Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 58 of 141
Found at i:18942537 original size:19 final size:19
Alignment explanation
Indices: 18942505--18942579 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
18942495 AATCATATCT
*
18942505 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
18942524 TCTAATATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
18942545 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
18942564 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
18942580 CTCGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:18942542 original size:21 final size:21
Alignment explanation
Indices: 18942516--18942578 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
18942506 CTAAGATTAC
*
18942516 ATATCATATCTAATATTGCAT
1 ATATCATATCTAAGATTGCAT
18942537 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
18942556 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
18942577 AT
1 AT
18942579 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 19 0.49
21 20 0.51
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:18942663 original size:34 final size:34
Alignment explanation
Indices: 18942620--18942689 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
18942610 GGGCTAAAAT
18942620 TGGGTATTACAGATTGCATGGACTAAAACAACCG
1 TGGGTATTACAGATTGCATGGACTAAAACAACCG
18942654 TGGGTATTACAGATTGCATGGACTAAAACAACCG
1 TGGGTATTACAGATTGCATGGACTAAAACAACCG
18942688 TG
1 TG
18942690 AAATACTTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (34 bp):
TGGGTATTACAGATTGCATGGACTAAAACAACCG
Found at i:18946748 original size:12 final size:12
Alignment explanation
Indices: 18946731--18946756 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18946721 GAACTCCTTT
18946731 AAAAAAATTATA
1 AAAAAAATTATA
18946743 AAAAAAATTATA
1 AAAAAAATTATA
18946755 AA
1 AA
18946757 TAATATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAAAAATTATA
Found at i:18948967 original size:30 final size:30
Alignment explanation
Indices: 18948931--18948989 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
18948921 TGGGTAACCT
18948931 TGATATAATACCAACTTGCGTGAGCAACTG
1 TGATATAATACCAACTTGCGTGAGCAACTG
* * * *
18948961 TGATATAATATCAGCTTGTGTGAGGAACT
1 TGATATAATACCAACTTGCGTGAGCAACT
18948990 TATTCCCGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (30 bp):
TGATATAATACCAACTTGCGTGAGCAACTG
Found at i:18958077 original size:138 final size:138
Alignment explanation
Indices: 18957818--18958411 Score: 859
Period size: 138 Copynumber: 4.3 Consensus size: 138
18957808 TAGATAAAGC
* * * *
18957818 TAATAAATGAATTTGATTTATACAAAATATTAATTGTACATATTTTATCGAAA-TTATTAATAGA
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-CCAAATTTATTAAT---
* * *
18957882 AAAAAAAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTGTTGG
62 ATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
18957947 AAAGAATATAAT
127 AAAGAATATAAT
*
18957959 TAATATATGAATTTGATTCATGCAAAATATTAATTGTATATATTATT-CCAAATTTATTAATATA
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATT-TTACCAAATTTATTAATATA
* * * * * *
18958023 AATAGTTATATTAATTCATTTCGGTCAAAGTATAAAAGACATGTAAATTAATATTCTTTTAGAAA
65 AACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAA
18958088 GAATATAAT
130 GAATATAAT
* *
18958097 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATATAA
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAA
* * * * *
18958162 ACAATTCTATTAATTAATTTCGATCAAAATATAAAGGACATGAAAATGAATATTCTTTTGGAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAG
18958227 AATATAAT
131 AATATAAT
* * *
18958235 TAATATATGAATTTGATTCATATAAAATATTAATTGTATATATTTTACCGAATTTATGAATATAA
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAA
* * * *
18958300 ACAGTTATATTAATTAATTGCGGTCAAAATATTAAATACATGGAAATTAATATTCTTTTGGAAAG
66 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAG
18958365 AATATAAT
131 AATATAAT
* *
18958373 TAATATATAAATTTTATTCATACAAAATATTAATTGTAT
1 TAATATATGAATTTGATTCATACAAAATATTAATTGTAT
18958412 TTATATAGAG
Statistics
Matches: 409, Mismatches: 41, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
137 2 0.00
138 353 0.86
140 4 0.01
141 48 0.12
142 2 0.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (138 bp):
TAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAA
ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAG
AATATAAT
Found at i:18962004 original size:30 final size:29
Alignment explanation
Indices: 18961968--18962032 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 29
18961958 AAAAATTAAA
*
18961968 AAAAAAGTATTTTAAAAATATTTTAAAATT
1 AAAAAAGTATTTTAAAAA-AATTTAAAATT
18961998 AAAAAAGTATTTTAAAAAAATTTAAAATT
1 AAAAAAGTATTTTAAAAAAATTTAAAATT
18962027 AAAAAA
1 AAAAAA
18962033 ATTAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 16 0.47
30 18 0.53
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (29 bp):
AAAAAAGTATTTTAAAAAAATTTAAAATT
Found at i:18962040 original size:16 final size:16
Alignment explanation
Indices: 18962009--18962040 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18961999 AAAAAGTATT
*
18962009 TTAAAAAAATTTAAAA
1 TTAAAAAAATTAAAAA
18962025 TTAAAAAAATTAAAAA
1 TTAAAAAAATTAAAAA
18962041 AAAGTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TTAAAAAAATTAAAAA
Found at i:18962043 original size:41 final size:40
Alignment explanation
Indices: 18961998--18962080 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
18961988 TTTTAAAATT
*
18961998 AAAAAAGTATTTTAAAA-AAATTTAAAATTAAAAAAATTAA
1 AAAAAAGTATTTTAAAAGAAATTTAAAATT-AAAAAATAAA
* * *
18962038 AAAAAAGTATTTTAAAAGTATTTTAAAGTTAAAAAATAAA
1 AAAAAAGTATTTTAAAAGAAATTTAAAATTAAAAAATAAA
18962078 AAA
1 AAA
18962081 TAAAAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 29 0.76
41 9 0.24
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (40 bp):
AAAAAAGTATTTTAAAAGAAATTTAAAATTAAAAAATAAA
Found at i:18962049 original size:29 final size:30
Alignment explanation
Indices: 18961981--18962054 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
18961971 AAAGTATTTT
**
18961981 AAAAATATTTTAAAATTAAAAAAGTATTTTA
1 AAAAATATTTTAAAATTAAAAAAG-ATTAAA
18962012 AAAAA-A-TTTAAAATTAAAAAA-ATTAAA
1 AAAAATATTTTAAAATTAAAAAAGATTAAA
18962039 AAAAAGTATTTTAAAA
1 AAAAA-TATTTTAAAA
18962055 GTATTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 9 0.24
29 16 0.42
30 8 0.21
31 5 0.13
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAATATTTTAAAATTAAAAAAGATTAAA
Found at i:18962054 original size:11 final size:11
Alignment explanation
Indices: 18962040--18962064 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
18962030 AAAATTAAAA
18962040 AAAAGTATTTT
1 AAAAGTATTTT
18962051 AAAAGTATTTT
1 AAAAGTATTTT
18962062 AAA
1 AAA
18962065 GTTAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:18962086 original size:70 final size:72
Alignment explanation
Indices: 18961958--18962092 Score: 186
Period size: 70 Copynumber: 1.9 Consensus size: 72
18961948 AAATTAAAAC
****
18961958 AAAAATTAAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAGTATTTTAAAAAA-ATTTA
1 AAAAATTAAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAGTAAAAAAAAAAATATTTA
18962022 AAATTAA
66 AAATTAA
* *
18962029 AAAAATT-AAAAAAAAGTATTTTAAAAGTATTTTAAAGTTAAAAAA-TAAAAAATAAAAATATTT
1 AAAAATTAAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAGTAAAAAA-AAAAATATTT
18962092 A
65 A
18962093 TTATTCGGGC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
69 3 0.05
70 41 0.73
71 12 0.21
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (72 bp):
AAAAATTAAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAGTAAAAAAAAAAATATTTA
AAATTAA
Found at i:18962408 original size:20 final size:20
Alignment explanation
Indices: 18962332--18962410 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
18962322 AATTTATACT
*
18962332 TAAATAATATATAATATTATAA
1 TAAA-AATATATAA-ATTTTAA
* * * **
18962354 TATAAACATTTAAAAATTAA
1 TAAAAATATATAAATTTTAA
*
18962374 TAAAATATATGTAAATTTTAA
1 TAAAA-ATATATAAATTTTAA
18962395 TAAAAATATATAAATT
1 TAAAAATATATAAATT
18962411 ATTCAATTAT
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 18 0.41
21 23 0.52
22 3 0.07
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (20 bp):
TAAAAATATATAAATTTTAA
Found at i:18962793 original size:5 final size:5
Alignment explanation
Indices: 18962783--18962813 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
18962773 ATTTTTTATG
18962783 GGCCC GGCCC GAGCCC GGCCC GGCCC GGCCC
