Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 403 of 427
Found at i:116968759 original size:30 final size:30
Alignment explanation
Indices: 116968725--116968784 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
116968715 AGTACATAGA
116968725 TTAACAACATATTTTAATCTTTCCATTGCT
1 TTAACAACATATTTTAATCTTTCCATTGCT
*
116968755 TTAACAATATATTTTAATCTTTCCATTGCT
1 TTAACAACATATTTTAATCTTTCCATTGCT
116968785 ATCTTTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (30 bp):
TTAACAACATATTTTAATCTTTCCATTGCT
Found at i:116981707 original size:23 final size:23
Alignment explanation
Indices: 116981681--116981726 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
116981671 AGGATTCAAG
116981681 CTTATTCTGTTATAAGATGTACC
1 CTTATTCTGTTATAAGATGTACC
*
116981704 CTTATTTTGTTATAAGATGTACC
1 CTTATTCTGTTATAAGATGTACC
116981727 TTTGTGAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (23 bp):
CTTATTCTGTTATAAGATGTACC
Found at i:116983297 original size:21 final size:21
Alignment explanation
Indices: 116983271--116983311 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
116983261 CATGGTACTC
116983271 TGAGAATTTTTTAAGTTTTGA
1 TGAGAATTTTTTAAGTTTTGA
116983292 TGAGAATTTTTTAAGTTTTG
1 TGAGAATTTTTTAAGTTTTG
116983312 GTTGATGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TGAGAATTTTTTAAGTTTTGA
Found at i:117008501 original size:21 final size:21
Alignment explanation
Indices: 117008471--117008510 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
117008461 TAATACAATG
117008471 TCAACATTTTCATCCTGAACT
1 TCAACATTTTCATCCTGAACT
* *
117008492 TCAACGTTTTCATTCTGAA
1 TCAACATTTTCATCCTGAA
117008511 AAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (21 bp):
TCAACATTTTCATCCTGAACT
Found at i:117009045 original size:29 final size:30
Alignment explanation
Indices: 117009000--117009061 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
117008990 ACTTATTTTA
*
117009000 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
117009030 TTGTTAATTTT-TTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
117009059 TTG
1 TTG
117009062 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:117010338 original size:13 final size:13
Alignment explanation
Indices: 117010320--117010345 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
117010310 GACACTTTTA
117010320 AATATTTTTTAAT
1 AATATTTTTTAAT
117010333 AATATTTTTTAAT
1 AATATTTTTTAAT
117010346 CAAAAAATCG
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:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTTTTAAT
Found at i:117015525 original size:13 final size:13
Alignment explanation
Indices: 117015481--117015530 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
117015471 CAGAATTGCC
117015481 CACGGGCTGGCCA
1 CACGGGCTGGCCA
*
117015494 CACGGCCATGGGAGCCA
1 CACGGGC-T--G-GCCA
117015511 CACGGGCTGGCCA
1 CACGGGCTGGCCA
117015524 CACGGGC
1 CACGGGC
117015531 ATGTGCCCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 17 0.55
14 2 0.06
16 2 0.06
17 10 0.32
ACGTcount: A:0.18, C:0.38, G:0.38, T:0.06
Consensus pattern (13 bp):
CACGGGCTGGCCA
Found at i:117019737 original size:19 final size:20
Alignment explanation
Indices: 117019705--117019745 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
117019695 ACATGTATAG
117019705 TTTACCATTTTTTATAATTT
1 TTTACCATTTTTTATAATTT
117019725 TTTACCA-TTTTTATAATTT
1 TTTACCATTTTTTATAATTT
117019744 TT
1 TT
117019746 ATGATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTACCATTTTTTATAATTT
Found at i:117019743 original size:9 final size:9
Alignment explanation
Indices: 117019713--117019759 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
117019703 AGTTTACCAT
117019713 TTTTTATAA
1 TTTTTATAA
117019722 TTTTT-TACCA
1 TTTTTATA--A
117019732 TTTTTATAA
1 TTTTTATAA
*
117019741 TTTTTATGA
1 TTTTTATAA
117019750 TTTTTA-AA
1 TTTTTATAA
117019758 TT
1 TT
117019760 ATTTTTATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 5 0.15
9 20 0.61
10 6 0.18
11 2 0.06
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:117019754 original size:19 final size:19
Alignment explanation
Indices: 117019711--117019769 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
117019701 ATAGTTTACC
**
117019711 ATTTTTTATAATTTTTTACC
1 ATTTTTTATAA-TTTTTATG
117019731 A-TTTTTATAATTTTTATG
1 ATTTTTTATAATTTTTATG
* *
117019749 ATTTTTAAATTATTTTTATG
1 ATTTTT-TATAATTTTTATG
117019769 A
1 A
117019770 GAAAAATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.21
19 13 0.39
20 13 0.39
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (19 bp):
ATTTTTTATAATTTTTATG
Found at i:117022842 original size:46 final size:46
Alignment explanation
Indices: 117022670--117022831 Score: 263
Period size: 46 Copynumber: 3.5 Consensus size: 46
117022660 TTCGAAATGA
* * * *
117022670 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCATGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
*
117022716 TGCCGTGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
*
117022762 TG-CATGGTATCTTTCAATCATGGTCTTATTCATTTCCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
117022807 TGCCATGGTATCTTTCAACCATGGT
1 TGCCATGGTATCTTTCAACCATGGT
117022832 GTTACACATT
Statistics
Matches: 107, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 43 0.40
46 64 0.60
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.44
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGT
Found at i:117022865 original size:91 final size:92
Alignment explanation
Indices: 117022668--117022933 Score: 261
Period size: 91 Copynumber: 2.9 Consensus size: 92
117022658 TCTTCGAAAT
* *
117022668 GATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCATGTCATGTTGCCGTGGTATCTTTCA
1 GATGCCATAGTATCTTTCAACTATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCA
** ** *
117022733 ACCATGGTCTTATTCATTTCCTGTCAT
66 ACCATGGTCTTACACATTTCCAATCAC
* * *
117022760 GTTG-CATGGTATCTTTCAA-TCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTC
1 GATGCCATAGTATCTTTCAACT-ATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTC
* * *
117022823 AACCATGGTGTTACACATTT-GAATCGC
65 AACCATGGTCTTACACATTTCCAATCAC
* * * * * * * * * *
117022850 GATGCCATAGAATCTTTCAGCTATGGTCTTACTCGTCTGA-ATCATGATGCCATAGCATCTTTCA
1 GATGCCATAGTATCTTTCAACTATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCA
* * *
117022914 GCTATGGTCTTACTCATTTC
66 ACCATGGTCTTACACATTTC
117022934 TGGTATGATG
Statistics
Matches: 140, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
90 41 0.29
91 95 0.68
92 4 0.03
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (92 bp):
GATGCCATAGTATCTTTCAACTATGGTCTTATTCATTTCATGTCATGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACATTTCCAATCAC
Found at i:117022942 original size:45 final size:45
Alignment explanation
Indices: 117022666--117022950 Score: 238
Period size: 45 Copynumber: 6.3 Consensus size: 45
117022656 TATCTTCGAA
* *
117022666 ATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCATGTC
1 ATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTC-TGTC
* * * * *
117022712 ATGTTGCCGTGGTATCTTTCAACCATGGTCTTATTCATTTCCTGTC
1 ATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTT-CTGTC
* * *
117022758 ATGTTG-CATGGTATCTTTCAA-TCATGGTCTTATTCATTTCCTGTC
1 ATGATGCCATAGTATCTTTCAACT-ATGGTCTTACTCATTT-CTGTC
* * * * * ***
117022803 ATGTTGCCATGGTATCTTTCAACCATGGTGTTACACATTTGAATC
1 ATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCTGTC
** * * *
117022848 GCGATGCCATAGAATCTTTCAGCTATGGTCTTACTC--GTCTGAATC
1 ATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCTG--TC
* *
117022893 ATGATGCCATAGCATCTTTCAGCTATGGTCTTACTCATTTCTGGT-
1 ATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCT-GTC
*
117022938 ATGATGTCATAGT
1 ATGATGCCATAGT
117022951 CCAACTATGG
Statistics
Matches: 197, Mismatches: 33, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
43 1 0.01
45 117 0.59
46 74 0.38
47 4 0.02
48 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.41
Consensus pattern (45 bp):
ATGATGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCTGTC
Found at i:117023923 original size:131 final size:132
Alignment explanation
Indices: 117023669--117023910 Score: 289
Period size: 131 Copynumber: 1.9 Consensus size: 132
117023659 ATTGTATGGG
* *
117023669 TACATTTGTAATTTAAATATTTAATTACTTATAATTTAAGTATAAAGATATTTGTTAATTAAATA
1 TACATTTGTAATTTAAATATGTAATTACTTATAATTTAAGTATAAAGATATTTATTAATTAAATA
* * * * * *
117023734 ATTAAATTATAAGATTTTTGGTATGAAAAACAAATTAAATAATGACATTTGTAATAATATGAATA
66 ATTAAATTATAAGATTTTTGATATGAAAAACAAATAAAAGAAAGACAATGGTAATAATATGAATA
117023799 TA
131 TA
* *
117023801 TACATTTGT-ATTATAATTATGTATTTACTTA-AATTTTAAGT-TAAAGATATTTATTAATTAAA
1 TACATTTGTAATT-TAAATATGTAATTACTTATAA-TTTAAGTATAAAGATATTTATTAATTAAA
* ** *
117023863 T-ATTAATATTATAA-ATTTTT-ATTTGTTAAATAAATAAAAGAAAGACAA
64 TAATTAA-ATTATAAGATTTTTGATATGAAAAACAAATAAAAGAAAGACAA
117023911 ATGGATGGTA
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
129 19 0.20
130 11 0.12
131 33 0.35
132 31 0.33
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (132 bp):
TACATTTGTAATTTAAATATGTAATTACTTATAATTTAAGTATAAAGATATTTATTAATTAAATA
ATTAAATTATAAGATTTTTGATATGAAAAACAAATAAAAGAAAGACAATGGTAATAATATGAATA
TA
Found at i:117025251 original size:27 final size:27
Alignment explanation
Indices: 117025184--117025254 Score: 117
Period size: 27 Copynumber: 2.6 Consensus size: 27
117025174 ATGCCTTATT
*
117025184 GGTGTGTTTGGGAGAATATATTATACC
1 GGTGTGTTTGGGAGGATATATTATACC
117025211 GGTGTGTTTGGGAGGATATATTATACC
1 GGTGTGTTTGGGAGGATATATTATACC
117025238 GGTGTGTTAT-GGAGGAT
1 GGTGTGTT-TGGGAGGAT
117025255 TTACAATATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 41 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.35, T:0.37
Consensus pattern (27 bp):
GGTGTGTTTGGGAGGATATATTATACC
Found at i:117027550 original size:5 final size:5
