACTTACATTATAGTTTTAT
139649 TAAGTTTTGGTCACTTA
1 TAAGTTTTGGTCACTTA
139666 GACGTTGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.22, C:0.10, G:0.15, T:0.53
Consensus pattern (31 bp):
TAAGTTTTGGTCACTTACATTATAGTTTTAT
Found at i:140382 original size:7 final size:7
Alignment explanation
Indices: 140370--140405 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
140360 AAATACTGTA
140370 TGAATAG
1 TGAATAG
140377 TGAATAG
1 TGAATAG
*
140384 TAAATAG
1 TGAATAG
*
140391 TGAACAG
1 TGAATAG
140398 TGAATAG
1 TGAATAG
140405 T
1 T
140406 ACGATGAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.25, T:0.28
Consensus pattern (7 bp):
TGAATAG
Found at i:141307 original size:21 final size:21
Alignment explanation
Indices: 141258--141321 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
141248 CATATGAAAT
* *
141258 TTGTCCAGAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTATGAA
*
141279 TATGTCCCGAAGGACTTATGAA
1 T-TGTCCCGAAGGACCTATGAA
141301 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
141322 ACCCTCGACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 20 0.53
22 18 0.47
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:141573 original size:14 final size:14
Alignment explanation
Indices: 141554--141580 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
141544 ATATCATATA
141554 TCTTATGTTTATGC
1 TCTTATGTTTATGC
141568 TCTTATGTTTATG
1 TCTTATGTTTATG
141581 TATATTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.59
Consensus pattern (14 bp):
TCTTATGTTTATGC
Found at i:143698 original size:104 final size:105
Alignment explanation
Indices: 143572--143785 Score: 281
Period size: 104 Copynumber: 2.0 Consensus size: 105
143562 GCACAATTAA
* * * * *
143572 AATATAAATTTTGATGAATTTGTTT-GACACTAAAAATATATTTTATGACCATCAATATTGTCAC
1 AATAGAAATTGTGATAAATTTGTTTAG-CACTAAAAATATATTTTATAACCACCAATATTGTCAC
143636 ACTAA-GTATTTTTAGTGATCAAATAG-TCGATACTATTATC
65 ACTAAGGTATTTTTAGTGATCAAAT-GTTCGATACTATTATC
* * * * *
143676 AATAGAAATTGTGATAAATTTGTTTAGTACTGAAAGTATATTTTGTAACCACCAATGTTGTCACA
1 AATAGAAATTGTGATAAATTTGTTTAGCACTAAAAATATATTTTATAACCACCAATATTGTCACA
*
143741 CTAAGTGTTTTTTTAGTGATCAAATGTTCGATACTATTATC
66 CTAAG-GTATTTTTAGTGATCAAATGTTCGATACTATTATC
143782 AATA
1 AATA
143786 ACTTCATCAC
Statistics
Matches: 95, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
104 57 0.60
105 2 0.02
106 36 0.38
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (105 bp):
AATAGAAATTGTGATAAATTTGTTTAGCACTAAAAATATATTTTATAACCACCAATATTGTCACA
CTAAGGTATTTTTAGTGATCAAATGTTCGATACTATTATC
Found at i:144547 original size:22 final size:20
Alignment explanation
Indices: 144522--144561 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
144512 TAGGTTGATT
144522 TTAAAATTTAATCAAATAAATA
1 TTAAAATTTAA--AAATAAATA
*
144544 TTAAGATTTAAAAATAAA
1 TTAAAATTTAAAAATAAA
144562 AATACCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (20 bp):
TTAAAATTTAAAAATAAATA
Found at i:144846 original size:12 final size:12
Alignment explanation
Indices: 144829--144913 Score: 61
Period size: 12 Copynumber: 7.3 Consensus size: 12
144819 TTAGCTAATG
144829 AAAATAAAATTT
1 AAAATAAAATTT
* **
144841 AAAATAATATAA
1 AAAATAAAATTT
144853 AAAAT-AAATTT
1 AAAATAAAATTT
** *
144864 AAAAGTTTAA-TG
1 AAAA-TAAAATTT
144876 AAAATAAAATTT
1 AAAATAAAATTT
* *
144888 AAAATAATA-TA
1 AAAATAAAATTT
144899 AAAAT-AAATTT
1 AAAATAAAATTT
144910 AAAA
1 AAAA
144914 GTTTAAGGTA
Statistics
Matches: 54, Mismatches: 15, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