1 GGCCC GGCCC G-GCCC GGCCC GGCCC GGCCC
18962814 ATGAGCACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.03, C:0.58, G:0.39, T:0.00
Consensus pattern (5 bp):
GGCCC
Found at i:18962804 original size:16 final size:15
Alignment explanation
Indices: 18962783--18962813 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
18962773 ATTTTTTATG
18962783 GGCCCGGCCCGAGCCC
1 GGCCCGGCCCG-GCCC
18962799 GGCCCGGCCCGGCCC
1 GGCCCGGCCCGGCCC
18962814 ATGAGCACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.03, C:0.58, G:0.39, T:0.00
Consensus pattern (15 bp):
GGCCCGGCCCGGCCC
Found at i:18965678 original size:18 final size:18
Alignment explanation
Indices: 18965639--18965679 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
18965629 ATTGCCTCTT
** *
18965639 AAAAGTACTTTTAGGGTT
1 AAAAGTACTTTTAAAGTC
18965657 AAAAGTACTTTTAAAGTC
1 AAAAGTACTTTTAAAGTC
18965675 AAAAG
1 AAAAG
18965680 CAATGCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (18 bp):
AAAAGTACTTTTAAAGTC
Found at i:18966234 original size:13 final size:13
Alignment explanation
Indices: 18966177--18966237 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
18966167 ACCAAAATTT
*
18966177 TCAAAAGTACTTC
1 TCAAAAGCACTTC
* *
18966190 TCAAAATCACTTT
1 TCAAAAGCACTTC
* * * *
18966203 TCCACAGCATTTT
1 TCAAAAGCACTTC
*
18966216 TTAAAAGCACTTC
1 TCAAAAGCACTTC
18966229 TCAAAAGCA
1 TCAAAAGCA
18966238 ATGCTAAACT
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.31
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:18967908 original size:19 final size:19
Alignment explanation
Indices: 18967884--18967921 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18967874 TCTTTTCCAC
18967884 TTGTCACTTTCAAAGCTTT
1 TTGTCACTTTCAAAGCTTT
18967903 TTGTCACTTTCAAAGCTTT
1 TTGTCACTTTCAAAGCTTT
18967922 GTAGTGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (19 bp):
TTGTCACTTTCAAAGCTTT
Found at i:18969062 original size:12 final size:12
Alignment explanation
Indices: 18969045--18969069 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18969035 CAATTTTTGA
18969045 TTCATACACTTT
1 TTCATACACTTT
18969057 TTCATACACTTT
1 TTCATACACTTT
18969069 T
1 T
18969070 CCACAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TTCATACACTTT
Found at i:18983856 original size:79 final size:78
Alignment explanation
Indices: 18983725--18983878 Score: 220
Period size: 79 Copynumber: 2.0 Consensus size: 78
18983715 CTTATTTATG
* *
18983725 TCGATGACTTGTTGATTACAGGAAATGATATTGGGTTGATTGATAAGTTAAAAAAAGGTTCTCCA
1 TCGATGAATTGTTGATTACAGGAAATGACATTGGGTTGATTGATAAGTT-AAAAAAGGTTCTCCA
18983790 TCAAAGTTTTAGGA
65 TCAAAGTTTTAGGA
* * * *
18983804 TCGATGAATTTTTTATTACAGGGAATGACATTGGGCTT-ATTGATGAGTTAAAAAAGGTTCTCCA
1 TCGATGAATTGTTGATTACAGGAAATGACATTGGG-TTGATTGATAAGTTAAAAAAGGTTCTCCA
*
18983868 TCAGAGTTTTA
65 TCAAAGTTTTA
18983879 AAATGAAAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
78 25 0.37
79 40 0.60
80 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (78 bp):
TCGATGAATTGTTGATTACAGGAAATGACATTGGGTTGATTGATAAGTTAAAAAAGGTTCTCCAT
CAAAGTTTTAGGA
Found at i:18988552 original size:20 final size:19
Alignment explanation
Indices: 18988501--18988553 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
18988491 TTTCTAAACG
*
18988501 GTATCGATACCATCTATGA
1 GTATCGATACCATCAATGA
*
18988520 GAAATATCAATACCATCGAATGA
1 G---TATCGATACCATC-AATGA
18988543 GTATCGATACC
1 GTATCGATACC
18988554 TACGTGACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.04
20 9 0.33
22 12 0.44
23 5 0.19
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (19 bp):
GTATCGATACCATCAATGA
Found at i:18992519 original size:27 final size:27
Alignment explanation
Indices: 18992485--18992575 Score: 87
Period size: 26 Copynumber: 3.3 Consensus size: 27
18992475 TTAATCGAAA
18992485 TTTTGAAACTCGAACCAAACAATTTTT
1 TTTTGAAACTCGAACCAAACAATTTTT
* * * * **
18992512 TTTTGAAAC-CTATTAACTAACTGATTTAA
1 TTTTGAAACTCGA--ACCAAAC-AATTTTT
18992541 TTTTGAAACTCGAACCAAACAA-TTTT
1 TTTTGAAACTCGAACCAAACAATTTTT
18992567 TTTTGAAAC
1 TTTTGAAAC
18992576 CTATTAACTA
Statistics
Matches: 48, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
26 13 0.27
27 10 0.21
28 10 0.21
29 13 0.27
30 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.38
Consensus pattern (27 bp):
TTTTGAAACTCGAACCAAACAATTTTT
Found at i:18992592 original size:55 final size:56
Alignment explanation
Indices: 18992483--18992599 Score: 227
Period size: 55 Copynumber: 2.1 Consensus size: 56
18992473 AATTAATCGA
18992483 AATTTTGAAACTCGAACCAAACAATTTTTTTTTGAAACCTATTAACTAACTGATTT
1 AATTTTGAAACTCGAACCAAACAATTTTTTTTTGAAACCTATTAACTAACTGATTT
18992539 AATTTTGAAACTCGAACCAAACAA-TTTTTTTTGAAACCTATTAACTAACTGATTT
1 AATTTTGAAACTCGAACCAAACAATTTTTTTTTGAAACCTATTAACTAACTGATTT
18992594 AATTTT
1 AATTTT
18992600 AGTTAAACTA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 37 0.61
56 24 0.39
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (56 bp):
AATTTTGAAACTCGAACCAAACAATTTTTTTTTGAAACCTATTAACTAACTGATTT
Found at i:18992818 original size:23 final size:23
Alignment explanation
Indices: 18992788--18992831 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
18992778 ACATTAATTT
18992788 TTTTTTACTT-TTCTTTGTTTAAA
1 TTTTTTACTTCTTC-TTGTTTAAA
18992811 TTTTTTACTTCTTCTTGTTTA
1 TTTTTTACTTCTTCTTGTTTA
18992832 TTTAAGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (23 bp):
TTTTTTACTTCTTCTTGTTTAAA
Found at i:18992876 original size:17 final size:18
Alignment explanation
Indices: 18992854--18992887 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18992844 TTTAGTTTTT
*
18992854 TTTTCA-AATATTTTTAG
1 TTTTCATAAAATTTTTAG
18992871 TTTTCATAAAATTTTTA
1 TTTTCATAAAATTTTTA
18992888 AACTATTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTCATAAAATTTTTAG
Found at i:18994693 original size:208 final size:208
Alignment explanation
Indices: 18994441--18994863 Score: 684
Period size: 208 Copynumber: 2.0 Consensus size: 208
18994431 AACGACGTCA
* * *
18994441 TTTTTTTGTTGATTTTTAGACACAATAGTGGCGCTACAAAGAAATCGCCGCTGAAGTCAATCATT
1 TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTACAAAGAAATCGCCGCTGAAGTCAAGCATT
* * * * *
18994506 AGCGGCGCTTTAGAGGAAGCGCCGCAAAAAGTTTTAAGCATATGCTATCGTTTTCTGTTGTGCAT
66 AGCGGCCCTTTAGAGGAAACGCCGCAAAAAGTTTTAAGCATACGCCATCGTTTTCTATTGTGCAT
* * *
18994571 AGGGACATTAGTGGCGCTTCGCGAAAAACGTCGCAAAAGTCACGCATTATCGGTAATAGTTTTAG
131 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGATAATAGTTTTAG
*
18994636 GCAAATGACAACG
196 GCAAACGACAACG
* *
18994649 TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTTCGAAGAAATCGCCGCTGAAGTCAAGCATT
1 TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTACAAAGAAATCGCCGCTGAAGTCAAGCATT
* **
18994714 AGCGGCCCTTTAGAGGAAACGCCGCAAAAAGTTTTAAGCATACGCCGTCGTTTTCTATTGTGTTT
66 AGCGGCCCTTTAGAGGAAACGCCGCAAAAAGTTTTAAGCATACGCCATCGTTTTCTATTGTGCAT
*
18994779 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAATTCAAGCATTATCGATAATAGTTTTAG
131 AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGATAATAGTTTTAG
18994844 GCAAACGACAACG
196 GCAAACGACAACG
18994857 TTTTCTT
1 TTTTCTT
18994864 TTTCAGATTT
Statistics
Matches: 197, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
208 197 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (208 bp):
TTTTCTTGTTGACTTTTAGACACAATAGTGGCGCTACAAAGAAATCGCCGCTGAAGTCAAGCATT
AGCGGCCCTTTAGAGGAAACGCCGCAAAAAGTTTTAAGCATACGCCATCGTTTTCTATTGTGCAT
AGGGACATTAGTGGCGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGATAATAGTTTTAG
GCAAACGACAACG
Found at i:18994997 original size:208 final size:208
Alignment explanation
Indices: 18994455--18994973 Score: 553
Period size: 208 Copynumber: 2.5 Consensus size: 208
18994445 TTTGTTGATT
* * * * * ** *
18994455 TTTAGACACAATAGTGGCGCTACAAAGAAATCGCCGCTGAAGTCAATCATTAGCGGCGCTTTAGA
1 TTTAGACACAATAGTGGCACTTCCAAGAAATCACCGCTAAAGTCAAGAATTAGCGGCCCTTTAGA
* * * * * * * **
18994520 GGAAGCGCCGCAAAAAGTTTTAAGCATATGCTATCGTTTTCTGTTGTGCATAGGGACATTAGTGG
66 GGAAACGCCGCAAAAAATTTTAAGCAAACGCCAACGTTTTCTATTGTGTTTAGGGACATTAGTGG
* * * *
18994585 CGCTTCGCGAAAAACGTCGCAAAAGTCACGCATTATCGGTAATAGTTTTAGGCAAATGACAACGT
131 CGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGATAATAGTTTTAGGCAAACGACAACGT
* *
18994650 TTTCTTGTTGACT
196 TTTCTTGTTCACA
* * * * *
18994663 TTTAGACACAATAGTGGCGCTTCGAAGAAATCGCCGCTGAAGTCAAGCATTAGCGGCCCTTTAGA
1 TTTAGACACAATAGTGGCACTTCCAAGAAATCACCGCTAAAGTCAAGAATTAGCGGCCCTTTAGA
* * **