Alignment explanation
Indices: 117027524--117027581 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
117027514 ATGTGTTAAA
* *
117027524 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
117027573 ATATT ATAT
1 ATATT ATAT
117027582 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:117027560 original size:10 final size:9
Alignment explanation
Indices: 117027525--117027582 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
117027515 TGTGTTAAAA
117027525 TATATATAT
1 TATATATAT
*
117027534 TAAAT-TAT
1 TATATATAT
117027542 TAT-TATAT
1 TATATATAT
117027550 TATAGTATAT
1 TATA-TATAT
117027560 TATAT-TA-
1 TATATATAT
117027567 TATATTATAT
1 TATA-TATAT
117027577 TATATA
1 TATATA
117027583 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:117027572 original size:12 final size:12
Alignment explanation
Indices: 117027527--117027582 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
117027517 TGTTAAAATA
*
117027527 TATATATTAAAT
1 TATATATTATAT
117027539 TAT-TATTATATT
1 TATATATTATA-T
117027551 ATAGTATATTATAT
1 -TA-TATATTATAT
117027565 TATATATTATAT
1 TATATATTATAT
117027577 TATATA
1 TATATA
117027583 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:117028920 original size:18 final size:19
Alignment explanation
Indices: 117028899--117028937 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
117028889 ATATATAGAT
117028899 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
117028917 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
117028936 AT
1 AT
117028938 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:117029287 original size:39 final size:39
Alignment explanation
Indices: 117029177--117029311 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
117029167 GACCTCGAGT
* * * *
117029177 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
117029218 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
117029256 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
117029295 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
117029312 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:117029455 original size:18 final size:19
Alignment explanation
Indices: 117029434--117029474 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
117029424 AATGAAATGA
117029434 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
117029452 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
117029471 GAAA
1 GAAA
117029475 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:117032185 original size:24 final size:23
Alignment explanation
Indices: 117032151--117032212 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
117032141 AATAACAAAT
117032151 TTAATATTTAATTTTACATTTTTTAA
1 TTAA-ATTTAATTTT--ATTTTTTAA
117032177 TT-AATTTAACTTTTATTTTTTAA
1 TTAAATTTAA-TTTTATTTTTTAA
*
117032200 TTAAATTTGATTT
1 TTAAATTTAATTT
117032213 CAATCTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 14 0.42
24 12 0.36
25 5 0.15
26 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (23 bp):
TTAAATTTAATTTTATTTTTTAA
Found at i:117032340 original size:2 final size:2
Alignment explanation
Indices: 117032335--117032368 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
117032325 CAATTCACAC
117032335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117032369 GTGTTGATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117035880 original size:43 final size:43
Alignment explanation
Indices: 117035833--117035920 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
117035823 GCTTATAATA
117035833 AATATCTAACTCTTATTAACCCCCACTTTTTTTATATCATATG
1 AATATCTAACTCTTATTAACCCCCACTTTTTTTATATCATATG
*
117035876 AATATCTAACTCTTATTAACCCCCCCTTTTTTTATATCATATG
1 AATATCTAACTCTTATTAACCCCCACTTTTTTTATATCATATG
117035919 AA
1 AA
117035921 AGTAGTAAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (43 bp):
AATATCTAACTCTTATTAACCCCCACTTTTTTTATATCATATG
Found at i:117037547 original size:6 final size:6
Alignment explanation
Indices: 117037532--117037570 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
117037522 AAATGTGTAT
117037532 AATT-A AATTAA AATTAA AATTAA AATTAA AATTAA AATT
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATT
117037571 TATGCATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATTAA
Found at i:117039236 original size:6 final size:6
Alignment explanation
Indices: 117039225--117039266 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
117039215 GTCCATGACA
* * *
117039225 CCCATG CCCATG CCCATA CCCATC CCCATC CCCATC CCCATC
1 CCCATC CCCATC CCCATC CCCATC CCCATC CCCATC CCCATC
117039267 GCTGGGGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.19, C:0.60, G:0.05, T:0.17
Consensus pattern (6 bp):
CCCATC
Found at i:117041215 original size:6 final size:6
Alignment explanation
Indices: 117041201--117041233 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
117041191 AAATTCACAA
*
117041201 ACACAC ACACGC ACACGC ACACGC ACACGC ACA
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACA
117041234 AAAAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.39, C:0.48, G:0.12, T:0.00
Consensus pattern (6 bp):
ACACGC
Found at i:117044596 original size:31 final size:30
Alignment explanation
Indices: 117044526--117044605 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
117044516 TGTTTTAATG
117044526 AATTTAATATTAATATGATATATTAAATTT
1 AATTTAATATTAATATGATATATTAAATTT
* * **
117044556 AAATTAATATTTATATAGATAATATTTTA-TT
1 AATTTAATATTAATAT-GAT-ATATTAAATTT
*
117044587 AATTTAATATTAATGTGAT
1 AATTTAATATTAATATGAT
117044606 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
30 17 0.41
31 18 0.44
32 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (30 bp):
AATTTAATATTAATATGATATATTAAATTT
Found at i:117049596 original size:76 final size:76
Alignment explanation
Indices: 117049504--117049662 Score: 309
Period size: 76 Copynumber: 2.1 Consensus size: 76
117049494 CTTGGATAAT
117049504 TTCCTGTAGAAAGAAAAGTTTTATCCTCAGTCCATTAGAAATGCAATAATAATTTACTACCATGA
1 TTCCTGTAGAAAGAAAAGTTTTATCCTCAGTCCATTAGAAATGCAATAATAATTTACTACCATGA
117049569 AACAGAAGTTC
66 AACAGAAGTTC
117049580 TTCCTGTAGAAAGAAAAGTTTTATCCTCAGTCCATTAGAAATGCAATAATAATTTACTACCATGA
1 TTCCTGTAGAAAGAAAAGTTTTATCCTCAGTCCATTAGAAATGCAATAATAATTTACTACCATGA
117049645 AACAGAAGTTC
66 AACAGAAGTTC
117049656 TTACCTG
1 TT-CCTG
117049663 ATTCGCTTCG
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 78 0.95
77 4 0.05
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (76 bp):
TTCCTGTAGAAAGAAAAGTTTTATCCTCAGTCCATTAGAAATGCAATAATAATTTACTACCATGA
AACAGAAGTTC
Found at i:117066806 original size:25 final size:25
Alignment explanation
Indices: 117066751--117066835 Score: 72
Period size: 25 Copynumber: 3.6 Consensus size: 25
117066741 ACAATTATTG
117066751 TTAATTATATTTTATATAATAAATA
1 TTAATTATATTTTATATAATAAATA
** **
117066776 CAAATTATATTGTTA-ATAATATGTA
1 TTAATTATATT-TTATATAATAAATA
117066801 TTAATTA-A--TTATATAATAAATA
1 TTAATTATATTTTATATAATAAATA
* *
117066823 CT-ATTTTATTTTA
1 TTAATTATATTTTA
117066836 AATTAAGAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
21 6 0.13
22 10 0.22
24 4 0.09
25 22 0.49
26 3 0.07
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TTAATTATATTTTATATAATAAATA
Found at i:117067025 original size:28 final size:28
Alignment explanation
Indices: 117066985--117067044 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
117066975 GTCATTATCA
117066985 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
117067013 ACCCCATAAGTTATGAGACTTTTCTTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
117067041 ACCC
1 ACCC
117067045 ATTAATATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:117072387 original size:28 final size:28
Alignment explanation
Indices: 117072347--117072409 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
117072337 GTCATTATCA
117072347 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
117072375 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
117072403 ACCCCAT
1 ACCCCAT
117072410 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:117083559 original size:27 final size:26
Alignment explanation
Indices: 117083494--117083559 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 26
117083484 TGTGTAAAAG
117083494 TTTATCTAATTCTCAAAAAATAACTTA
1 TTTATC-AATTCTCAAAAAATAACTTA
* * *
117083521 TTTATTTAAATTTTTAAAAAATTAACTTA
1 TTTA--TCAATTCTCAAAAAA-TAACTTA
117083550 TTTATCAATT
1 TTTATCAATT
117083560 AATAATTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
27 9 0.28
28 11 0.34
29 12 0.38
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (26 bp):
TTTATCAATTCTCAAAAAATAACTTA
Found at i:117090817 original size:10 final size:10
Alignment explanation
Indices: 117090802--117090826 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
117090792 TAATAACTTC
117090802 TTTTAATGTG
1 TTTTAATGTG
117090812 TTTTAATGTG
1 TTTTAATGTG
117090822 TTTTA
1 TTTTA
117090827 GTAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (10 bp):
TTTTAATGTG
Found at i:117098935 original size:35 final size:35
Alignment explanation
Indices: 117098896--117098962 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
117098886 TAAAGCAAGA
117098896 AAAATAAAAAACAACTTACTCTAATCCAATAACCG
1 AAAATAAAAAACAACTTACTCTAATCCAATAACCG
** ** * *
117098931 AAAATTCAAAATTACTTACTTTAATCTAATAA
1 AAAATAAAAAACAACTTACTCTAATCCAATAA
117098963 AAATCAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.52, C:0.18, G:0.01, T:0.28
Consensus pattern (35 bp):
AAAATAAAAAACAACTTACTCTAATCCAATAACCG
Found at i:117103966 original size:35 final size:35
Alignment explanation
Indices: 117103926--117103994 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
117103916 TTCAATAAAG
117103926 ATGAACCTGAGTTAACAAGGGAATTCATGAAAGAT
1 ATGAACCTGAGTTAACAAGGGAATTCATGAAAGAT
117103961 ATGAACCTGAGTTAACAAGGGAATTCATGAAAGA