10 2 0.04
11 21 0.39
12 29 0.54
13 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
AAAATAAAATTT
Found at i:144861 original size:23 final size:24
Alignment explanation
Indices: 144829--144913 Score: 101
Period size: 23 Copynumber: 3.7 Consensus size: 24
144819 TTAGCTAATG
144829 AAAATAAAATTTAAAATAATATAA
1 AAAATAAAATTTAAAATAATATAA
144853 AAAAT-AAATTTAAAAGT--T-TAA
1 AAAATAAAATTTAAAA-TAATATAA
144874 TGAAAATAAAATTTAAAATAATAT-A
1 --AAAATAAAATTTAAAATAATATAA
144899 AAAAT-AAATTTAAAA
1 AAAATAAAATTTAAAA
144914 GTTTAAGGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.06
22 11 0.20
23 21 0.39
24 16 0.30
25 2 0.04
26 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAATAAAATTTAAAATAATATAA
Found at i:144919 original size:46 final size:47
Alignment explanation
Indices: 144824--144919 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
144814 TTTATTTAGC
144824 TAATGAAAATAAAATTTAAAATAATATAAAAAATAAATTTAAAAGTT
1 TAATGAAAATAAAATTTAAAATAATATAAAAAATAAATTTAAAAGTT
144871 TAATGAAAATAAAATTTAAAATAATAT-AAAAATAAATTTAAAAGTT
1 TAATGAAAATAAAATTTAAAATAATATAAAAAATAAATTTAAAAGTT
144917 TAA
1 TAA
144920 GGTAATTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 22 0.45
47 27 0.55
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (47 bp):
TAATGAAAATAAAATTTAAAATAATATAAAAAATAAATTTAAAAGTT
Found at i:145241 original size:3 final size:3
Alignment explanation
Indices: 145235--145288 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
145225 TTTATCGCAA
145235 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
145283 AAT AAT
1 AAT AAT
145289 TGGTCACAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:150024 original size:41 final size:40
Alignment explanation
Indices: 149897--150088 Score: 145
Period size: 41 Copynumber: 4.7 Consensus size: 40
149887 ATAAACGACA
** ** *
149897 CTAAAGGTTTTGATATTTAGCGGTGTTTTTT-AAACGCCG
1 CTAAAGGTAATGATATTTAGCGGCATTTTTTAAAATGCCG
** * * *
149936 CTAAATATAATAATATTTAGTGGCATTATTTACAAATGCCG
1 CTAAAGGTAATGATATTTAGCGGCATTTTTTA-AAATGCCG
*
149977 CTAAAGGTAATGATATTTAGCGACATTTTGTTAAAATGCCG
1 CTAAAGGTAATGATATTTAGCGGCATTTT-TTAAAATGCCG
* * * * * *
150018 CTAAAGGTTATGAAAGTTGGCGGCATTTTTTCCCAAACGCCG
1 CTAAAGGTAATGATATTTAGCGGCATTTTTT--AAAATGCCG
* *
150060 CTAAAGGGT-ATGTTATTTAGGGGCTATTT
1 CTAAA-GGTAATGATATTTAGCGGC-ATTT
150089 ATCTTTTCTT
Statistics
Matches: 118, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
39 22 0.19
40 2 0.02
41 62 0.53
42 25 0.21
43 7 0.06
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (40 bp):
CTAAAGGTAATGATATTTAGCGGCATTTTTTAAAATGCCG
Found at i:152851 original size:41 final size:41
Alignment explanation
Indices: 152794--153049 Score: 280
Period size: 41 Copynumber: 6.3 Consensus size: 41
152784 ATTTGTAAGT
* * *
152794 GCCACTAAA-TACGAGTCTATAGCGGCATTTGTATAAAAAC
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAAC
* * * * *
152834 GCCACTAAATTATGAGTCTATATCGATGTTTATATAAAAAT
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAAC
* *
152875 GCCACTAAAGTACGAGTCTATAGTGTCGTTTATATAAAAAC
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAAC
* * * * *
152916 GCCACTAAAGTACAAGACTATAGTGACGTTTGTGTAAAAAC
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAAC
* * *
152957 GCCACTAAATTATGAGTCTATAACGACGTTTATATAAAAAC
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAAC
* * * * * *
152998 CCCACTAAAGGAAGAGTCTATAGTGATGTTTGTATAAAAAC
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAAC
*
153039 GCCACTTAAGT
1 GCCACTAAAGT