18994728 GGAAACGCCGCAAAAAGTTTTAAGCATACGCCGTCGTTTTCTATTGTGTTTAGGGACATTAGTGG
66 GGAAACGCCGCAAAAAATTTTAAGCAAACGCCAACGTTTTCTATTGTGTTTAGGGACATTAGTGG
*
18994793 CGCTTCGCGAAAAACGCCGCAAAATTCAAGCATTATCGATAATAGTTTTAGGCAAACGACAACGT
131 CGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGATAATAGTTTTAGGCAAACGACAACGT
* *
18994858 TTTCTTTTTCAGA
196 TTTCTTGTTCACA
* * * * * * *
18994871 TTTAGAGA-ATTAGTGGCATTTGCCAA-AAA-CACCG-TAAAATTCAATAATTATCGGCGCTTTT
1 TTTAGACACAATAGTGGCACTT-CCAAGAAATCACCGCT-AAAGTCAAGAATTAGCGGC-CCTTT
* * * * *
18994932 ATA-GTAGCGCCGTAAAAAATTTTAAGCAAACGGCAACGTTTT
63 AGAGGAAACGCCGCAAAAAATTTTAAGCAAACGCCAACGTTTT
18994974 GTTGTTAAGG
Statistics
Matches: 267, Mismatches: 41, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
205 1 0.00
206 49 0.18
207 19 0.07
208 198 0.74
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (208 bp):
TTTAGACACAATAGTGGCACTTCCAAGAAATCACCGCTAAAGTCAAGAATTAGCGGCCCTTTAGA
GGAAACGCCGCAAAAAATTTTAAGCAAACGCCAACGTTTTCTATTGTGTTTAGGGACATTAGTGG
CGCTTCGCGAAAAACGCCGCAAAAGTCAAGCATTATCGATAATAGTTTTAGGCAAACGACAACGT
TTTCTTGTTCACA
Found at i:18995285 original size:14 final size:14
Alignment explanation
Indices: 18995263--18995294 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
18995253 TTATATATGT
*
18995263 TTTATGATTTAGGG
1 TTTAAGATTTAGGG
18995277 TTTAAGATTTAGGG
1 TTTAAGATTTAGGG
18995291 TTTA
1 TTTA
18995295 TATATGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (14 bp):
TTTAAGATTTAGGG
Found at i:18995294 original size:39 final size:39
Alignment explanation
Indices: 18995236--18995319 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
18995226 TAAGGGTTGA
* * *
18995236 GGTTTAAGGTTTATAGTTTATATATGTTTTATGATTTAG
1 GGTTTAAGATTTAGAGTTTATATATGTTCTATGATTTAG
*
18995275 GGTTTAAGATTTAGGGTTTATATATGTTCTATGATTTAG
1 GGTTTAAGATTTAGAGTTTATATATGTTCTATGATTTAG
18995314 GGTTTA
1 GGTTTA
18995320 GGGAATATGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.25, C:0.01, G:0.23, T:0.51
Consensus pattern (39 bp):
GGTTTAAGATTTAGAGTTTATATATGTTCTATGATTTAG
Found at i:19002271 original size:21 final size:21
Alignment explanation
Indices: 19002244--19002295 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
19002234 GCTACAACTT
*
19002244 AAAGCAGAGGCGGCAGCGAGG
1 AAAGCAGAGGCGGCAGCGAGA
* *
19002265 GAAGCAGAGGCTGCAGCGAGA
1 AAAGCAGAGGCGGCAGCGAGA
19002286 AAAGCAGAGG
1 AAAGCAGAGG
19002296 TTCAAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.44, T:0.02
Consensus pattern (21 bp):
AAAGCAGAGGCGGCAGCGAGA
Found at i:19002344 original size:87 final size:87
Alignment explanation
Indices: 19002205--19002381 Score: 246
Period size: 87 Copynumber: 2.0 Consensus size: 87
19002195 GAACACATTT
* * ** *
19002205 GAGGTTCAAAGGAAATATGAAGAACTTCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAAAGTAAAGCAGAGGCGGCAGCGAGAGAAGC
*
19002270 AGAGGCTGCAGCGAGAAAAGCA
66 AGACGCTGCAGCGAGAAAAGCA
* * *
19002292 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAAAGTAAAGTAGATGCGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAAAGTAAAGCAGAGGCGGCAGCGAGAGAAGC
* **
19002357 AGACTCTGCAGCGAGGGAAGCA
66 AGACGCTGCAGCGAGAAAAGCA
19002379 GAG
1 GAG
19002382 TAGAGCAGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.40, C:0.17, G:0.31, T:0.12
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAAAGTAAAGCAGAGGCGGCAGCGAGAGAAGC
AGACGCTGCAGCGAGAAAAGCA
Found at i:19002404 original size:87 final size:87
Alignment explanation
Indices: 19002205--19002407 Score: 210
Period size: 87 Copynumber: 2.3 Consensus size: 87
19002195 GAACACATTT
* * * * ** *
19002205 GAGGTTCAAAGGAAATATGAAGAACTTCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGC
1 GAGGTACAAAAGAAATACGAAGAACTCCAGCTACAAAGTAAAGCAGAGGCGGCAGCGAGAGAAGC
*
19002270 AGAGGCTGCAGCGAGAAAAGCA
66 AGACGCTGCAGCGAGAAAAGCA
* * * * *
19002292 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAAAGTAAAGTAGATGCGGCATCGAGAGAAGC
1 GAGGTACAAAAGAAATACGAAGAACTCCAGCTACAAAGTAAAGCAGAGGCGGCAGCGAGAGAAGC
* **
19002357 AGACTCTGCAGCGAGGGAAGCA
66 AGACGCTGCAGCGAGAAAAGCA
* ** *
19002379 GA-GTAGAGCAGAAAGTACGACGAACTCCA
1 GAGGTACAAAAGAAA-TACGAAGAACTCCA
19002408 ACAGCAGCTT
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
86 8 0.08
87 89 0.92
ACGTcount: A:0.40, C:0.18, G:0.30, T:0.12
Consensus pattern (87 bp):
GAGGTACAAAAGAAATACGAAGAACTCCAGCTACAAAGTAAAGCAGAGGCGGCAGCGAGAGAAGC
AGACGCTGCAGCGAGAAAAGCA
Found at i:19002840 original size:86 final size:87
Alignment explanation
Indices: 19002689--19002847 Score: 234
Period size: 86 Copynumber: 1.8 Consensus size: 87
19002679 CAAAATTAGT
* *
19002689 GGCGTTTTTAGAAAAAGCGCCGCTAAAAGTACATGACCTTTAGCGGCGTTTGTGGAACAAGCGCC
1 GGCGTTTTTAGAAAAAGCGCCGCTAAAAGAACATGACCTTTAGCGGCGTTTGTGGAACAAACGCC
19002754 GCTAAAGAACATGATCTTCAGC
66 GCTAAAGAACATGATCTTCAGC
* * *
19002776 GGCGTTTGTT-GAAAAAGTGCCTCT-AAAGAACATGAGCTTTAGCGGCGTTTGTAGGAA-AAACG
1 GGCGTTT-TTAGAAAAAGCGCCGCTAAAAGAACATGACCTTTAGCGGCGTTTGT-GGAACAAACG
19002838 CCGCTAAAGA
64 CCGCTAAAGA
19002848 CCCTGACCTA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
86 40 0.62
87 23 0.35
88 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.23
Consensus pattern (87 bp):
GGCGTTTTTAGAAAAAGCGCCGCTAAAAGAACATGACCTTTAGCGGCGTTTGTGGAACAAACGCC
GCTAAAGAACATGATCTTCAGC
Found at i:19002863 original size:43 final size:43
Alignment explanation
Indices: 19002684--19002856 Score: 204
Period size: 43 Copynumber: 4.0 Consensus size: 43
19002674 ATTCCCAAAA
* * * *
19002684 TTAGTGGCGTTTTTAGAAAAAGCGCCGCTAAAAGTACATGACCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCT-AAAGAACATGACCT
* *
19002728 TTAGCGGCGTTTGTGGAACAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCT
* * * * *
19002771 TCAGCGGCGTTTGTTGAAAAAGTGCCTCTAAAGAACATGAGCT
1 TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCT
* *
19002814 TTAGCGGCGTTTGTAGGAAAAA-CGCCGCTAAAGACCCTGACCT
1 TTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGAACATGACCT
19002857 AGAGCGGTGT
Statistics
Matches: 109, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
43 78 0.72
44 31 0.28
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (43 bp):
TTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGACCT
Found at i:19002863 original size:86 final size:87
Alignment explanation
Indices: 19002689--19002870 Score: 226
Period size: 86 Copynumber: 2.1 Consensus size: 87
19002679 CAAAATTAGT
* *
19002689 GGCGTTTTTAGAAAAAGCGCCGCTAAAAGTACATGACCTTTAGCGGCGTTTGTGGAACAAGCGCC
1 GGCGTTTTTAGAAAAAGCGCCGCTAAAAGAACATGACCTTTAGCGGCGTTTGTGGAACAAACGCC
* *
19002754 GCTAAAGAACATGATCTTCAGC
66 GCTAAAGAACATGACCTACAGC
* * *
19002776 GGCGTTTGTT-GAAAAAGTGCCTCT-AAAGAACATGAGCTTTAGCGGCGTTTGTAGGAA-AAACG
1 GGCGTTT-TTAGAAAAAGCGCCGCTAAAAGAACATGACCTTTAGCGGCGTTTGT-GGAACAAACG
* * *
19002838 CCGCTAAAGACCCTGACCTAGAGC
64 CCGCTAAAGAACATGACCTACAGC
*
19002862 GGTGTTTTT
1 GGCGTTTTT
19002871 TTTGTAGTGT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
85 2 0.02
86 55 0.67
87 23 0.28
88 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (87 bp):
GGCGTTTTTAGAAAAAGCGCCGCTAAAAGAACATGACCTTTAGCGGCGTTTGTGGAACAAACGCC
GCTAAAGAACATGACCTACAGC
Found at i:19003534 original size:18 final size:15
Alignment explanation
Indices: 19003490--19003522 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
19003480 CTTGGATGAG
19003490 AATAAATTTTTAATTA
1 AATAAA-TTTTAATTA
19003506 AATAAA-TTTAATTA
1 AATAAATTTTAATTA
19003520 AAT
1 AAT
19003523 CAAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.65
16 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAATTTTAATTA
Found at i:19004506 original size:12 final size:12
Alignment explanation
Indices: 19004489--19004514 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19004479 CAAAACAGGC
19004489 TTTTAGCGGCGT
1 TTTTAGCGGCGT
19004501 TTTTAGCGGCGT
1 TTTTAGCGGCGT
19004513 TT
1 TT
19004515 GGATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:19004631 original size:41 final size:41
Alignment explanation
Indices: 19004584--19004995 Score: 456
Period size: 41 Copynumber: 10.1 Consensus size: 41
19004574 AGGTCAAGCA
* ** * *
19004584 TTAGCGGCATTTTCCAGAAAGCGCCGCTAATGCCCAGGCCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
* *
19004625 TTAGCGGCGTTTTTGAGAAAGAGCCGCTAATGCTCATGGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
19004666 TTAGCGGCGTTTTTGAGGAAGCGCTGCTAATGGTCAGGGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
*