1 ATGAACCTGAGTTAACAAGGGAATTCATGAAAGA
117103995 CCGTGGACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (35 bp):
ATGAACCTGAGTTAACAAGGGAATTCATGAAAGAT
Found at i:117107827 original size:23 final size:23
Alignment explanation
Indices: 117107797--117107843 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
117107787 AGGCAACCAT
*
117107797 ACTATTTTCTCTGCCATTTTTTA
1 ACTATTTTATCTGCCATTTTTTA
117107820 ACTATTTTATCTGCCATTTTTTA
1 ACTATTTTATCTGCCATTTTTTA
117107843 A
1 A
117107844 GTTCAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.04, T:0.55
Consensus pattern (23 bp):
ACTATTTTATCTGCCATTTTTTA
Found at i:117119047 original size:2 final size:2
Alignment explanation
Indices: 117119040--117119076 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
117119030 TTGAGTTCTT
117119040 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
117119077 GTGTGTATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:117120906 original size:39 final size:39
Alignment explanation
Indices: 117120852--117120975 Score: 212
Period size: 39 Copynumber: 3.2 Consensus size: 39
117120842 ATTTGATGTG
117120852 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
117120891 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * *
117120930 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
117120969 TGTCCGG
1 TATCCGG
117120976 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:117128879 original size:46 final size:46
Alignment explanation
Indices: 117128812--117129085 Score: 422
Period size: 46 Copynumber: 6.0 Consensus size: 46
117128802 AGTGTGCTCT
*
117128812 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
117128858 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
117128904 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
117128950 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
117128996 GTGATATGAAATGAGCAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
117129042 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
117129086 TCATGTCAAA
Statistics
Matches: 213, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 213 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:117131115 original size:135 final size:135
Alignment explanation
Indices: 117130875--117131303 Score: 587
Period size: 135 Copynumber: 3.2 Consensus size: 135
117130865 GATGGCAGAT
117130875 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATACCAGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
117130938 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
117131003 TTCCA
131 TTCCA
* * * *
117131008 ATCATCATCTTTATCTTCACTGAGCAGGAGTGGAGTAGGCTAAATATACCA-AGTCTTATCTTCG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGA-TCTTATCTTCA
* * * * * * * * *
117131072 CTGAGCAGGAG-CAGAGCAGATCAAATTTTGGTGAAACTTATCTCCATGGATCGACAATGGAGCA
65 CTGAGCAGGAGTGA-AGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCA
*
117131136 GATTTCA
129 GATTCCA
** * * * *
117131143 GCCACCAACCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAATATACCAGATCTTATCTTCAT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
*
117131208 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAACAGA
66 TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
*
117131273 TCCCA
131 TTCCA
* * *
117131278 ATCATCAGCTTTATCTTTACTAAGCA
1 ATCATCAGCCTTATCTTCACTGAGCA
117131304 ATGGGTAACA
Statistics
Matches: 248, Mismatches: 42, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
133 38 0.15
134 4 0.02
135 204 0.82
136 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (135 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATACCAGATCTTATCTTCAC
TGAGCAGGAGTGAAGCAGATCGAATTTTGGAGAATCTTATCTCCACGTACCGGCGATGGAGCAGA
TTCCA
Found at i:117139879 original size:21 final size:21
Alignment explanation
Indices: 117139853--117139905 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
117139843 GAAACCATTT
117139853 TTTTGAAAACGGGAAATCAAC
1 TTTTGAAAACGGGAAATCAAC
117139874 TTTTGAAAACGGGAAATCAAC
1 TTTTGAAAACGGGAAATCAAC
117139895 TTTTGAAAACG
1 TTTTGAAAACG
117139906 TTGGGAGTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (21 bp):
TTTTGAAAACGGGAAATCAAC
Found at i:117140524 original size:121 final size:123
Alignment explanation
Indices: 117140305--117140543 Score: 374
Period size: 121 Copynumber: 1.9 Consensus size: 123
117140295 GTTTTAGCTT
* * *
117140305 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGTGAAACACAGTACTTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCG--A-ACAGTACGTTACGGCACGATT
* *
117140370 CTTCGAATTCTTTAAATACTGAACATTGCCTTTATTTTGAAAATTTTTTAGAGTGAATTGG
63 CTTCGAATTCTTTAAATACTGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAATTGG
*
117140431 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCG-A-AGTACGTTACGGCACGATTCTT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAACAGTACGTTACGGCACGATTCTT
*
117140494 CGAATTCTTTAAATATTGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CGAATTCTTTAAATACTGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
117140544 AAGATCAATG
Statistics
Matches: 106, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
121 67 0.63
122 1 0.01
126 38 0.36
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (123 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAACAGTACGTTACGGCACGATTCTT
CGAATTCTTTAAATACTGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAATTGG
Found at i:117141032 original size:14 final size:14
Alignment explanation
Indices: 117141013--117141043 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
117141003 ATATATTTAC
*
117141013 ATAATAAATATATA
1 ATAATAAATAAATA
117141027 ATAATAAATAAATA
1 ATAATAAATAAATA
117141041 ATA
1 ATA
117141044 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:117141044 original size:19 final size:18
Alignment explanation
Indices: 117141015--117141051 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
117141005 ATATTTACAT
117141015 AATAAATATATAATAATA
1 AATAAATATATAATAATA
117141033 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
117141052 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:117141068 original size:29 final size:27
Alignment explanation
Indices: 117141036--117141133 Score: 67
Period size: 30 Copynumber: 3.4 Consensus size: 27
117141026 AATAATAAAT
117141036 AAATAATATAATAATATGAAACATAACTC
1 AAATAAT-TAATAATATGAAA-ATAACTC
117141065 AAATTAATTAAATTAATA-GAAAATAA-T-
1 AAA-TAATT-AA-TAATATGAAAATAACTC
* * *
117141092 AAAAAATATAAAAATAATGAGAATAAAGCTC
1 AAATAAT-TAATAAT-ATGAAAAT-AA-CTC
117141123 AAATAATTAAT
1 AAATAATTAAT
117141134 TTAACAGTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 19
0.69 0.06 0.24
Matches are distributed among these distances:
25 3 0.06
26 6 0.11
27 9 0.17
28 3 0.06
29 8 0.15
30 14 0.26
31 11 0.20
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (27 bp):
AAATAATTAATAATATGAAAATAACTC
Found at i:117141090 original size:57 final size:59
Alignment explanation
Indices: 117141029--117141157 Score: 142
Period size: 57 Copynumber: 2.2 Consensus size: 59
117141019 AATATATAAT
* *
117141029 AATAAATAAATAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AA
1 AATAAATAAATAATATAAAAATAATGAAA-ATAAAGCTCAAA-TAATTAAATTAACAGTAA
* * *
117141086 AAT-AATAAAAAATATAAAAATAATGAGAATAAAGCTCAAATAATTAATTTAACAGTAA
1 AATAAATAAATAATATAAAAATAATGAAAATAAAGCTCAAATAATTAAATTAACAGTAA
*
117141144 AATAACAAAAATAA
1 AATAA-ATAAATAA
117141158 AAAAGGGTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
56 18 0.31
57 23 0.39
58 11 0.19
59 1 0.02
60 6 0.10
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (59 bp):
AATAAATAAATAATATAAAAATAATGAAAATAAAGCTCAAATAATTAAATTAACAGTAA
Found at i:117141458 original size:18 final size:18
Alignment explanation
Indices: 117141435--117141470 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
117141425 TATAACAAGT
*
117141435 AGGGTGATGGAGTTAGTG
1 AGGGTGATGGAGGTAGTG
117141453 AGGGTGATGGAGGTAGTG
1 AGGGTGATGGAGGTAGTG
117141471 GATGGTTTAG
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:0.22, C:0.00, G:0.53, T:0.25
Consensus pattern (18 bp):
AGGGTGATGGAGGTAGTG
Found at i:117141486 original size:29 final size:29
Alignment explanation
Indices: 117141447--117141553 Score: 90
Period size: 29 Copynumber: 3.4 Consensus size: 29
117141437 GGTGATGGAG
117141447 TTAGTGAGGGTGATGGAGGTAGTGGATGGT
1 TTAGT-AGGGTGATGGAGGTAGTGGATGGT
*
117141477 TTAGTAGGGTGTGGGGGTGATGGAGGTAGTGAATGGT
1 TTAGTA--------GGGTGATGGAGGTAGTGGATGGT
*
117141514 TTAGTAGGGTGATGGAGTTAGTGG-TCGGT
1 TTAGTAGGGTGATGGAGGTAGTGGAT-GGT
*
117141543 TTAGTGGGGTG
1 TTAGTAGGGTG
117141554 TTTAATTTGG
Statistics
Matches: 64, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
28 1 0.02
29 30 0.47
30 5 0.08
37 28 0.44
ACGTcount: A:0.18, C:0.01, G:0.50, T:0.32
Consensus pattern (29 bp):
TTAGTAGGGTGATGGAGGTAGTGGATGGT
Found at i:117141504 original size:37 final size:37
Alignment explanation
Indices: 117141454--117141524 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
117141444 GAGTTAGTGA
*
117141454 GGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTGG
1 GGGTGATGGAGGTAGTGAATGGTTTAGTAGGGTGTGG
117141491 GGGTGATGGAGGTAGTGAATGGTTTAGTAGGGTG
1 GGGTGATGGAGGTAGTGAATGGTTTAGTAGGGTG
117141525 ATGGAGTTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.52, T:0.30
Consensus pattern (37 bp):
GGGTGATGGAGGTAGTGAATGGTTTAGTAGGGTGTGG
Found at i:117141966 original size:85 final size:86
Alignment explanation
Indices: 117141789--117142349 Score: 662
Period size: 85 Copynumber: 6.6 Consensus size: 86
117141779 TCAACGAAAA
117141789 TAAGATCTGT-AATTTTAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCGAGTCTTCGACCTGC
1 TAAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGC
* *
117141852 TCCACCACTGCTCGGAGAG-T
66 TCCACCACTGCTCGGCGAGCC
* ** * * *