153050 TATTCTTTTT
Statistics
Matches: 177, Mismatches: 38, Indels: 1
0.82 0.18 0.00
Matches are distributed among these distances:
40 9 0.05
41 168 0.95
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (41 bp):
GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAAC
Found at i:152889 original size:82 final size:82
Alignment explanation
Indices: 152794--153049 Score: 311
Period size: 82 Copynumber: 3.1 Consensus size: 82
152784 ATTTGTAAGT
* * * * *
152794 GCCACTAAA-TACGAGTCTATAGCGGCATTTGTATAAAAACGCCACTAAATTATGAGTCTATA-T
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGCCACTAAAGTAAGAGTCTATAGT
* *
152857 CGATGTTTATATAAAAAT
66 -GATGTTTGTATAAAAAC
* * *
152875 GCCACTAAAGTACGAGTCTATAGTGTCGTTTATATAAAAACGCCACTAAAGTACA-AGACTATAG
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGCCACTAAAGTA-AGAGTCTATAG
* *
152939 TGACGTTTGTGTAAAAAC
65 TGATGTTTGTATAAAAAC
* * * * *
152957 GCCACTAAATTATGAGTCTATAACGACGTTTATATAAAAACCCCACTAAAGGAAGAGTCTATAGT
1 GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGCCACTAAAGTAAGAGTCTATAGT
153022 GATGTTTGTATAAAAAC
66 GATGTTTGTATAAAAAC
*
153039 GCCACTTAAGT
1 GCCACTAAAGT
153050 TATTCTTTTT
Statistics
Matches: 148, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
81 10 0.07
82 137 0.93
83 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (82 bp):
GCCACTAAAGTACGAGTCTATAGCGACGTTTATATAAAAACGCCACTAAAGTAAGAGTCTATAGT
GATGTTTGTATAAAAAC
Found at i:152965 original size:123 final size:123
Alignment explanation
Indices: 152794--153049 Score: 363
Period size: 123 Copynumber: 2.1 Consensus size: 123
152784 ATTTGTAAGT
* * * *
152794 GCCACTAAA-TACGAGTCTATAGCGGCATTTGTATAAAAACGCCACTAAATTATGAGTCTATATC
1 GCCACTAAAGTACAAGACTATAGCGACATTTGTATAAAAACGCCACTAAATTATGAGTCTATAAC
* ** * *
152858 GATGTTTATATAAAAATGCCACTAAAGTACGAGTCTATAGTG-TCGTTTATATAAAAAC
66 GACGTTTATATAAAAACCCCACTAAAGGAAGAGTCTATAGTGAT-GTTTATATAAAAAC
* * *
152916 GCCACTAAAGTACAAGACTATAGTGACGTTTGTGTAAAAACGCCACTAAATTATGAGTCTATAAC
1 GCCACTAAAGTACAAGACTATAGCGACATTTGTATAAAAACGCCACTAAATTATGAGTCTATAAC
*
152981 GACGTTTATATAAAAACCCCACTAAAGGAAGAGTCTATAGTGATGTTTGTATAAAAAC
66 GACGTTTATATAAAAACCCCACTAAAGGAAGAGTCTATAGTGATGTTTATATAAAAAC
*
153039 GCCACTTAAGT
1 GCCACTAAAGT
153050 TATTCTTTTT
Statistics
Matches: 118, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
122 9 0.08
123 108 0.92
124 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (123 bp):
GCCACTAAAGTACAAGACTATAGCGACATTTGTATAAAAACGCCACTAAATTATGAGTCTATAAC
GACGTTTATATAAAAACCCCACTAAAGGAAGAGTCTATAGTGATGTTTATATAAAAAC
Found at i:153728 original size:18 final size:18
Alignment explanation
Indices: 153705--153746 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
153695 CGAAATGTAG
*
153705 GATTACCGGCGAGAATAA
1 GATTACCAGCGAGAATAA
*
153723 GATTACCAGCGGGAATAA
1 GATTACCAGCGAGAATAA
153741 GATTAC
1 GATTAC
153747 TGGGAATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (18 bp):
GATTACCAGCGAGAATAA
Found at i:156019 original size:36 final size:35
Alignment explanation
Indices: 155979--156213 Score: 196
Period size: 35 Copynumber: 6.5 Consensus size: 35
155969 ACATACATAA
* *
155979 TATATAGTATATAATTTTTAAAACACTTTTAAAAAC
1 TATATAATATATAGTTTTTAAAACA-TTTTAAAAAC
*
156015 TATATAATATATAGTTTTTAAAACATTTTGAAAAC
1 TATATAATATATAGTTTTTAAAACATTTTAAAAAC
* *
156050 TATATAATATATAGTTTTTAAAATATTTTAAAAATATA
1 TATATAATATATAGTTTTTAAAACATTTT-AAAA-A-C
*
156088 TATATAATATATAGTTTTTTAAAAACATTTT-GAAA-
1 TATATAATATATAG-TTTTT-AAAACATTTTAAAAAC
*