19004707 TTAGCGGCGTTTTTGAGGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
* * * * *
19004748 TTAGTGACGTTTTTGATAAATCGCCGCTGATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
* * * *
19004789 TTAGCGGCGTTTTTGGGAAAGCGCCGCTAATTCTTAGGGTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
* * * *
19004830 TTAGCGGCGTTTTTAAGAATGTGCCGCTAATGCTCAGGGAT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
* *
19004871 TTAGCGGCGCTTTCTT-A-AAAGCGCCGCTAATGATTAGGGCT
1 TTAGCGGCG-TTT-TTGAGAAAGCGCCGCTAATGCTCAGGGCT
** * **
19004912 TTAGCGGCGTTTTTGATTAAGCGCCGCTAATTCTCTA--TTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTC-AGGGCT
* *
19004952 TTAGCGGCGTTTTCTCA-AAAGCGCCGCTAATGCTCAGGGAT
1 TTAGCGGCGTTTT-TGAGAAAGCGCCGCTAATGCTCAGGGCT
19004993 TTA
1 TTA
19004996 AAATAATTTA
Statistics
Matches: 311, Mismatches: 52, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.01
40 34 0.11
41 267 0.86
42 5 0.02
43 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:19005253 original size:22 final size:22
Alignment explanation
Indices: 19005228--19005270 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
19005218 TTGTTACCAT
*
19005228 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTATGGG
* *
19005250 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
19005271 TTAAAGACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.47
Consensus pattern (22 bp):
TTTAAGGGTTATGGATTATGGG
Found at i:19005892 original size:14 final size:14
Alignment explanation
Indices: 19005873--19005900 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19005863 TTATCAAAAT
19005873 TTTAAATAATATTA
1 TTTAAATAATATTA
19005887 TTTAAATAATATTA
1 TTTAAATAATATTA
19005901 ATAATGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTAAATAATATTA
Found at i:19006273 original size:83 final size:83
Alignment explanation
Indices: 19006045--19006275 Score: 293
Period size: 84 Copynumber: 2.8 Consensus size: 83
19006035 GCGTTTGGTC
* * * *
19006045 AAAAACGCCACAAAAAATATATTTAAAATTTAACCAAACGGCGCCGTTTCATTGACGAATTAAAT
1 AAAAACGCCGCAAAAAATATATTAAAAATTTAACAAAACGGCGCCGTTTCATTGACTAATTAAAT
**
19006110 ATTAGTGGTGTTTTATAT
66 ATTAGTGGCATTTTATAT
* * * * * *
19006128 ACAAATGCCGCAAAAAAATATATTAAGAATTTAACAAAACTGCACCGTTTGATTGA-TGAATTAA
1 AAAAACGCCGC-AAAAAATATATTAAAAATTTAACAAAACGGCGCCGTTTCATTGACT-AATTAA
*
19006192 ATATTAGTGGCATTTTCTAT
64 ATATTAGTGGCATTTTATAT
* * *
19006212 AAAAACGCCGCAAAAAATACATTAAAAATTTAACAAAACGGTGCTGTTTCATTGACTAATTAAA
1 AAAAACGCCGCAAAAAATATATTAAAAATTTAACAAAACGGCGCCGTTTCATTGACTAATTAAA
19006276 GGAAAAGTTG
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
83 52 0.42
84 71 0.58
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (83 bp):
AAAAACGCCGCAAAAAATATATTAAAAATTTAACAAAACGGCGCCGTTTCATTGACTAATTAAAT
ATTAGTGGCATTTTATAT
Found at i:19008757 original size:21 final size:21
Alignment explanation
Indices: 19008733--19008776 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
19008723 TAGTTGGAGT
19008733 TTCTAGTTTTATAGTTTCTAA
1 TTCTAGTTTTATAGTTTCTAA
19008754 TTCTAGTTTTATAGTTTCTAA
1 TTCTAGTTTTATAGTTTCTAA
19008775 TT
1 TT
19008777 TTACCCGTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (21 bp):
TTCTAGTTTTATAGTTTCTAA
Found at i:19010769 original size:43 final size:43
Alignment explanation
Indices: 19010722--19010971 Score: 315
Period size: 43 Copynumber: 5.8 Consensus size: 43
19010712 GTTTGTAACC
* * * *
19010722 AAAGTGTCGCTAAAGGTCTTGAGCTATAACGGCGTTTATGGGA
1 AAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
*
19010765 AAAGTGCCGCTAAAGGTCTTGATCTATCGCGGCGTTTGTGGGA
1 AAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
19010808 AAAGCT-CCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
1 AAAG-TGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* * * * *
19010851 AAAGCGCCGCTAAAGGTCCTGAGCTATAGCAGCGTTTGT-GTA
1 AAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
* * *
19010893 AAAGCGCCGCTAAAGGTCCTGATCTATAGCGGCGCTTGTGGGA
1 AAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
** * * *
19010936 AAAACGCCGCTAAAGATCATGATCTATAGCAGCGTT
1 AAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTT
19010972 GACAACAGCG
Statistics
Matches: 184, Mismatches: 20, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
42 38 0.21
43 145 0.79
44 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
AAAGTGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGA
Found at i:19010932 original size:85 final size:86
Alignment explanation
Indices: 19010729--19010971 Score: 344
Period size: 85 Copynumber: 2.8 Consensus size: 86
19010719 ACCAAAGTGT
* * * * * *
19010729 CGCTAAAGGTCTTGAGCTATAACGGCGTTTATGGGAAAAGTGCCGCTAAAGGTCTTGATCTATCG
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAG
* *
19010794 CGGCGTTTGTGGGAAAAGCTC
66 CAGCGTTTGTGGGAAAAGCGC
* *
19010815 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGAGCTATAG
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAG
*
19010880 CAGCGTTTGT-GTAAAAGCGC
66 CAGCGTTTGTGGGAAAAGCGC
* * * *
19010900 CGCTAAAGGTCCTGATCTATAGCGGCGCTTGTGGGAAAAACGCCGCTAAAGATCATGATCTATAG
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAG
19010965 CAGCGTT
66 CAGCGTT
19010972 GACAACAGCG
Statistics
Matches: 141, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 74 0.52
86 67 0.48
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (86 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAG
CAGCGTTTGTGGGAAAAGCGC
Found at i:19011626 original size:57 final size:57
Alignment explanation
Indices: 19011559--19011691 Score: 187
Period size: 57 Copynumber: 2.3 Consensus size: 57
19011549 TGATTTTTAC
** **
19011559 ATTTATGTTGTCTTAATGTAATTTATAGATGTTGT-CAAAATGTCTCTTAATGTGCAT
1 ATTTATGTTGTCCAAATGTAATTTATAGATGTT-TCCAAAATGTCTCTTAATGCACAT
*
19011616 ATTTATGTTGTCCAAATGTAATTTATAGATGTTTCCATAATGTCTCTTAATGCACAT
1 ATTTATGTTGTCCAAATGTAATTTATAGATGTTTCCAAAATGTCTCTTAATGCACAT
* *
19011673 ATTTTTGTTGTCAAAATGT
1 ATTTATGTTGTCCAAATGT
19011692 GAATAATAGT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 1 0.01
57 67 0.99
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.47
Consensus pattern (57 bp):
ATTTATGTTGTCCAAATGTAATTTATAGATGTTTCCAAAATGTCTCTTAATGCACAT
Found at i:19014175 original size:50 final size:50
Alignment explanation
Indices: 19014099--19014337 Score: 198
Period size: 50 Copynumber: 4.8 Consensus size: 50
19014089 AGGGAATGAT
** *
19014099 GTCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCATCGAGATAAGAG
1 GTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAG
* *
19014149 TTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAG
* * * * * *
19014199 GTCCC-TCATAAGACCATGTCTGGGACATGGCATGGGCACTGATATAAGAAAC
1 GTCCCAT-GTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAG--AG
* * * * * * * *
19014251 ATCCCATGTAAGACAATATCTGGGATATGGCATTGGAAGTCCAAGA-AACA-
1 GTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA--CCGAGATAAGAG
* * * *
19014301 -TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
19014338 TCTTATATTC
Statistics
Matches: 153, Mismatches: 30, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
49 32 0.21
50 84 0.55
51 1 0.01
52 30 0.20
53 3 0.02
54 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATAAGAG
Found at i:19014281 original size:52 final size:49
Alignment explanation
Indices: 19014207--19014327 Score: 143
Period size: 49 Copynumber: 2.4 Consensus size: 49
19014197 AGGTCCCTCA
* * *
19014207 TAAGACCATGTCTGGGACATGGCATGGGCACTGATATAAGAAACATCCCATG
1 TAAGACAATGTCTGGGACATGGCATGGG-A-AG-TACAAGAAACATCCCATG
* * * *
19014259 TAAGACAATATCTGGGATATGGCATTGGAAGTCCAAGAAACATCCCATG
1 TAAGACAATGTCTGGGACATGGCATGGGAAGTACAAGAAACATCCCATG
*
19014308 TAAGACTATGTCTGGGACAT
1 TAAGACAATGTCTGGGACAT
19014328 AGCTTTGGCA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 33 0.56
50 1 0.02
51 1 0.02
52 24 0.41
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (49 bp):
TAAGACAATGTCTGGGACATGGCATGGGAAGTACAAGAAACATCCCATG
Found at i:19016759 original size:15 final size:15
Alignment explanation
Indices: 19016739--19016771 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19016729 AATGGCAAAC
19016739 CAATTGATAACACTT
1 CAATTGATAACACTT
*
19016754 CAATTGATAATACTT
1 CAATTGATAACACTT
19016769 CAA
1 CAA
19016772 GCCAACCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (15 bp):
CAATTGATAACACTT
Found at i:19018343 original size:14 final size:15
Alignment explanation
Indices: 19018321--19018397 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