117141872 TAGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGAAGCTAAGGCGAGT-TATTGACTTG
1 TAAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCT-TCGACCTG
*
117141936 CTCCACCACTGCTTGGCGAGCC
65 CTCCACCACTGCTCGGCGAGCC
* * * *
117141958 TAAG-TCTGTAAACTTTAGCTTGTTACCCTACTACTTAGGGGGTTAAGGCGAGTCTTCGACCTAC
1 TAAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGC
*
117142022 TCCACCA--GCTCGGCAAGCC
66 TCCACCACTGCTCGGCGAGCC
* * * *
117142041 -CAGATTTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC-ATGTATCTTTGATC
1 TAAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGA-G--TCTTCGACC
* *
117142104 TGCTCCGCCACTGCTCAGCGAGCC
63 TGCTCCACCACTGCTCGGCGAGCC
* * * **
117142128 CAAG-TCTGTAAACTTTAGCCTGTTACTCTACTGCTTAGAAGGTTAAGGCGAGTCTTCGACCTGC
1 TAAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGC
* *
117142192 TCCGCCACTGCTAGGCGAGCC
66 TCCACCACTGCTCGGCGAGCC
* * *
117142213 CAA-ATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC-ATGTATCTTTGATC
1 TAAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGA-G--TCTTCGACC
* *
117142276 TGCTCCGCCACTGCTCGACGAGCC
63 TGCTCCACCACTGCTCGGCGAGCC
* *
117142300 -CAGATCTGTAAATTTTAGCCTGTTACCTTACTGCTTAGGGGGTTAAGGCG
1 TAAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG
117142350 TGTATCTTTT
Statistics
Matches: 407, Mismatches: 52, Indels: 33
0.83 0.11 0.07
Matches are distributed among these distances:
82 3 0.01
83 61 0.15
84 29 0.07
85 181 0.44
86 5 0.01
87 125 0.31
88 3 0.01
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.30
Consensus pattern (86 bp):
TAAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGC
TCCACCACTGCTCGGCGAGCC
Found at i:117142159 original size:87 final size:86
Alignment explanation
Indices: 117141790--117142520 Score: 656
Period size: 87 Copynumber: 8.5 Consensus size: 86
117141780 CAACGAAAAT
*
117141790 AAGATCTGT-AATTTTAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCG-AGTCTTCGACCTGC
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTA-TCTTTGACCTGC
* **
117141852 TCCACCACTGCTCGGAGAG-TT
65 TCCACCACTGCTCGGCGAGCCC
* ** * *
117141873 AGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGAAGCTAAGGCG-AGT-TATTGACTTG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTA-TCT-TTGACCTG
* *
117141936 CTCCACCACTGCTTGGCGAGCCT
64 CTCCACCACTGCTCGGCGAGCCC
* * * * *
117141959 AAG-TCTGTAAACTTTAGCTTGTTACCCTACTACTTAGGGGGTTAAGGCG-AGTCTTCGACCTAC
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTA-TCTTTGACCTGC
*
117142022 TCCACCA--GCTCGGCAAGCCC
65 TCCACCACTGCTCGGCGAGCCC
* *
117142042 -AGATTTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCATGTATCTTTGATCTG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC--GTATCTTTGACCTG
* *
117142106 CTCCGCCACTGCTCAGCGAGCCC
64 CTCCACCACTGCTCGGCGAGCCC
* * ** *
117142129 AAG-TCTGTAAACTTTAGCCTGTTACTCTACTGCTTAGAAGGTTAAGGCG-AGTCTTCGACCTGC
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTA-TCTTTGACCTGC
* *
117142192 TCCGCCACTGCTAGGCGAGCCC
65 TCCACCACTGCTCGGCGAGCCC
*
117142214 AA-ATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCATGTATCTTTGATCTG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC--GTATCTTTGACCTG
* *
117142278 CTCCGCCACTGCTCGACGAGCCC
64 CTCCACCACTGCTCGGCGAGCCC
* * *
117142301 -AGATCTGTAAATTTTAGCCTGTTACCTTACTGCTTAGGGGGTTAAGGCGTGTATCTTTTATCTG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC--GTATCTTTGACCTG
* * * * * **
117142365 TTCCACTATTTCTTAGG-GAG-AT
64 CTCCACCACTGC-TCGGCGAGCCC
* * * * * * * * *
117142387 AAGATCTAT-AATCTTTAACTTGTGACCCTATTGCTTAAGGAGTTAAAGCGTGTATCTTTGATCT
1 AAGATCTGTAAAT-TTTAGCCTGTTACCCTACTGCTTAGGGGGTT-AAG-GCGTATCTTTGACCT
* * ** *
117142451 GCTCCACTACAGCTTAAG-GAG-AC
63 GCTCCACCACTGC-TCGGCGAGCCC
** *
117142474 AAGATCTGTAGTTTTTAGCCTGTTACCCTACTGTTTAGGGGGTTAAG
1 AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
117142521 ACTGGTGGTT
Statistics
Matches: 537, Mismatches: 87, Indels: 45
0.80 0.13 0.07
Matches are distributed among these distances:
82 2 0.00
83 59 0.11
84 29 0.05
85 182 0.34
86 12 0.02
87 243 0.45
88 9 0.02
89 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (86 bp):
AAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGTATCTTTGACCTGCT
CCACCACTGCTCGGCGAGCCC
Found at i:117142273 original size:172 final size:171
Alignment explanation
Indices: 117141794--117142349 Score: 763
Period size: 172 Copynumber: 3.3 Consensus size: 171
117141784 GAAAATAAGA
*
117141794 TCTGT-AATTTTAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCGAGTCTTCGACCTGCTCCAC
1 TCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCAC
* ** ** *
117141857 CACTGCTCGGAGAG-TTAGGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGAAGCTAAGG
66 CACTGCTCGGCGAGCCCA-GATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
* * * *
117141921 CGA-GT-T-ATTGA-CTTGCTCCACCACTGCTTGGCGAGCCTAAG
130 C-ATGTATCTTTGATC-TGCTCCGCCACTGC-TCGCGAGCCCAAG
* * *
117141962 TCTGTAAACTTTAGCTTGTTACCCTACTACTTAGGGGGTTAAGGCGAGTCTTCGACCTACTCCAC
1 TCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCAC
* *
117142027 CA--GCTCGGCAAGCCCAGATTTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
66 CACTGCTCGGCGAGCCCAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
117142090 ATGTATCTTTGATCTGCTCCGCCACTGCTCAGCGAGCCCAAG
131 ATGTATCTTTGATCTGCTCCGCCACTGCTC-GCGAGCCCAAG
* ** *
117142132 TCTGTAAACTTTAGCCTGTTACTCTACTGCTTAGAAGGTTAAGGCGAGTCTTCGACCTGCTCCGC
1 TCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCAC
* *
117142197 CACTGCTAGGCGAGCCCAAATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
66 CACTGCTCGGCGAGCCCAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
117142262 ATGTATCTTTGATCTGCTCCGCCACTGCTCGACGAGCCC-AG
131 ATGTATCTTTGATCTGCTCCGCCACTGCTCG-CGAGCCCAAG
* *
117142303 ATCTGTAAATTTTAGCCTGTTACCTTACTGCTTAGGGGGTTAAGGCG
1 -TCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG
117142350 TGTATCTTTT
Statistics
Matches: 344, Mismatches: 32, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
167 1 0.00
168 58 0.17
169 27 0.08
170 119 0.35
171 4 0.01
172 135 0.39
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (171 bp):
TCTGTAAACTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCAC
CACTGCTCGGCGAGCCCAGATCTGTAAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
ATGTATCTTTGATCTGCTCCGCCACTGCTCGCGAGCCCAAG
Found at i:117142611 original size:44 final size:44
Alignment explanation
Indices: 117142563--117142649 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 44
117142553 CATGGAGATA
*
117142563 AGATCCACTGAAATTT-GATCTGTTCCACTCCTGC-CAGTGGGATG
1 AGATCCACT-AAATTTAG-CCTGTTCCACTCCTGCTCAGTGGGATG
* * *
117142607 AGATCTACTATATTTAGCCTGTTCTACTCCTGCTCAGTGGGAT
1 AGATCCACTAAATTTAGCCTGTTCCACTCCTGCTCAGTGGGAT
117142650 AACGCTGGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 19 0.51
44 18 0.49
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (44 bp):
AGATCCACTAAATTTAGCCTGTTCCACTCCTGCTCAGTGGGATG
Found at i:117142681 original size:132 final size:132
Alignment explanation
Indices: 117142533--117142991 Score: 552
Period size: 132 Copynumber: 3.5 Consensus size: 132
117142523 TGGTGGTTTG
* * *
117142533 AATCTGCTCTATTGCCGATACATGGAGATAAGATCCACTGAAATTTGATCTGTTCCACTCCTGCC
1 AATCTGCTCCATTGCCGATACATGGAGATAAGATCCACTAAAATTTGATCTGCTCCACTCCTGCC
* * *
117142598 AGTGGGATGAGATCTACTATATTTAGCCTGTTCTACTCCTGCTCAGTGGGATAACGCTGGTGGTT
66 AGTGGGATGAGATCTACTATATTTAGCCTGTTCCACTCCTGCTCAGTGGGATAAGGCTGGTGG-C
117142663 TG-
130 TGA
* * *
117142665 AATCTGCTCCATTGCCGATATATGGAGATAAGATTC-GTCAAAATTTGATCTGCTCCACTCCTGC
1 AATCTGCTCCATTGCCGATACATGGAGATAAGATCCACT-AAAATTTGATCTGCTCCACTCCTGC
*** * * * * * *
117142729 TCAGCAAAGATAAGATCTA-GA-GTTTAGTCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGT
65 -CAG-TGGGATGAGATCTACTATATTTAGCCTGTTCCACTCCTGCTCAGTG-GGATAAGGCTGGT
117142792 GGCTGA
127 GGCTGA
* * * * * *
117142798 AATCTGCTCTATTGCCGATACATGGAAACAAGATCCGCTGAAATTTGATCTGCTCCACTCCTGTC
1 AATCTGCTCCATTGCCGATACATGGAGATAAGATCCACTAAAATTTGATCTGCTCCACTCCTGCC
* * *
117142863 AGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCTACTCAGTGGGATAAGGCTTGTGGCT
66 AGTGGGATGAGATCTACTATATTTAGCCTGTTCCACTCCTGCTCAGTGGGATAAGGCTGGTGGCT
117142928 GA
131 GA
* * * *
117142930 AATCTGCTCCATTGCC--TAAATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGC
1 AATCTGCTCCATTGCCGATACATGGAGATAAGATCCACTAAAATTTGATCTGCTCCACTCCTGC
117142992 TCAGCGAAGA
Statistics
Matches: 271, Mismatches: 48, Indels: 18
0.80 0.14 0.05
Matches are distributed among these distances:
130 37 0.14
131 10 0.04
132 118 0.44
133 95 0.35
134 11 0.04
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (132 bp):
AATCTGCTCCATTGCCGATACATGGAGATAAGATCCACTAAAATTTGATCTGCTCCACTCCTGCC
AGTGGGATGAGATCTACTATATTTAGCCTGTTCCACTCCTGCTCAGTGGGATAAGGCTGGTGGCT
GA
Found at i:117142916 original size:265 final size:263
Alignment explanation
Indices: 117142533--117143009 Score: 776
Period size: 265 Copynumber: 1.8 Consensus size: 263
117142523 TGGTGGTTTG
* * *
117142533 AATCTGCTCTATTGCCGATACATGGAGATAAGATCCACTGAAATTTGATCTGTTCCACTCCTGCC
1 AATCTGCTCTATTGCCGATACATGGAAACAAGATCCACTGAAATTTGATCTGCTCCACTCCTGCC
* * *
117142598 AGTGGGATGAGATCTACTATATTTAGCCTGTTCTACTCCTGCTCAGTGGGATAACGCTGGTGGTT
66 AGTGGGATGAGATCTACTATATTTAGCCTGTTCCACTCCTACTCAGTGGGATAACGCTGGTGG-C
* **
117142663 TG-AATCTGCTCCATTGCCGATATATGGAGATAAGATTCGTCAAAATTTGATCTGCTCCACTCCT
130 TGAAATCTGCTCCATTGCC--TAAATGGAGATAAGATTCACCAAAATTTGATCTGCTCCACTCCT
117142727 GCTCAGCAAAGATAAGATCTAGAGTTTAGTCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGT
193 GCTCAGCAAAGATAAGATCTAGAGTTTAGTCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGT
117142792 GGCTGA
258 GGCTGA
* *
117142798 AATCTGCTCTATTGCCGATACATGGAAACAAGATCCGCTGAAATTTGATCTGCTCCACTCCTGTC
1 AATCTGCTCTATTGCCGATACATGGAAACAAGATCCACTGAAATTTGATCTGCTCCACTCCTGCC
* * *