156123 -A-AT-ATATATAG-TTTTAAAATATTTTTTAAAAA-
1 TATATAATATATAGTTTTTAAAACA--TTTTAAAAAC
* * *
156155 TATATTATATTATATGGTTTTGAAAAGCATTTTTAAAATC
1 TATA-TA-A-TATATAGTTTTTAAAA-CA-TTTTAAAAAC
*
156195 ATATATAAAATATAGTTTT
1 -TATATAATATATAGTTTT
156214 AATTTTTTTA
Statistics
Matches: 165, Mismatches: 16, Indels: 34
0.77 0.07 0.16
Matches are distributed among these distances:
29 5 0.03
30 4 0.02
31 4 0.02
32 11 0.07
33 3 0.02
34 2 0.01
35 38 0.23
36 26 0.16
37 3 0.02
38 31 0.19
39 22 0.13
40 12 0.07
41 4 0.02
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (35 bp):
TATATAATATATAGTTTTTAAAACATTTTAAAAAC
Found at i:156060 original size:69 final size:67
Alignment explanation
Indices: 155987--156202 Score: 197
Period size: 69 Copynumber: 3.0 Consensus size: 67
155977 AATATATAGT
*
155987 ATATAATTTTTAAAACACTTTTAAAAACTATATAATATATAGTTTTTAAAACATTTTGAAAACTA
1 ATATAATTTTTAAAATA-TTTTAAAAA-TATATAATATATAGTTTTTAAAACATTTTGAAAACTA
156052 TATA
64 TATA
156056 ATATATAGTTTTTAAAATATTTTAAAAATATATATATAATATATAGTTTTTTAAAAACATTTTGA
1 ATATA-A-TTTTTAAAATATTTT--AAA-A-ATATATAATATATAG-TTTTT-AAAACATTTTGA
156121 AAA--ATAT-
58 AAACTATATA
* * * *
156128 ATAT-AGTTTTAAAATATTTTTTAAAAATATATTATATTATATGGTTTTGAAAAGCATTTTTAAA
1 ATATAATTTTTAAAATA--TTTTAAAAATATA-TA-A-TATATAGTTTTTAAAA-CATTTTGAAA
156192 ATCATATATA
60 A-C-TATATA
156202 A
1 A
156203 AATATAGTTT
Statistics
Matches: 123, Mismatches: 5, Indels: 33
0.76 0.03 0.20
Matches are distributed among these distances:
67 5 0.04
68 7 0.06
69 33 0.27
70 12 0.10
71 14 0.11
72 7 0.06
73 23 0.19
74 7 0.06
75 15 0.12
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (67 bp):
ATATAATTTTTAAAATATTTTAAAAATATATAATATATAGTTTTTAAAACATTTTGAAAACTATA
TA
Found at i:156138 original size:30 final size:31
Alignment explanation
Indices: 156094--156159 Score: 82
Period size: 30 Copynumber: 2.1 Consensus size: 31
156084 TATATATATA
156094 ATATATAGTTTTTTAAAA-ACATTTTGAAAAAT
1 ATATATAG-TTTTTAAAATA-ATTTTGAAAAAT
* *
156126 ATATATAG-TTTTAAAATATTTTTTAAAAAT
1 ATATATAGTTTTTAAAATAATTTTGAAAAAT
156156 ATAT
1 ATAT
156160 TATATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 22 0.71
31 1 0.03
32 8 0.26
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (31 bp):
ATATATAGTTTTTAAAATAATTTTGAAAAAT
Found at i:156158 original size:71 final size:70
Alignment explanation
Indices: 155986--156201 Score: 223
Period size: 71 Copynumber: 3.1 Consensus size: 70
155976 TAATATATAG
* * *
155986 TATATAATTTTTAAAACACTTTT-AAAA-A-CTATATAATATATAGTTTTT-AAAACATTTTGAA
1 TATATAGTTTTTAAAATA-TTTTAAAAATATATATATAATATATAGTTTTTAAAAACATTTTG-A
156047 AACTATATAA
64 AA--A-ATAA
156057 TATATAGTTTTTAAAATATTTTAAAAATATATATATAATATATAGTTTTTTAAAAACATTTTGAA
1 TATATAGTTTTTAAAATATTTTAAAAATATATATATAATATATAG-TTTTTAAAAACATTTTGAA
156122 AAAT-A
65 AAATAA
* * * * *
156127 TATATAG-TTTTAAAATATTTTTTAAAAATATAT-TATATTATATGGTTTTGAAAAGCATTTT-T
1 TATATAGTTTTTAAAATA--TTTTAAAAATATATATATAATATATAGTTTTTAAAAACATTTTGA
*
156189 AAAATCA
64 AAAATAA
156196 TATATA
1 TATATA
156202 AAATATAGTT
Statistics
Matches: 129, Mismatches: 8, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
68 5 0.04
69 31 0.24
70 22 0.17
71 36 0.28
72 2 0.02
73 14 0.11
74 8 0.06
75 11 0.09
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (70 bp):
TATATAGTTTTTAAAATATTTTAAAAATATATATATAATATATAGTTTTTAAAAACATTTTGAAA
AATAA
Found at i:156213 original size:38 final size:38
Alignment explanation
Indices: 156128--156215 Score: 92
Period size: 38 Copynumber: 2.3 Consensus size: 38
156118 TGAAAAATAT