19018311 NAATCAAACA
19018321 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
19018335 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
19018350 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
19018370 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
19018384 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
19018398 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:19018362 original size:20 final size:20
Alignment explanation
Indices: 19018337--19018376 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19018327 AATATTTTCC
*
19018337 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
19018357 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
19018377 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:19018382 original size:34 final size:35
Alignment explanation
Indices: 19018325--19018391 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
19018315 CAAACACCAG
*
19018325 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
19018360 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
19018392 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:19020218 original size:22 final size:22
Alignment explanation
Indices: 19020193--19020236 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
19020183 GGCTAGGACT
19020193 TATGAGTTATTTATAATCGTTA
1 TATGAGTTATTTATAATCGTTA
19020215 TATGAGTTATTTATAATCGTTA
1 TATGAGTTATTTATAATCGTTA
19020237 CACTAGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.50
Consensus pattern (22 bp):
TATGAGTTATTTATAATCGTTA
Found at i:19021301 original size:13 final size:13
Alignment explanation
Indices: 19021285--19021322 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
19021275 TTTAAACCAA
19021285 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
19021298 ACTTCTT-AAAAGC
1 ACTT-TTCAAAAGC
19021311 ACTTTTCAAAAG
1 ACTTTTCAAAAG
19021323 TAATGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:19024704 original size:56 final size:56
Alignment explanation
Indices: 19024589--19024717 Score: 136
Period size: 56 Copynumber: 2.3 Consensus size: 56
19024579 AATAAGATTA
* * *
19024589 TTAATATAAATAATAAATAATTTAATCATATTTTAACATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTAAATAAAATTTTAACATAATTATTATT-AATATAAT
* * *
19024647 TTAATAAAA-AATATATAATTAAATAAAATTCTTAATATAATTATTCTT-ATATGAAT
1 TTAATAAAATAATAAATAATTAAATAAAATT-TTAACATAATTATTATTAATAT-AAT
* *
19024703 TTACTAAAATCATAA
1 TTAATAAAATAATAA
19024718 TATATAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
55 4 0.07
56 28 0.47
57 21 0.36
58 6 0.10
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (56 bp):
TTAATAAAATAATAAATAATTAAATAAAATTTTAACATAATTATTATTAATATAAT
Found at i:19026309 original size:9 final size:9
Alignment explanation
Indices: 19026292--19026322 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19026282 TCGAGTTGAT
19026292 TCGAATAAC
1 TCGAATAAC
*
19026301 TCGATTAAC
1 TCGAATAAC
19026310 TCGAATAAC
1 TCGAATAAC
19026319 TCGA
1 TCGA
19026323 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:19027394 original size:20 final size:20
Alignment explanation
Indices: 19027371--19027414 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
19027361 GCAGAAATCG
*
19027371 AGAGAAAATCAGA-GAAAAA
1 AGAGAAAATAAGAGGAAAAA
19027390 TAGAGAAAATAAGAGGAAAAA
1 -AGAGAAAATAAGAGGAAAAA
19027411 AGAG
1 AGAG
19027415 GGATTCGAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (20 bp):
AGAGAAAATAAGAGGAAAAA
Found at i:19027606 original size:11 final size:11
Alignment explanation
Indices: 19027590--19027615 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19027580 TGGTCTGATT
19027590 TTTTATTTTTA
1 TTTTATTTTTA
19027601 TTTTATTTTTA
1 TTTTATTTTTA
19027612 TTTT
1 TTTT
19027616 TTCTATTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:19028440 original size:15 final size:15
Alignment explanation
Indices: 19028407--19028444 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
19028397 TAGGAAAATG
19028407 TTAATATATTATTAT
1 TTAATATATTATTAT
*
19028422 TTAATTTATTATTCA-
1 TTAATATATTATT-AT
19028437 TTAATATA
1 TTAATATA
19028445 CATTTTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 19 0.95
16 1 0.05
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATATATTATTAT
Found at i:19035054 original size:43 final size:43
Alignment explanation
Indices: 19034999--19035423 Score: 663
Period size: 43 Copynumber: 9.9 Consensus size: 43
19034989 AATATTGCGG
19034999 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
* * * *
19035042 ATCTTATTTTCCCCAGGAATAAGGAAATAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
*
19035085 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
* *
19035128 ATCTTATTTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGGGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
*
19035171 ATCTTATCTTCCCTAGGAGTAGGGAAACAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
* * *
19035214 ATCTTATTTTCCCTAGGAGTAGGGAAATAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
* *
19035257 ATCTTATCTTCCCCAAGAGTAGGGAAACAGATCTAAGCGACGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
* * *
19035300 ATCTTATCTTCCCCAGGAGTAGGTAAATAGATCTAAACGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
* *
19035343 ATCTTATTTTCCCCAGGAGTAGGGAAACAGATCTACGCGGCGA
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
*
19035386 ATCTTAT-TCTCCCCAGGAGTAGGGAAACAGATTTAAGC
1 ATCTTATCT-TCCCCAGGAGTAGGGAAACAGATCTAAGC
19035424 CACAAGTCCT
Statistics
Matches: 347, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
42 1 0.00
43 346 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (43 bp):
ATCTTATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCGGCGA
Found at i:19035625 original size:44 final size:44
Alignment explanation
Indices: 19035558--19035712 Score: 134
Period size: 44 Copynumber: 3.5 Consensus size: 44
19035548 AAGCCACGAG
* ** *
19035558 TCTTATCCCCCTGAGGTCCCAGTGGGGCAGACTGAAGAAGCA-AA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAG-ATAA
* **
19035602 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGCCGATAA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAGATAA
* * * * * * *
19035646 TCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTA-ATAGA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAGATA-A
* *
19035690 TCTTATCTCTCTGAAGTTGCAGT
1 TCTTATCTCCCTGAGGTTGCAGT
19035713 AGAGTGGATC
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
43 4 0.04
44 88 0.96
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAGATAA
Found at i:19035793 original size:32 final size:32
Alignment explanation
Indices: 19035727--19035793 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
19035717 TGGATCACAT
*
19035727 CAGGTCTTATCTCCCTGAGGTTGCAGCGGAGG
1 CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGG
*
19035759 CAGGTCTTATC-CCGACTGAAGTTGCAGTGG-GG
1 CAGGTCTTATCTCC--CTGAAGTTGCAGCGGAGG
19035791 CAG
1 CAG
19035794 ATCGAAGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 2 0.06
32 16 0.52
33 13 0.42
ACGTcount: A:0.18, C:0.24, G:0.34, T:0.24
Consensus pattern (32 bp):
CAGGTCTTATCTCCCTGAAGTTGCAGCGGAGG
Found at i:19035859 original size:45 final size:45
Alignment explanation
Indices: 19035774--19035885 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 45
19035764 CTTATCCCGA
* * *
19035774 CTGAAGTTGCAGTGGGGCAGATCGAAGATGACCAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGACGACCAATCTTATCTCC
* * * *
19035819 CTGAAGTTACAGTGGAGCAGATTGAAGCCGA-TAATCCTTATCTTC
1 CTGAAGTTGCAGTGGAGCAGATTGAAGACGACCAAT-CTTATCTCC
*
19035864 CTG-AGTTGTAGTGGAGCAGATT
1 CTGAAGTTGCAGTGGAGCAGATT
19035886 ACAGTAATAG
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 20 0.35
45 37 0.65
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (45 bp):
CTGAAGTTGCAGTGGAGCAGATTGAAGACGACCAATCTTATCTCC
Found at i:19035915 original size:44 final size:44
Alignment explanation
Indices: 19035774--19035925 Score: 123
Period size: 44 Copynumber: 3.4 Consensus size: 44
19035764 CTTATCCCGA
* * ** ** *
19035774 CTGAAGTTGCAGTGGGGCAGATCGAAGATGACCAATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAG-CCAATAATCTTATCTCT
* *
19035819 CTGAAGTTACAGTGGAGCAGATTGAAGCCGATAATCCTTATCT-T
1 CTGAAGTTGCAGTGGAGCAGATTGAAGCCAATAAT-CTTATCTCT
* *
19035863 CCTG-AGTTGTAGTGGAGCAGATT-ACAG-TAATAGATCTTATCTCT
1 -CTGAAGTTGCAGTGGAGCAGATTGA-AGCCAATA-ATCTTATCTCT
*
19035907 CTGAAGTTGCAGTAGAGCA