117142863 AGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCTACTCAGTGGGATAAGGCTTGTGGCT
66 AGTGGGATGAGATCTACTATATTTAGCCTGTTCCACTCCTACTCAGTGGGATAACGCTGGTGGCT
*
117142928 GAAATCTGCTCCATTGCCTAAATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCT
131 GAAATCTGCTCCATTGCCTAAATGGAGATAAGATTCACCAAAATTTGATCTGCTCCACTCCTGCT
*
117142993 CAGCGAAGATAAGATCT
196 CAGCAAAGATAAGATCT
117143010 GTCGAAATTT
Statistics
Matches: 195, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
263 59 0.30
264 2 0.01
265 134 0.69
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (263 bp):
AATCTGCTCTATTGCCGATACATGGAAACAAGATCCACTGAAATTTGATCTGCTCCACTCCTGCC
AGTGGGATGAGATCTACTATATTTAGCCTGTTCCACTCCTACTCAGTGGGATAACGCTGGTGGCT
GAAATCTGCTCCATTGCCTAAATGGAGATAAGATTCACCAAAATTTGATCTGCTCCACTCCTGCT
CAGCAAAGATAAGATCTAGAGTTTAGTCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGC
TGA
Found at i:117143008 original size:132 final size:132
Alignment explanation
Indices: 117142533--117143049 Score: 523
Period size: 132 Copynumber: 3.9 Consensus size: 132
117142523 TGGTGGTTTG
* ** *
117142533 AATCTGCTCTATTGCCGATACATGGAGATAAGATCCACTGAAATTTGATCTGTTCCACTCCTGC-
1 AATCTGCTCCATTGCC-ATACATGGAGATAAGATCCACCAAAATTTGATCTGCTCCACTCCTGCT
* * * * * * *
117142597 CAGTGGGATGAGATCTACTATATTTAGCCTGTTCTACTCCTGCTCAGTGGGATAACGCTGGTGGT
65 CAGCGAGATAAGATCTGCTATATTTAGCCTGTTCCACTCCTACTCAGTGGGATAAGGCTGGTGG-
*
117142662 TTG-
129 CTGA
* * **
117142665 AATCTGCTCCATTGCCGATATATGGAGATAAGATTCGTCAAAATTTGATCTGCTCCACTCCTGCT
1 AATCTGCTCCATTGCC-ATACATGGAGATAAGATCCACCAAAATTTGATCTGCTCCACTCCTGCT
* * * * * *
117142730 CAGCAAAGATAAGATCTAG--A-GTTTAGTCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGT
65 CAGC-GAGATAAGATCT-GCTATATTTAGCCTGTTCCACTCCTACTCAGTG-GGATAAGGCTGGT
117142792 GGCTGA
127 GGCTGA
* * * * **
117142798 AATCTGCTCTATTGCCGATACATGGAAACAAGATCCGCTGAAATTTGATCTGCTCCACTCCTG-T
1 AATCTGCTCCATTGCC-ATACATGGAGATAAGATCCACCAAAATTTGATCTGCTCCACTCCTGCT
* * * *
117142862 CAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCCTACTCAGTGGGATAAGGCTTGTGGC
65 CAGCGAGATAAGATCTGCTATATTTAGCCTGTTCCACTCCTACTCAGTGGGATAAGGCTGGTGGC
117142927 TGA
130 TGA
* * *
117142930 AATCTGCTCCATTGCC-TAAATGGAGATAAGATTCACCAAAATTTGATCTGCTCCGCTCCTGCTC
1 AATCTGCTCCATTGCCATACATGGAGATAAGATCCACCAAAATTTGATCTGCTCCACTCCTGCTC
* * *
117142994 AGCGAAGATAAGATCTGTCGAAATTT-GATCTGTTCCACT-CTAGC-CAGTGGGATAAG
66 AGCG-AGATAAGATCTG-CTATATTTAG-CCTGTTCCACTCCTA-CTCAGTGGGATAAG
117143050 ATCTGCTATA
Statistics
Matches: 319, Mismatches: 53, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
130 38 0.12
131 14 0.04
132 145 0.45
133 113 0.35
134 9 0.03
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (132 bp):
AATCTGCTCCATTGCCATACATGGAGATAAGATCCACCAAAATTTGATCTGCTCCACTCCTGCTC
AGCGAGATAAGATCTGCTATATTTAGCCTGTTCCACTCCTACTCAGTGGGATAAGGCTGGTGGCT
GA
Found at i:117143019 original size:176 final size:177
Alignment explanation
Indices: 117142837--117143277 Score: 663
Period size: 179 Copynumber: 2.5 Consensus size: 177
117142827 AAGATCCGCT
* *
117142837 GAAATTTGATCTGCTCCACTCCTGTCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
1 GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
*
117142902 TACTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCC-TAAATGGAGATAAGATTCAC
66 TGCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCATAAATGGAGATAAGATTCAC
*
117142966 CAAAATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTGTC
131 CAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
*
117143013 GAAATTTGATCTGTTCCACT-CTAGCCAGTGGGATAAGATCTGCTATATTTAGCCTGCTT-CACT
1 GAAATTTGATCTGTTCCACTCCT-GCCAGTGGGATGAGATCTGCTATATTTAGCCTG-TTCCACT
* * * * *
117143076 CTTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGGTAAGAT
64 CCTGCTCAGTG-GGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCC-ATAAATGGAGATAAGAT
* * *
117143141 TCGCCAAAATTTGATCTGCTCTGCTCCTGATCAGCGAATATAAGATCTGTC
127 TCACCAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
* * * * *
117143192 GAAATTTGATATATTCCACTCCTGCCAGTAGGATGAGATCTGTTATATTTAGCCTATTCCACTCC
1 GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
117143257 TGCTCAGTGGGATAAGGCTTG
66 TGCTCAGTGGGATAAGGCTTG
117143278 CAGAAATCTG
Statistics
Matches: 236, Mismatches: 22, Indels: 12
0.87 0.08 0.04
Matches are distributed among these distances:
175 2 0.01
176 63 0.27
177 35 0.15
178 12 0.05
179 122 0.52
180 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (177 bp):
GAAATTTGATCTGTTCCACTCCTGCCAGTGGGATGAGATCTGCTATATTTAGCCTGTTCCACTCC
TGCTCAGTGGGATAAGGCTTGTGGCTGAAATCTGCTCCATTGCCATAAATGGAGATAAGATTCAC
CAAAATTTGATCTGCTCCGCTCCTGATCAGCGAAGATAAGATCTGTC
Found at i:117144557 original size:24 final size:24
Alignment explanation
Indices: 117144530--117144579 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
117144520 TGGCCTCTCC
*
117144530 TTTGCTTTTATTTTCTTTCTCTTT
1 TTTGCTTTTATCTTCTTTCTCTTT
* * *
117144554 TTTGTTTTTCTCTTCTTTTTCTTT
1 TTTGCTTTTATCTTCTTTCTCTTT
117144578 TT
1 TT
117144580 CCTTTTCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (24 bp):
TTTGCTTTTATCTTCTTTCTCTTT
Found at i:117144563 original size:15 final size:14
Alignment explanation
Indices: 117144534--117144622 Score: 72
Period size: 15 Copynumber: 5.8 Consensus size: 14
117144524 CTCTCCTTTG
117144534 CTTTTATTTTCTTTCT
1 CTTTT-TTTT-TTTCT
117144550 CTTTTTTGTTTTTCT
1 CTTTTTT-TTTTTCT
117144565 CTTCTTTTTCTTTT-T
1 CTT-TTTTT-TTTTCT
*
117144580 CCTTTTCCTTTTTTCT
1 -CTTTT-TTTTTTTCT
*
117144596 CTTTCCTTTTTTTCTT
1 CTTT-TTTTTTTTC-T
117144612 CTTTTTTTTTT
1 CTTTTTTTTTT
117144623 AAGTGAAGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
15 35 0.57
16 26 0.43
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.78
Consensus pattern (14 bp):
CTTTTTTTTTTTCT
Found at i:117144575 original size:6 final size:6
Alignment explanation
Indices: 117144540--117144622 Score: 55
Period size: 6 Copynumber: 13.7 Consensus size: 6
117144530 TTTGCTTTTA
* * * *
117144540 TTTTCT TTCTCTT TTTTGT TTTTC- TCTTCT TTTTCT TTTTCCT TTTCCTT
1 TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTTCT TTTT-CT TTTTC-T
* *
117144590 TTTTCT CTTTCCT TTTT-T TCTTCT TTTT-T TTTT
1 TTTTCT -TTTTCT TTTTCT TTTTCT TTTTCT TTTT
117144623 AAGTGAAGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
5 13 0.22
6 27 0.46
7 19 0.32
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:117144594 original size:14 final size:14
Alignment explanation
Indices: 117144574--117144611 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
117144564 TCTTCTTTTT
*
117144574 CTTTTTCCT-TTTC
1 CTTTTTTCTCTTTC
117144587 CTTTTTTCTCTTTC
1 CTTTTTTCTCTTTC
117144601 CTTTTTT-TCTT
1 CTTTTTTCTCTT
117144612 CTTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTTTTCTCTTTC
Found at i:117144611 original size:13 final size:13
Alignment explanation
Indices: 117144583--117144619 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
117144573 TCTTTTTCCT
117144583 TTTCCTTTTTTCTC
1 TTTCCTTTTTT-TC
117144597 TTTCCTTTTTTTC
1 TTTCCTTTTTTTC
117144610 -TT-CTTTTTTT
1 TTTCCTTTTTTT
117144620 TTTAAGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 2 0.09
13 2 0.09
14 11 0.48
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTCCTTTTTTTC
Found at i:117144616 original size:31 final size:31
Alignment explanation
Indices: 117144558--117144617 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
117144548 CTCTTTTTTG
*
117144558 TTTTTCTCTTCTTTTTCTTTTTCCTTTTCCT
1 TTTTTCTCTTCTTTTTCTTCTTCCTTTTCCT
*
117144589 TTTTTCTCTTTCCTTTTT-TTCTTCTTTTT
1 TTTTTCTC-TT-CTTTTTCTTCTTCCTTTT
117144618 TTTTTAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 8 0.32
32 11 0.44
33 6 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (31 bp):
TTTTTCTCTTCTTTTTCTTCTTCCTTTTCCT
Found at i:117147223 original size:21 final size:21
Alignment explanation
Indices: 117147197--117147241 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
117147187 GCTGGCTCAT
*
117147197 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
*
117147218 CATGTTTTTCTGGGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
117147239 CAT
1 CAT
117147242 TTGATCCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCCAG
Found at i:117150886 original size:126 final size:126
Alignment explanation
Indices: 117150732--117150975 Score: 443
Period size: 126 Copynumber: 1.9 Consensus size: 126
117150722 GTTTTAGCCT
*
117150732 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGTGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
117150797 CTTCGAATTTTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
*
117150858 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
117150923 CTTCGAATTCTTTAAATGCCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
117150976 AAGATCAATG
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 113 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:117151852 original size:46 final size:46
Alignment explanation
Indices: 117151792--117152101 Score: 478
Period size: 46 Copynumber: 6.7 Consensus size: 46
117151782 TGCCATAATG
* * * * * *
117151792 TCTTTCAACTATGGTCCTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTA
*
117151838 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGAA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*
117151884 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCTATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
* * *
117151930 TCTTTCAACCATGGTATTACACATTTCATATCAGGTTGCCATGGTG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*
117151976 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
117152022 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
* *
117152068 TCTTTCAACCATGATCTTACACATTTCATTTCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
117152102 AGAGCACACT
Statistics