* **
156128 ATATAGTTTTAAAATATTTTTTAAAAATATATTATATT
1 ATATAGTTTTAAAACATTTTTTAAAAATATATTATAAA
*
156166 ATATGGTTTTGAAAAGCA-TTTTT-AAAATCATA-TATAAA
1 ATATAGTTTT-AAAA-CATTTTTTAAAAAT-ATATTATAAA
156204 ATATAGTTTTAA
1 ATATAGTTTTAA
156216 TTTTTTTAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
37 2 0.05
38 27 0.64
39 12 0.29
40 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (38 bp):
ATATAGTTTTAAAACATTTTTTAAAAATATATTATAAA
Found at i:156238 original size:19 final size:19
Alignment explanation
Indices: 156210--156254 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
156200 TAAAATATAG
*
156210 TTTTAATTTTTTTAATT-T
1 TTTTTATTTTTTTAATTAT
*
156228 TTTTTATTTTTTTATTTAT
1 TTTTTATTTTTTTAATTAT
156247 TTTTTATT
1 TTTTTATT
156255 ATTACTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTATTTTTTTAATTAT
Found at i:156249 original size:9 final size:9
Alignment explanation
Indices: 156210--156241 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
156200 TAAAATATAG
156210 TTTTAATTT
1 TTTTAATTT
156219 TTTTAATTT
1 TTTTAATTT
*
156228 TTTTTATTT
1 TTTTAATTT
156237 TTTTA
1 TTTTA
156242 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTAATTT
Found at i:156250 original size:22 final size:21
Alignment explanation
Indices: 156216--156257 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
156206 ATAGTTTTAA
*
156216 TTTTTTTAATTTTTTTTATTT
1 TTTTTTTAATTTTTATTATTT
*
156237 TTTTATTTATTTTTTATTATT
1 TTTT-TTTAATTTTTATTATT
156258 ACTATTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTAATTTTTATTATTT
Found at i:156256 original size:10 final size:9
Alignment explanation
Indices: 156210--156295 Score: 50
Period size: 9 Copynumber: 9.2 Consensus size: 9
156200 TAAAATATAG
*
156210 TTTTAATTT
1 TTTTTATTT
*
156219 TTTTAATTT
1 TTTTTATTT
156228 TTTTTA-TT
1 TTTTTATTT
156236 TTTTTATTTAT
1 TTTTTA-TT-T
*
156247 TTTTTATTA
1 TTTTTATTT
**
156256 TTACTATTT
1 TTTTTATTT
*
156265 AATTGTTATTT
1 --TTTTTATTT
*
156276 TTTTTCTTT
1 TTTTTATTT
156285 TTCTTT-TTT
1 TT-TTTATTT
156294 TT
1 TT
156296 CTCATTTTAG
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
8 8 0.13
9 34 0.55
10 6 0.10
11 14 0.23
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:156263 original size:20 final size:19
Alignment explanation
Indices: 156227--156276 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
156217 TTTTTTAATT
**
156227 TTTTTTATTTTTTTATTTA
1 TTTTTTATTTTACTATTTA
156246 TTTTTTATTATTACTATTTA
1 TTTTTTATT-TTACTATTTA
* *
156266 ATTGTTATTTT
1 TTTTTTATTTT
156277 TTTTCTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTATTTTACTATTTA
Found at i:160145 original size:2 final size:2
Alignment explanation
Indices: 160134--160170 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
160124 ATACCCAGAT
160134 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
160171 CAATAAAGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:160436 original size:6 final size:6
Alignment explanation
Indices: 160427--160892 Score: 748
Period size: 6 Copynumber: 79.7 Consensus size: 6
160417 TATTTTATTT
* * * *
160427 TATACA TATACA TATA-G TTTGCA TATGCA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
160474 TATACA TATACA TATACATA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATAC--A TATACA TATACA TATACA TATACA TATACA
160524 TATACA TATACA TATACA TATACA TATACA TATAC- -ATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
160570 TACATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 T--ATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