1 CTGAAGTTGCAGTGGAGCA
19035926 TATCGCATCA
Statistics
Matches: 86, Mismatches: 15, Indels: 13
0.75 0.13 0.11
Matches are distributed among these distances:
43 14 0.16
44 38 0.44
45 34 0.40
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAGCAGATTGAAGCCAATAATCTTATCTCT
Found at i:19036589 original size:20 final size:21
Alignment explanation
Indices: 19036564--19036608 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
19036554 GCATAAATTG
* *
19036564 AGAGAAAATCAGA-GAAAAAT
1 AGAGAAAATAAGAGGAAAAAA
19036584 AGAGAAAATAAGAGGAAAAAA
1 AGAGAAAATAAGAGGAAAAAA
19036605 AGAG
1 AGAG
19036609 GGATTCGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.67, C:0.02, G:0.24, T:0.07
Consensus pattern (21 bp):
AGAGAAAATAAGAGGAAAAAA
Found at i:19041378 original size:2 final size:2
Alignment explanation
Indices: 19041367--19041404 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
19041357 ACAAAACAAA
19041367 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
19041405 TTGGAGATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:19042880 original size:23 final size:24
Alignment explanation
Indices: 19042851--19042901 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
19042841 TCTTAAATTT
19042851 TAAAAAAGTATATTTGA-TTAA-AAA
1 TAAAAAA-TATATTT-ATTTAATAAA
19042875 TAAAAAATATATTTATTTAATAAA
1 TAAAAAATATATTTATTTAATAAA
19042899 TAA
1 TAA
19042902 TTCGGGTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 1 0.04
23 11 0.44
24 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
TAAAAAATATATTTATTTAATAAA
Found at i:19044186 original size:20 final size:21
Alignment explanation
Indices: 19044150--19044205 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
19044140 TTTTAAAATA
**
19044150 TTTTTAAAATACCTTTTT-TG
1 TTTTTAAAATAAATTTTTATG
19044170 TTTTTAAAATAAATTTTTAGTG
1 TTTTTAAAATAAATTTTTA-TG
19044192 TTTATTAAAA-AAAT
1 TTT-TTAAAATAAAT
19044206 GGGCCGGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 16 0.52
22 9 0.29
23 6 0.19
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTTTAAAATAAATTTTTATG
Found at i:19045881 original size:21 final size:21
Alignment explanation
Indices: 19045857--19045920 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
19045847 TGTAGATCAA
19045857 ACTTATCATAATACA-TGTCAT
1 ACTTATCATAATACAGT-TCAT
*
19045878 ACTTATCATAACACAGTTCAT
1 ACTTATCATAATACAGTTCAT
*
19045899 ACTTATCATAATACAGATCAT
1 ACTTATCATAATACAGTTCAT
19045920 A
1 A
19045921 TTGAGCATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 38 0.97
22 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (21 bp):
ACTTATCATAATACAGTTCAT
Found at i:19066476 original size:57 final size:56
Alignment explanation
Indices: 19066320--19066482 Score: 191
Period size: 57 Copynumber: 2.9 Consensus size: 56
19066310 AAGAAAAACT
** *
19066320 TTTGTGGCAAAACTCTGGATAGGTAAGCCTATGTGGCGAACCGGTTAAAGGACAACC
1 TTTGTGGCAAAACTCTGGA-AGGTAAGCCTATGTGGCGAACCTATTAAAAGACAACC
** * **
19066377 TTTGTGGCAAAACTCTAAAAAGGTAAGCGTATGTGGCGAACCTATTAAAAGACAGGC
1 TTTGTGGCAAAACTCT-GGAAGGTAAGCCTATGTGGCGAACCTATTAAAAGACAACC
* * * *
19066434 TTTGTGGCAAAAATCTGGAAGGGTAAGCCTTTGTGGCAAACCTCTTAAA
1 TTTGTGGCAAAACTCTGGAA-GGTAAGCCTATGTGGCGAACCTATTAAA
19066483 GAACGACTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
56 2 0.02
57 86 0.97
58 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (56 bp):
TTTGTGGCAAAACTCTGGAAGGTAAGCCTATGTGGCGAACCTATTAAAAGACAACC
Found at i:19075863 original size:16 final size:15
Alignment explanation
Indices: 19075839--19075868 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19075829 GGTGCAAATG
19075839 TTTTTTTTAAATAAA
1 TTTTTTTTAAATAAA
19075854 TTTTTGTTTAAATAA
1 TTTTT-TTTAAATAA
19075869 TGATACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTTTTTTTAAATAAA
Found at i:19076979 original size:20 final size:21
Alignment explanation
Indices: 19076941--19076979 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19076931 CAATTATAAT
*
19076941 TTTTTTCTTTCATGGTATTCA
1 TTTTTTATTTCATGGTATTCA
*
19076962 TTTTTTATTT-ATGTTATT
1 TTTTTTATTTCATGGTATT
19076980 GTGCTTGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (21 bp):
TTTTTTATTTCATGGTATTCA
Found at i:19079041 original size:18 final size:18
Alignment explanation
Indices: 19079018--19079053 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19079008 TTCTAGTAAA
19079018 GTTCTCTAAATGTAATTG
1 GTTCTCTAAATGTAATTG
19079036 GTTCTCTAAATGTAATTG
1 GTTCTCTAAATGTAATTG
19079054 AATCAGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (18 bp):
GTTCTCTAAATGTAATTG
Found at i:19083432 original size:45 final size:45
Alignment explanation
Indices: 19083376--19084092 Score: 1017
Period size: 45 Copynumber: 16.0 Consensus size: 45
19083366 AAAAAAATAG
* * * *
19083376 CAGATCATGTCTTCCTGTATTGGCAGTGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
*
19083421 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * * * * *
19083466 CAGATCTTGTCTTCTTATATTGGTAGCGGAGTAGATCGAAGACAT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * * *
19083511 CAGATCTTGTCTT-CTATATTGGCAGCGATGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * * *
19083555 CAGATCTTGTTTTCCTGTACTGCCAGCGAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * *
19083600 CAGATCTTGTCTTCCTATATTGCCAGCGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * *
19083645 CAGTTCTTGTCTTCCTGTATTGGCAGCGAAGTAGATTGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
*
19083690 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGAGAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * * *
19083735 TAGATCTTGTCTTCCTGTATTTGCAGCAAAGTAGATTGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
19083780 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* *
19083825 CAGATCTTGTCTTCCTGTATTTGCAGCGAAGTAGATCGAAGGTAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
*
19083870 CAGATCTTGTCTTCCTGTATTGGCAGCTAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * *
19083915 CAGATCTTATCCTT-CTGTATTGGCAGTGAAGTA-ATCGAAGATAG
1 CAGATCTTGT-CTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * *
19083959 CAGATCTTGTCTTTCTATATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
* * *
19084004 CAGATCTTGTATTCCTATATTTGCAGCGAAGTAGATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
*
19084049 CAGATCTTGTTTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATA
19084093 GCAAGCCTTA
Statistics
Matches: 598, Mismatches: 70, Indels: 8
0.88 0.10 0.01
Matches are distributed among these distances:
43 3 0.01
44 72 0.12
45 520 0.87
46 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAA
Found at i:19084351 original size:132 final size:132
Alignment explanation
Indices: 19084191--19084661 Score: 656
Period size: 132 Copynumber: 3.6 Consensus size: 132
19084181 CCAAGCCTTA
* * * * *
19084191 TCTCCCTAAGCAGTAGTAGAGCAAATCAAAGACTGTAAATCTTATCTTCCCAAGGTAGTAGGAAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAA
** * * *
19084256 ATAGATTTAAGCCATCAGTCCTGTCTCCTTGAACAGCAGTGGAGTAGGTTGAAGATTATGGATCC
66 GCAGATTTAAGCCATCAGTCCTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATTGTAGATCC
19084321 TG
131 TG
*
19084323 TCTCCCTAAGCAGTACTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAA
* * * * *
19084388 GCAGGTTTAAGCCATCAGTCCTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAGGATTGTACATCT
66 GCAGATTTAAGCCATCAGTCCTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATTGTAGATCC
19084453 TG
131 TG
* *
19084455 TCTCCTTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGGTAGTAGGGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAA
* * * * *
19084520 GCAGATTTAAGCCACCAATCCTATCTCCCT-AAGCAGCAGTGGAGTAGATTGAAGAATGTAGATC
66 GCAGATTTAAGCCATCAGTCCTGTCTCCCTGAA-CAGCAGTGGAGTAGGTTGAAGATTGTAGATC
*
19084584 CCG
130 CTG
* * * * * *
19084587 TCTCCCTAAGCAGTAGTGGAGCAGATAAAAAATGGTGAATCTTATATTTCCAAGGTAGTAGAGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAA
19084652 GCAGATTTAA
66 GCAGATTTAA
19084662 AACACCAGTC
Statistics
Matches: 302, Mismatches: 36, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
131 1 0.00
132 301 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAA
GCAGATTTAAGCCATCAGTCCTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAGATTGTAGATCC
TG
Found at i:19084855 original size:50 final size:51
Alignment explanation
Indices: 19084701--19084862 Score: 140
Period size: 50 Copynumber: 3.2 Consensus size: 51
19084691 ATGAAACAGA