Matches: 245, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 241 0.98
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
Found at i:117153108 original size:10 final size:11
Alignment explanation
Indices: 117153093--117153121 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
117153083 AGGTGATCAT
117153093 GGGCCGGG-TC
1 GGGCCGGGTTC
117153103 GGGCCGGGTTC
1 GGGCCGGGTTC
117153114 GGGCCGGG
1 GGGCCGGG
117153122 CCCATACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.00, C:0.28, G:0.62, T:0.10
Consensus pattern (11 bp):
GGGCCGGGTTC
Found at i:117153272 original size:26 final size:24
Alignment explanation
Indices: 117153242--117153289 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
117153232 ATAAAAAAAA
*
117153242 TTAAAAATATAATAAATCAAATATAT
1 TTAAAAACATAA-AAA-CAAATATAT
117153268 TTAAAAACATAAAAACAAATAT
1 TTAAAAACATAAAAACAAATAT
117153290 TAAAACAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 3 0.14
26 11 0.52
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TTAAAAACATAAAAACAAATATAT
Found at i:117153301 original size:22 final size:21
Alignment explanation
Indices: 117153230--117153318 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
117153220 TTATTTCATT
* *
117153230 AAATAAAAAAAAT-TAAAAAT
1 AAATAAAAAAAATATTAAAAC
*
117153250 ATAATAAATCAAATATATTTAAAA-
1 A-AATAAA--AAAAATA-TTAAAAC
*
117153274 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
117153296 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
117153317 AA
1 AA
117153319 TTCTTAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 26 0.47
22 12 0.22
23 10 0.18
24 1 0.02
25 5 0.09
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:117153383 original size:16 final size:15
Alignment explanation
Indices: 117153364--117153395 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
117153354 AAATAGTTAT
117153364 ATTAAAAATTAAAATA
1 ATTAAAAA-TAAAATA
117153380 ATTAAAAATAAAATA
1 ATTAAAAATAAAATA
117153395 A
1 A
117153396 AATAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTAAAAATAAAATA
Found at i:117155123 original size:30 final size:30
Alignment explanation
Indices: 117155056--117155123 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
117155046 CACCCTTAAA
* * *
117155056 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
117155086 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
117155115 AGTATTTAC
1 A-TATTTAC
117155124 TTTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:117155845 original size:63 final size:60
Alignment explanation
Indices: 117155720--117155857 Score: 156
Period size: 62 Copynumber: 2.3 Consensus size: 60
117155710 ATAAATATAT
* *
117155720 AATAATAAACAAAT-AATATAATAATATGAAACATAACTCAAATTAATTAAACTAATAGAA
1 AATAATAAA-AAATAAATATAAAAATATGAAACATAACTCAAATTAATTAAACTAACAGAA
* **
117155780 AATAATAAAAAATAAATATAAAAATAATGAGA-ATAAAGCTCAAATTAATTAATTTAACAGTAA
1 AATAATAAAAAATAAATATAAAAAT-ATGAAACAT-AA-CTCAAATTAATTAAACTAACAG-AA
*
117155843 AATAA-CAAAAATAAA
1 AATAATAAAAAATAAA
117155858 GAAAGGGTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
59 4 0.06
60 21 0.31
61 7 0.10
62 28 0.42
63 7 0.10
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.25
Consensus pattern (60 bp):
AATAATAAAAAATAAATATAAAAATATGAAACATAACTCAAATTAATTAAACTAACAGAA
Found at i:117159571 original size:18 final size:18
Alignment explanation
Indices: 117159548--117159587 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
117159538 AATTAAAGTG
*
117159548 GACCTAGAAAAAGCTTAT
1 GACCTAGAAAAAGCGTAT
*
117159566 GACCTAGAAAAGGCGTAT
1 GACCTAGAAAAAGCGTAT
117159584 GACC
1 GACC
117159588 GTATCTGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.23, T:0.17
Consensus pattern (18 bp):
GACCTAGAAAAAGCGTAT
Found at i:117162965 original size:75 final size:73
Alignment explanation
Indices: 117162874--117163045 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
117162864 GGTTTTCCTC
** * * **
117162874 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
117162938 TCAGTATGG
65 TCAGTATGG
* *
117162947 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAG
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
117163012 CTCAGTATGG
64 CTCAGTATGG
117163022 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
117163046 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:117163057 original size:35 final size:35
Alignment explanation
Indices: 117162879--117163045 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
117162869 TCCTCATTGA
** * *
117162879 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
* ** *
117162914 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAGCTCAGTAT-G----GAT
117162954 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAGCTCAGTATGGAT
117162989 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAGCTCAGTATGGAT
*
117163024 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
117163046 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAGCTCAGTATGGAT
Found at i:117166147 original size:23 final size:23
Alignment explanation
Indices: 117166117--117166196 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
117166107 ACTTCGGTGG
*
117166117 TGTTCTATTACCCGCTTTGGCGA
1 TGTTCTATTATCCGCTTTGGCGA
*
117166140 TGTTCTATTATCCACTTTGGC-A
1 TGTTCTATTATCCGCTTTGGCGA
* * **
117166162 GTGTTCTGTTATTCGCTTCAGCGA
1 -TGTTCTATTATCCGCTTTGGCGA
*
117166186 TGTTCTGTTAT
1 TGTTCTATTAT
117166197 GTTCTGTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.02
23 46 0.96
24 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.45
Consensus pattern (23 bp):
TGTTCTATTATCCGCTTTGGCGA
Found at i:117166168 original size:46 final size:46
Alignment explanation
Indices: 117166101--117166196 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 46
117166091 CGCACTTTGT
** **
117166101 TTATCCACTTCGGTGGTGTTCTATTACCCGCTTTGGCGATGTTCTA
1 TTATCCACTTCGGCAGTGTTCTATTACCCGCTTCAGCGATGTTCTA
* * ** *
117166147 TTATCCACTTTGGCAGTGTTCTGTTATTCGCTTCAGCGATGTTCTG
1 TTATCCACTTCGGCAGTGTTCTATTACCCGCTTCAGCGATGTTCTA
117166193 TTAT
1 TTAT
117166197 GTTCTGTATA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.44
Consensus pattern (46 bp):
TTATCCACTTCGGCAGTGTTCTATTACCCGCTTCAGCGATGTTCTA
Found at i:117178825 original size:136 final size:135
Alignment explanation
Indices: 117178568--117178840 Score: 327
Period size: 136 Copynumber: 2.0 Consensus size: 135
117178558 AAGTAAATTA
* * * *
117178568 GGAAGTAAGATTTCATGTATCAGTGGACTTCTTTGTTTGATTTATTTTGTTAGTCTTTATTTGGT
1 GGAAGTAAGATTTCATGTATCAATGGACTTCGTTGCTTGATCTATTTTGTTAGTCTTTATTTGGT
* * * *
117178633 TAGGTGGGCTTTTTTCCCCGTGGACTTAAAACTGGGGCTTATGATGCTTATATATAGGTTTTAGT
66 TAGGTGGGCTTTTTTCCCCATGGACTTAAAACTAGGGCTTATGACGC-TATATATAGATTTTAGT
117178698 ATGTTT
130 ATGTTT
*
117178704 GGAAGT-AGCATTTCATGTATTAATGGACTT-GTTGCTTGATCTATTTTGTTAGTCTTTTATTTG
1 GGAAGTAAG-ATTTCATGTATCAATGGACTTCGTTGCTTGATCTATTTTGTTAGTC-TTTATTTG
* *** * * *
117178767 TGTTATGTGGGCTTTATTTTTTCATGGACTTAAGACTAGGTCTTATGACGC-ATGTATAGATTTT
64 -GTTAGGTGGGCTTT-TTTCCCCATGGACTTAAAACTAGGGCTTATGACGCTATATATAGATTTT
*
117178831 GGTATGTTT
127 AGTATGTTT
117178840 G
1 G
117178841 AATTTTGGAG
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
135 23 0.20
136 53 0.46
137 13 0.11
138 27 0.23
ACGTcount: A:0.20, C:0.10, G:0.23, T:0.47
Consensus pattern (135 bp):
GGAAGTAAGATTTCATGTATCAATGGACTTCGTTGCTTGATCTATTTTGTTAGTCTTTATTTGGT
TAGGTGGGCTTTTTTCCCCATGGACTTAAAACTAGGGCTTATGACGCTATATATAGATTTTAGTA
TGTTT
Found at i:117181784 original size:8 final size:8
Alignment explanation
Indices: 117181771--117181800 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
117181761 AAAAAGGGGA
117181771 CGAAATGG
1 CGAAATGG
117181779 CGAAATGG
1 CGAAATGG
117181787 CGAAATGG
1 CGAAATGG
117181795 CGAAAT
1 CGAAAT
117181801 CTGGAGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.33, T:0.13
Consensus pattern (8 bp):
CGAAATGG
Found at i:117183643 original size:3 final size:3
Alignment explanation
Indices: 117183635--117183661 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
117183625 TTTTTTGTTA
117183635 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
117183662 GGTTTGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:117187742 original size:11 final size:12
Alignment explanation
Indices: 117187722--117187754 Score: 52
Period size: 10 Copynumber: 2.9 Consensus size: 12
117187712 TGAATTCAGA
117187722 TTTCCTTTTTTC
1 TTTCCTTTTTTC
117187734 TTT-C-TTTTTC
1 TTTCCTTTTTTC
117187744 TTTCCTTTTTT
1 TTTCCTTTTTT
117187755 AATAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 9 0.47
11 2 0.11
12 8 0.42
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCCTTTTTTC
Found at i:117187762 original size:3 final size:3
Alignment explanation
Indices: 117187754--117187779 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
117187744 TTTCCTTTTT
117187754 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
117187780 TAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:117188659 original size:6 final size:6
Alignment explanation
Indices: 117188625--117188652 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
117188615 ACATTTATGC
117188625 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
117188653 TACTTTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:117193415 original size:10 final size:10
Alignment explanation
Indices: 117193346--117193423 Score: 62
Period size: 9 Copynumber: 8.4 Consensus size: 10
117193336 AGGTATATAA
*
117193346 AAATTAGATT
1 AAATTATATT
*
117193356 AATTTATATT
1 AAATTATATT
**
117193366 TTA-TATATT
1 AAATTATATT
117193375 -AA-TATATT
1 AAATTATATT
117193383 AAATTAT-TT
1 AAATTATATT
117193392 AAA-TATCATT
1 AAATTAT-ATT
117193402 -AATTATATT
1 AAATTATATT
117193411 AAATTAT-TT
1 AAATTATATT
117193420 AAAT
1 AAAT
117193424 CACATTTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
8 10 0.18