160620 TAT--A TATACA TATACA TATAC- --TACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
160663 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
160711 TATACA TATAC- -ATACA TATAC- -ATACA TATAC- -ATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
160753 TATACA TATACA TATACA TATACA TATAC- -ATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
160799 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
160847 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATA
160893 GTTTGGGATT
Statistics
Matches: 434, Mismatches: 6, Indels: 40
0.90 0.01 0.08
Matches are distributed among these distances:
3 3 0.01
4 24 0.06
5 2 0.00
6 393 0.91
8 12 0.03
ACGTcount: A:0.49, C:0.17, G:0.01, T:0.33
Consensus pattern (6 bp):
TATACA
Found at i:161182 original size:6 final size:6
Alignment explanation
Indices: 161167--161403 Score: 379
Period size: 6 Copynumber: 39.5 Consensus size: 6
161157 ATTTCTCATT
* * * * * *
161167 CATATA CATATG CATATG CATATG CATATG CATATG CATATG CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
*
161215 CATATG CATATA CATATA CATATA CATATATA CATATA CATATA C--ATA
1 CATATA CATATA CATATA CATATA C--ATATA CATATA CATATA CATATA
161263 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
161311 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
161359 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CAT
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CAT
161404 TTCGTTTTTT
Statistics
Matches: 223, Mismatches: 4, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
4 4 0.02
6 213 0.96
8 6 0.03
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:161673 original size:17 final size:17
Alignment explanation
Indices: 161642--161688 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
161632 TATTATCACG
161642 ATATTTATTTATTTTAT
1 ATATTTATTTATTTTAT
161659 ATATTATATTT-TTTTA-
1 ATATT-TATTTATTTTAT
*
161675 CT-TTTATTTATTTT
1 ATATTTATTTATTTT
161689 CTTTTGACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 1 0.04
17 10 0.37
18 5 0.19
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (17 bp):
ATATTTATTTATTTTAT
Found at i:161693 original size:23 final size:22
Alignment explanation
Indices: 161642--161686 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
161632 TATTATCACG
*
161642 ATATTTATTTATTTTATATATT
1 ATATTTTTTTATTTTATATATT
*
161664 ATATTTTTTTACTTTTATTTATT
1 ATATTTTTTTA-TTTTATATATT
161687 TTCTTTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
ATATTTTTTTATTTTATATATT
Found at i:161958 original size:13 final size:13
Alignment explanation
Indices: 161940--161969 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
161930 GAATAATGTT
161940 TTTTAAATTTAAA
1 TTTTAAATTTAAA
161953 TTTTAAATTTAAA
1 TTTTAAATTTAAA
161966 TTTT
1 TTTT
161970 CGCAACTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATTTAAA
Found at i:163720 original size:21 final size:20
Alignment explanation
Indices: 163695--163733 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
163685 CATCAAGGTC
*
163695 TTTGTTGAGGCCATGAAATCT
1 TTTGTCGAGGCCAT-AAATCT
*
163716 TTTGTCGATGCCATAAAT
1 TTTGTCGAGGCCATAAAT
163734 TCCTGCAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (20 bp):
TTTGTCGAGGCCATAAATCT
Found at i:164118 original size:24 final size:24
Alignment explanation
Indices: 164086--164133 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
164076 TTGACTTCTC
164086 TTACCTCATTTGGATGTTGCAAAT
1 TTACCTCATTTGGATGTTGCAAAT