* * *
19084701 TTGAAGCTACAACAGCGAATCTTAC-TTCCTGGGCAG-TGTAGTGGAACATA-
1 TTGAAGCTACAACAACGAATCTTACTTTCCT-AGC-GTTGCAGTGGAACATAG
* * * * * *
19084751 TTGAAGCTACAACAATGAATCTT-GTTTCCCAGACATTACAGT-TAA-ATAG
1 TTGAAGCTACAACAACGAATCTTACTTTCCTAG-CGTTGCAGTGGAACATAG
*
19084800 ATTGAAGTTACAACAACGAATCTTACTTTCCTAGCGTTGCAGTGGAACA-AG
1 -TTGAAGCTACAACAACGAATCTTACTTTCCTAGCGTTGCAGTGGAACATAG
*
19084851 TTGAAGATACAA
1 TTGAAGCTACAA
19084863 GTCTTATCTC
Statistics
Matches: 87, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
48 3 0.03
49 3 0.03
50 69 0.79
51 11 0.13
52 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (51 bp):
TTGAAGCTACAACAACGAATCTTACTTTCCTAGCGTTGCAGTGGAACATAG
Found at i:19084990 original size:45 final size:45
Alignment explanation
Indices: 19084835--19084991 Score: 137
Period size: 44 Copynumber: 3.5 Consensus size: 45
19084825 CTTTCCTAGC
* * *
19084835 GTTGCAGTGGAACA-AGTTGAAGATA-CAAGTCTTATCTCCTTGAA
1 GTTGCAGTGGAGCAGAG-CGAAGATAGCAAGTCTTATCCCCTTGAA
* * *
19084879 GTTGCAGTGGAGCAG-GCTGAAGATAGCGAA-TCTTTTGTCCC-AGAA
1 GTTGCAGTGGAGCAGAGC-GAAGATAGC-AAGTCTTAT-CCCCTTGAA
* * *
19084924 GTTAC-GTGGAGCAGAGTGAAGATTGCAAGTCTTATCCCCTTGAA
1 GTTGCAGTGGAGCAGAGCGAAGATAGCAAGTCTTATCCCCTTGAA
* *
19084968 GTTGCAGTGGGGCAGAACGAAGAT
1 GTTGCAGTGGAGCAGAGCGAAGAT
19084992 GACGAATCCT
Statistics
Matches: 88, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
43 5 0.06
44 50 0.57
45 29 0.33
46 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (45 bp):
GTTGCAGTGGAGCAGAGCGAAGATAGCAAGTCTTATCCCCTTGAA
Found at i:19085234 original size:15 final size:15
Alignment explanation
Indices: 19085214--19085243 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19085204 CCTGGCCCAT
*
19085214 AACCAAATTAATAAA
1 AACCAAAATAATAAA
19085229 AACCAAAATAATAAA
1 AACCAAAATAATAAA
19085244 TTAAATGTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.13, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCAAAATAATAAA
Found at i:19089268 original size:18 final size:18
Alignment explanation
Indices: 19089210--19089268 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
19089200 TTATCAATCT
* *
19089210 ACATGTATAAGCATATCA
1 ACATGTATAAGCAAACCA
*
19089228 ACATGT-TAA-CAACCAACCT
1 ACATGTATAAGC-A--AACCA
19089247 ACATGTATAAGCAAACCA
1 ACATGTATAAGCAAACCA
19089265 ACAT
1 ACAT
19089269 ATTAAGAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 14 0.44
19 8 0.25
20 4 0.12
21 1 0.03
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (18 bp):
ACATGTATAAGCAAACCA
Found at i:19097898 original size:17 final size:17
Alignment explanation
Indices: 19097876--19097928 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
19097866 TATTCTATTA
19097876 ATTTATTAAGATTTAAT
1 ATTTATTAAGATTTAAT
*
19097893 ATTTATTAAGA-TAAAT
1 ATTTATTAAGATTTAAT
*
19097909 ATTAGATTAA-ATTTAAT
1 ATT-TATTAAGATTTAAT
19097926 ATT
1 ATT
19097929 AAAGTGATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 8 0.26
17 23 0.74
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTATTAAGATTTAAT
Found at i:19105864 original size:17 final size:17
Alignment explanation
Indices: 19105842--19105894 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
19105832 TATTCTATTA
19105842 ATTTATTAAGATTTAAT
1 ATTTATTAAGATTTAAT
* *
19105859 ATTTATCAAGA-TAAAT
1 ATTTATTAAGATTTAAT
19105875 ATTTGATTAA-ATTTAAT
1 ATTT-ATTAAGATTTAAT
19105892 ATT
1 ATT
19105895 AAAGTGATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 9 0.30
17 21 0.70
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTATTAAGATTTAAT
Found at i:19106724 original size:21 final size:22
Alignment explanation
Indices: 19106700--19106745 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
19106690 TGAGGCTGAA
*
19106700 TTTTC-TTTTTTATTTTGTTTT
1 TTTTCTTTTTTTATTTTGTTAT
19106721 TTTTCTTTTTTTATTTTGTTAT
1 TTTTCTTTTTTTATTTTGTTAT
19106743 TTT
1 TTT
19106746 CAAATTCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.07, C:0.04, G:0.04, T:0.85
Consensus pattern (22 bp):
TTTTCTTTTTTTATTTTGTTAT
Found at i:19106746 original size:21 final size:21
Alignment explanation
Indices: 19106699--19106746 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
19106689 ATGAGGCTGA
19106699 ATTTTCTTTTTTATTTTGTTT
1 ATTTTCTTTTTTATTTTGTTT
*
19106720 TTTTTCTTTTTTTATTTTG-TT
1 ATTTTC-TTTTTTATTTTGTTT
19106741 ATTTTC
1 ATTTTC
19106747 AAATTCCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.08, C:0.06, G:0.04, T:0.81
Consensus pattern (21 bp):
ATTTTCTTTTTTATTTTGTTT
Found at i:19107817 original size:17 final size:18
Alignment explanation
Indices: 19107795--19107828 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19107785 TTTTGGGCCA
*
19107795 TGTGGG-CCACATGGGCG
1 TGTGGGTCCACACGGGCG
19107812 TGTGGGTCCACACGGGC
1 TGTGGGTCCACACGGGC
19107829 CGACAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.26, G:0.44, T:0.18
Consensus pattern (18 bp):
TGTGGGTCCACACGGGCG
Found at i:19110656 original size:3 final size:3
Alignment explanation
Indices: 19110648--19111040 Score: 786
Period size: 3 Copynumber: 131.0 Consensus size: 3
19110638 AATAGGTAAT
19110648 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
19110696 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
19110744 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
19110792 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
19110840 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
19110888 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
19110936 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
19110984 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
1 GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA GTA
19111032 GTA GTA GTA
1 GTA GTA GTA
19111041 ATAATAATAA
Statistics
Matches: 390, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 390 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GTA
Found at i:19111045 original size:3 final size:3
Alignment explanation
Indices: 19111039--19111071 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
19111029 GTAGTAGTAG
*
19111039 TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19111072 CAAGAGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:19112535 original size:50 final size:50
Alignment explanation
Indices: 19112443--19112563 Score: 172
Period size: 50 Copynumber: 2.4 Consensus size: 50
19112433 ATTTGGGTAA
* *
19112443 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * * *
19112493 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
19112543 AGA-ACTCCCATGTAAGACCAT
1 AGAGA-TCCCATGTAAGACCAT
19112564 ATATGGGATA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:19116032 original size:23 final size:23
Alignment explanation
Indices: 19116006--19116063 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
19115996 TAATGGAAAA
19116006 TTCTATGGT-AATGTAAATGAATT
1 TTCT-TGGTGAATGTAAATGAATT
*
19116029 TTCTTTGTGAATGTAAATGAA-T
1 TTCTTGGTGAATGTAAATGAATT
*
19116051 TTCTTTGTGAATG
1 TTCTTGGTGAATG
19116064 CCCTTTGAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.29, C:0.05, G:0.19, T:0.47
Consensus pattern (23 bp):
TTCTTGGTGAATGTAAATGAATT
Found at i:19116056 original size:22 final size:23
Alignment explanation
Indices: 19116015--19116063 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
19116005 ATTCTATGGT
19116015 AATGTAAATGAATTTTCTTTGTG
1 AATGTAAATGAATTTTCTTTGTG
19116038 AATGTAAATGAA-TTTCTTTGTG
1 AATGTAAATGAATTTTCTTTGTG
19116060 AATG
1 AATG
19116064 CCCTTTGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (23 bp):
AATGTAAATGAATTTTCTTTGTG
Found at i:19117277 original size:48 final size:48
Alignment explanation
Indices: 19117206--19117310 Score: 210
Period size: 48 Copynumber: 2.2 Consensus size: 48
19117196 TCATCTCTTT
19117206 AGCATTCATTAATTTTACTTTTTTTAATTTCTTCAATGGTTTGCTGTA
1 AGCATTCATTAATTTTACTTTTTTTAATTTCTTCAATGGTTTGCTGTA
19117254 AGCATTCATTAATTTTACTTTTTTTAATTTCTTCAATGGTTTGCTGTA
1 AGCATTCATTAATTTTACTTTTTTTAATTTCTTCAATGGTTTGCTGTA
19117302 AGCATTCAT
1 AGCATTCAT
19117311 ATTCATGCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.24, C:0.13, G:0.10, T:0.52
Consensus pattern (48 bp):
AGCATTCATTAATTTTACTTTTTTTAATTTCTTCAATGGTTTGCTGTA
Found at i:19117943 original size:17 final size:17
Alignment explanation
Indices: 19117921--19117973 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
19117911 TATTCTATTA
19117921 ATTTATTAAGATTTAAT
1 ATTTATTAAGATTTAAT
* *