9 24 0.43
10 22 0.39
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (10 bp):
AAATTATATT
Found at i:117193435 original size:28 final size:28
Alignment explanation
Indices: 117193368--117193423 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
117193358 TTTATATTTT
117193368 ATAT-ATTAA-TATATTAAATTATTTAA
1 ATATCATTAATTATATTAAATTATTTAA
117193394 ATATCATTAATTATATTAAATTATTTAA
1 ATATCATTAATTATATTAAATTATTTAA
117193422 AT
1 AT
117193424 CACATTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 4 0.14
27 5 0.18
28 19 0.68
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (28 bp):
ATATCATTAATTATATTAAATTATTTAA
Found at i:117193441 original size:31 final size:30
Alignment explanation
Indices: 117193371--117193446 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 30
117193361 ATATTTTATA
*
117193371 TATTAATATATTAAATTATTTAAATATCAT
1 TATTATTATATTAAATTATTTAAATATCAT
117193401 TA--ATTATATTAAATTATTTAAATCA-CATT
1 TATTATTATATTAAATTATTTAAAT-ATCA-T
*
117193430 TATTATTATATTTAATT
1 TATTATTATATTAAATT
117193447 TTTTGGTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 22 0.55
29 4 0.10
30 2 0.05
31 12 0.30
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
TATTATTATATTAAATTATTTAAATATCAT
Found at i:117198225 original size:21 final size:22
Alignment explanation
Indices: 117198196--117198240 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
117198186 TTTCTTCATC
* *
117198196 TATTTATTTTTTTA-TTTAAAT
1 TATTCATTTCTTTACTTTAAAT
*
117198217 TATTCATTTCTTTACTTTTAAT
1 TATTCATTTCTTTACTTTAAAT
117198239 TA
1 TA
117198241 CAAAATCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTCATTTCTTTACTTTAAAT
Found at i:117203031 original size:20 final size:21
Alignment explanation
Indices: 117202983--117203034 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
117202973 TTAAATTAAA
117202983 TTTAAAAATAAAGTATAAATGC
1 TTTAAAAATAAAG-ATAAATGC
*
117203005 TTTAAAAATAAA-ATACATG-
1 TTTAAAAATAAAGATAAATGC
117203024 TCTTAAAAATA
1 T-TTAAAAATA
117203035 TTTAAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 15 0.54
22 12 0.43
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (21 bp):
TTTAAAAATAAAGATAAATGC
Found at i:117207444 original size:28 final size:27
Alignment explanation
Indices: 117207391--117207450 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
117207381 TAGAAATGTA
*
117207391 AATAAAATATTTTAAAATTTTAAATAC
1 AATAAAATATTTTAAAAATTTAAATAC
* *
117207418 AATAAATTATATTTAAATAATTT-AATAT
1 AATAAAATAT-TTTAAA-AATTTAAATAC
117207446 AATAA
1 AATAA
117207451 TACATGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.32
28 15 0.54
29 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AATAAAATATTTTAAAAATTTAAATAC
Found at i:117210042 original size:17 final size:17
Alignment explanation
Indices: 117210020--117210054 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
117210010 TAATTAAAAA
*
117210020 ATTAAAATCATATTTTT
1 ATTAAAATCATAGTTTT
117210037 ATTAAAATCATAGTTTT
1 ATTAAAATCATAGTTTT
117210054 A
1 A
117210055 AATATATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTAAAATCATAGTTTT
Found at i:117212041 original size:19 final size:20
Alignment explanation
Indices: 117212017--117212054 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
117212007 GGTACCACCA
117212017 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
117212036 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
117212055 ACCACCTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:117212443 original size:93 final size:93
Alignment explanation
Indices: 117212284--117212454 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
117212274 GCCCCTAAAT
* * *
117212284 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCGTAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
117212349 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* ** *
117212377 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
117212442 CGAGTTCGGATGC
66 CGAGTTCGGATGC
117212455 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:117212451 original size:46 final size:44
Alignment explanation
Indices: 117212281--117212451 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 44
117212271 CCCGCCCCTA
* * * *
117212281 AATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCGT
1 AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCC-T
*
117212326 AAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-CT
1 -AATGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCT
* * *
117212374 CACGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCAT
1 AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCC-T
117212419 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AA-TGAACTCGGACTCAACTCAACGAGTTCGGA
117212452 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.55
47 30 0.28
48 1 0.01
49 2 0.02
50 5 0.05
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AATGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCT
Found at i:117212908 original size:30 final size:30
Alignment explanation
Indices: 117212874--117212933 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
117212864 ATTTAATACG
117212874 AACTTTAAG-AAAATTACACTTTTGCCCCTA
1 AACTTT-AGCAAAATTACACTTTTGCCCCTA
* * *
117212904 AACTTTTGCATAATTGCACTTTTGCCCCTA
1 AACTTTAGCAAAATTACACTTTTGCCCCTA
117212934 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTAGCAAAATTACACTTTTGCCCCTA
Found at i:117214460 original size:92 final size:92
Alignment explanation
Indices: 117214347--117214531 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
117214337 TTTCTTTGGG
117214347 CATTGAGACCTTCTCCCTTTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAA
1 CATTGAGACCTTCTCCCTTTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAA
117214412 ACCAAAACTTTATAAAGTAACATGAAT
66 ACCAAAACTTTATAAAGTAACATGAAT
117214439 CATTGAGACCTTCTCCCTTTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAA
1 CATTGAGACCTTCTCCCTTTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAA
117214504 ACCAAAACTTTATAAAGTAACATGAAT
66 ACCAAAACTTTATAAAGTAACATGAAT
117214531 C
1 C
117214532 TATAGACATG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.30
Consensus pattern (92 bp):
CATTGAGACCTTCTCCCTTTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAA
ACCAAAACTTTATAAAGTAACATGAAT
Found at i:117214553 original size:92 final size:92
Alignment explanation
Indices: 117214365--117214553 Score: 292
Period size: 92 Copynumber: 2.1 Consensus size: 92
117214355 CCTTCTCCCT
117214365 TTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAAACCAAAACTTTATAAAGT
1 TTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAAACCAAAACTTTATAAAGT
* * ** **
117214430 AACATGAATCATTGAGACCTTCTCCCT
66 AACATGAATCATTGAGACATGCAACAA
117214457 TTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAAACCAAAACTTTATAAAGT
1 TTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAAACCAAAACTTTATAAAGT
117214522 AACATGAATC-TAT-AGACATGCAAACAA
66 AACATGAATCAT-TGAGACATGC-AACAA
117214549 TTTTT
1 TTTTT
117214554 GGATAGAGGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
91 7 0.08
92 82 0.92
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (92 bp):
TTTTTTTAGCTAAACAATAAAAACGACTTCTTTAAACATAAAAAAAAACCAAAACTTTATAAAGT
AACATGAATCATTGAGACATGCAACAA
Found at i:117217293 original size:58 final size:58
Alignment explanation
Indices: 117217203--117217314 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
117217193 ACTTTTAATC
* *
117217203 AGTGACAAGTGATAACTGGTAGCCTCGGCTACACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAACTGGTAGCCTCAGCTACACTTATCTAATCAGTGACAAGTGACA
* *
117217261 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAATCAGTGACAAGT
1 AGTGACAAGTGATAACTGGTAGCCTCAGCTACACTTATCTAATCAGTGACAAGT
117217315 AATAAGTGGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (58 bp):
AGTGACAAGTGATAACTGGTAGCCTCAGCTACACTTATCTAATCAGTGACAAGTGACA
Found at i:117217322 original size:58 final size:58
Alignment explanation
Indices: 117217198--117217322 Score: 187
Period size: 58 Copynumber: 2.2 Consensus size: 58
117217188 TGAATACTTT
* * *
117217198 TAATCAGTGACAAGTGATAACTGGTAGCCTCGGCTACACTTATCTGATCAGTGACAAG
1 TAATAAGTGACAAGTGATAACTGGTAGCCTCAGCTACACTTATCTAATCAGTGACAAG
* * * *
117217256 TGACAAGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAATCAGTGACAAG
1 TAATAAGTGACAAGTGATAACTGGTAGCCTCAGCTACACTTATCTAATCAGTGACAAG
117217314 TAATAAGTG
1 TAATAAGTG
117217323 GTAGCTTTAG
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (58 bp):
TAATAAGTGACAAGTGATAACTGGTAGCCTCAGCTACACTTATCTAATCAGTGACAAG
Found at i:117217366 original size:44 final size:44
Alignment explanation
Indices: 117217261--117217366 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 44
117217251 ACAAGTGACA
*
117217261 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAATC
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAATC
* * * * *
117217305 AGTGACAAGTAATAAGTGGTAGCTTTAGCTACACTTATCTGATT
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAATC
* *
117217349 AGTGAGAAGTGACAAGTG
1 AGTGACAAGTGATAAGTG
117217367 ATAAATGTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTAATC
Found at i:117226011 original size:69 final size:68
Alignment explanation
Indices: 117225920--117226051 Score: 219
Period size: 69 Copynumber: 1.9 Consensus size: 68
117225910 AGCCAGCTGT
* *
117225920 TTTTTCTAAAAAAAAAAAAATTTACCTTTACTCTCTTTGCAACCGGACCATTATTTTCCTTGCGT
1 TTTTTCTAAAAAAAAAAAAATTTAACTTTACTCTCTTTGCAACCGGACCATTATCTTCCTTGCGT
117225985 TTG
66 TTG
* *
117225988 TTTTTCTAAAAATAATAATAATTTAACTTTACTCTCTTTGCAACCGGACCATTATCTTCCTTGC
1 TTTTTCTAAAAA-AAAAAAAATTTAACTTTACTCTCTTTGCAACCGGACCATTATCTTCCTTGC
117226052 TTTCAAAGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
68 12 0.20
69 47 0.80
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.42