164110 TTACCTCATTTGGATGTTGCAAAT
1 TTACCTCATTTGGATGTTGCAAAT
164134 GTTATGGAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (24 bp):
TTACCTCATTTGGATGTTGCAAAT
Found at i:168699 original size:64 final size:65
Alignment explanation
Indices: 168626--168787 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 65
168616 ATTGTTTGAA
* * ** *
168626 GGTGTATCGATGCACAGGTAGTGCATCTATGCACTCTTA-TAATCTAA-AAACATCGAATGCAAT
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCACTCCCAGTAAT-AAACAAACATCGAATGCAAT
168689 T
65 T
* * * *
168690 GGTGCATCGATGCATAAGGCA-TGCATCGATGCA-TCCCAGTAATAAACAAACATCGAATGTATT
1 GGTGCATCGATGCA-CAGGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCAAT
168753 T
65 T
** * *
168754 TATGCACCGATGCACAGGTAGCGCATCGATGCAC
1 GGTGCATCGATGCACAGGTAGTGCATCGATGCAC
168788 CGATAGGGAA
Statistics
Matches: 78, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
63 9 0.12
64 65 0.83
65 4 0.05
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (65 bp):
GGTGCATCGATGCACAGGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCAATT
Found at i:169798 original size:103 final size:103
Alignment explanation
Indices: 169573--169790 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
169563 GTCGAGAGTC
* *
169573 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATACGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATAC
* *
169638 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
169676 TATGTGGTTCTTCGGGACATATACGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATAC
1 TATGTGGTCCTTCGGGACATATACGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATAC
*
169741 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
169779 TATGTGGTCCTT
1 TATGTGGTCCTT
169791 ATGGACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 108 1.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATACGTATTCTTTGGAACATGTGTGAAGTCTGGCGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:169856 original size:23 final size:23
Alignment explanation
Indices: 169797--169874 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
169787 CCTTATGGAC
*
169797 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* * * * *
169821 ATTCTACGCGGCACTCCGATGCA
1 ATTATATGTGGCACTACGGTGCA
* *
169844 ATTATATGTGGCACTTCGGTACA
1 ATTATATGTGGCACTACGGTGCA
169867 ATTATATG
1 ATTATATG
169875 AGCTGTGGTG
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
23 39 0.93
24 3 0.07
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:172280 original size:119 final size:119
Alignment explanation
Indices: 172058--172281 Score: 328
Period size: 119 Copynumber: 1.9 Consensus size: 119
172048 TATTTTTAAC
* *
172058 TAAATTTATATATTGACAATGTAAAAAATATTTTTAATAAAATATACTATAAACATTGAAAATAA
1 TAAATTTATATATTGACAATGTAAAAAATAATTTTAATAAAATATACTACAAACATTGAAAATAA
***
172123 AAATTTAACAGAATTAAATTATGATTTTTTTGTTTAAAATGTTTTTAAAGTTGT
66 AAATTTAACAGAATTAAATTATGATTTTTTTAAATAAAATGTTTTTAAAGTTGT
*
172177 TAAATTTATATATTGAGAATGTAAAAAATAATTTTAATAAAATATACTACAATA-ATTGAAAATA
1 TAAATTTATATATTGACAATGTAAAAAATAATTTTAATAAAATATACTACAA-ACATTGAAAATA
* *
172241 AAATTTTAATAGAATTAAAATTA--ATATTTTTTAAATAAAAT
65 AAAATTTAACAGAATT-AAATTATGAT-TTTTTTAAATAAAAT
172282 TATTAATTTT
Statistics
Matches: 94, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
118 2 0.02
119 85 0.90
120 7 0.07
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (119 bp):
TAAATTTATATATTGACAATGTAAAAAATAATTTTAATAAAATATACTACAAACATTGAAAATAA
AAATTTAACAGAATTAAATTATGATTTTTTTAAATAAAATGTTTTTAAAGTTGT
Done.