Consensus pattern (68 bp):
TTTTTCTAAAAAAAAAAAAATTTAACTTTACTCTCTTTGCAACCGGACCATTATCTTCCTTGCGT
TTG
Found at i:117229033 original size:10 final size:10
Alignment explanation
Indices: 117229018--117229064 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
117229008 TTCATGTATT
117229018 ATTATATTAA
1 ATTATATTAA
117229028 ATTATATTAA
1 ATTATATTAA
*
117229038 A-TATAATTTATG
1 ATTAT-A-TTA-A
117229050 ATTATATTAA
1 ATTATATTAA
117229060 ATTAT
1 ATTAT
117229065 CTAAATCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 3 0.10
10 17 0.55
11 6 0.19
12 2 0.06
13 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (10 bp):
ATTATATTAA
Found at i:117230132 original size:8 final size:7
Alignment explanation
Indices: 117230108--117230152 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
117230098 CTTGATTCTT
117230108 AAAATTA
1 AAAATTA
117230115 AAAATTA
1 AAAATTA
117230122 AAAATTA
1 AAAATTA
117230129 AAAATTAA
1 AAAATT-A
*
117230137 AAAATTT
1 AAAATTA
117230144 AAAA-TA
1 AAAATTA
117230150 AAA
1 AAA
117230153 TACCTAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
6 4 0.11
7 24 0.69
8 7 0.20
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:117234503 original size:69 final size:66
Alignment explanation
Indices: 117234393--117234523 Score: 217
Period size: 69 Copynumber: 1.9 Consensus size: 66
117234383 GCAGGCCAGC
* *
117234393 TGTTTTTCTAAAAAAAAAAAAAAAGCTTTACTCTTTTTGCAACCGGACCATTATTTTCCTTGCTT
1 TGTTTTTCTAAAAAAAAAAAAAAAACTTTACTCTCTTTGCAACCGGACCATTATTTTCCTTGCTT
117234458 T
66 T
117234459 TGTTTTTCTAAAAAAATAAAAAAATTAACTTTACTCTCTTTGCAACCGGACCATTATTTTCCTTG
1 TGTTTTTCTAAAAAAA-AAAAAAA--AACTTTACTCTCTTTGCAACCGGACCATTATTTTCCTTG
117234524 ATTTCAAAGT
Statistics
Matches: 60, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
66 16 0.27
67 7 0.12
69 37 0.62
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.40
Consensus pattern (66 bp):
TGTTTTTCTAAAAAAAAAAAAAAAACTTTACTCTCTTTGCAACCGGACCATTATTTTCCTTGCTT
T
Found at i:117237652 original size:22 final size:22
Alignment explanation
Indices: 117237613--117237671 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
117237603 GTTTTAAGAA
*
117237613 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
117237634 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
117237656 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
117237672 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:117237688 original size:26 final size:24
Alignment explanation
Indices: 117237642--117237701 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
117237632 ATTTGTTTTA
*
117237642 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
117237666 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
117237692 TTTTTTATTT
1 ATATTTATTT
117237702 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:117238340 original size:2 final size:2
Alignment explanation
Indices: 117238333--117238363 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
117238323 AACATTTTCA
117238333 AT AT 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 AT AT A
117238364 GTGTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:117238575 original size:15 final size:16
Alignment explanation
Indices: 117238555--117238588 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
117238545 AAGATGTGTC
*
117238555 TATTC-ATTGAATGAT
1 TATTCAATTGAATAAT
117238570 TATTCAATTGAATAAT
1 TATTCAATTGAATAAT
117238586 TAT
1 TAT
117238589 ATTATAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (16 bp):
TATTCAATTGAATAAT
Found at i:117239685 original size:21 final size:20
Alignment explanation
Indices: 117239642--117239685 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
117239632 ACTCTTCCAA
* **
117239642 ATTTCTTTATTTTCATTTTC
1 ATTTCTTTATTTCCACATTC
117239662 ATTTCTTTACTTTCCACATTC
1 ATTTCTTTA-TTTCCACATTC
117239683 ATT
1 ATT
117239686 CCATATGCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.61
Consensus pattern (20 bp):
ATTTCTTTATTTCCACATTC
Found at i:117240464 original size:25 final size:25
Alignment explanation
Indices: 117240422--117240527 Score: 92
Period size: 25 Copynumber: 4.3 Consensus size: 25
117240412 ATTTTATATT
117240422 CGGGAATGCTCATACGAGCACATA-AA
1 CGGGAA-GCTCATACGAGC-CATATAA
* *
117240448 CGGGAAGCTCTTTCGAGCCATATAA
1 CGGGAAGCTCATACGAGCCATATAA
* ** **
117240473 CAGGAAGCTCATGTGAGCTGTAT-A
1 CGGGAAGCTCATACGAGCCATATAA
* *
117240497 CGGGAAGCTCATACAAGCCA-ATAT
1 CGGGAAGCTCATACGAGCCATATAA
117240521 CGGGAAG
1 CGGGAAG
117240528 TTCAAGTGAG
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
23 2 0.03
24 26 0.41
25 29 0.46
26 6 0.10
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCATACGAGCCATATAA
Found at i:117242326 original size:46 final size:46
Alignment explanation
Indices: 117242259--117242387 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
117242249 TATTTGGGCA
* *
117242259 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
117242305 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
117242351 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
117242388 GCAGGTTATA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:117245197 original size:101 final size:99
Alignment explanation
Indices: 117245008--117245200 Score: 233
Period size: 101 Copynumber: 1.9 Consensus size: 99
117244998 GCTTTCTTTG
* * ** *
117245008 TGCCATAGTCCAACTATGGTCTTACATATGCATTGCCATGACCCCACAATGGTCTTACATTCATA
1 TGCCATAGCCCAACTATGGTCTCACATATAAATTGCCATGACCCAACAATGGTCTTACATTCATA
* *
117245073 GTGTCATAACAAAGTTATGGTCTTATCACCAGAA
66 GTGCCATAACAAAGTTATAGTCTTATCACCAGAA
* ** * *
117245107 TGCCATAGCCCAGCTATGGTCTCACATATAAATACTGCCATGGTCCAACCATGGTCTTACATTTA
1 TGCCATAGCCCAACTATGGTCTCACATATAAAT--TGCCATGACCCAACAATGGTCTTACATTCA
** *
117245172 TAGTGCCATAACCGATTTATAGTCTTATC
64 TAGTGCCATAACAAAGTTATAGTCTTATC
117245201 TGTCAATTCA
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
99 28 0.36
101 49 0.64
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (99 bp):
TGCCATAGCCCAACTATGGTCTCACATATAAATTGCCATGACCCAACAATGGTCTTACATTCATA
GTGCCATAACAAAGTTATAGTCTTATCACCAGAA
Found at i:117256853 original size:13 final size:14
Alignment explanation
Indices: 117256837--117256872 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
117256827 AAAATGATTA
117256837 AAAAAAGAAAAAG-
1 AAAAAAGAAAAAGT
*
117256850 AAAAAGGAAAAAGT
1 AAAAAAGAAAAAGT
117256864 AAAAAAGAA
1 AAAAAAGAA
117256873 CTCTTCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAAAAGAAAAAGT
Found at i:117257279 original size:2 final size:2
Alignment explanation
Indices: 117257272--117257305 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
117257262 CTTTATGTGA
117257272 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117257306 TAAGGTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117260401 original size:6 final size:6
Alignment explanation
Indices: 117260390--117260423 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
117260380 ATTAGCATTC
117260390 AGGCTG AGGCTG AGGCTG AGGCTG AGGCTG AGGC
1 AGGCTG AGGCTG AGGCTG AGGCTG AGGCTG AGGC
117260424 AAGCTTAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.50, T:0.15
Consensus pattern (6 bp):
AGGCTG
Found at i:117270508 original size:38 final size:38
Alignment explanation
Indices: 117270431--117270515 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 38
117270421 AAGTTTAATC
*
117270431 ATATTTTAATATAATTATTATTAAATATAATTTAATAAA
1 ATATTTTAATATAATTATTATTAAATAAAATTT-ATAAA
* *
117270470 AT-TTTTAATATAATTATTTTTATATTAAAATATT-TAAA
1 ATATTTTAATATAATTATTATTA-AATAAAAT-TTATAAA
117270508 ATATTTTA
1 ATATTTTA
117270516 TTTACTACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 25 0.62
39 13 0.32
40 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (38 bp):
ATATTTTAATATAATTATTATTAAATAAAATTTATAAA
Found at i:117270634 original size:31 final size:31
Alignment explanation
Indices: 117270598--117270660 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
117270588 ACAAATACAT
*
117270598 AGTGCATTTGCATAGTTTGTTATGATCTTTA
1 AGTGCATTTGCATAATTTGTTATGATCTTTA
117270629 AGTGCATTTGCATAATTTGTTATGATCTTTA
1 AGTGCATTTGCATAATTTGTTATGATCTTTA
117270660 A
1 A
117270661 ACCTCAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (31 bp):
AGTGCATTTGCATAATTTGTTATGATCTTTA
Found at i:117272109 original size:53 final size:53
Alignment explanation
Indices: 117271968--117272118 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
117271958 ACAAGTGTGC
* **
117271968 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
117272021 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
117272074 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
117272119 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:117279070 original size:53 final size:53
Alignment explanation
Indices: 117279003--117279122 Score: 204
Period size: 53 Copynumber: 2.3 Consensus size: 53
117278993 ACAAGTGTGC
* *
117279003 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
* *
117279056 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
117279109 CCGTATAAGACCAT
1 CCGTATAAGACCAT
117279123 GTCTGGATAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
Found at i:117288726 original size:31 final size:31
Alignment explanation
Indices: 117288688--117288795 Score: 164
Period size: 31 Copynumber: 3.5 Consensus size: 31
117288678 ACAAATGACA
117288688 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
117288719 AGTGAAAAGTGGTAGCTTCTA-CTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-AGCTACCTGATC
* * *
117288750 ACTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
*
117288781 AGTGAAAAATGGTAG
1 AGTGAAAAGTGGTAG
117288796 TTCCGGATGT
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
31 69 0.99
32 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
Done.