19117938 ATTTATCAAGA-TAAAT
1 ATTTATTAAGATTTAAT
*
19117954 ATTAGATTAA-ATTTAAT
1 ATT-TATTAAGATTTAAT
19117971 ATT
1 ATT
19117974 AAAGTGATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTATTAAGATTTAAT
Found at i:19121404 original size:36 final size:35
Alignment explanation
Indices: 19121338--19121408 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
19121328 GTTCCACTGC
19121338 AACGCCAGGGAAATAAGATTTCCTGCCTTCAGTCTT
1 AACGCCAGGGAAATAAGATTTCCTGCCTTCA-TCTT
* * *
19121374 AACGTCAGGGAGATAAGA-TTCGCTGTCTTCATCTT
1 AACGCCAGGGAAATAAGATTTC-CTGCCTTCATCTT
19121409 TAATCTACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (35 bp):
AACGCCAGGGAAATAAGATTTCCTGCCTTCATCTT
Found at i:19121543 original size:21 final size:21
Alignment explanation
Indices: 19121502--19121545 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
19121492 GATTCGCTGC
*
19121502 CTTCAGCTTTAATCCGCTCCA
1 CTTCAGCTTTAATCCACTCCA
* *
19121523 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCCACTCCA
19121544 CT
1 CT
19121546 ACAATGCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (21 bp):
CTTCAGCTTTAATCCACTCCA
Found at i:19121619 original size:123 final size:123
Alignment explanation
Indices: 19121431--19122140 Score: 582
Period size: 123 Copynumber: 5.5 Consensus size: 123
19121421 CTGAAACATT
* * * * * * *
19121431 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATTTATTCTAATGTAACGCCAAGGAGATAGGATT
1 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* *
19121496 CGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTACAATGCC
66 CGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCC
* * ** *
19121554 AGGGTAACAAGATTCGCTA-CTCTTAGCTTTAATCTGTTCTACTTTAACGCCAGGGAAATAAGAT
1 AGGGAAACAAGATTCGCTACCT-TTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* * * * * ** * * **
19121618 TCACTGCCCTCAG-TCCTAACGCCAGGGAGATAAGATTTGTTGCCCTCAGCATTAATCTGCTCCA
65 TCGCTGCCTTCAGCT-TTAA-TCC-----GCT-CCA--------CTTCAGCTTTAATCTATTCCA
*
19121682 CTGCAACGAC
114 CTGCAACGCC
* * * *
19121692 AGGGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTACAACGCCAAAGAGATAAGATT
1 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* *
19121757 TGTTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCC
66 CGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCC
* * *
19121815 AGGGAAACAAGATTCGCTA-CTATTAGCTTTAATCTATTCTACTGCAACGCCAGGGAAATAAGAT
1 AGGGAAACAAGATTCGCTACCT-TTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGAT
* ** * * **
19121879 TCACTGCCTTCAGTCTTAACGCCTGGGAGATAAGATTTACTGC-CTTTAGCTTTAATCTGCTCCA
65 TCGCTGCCTTCAG-CTT------T---A-ATCCG-----CTCCACTTCAGCTTTAATCTATTCCA
*
19121943 CTGCAACGTC
114 CTGCAACGCC
* * * ** * *
19121953 AGGGAAACAAGATTCGCTAACTTTAGCTTTAATGTGTTCCATTGCAGTGCCAAAGAGATAAGATT
1 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
* * *
19122018 CGCTGCCTTTAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGGAACGCT
66 CGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCC
* * *
19122076 AGGGAAACAAGATTTGCTACCTTTAGCTTTAATCAGTTCCACTGCAACGCCAGGGAAATAAGATT
1 AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
19122141 ATTTTCTTTA
Statistics
Matches: 458, Mismatches: 91, Indels: 76
0.73 0.15 0.12
Matches are distributed among these distances:
122 8 0.02
123 237 0.52
124 5 0.01
127 3 0.01
128 1 0.00
129 2 0.00
130 2 0.00
131 2 0.00
132 2 0.00
133 1 0.00
134 3 0.01
137 5 0.01
138 179 0.39
139 8 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (123 bp):
AGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATT
CGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTAATCTATTCCACTGCAACGCC
Found at i:19121721 original size:261 final size:261
Alignment explanation
Indices: 19121257--19122140 Score: 1254
Period size: 261 Copynumber: 3.4 Consensus size: 261
19121247 TTTCAAACCA
* * * *
19121257 CTCCACTTCAGCTTTAATCTATTCCACTGCAATGCGAGGGAAACAATATTCACTACCTTTAGCTT
1 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
*
19121322 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTTC-CTGCCTTCAGTCTTAACGTCAGGGAG
66 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGA-TTCACTGCCTTCAGTCTTAACGCCAGGGAG
* * * * * * *
19121386 ATAAGATTCGCTGTCTTCATCTTTAATCTACTCCGCTGAAAC-ATTAGGGAAACAAGATTCGCTA
130 ATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGA-CAGGGAAACAAGATTCGCTA
* * * * * *
19121450 CCTTTAGCTTTAATTTATTCTAATGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAAT
194 CCTTTAGCTTTAATCTGTTCCAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAAT
19121515 CCG
259 CCG
* * *
19121518 CTCCACTTCAGCTTTAATCTATTCCACTACAATGCCAGGGTAACAAGATTCGCTA-CTCTTAGCT
1 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCT-TTAGCT
* ** * *
19121582 TTAATCTGTTCTACTTTAACGCCAGGGAAATAAGATTCACTGCCCTCAGTCCTAACGCCAGGGAG
65 TTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTCAGTCTTAACGCCAGGGAG
* * * *
19121647 ATAAGATTTGTTGCCCTCAGCATTAATCTGCTCCACTGCAACGACAGGGAAACAAGATTCACTAC
130 ATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGACAGGGAAACAAGATTCGCTAC
* * * *
19121712 CTTTAGCTTTAATCTGTTCCACTACAACGCCAAAGAGATAAGATTTGTTGCCTTCAGCTTTAATC
195 CTTTAGCTTTAATCTGTTCCAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATC
19121777 CG
260 CG
19121779 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTA-CTATTAGCT
1 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCT-TTAGCT
* * *
19121843 TTAATCTATTCTACTGCAACGCCAGGGAAATAAGATTCACTGCCTTCAGTCTTAACGCCTGGGAG
65 TTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTCAGTCTTAACGCCAGGGAG
* * * *
19121908 ATAAGATTTACTGCCTTTAGCTTTAATCTGCTCCACTGCAACGTCAGGGAAACAAGATTCGCTAA
130 ATAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGACAGGGAAACAAGATTCGCTAC
* * ** *
19121973 CTTTAGCTTTAATGTGTTCCATTGCAGTGCCAAAGAGATAAGATTCGCTGCCTTTAGCTTTAATC
195 CTTTAGCTTTAATCTGTTCCAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATC
19122038 CG
260 CG
* * *
19122040 CTCCACTTCAGCTTTAATCTATTCCACTGGAACGCTAGGGAAACAAGATTTGCTACCTTTAGCTT
1 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
*
19122105 TAATCAGTTCCACTGCAACGCCAGGGAAATAAGATT
66 TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATT
19122141 ATTTTCTTTA
Statistics
Matches: 555, Mismatches: 64, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
260 5 0.01
261 547 0.99
262 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (261 bp):
CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
TAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTCAGTCTTAACGCCAGGGAGA
TAAGATTTGCTGCCTTCAGCTTTAATCTGCTCCACTGCAACGACAGGGAAACAAGATTCGCTACC
TTTAGCTTTAATCTGTTCCAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCC
G
Found at i:19121727 original size:138 final size:137
Alignment explanation
Indices: 19121523--19121991 Score: 459
Period size: 138 Copynumber: 3.5 Consensus size: 137
19121513 ATCCGCTCCA
* * * * *
19121523 CTTCAGCTTTAATCTATTCCACTACAATGCCAGGGTAACAAGATTCGCTACTCTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACTATTAGCTTTAATC
**
19121588 TGTTCTACTTTAACGCCAGGGAAATAAGATTCACTGCCCTCAGTCCTAACGCCAGGGAGATAAGA
66 TGTTCTACTACAACGCCAGGGAAATAAGATTCACTG-CCTCAGTCCTAACGCCAGGGAGATAAGA
*
19121653 TTTGTTGC
130 TTTGCTGC
* * * * *
19121661 CCTCAGCATTAATCTGCTCCACTGCAACGACAGGGAAACAAGATTCACTACCT-TTAGCTTTAAT
1 CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTA-CTATTAGCTTTAAT
* ** * * * ** *
19121725 CTGTTCCACTACAACGCCAAAGAGATAAGATT---TG--T-TG-CCT----TCA--G-CTTTA-A
65 CTGTTCTACTACAACGCCAGGGAAATAAGATTCACTGCCTCAGTCCTAACGCCAGGGAGATAAGA
** *
19121775 TCCGCTCC
130 TTTGCTGC
*
19121783 ACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACTATTAGCTTTAAT
1 -CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACTATTAGCTTTAAT
* * * *
19121848 CTATTCTACTGCAACGCCAGGGAAATAAGATTCACTGCCTTCAGTCTTAACGCCTGGGAGATAAG
65 CTGTTCTACTACAACGCCAGGGAAATAAGATTCACTGCC-TCAGTCCTAACGCCAGGGAGATAAG
*
19121913 ATTTACTGC
129 ATTTGCTGC
* * *
19121922 CTTTAGCTTTAATCTGCTCCACTGCAACGTCAGGGAAACAAGATTCGCTAACT-TTAGCTTTAAT
1 CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCT-ACTATTAGCTTTAAT
*
19121986 GTGTTC
65 CTGTTC
19121992 CATTGCAGTG
Statistics
Matches: 258, Mismatches: 53, Indels: 40
0.74 0.15 0.11
Matches are distributed among these distances:
122 7 0.03
123 83 0.32
124 1 0.00
126 4 0.02
129 1 0.00
130 4 0.02
131 3 0.01
132 1 0.00
135 3 0.01
137 1 0.00
138 140 0.54
139 10 0.04
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (137 bp):
CTTCAGCTTTAATCTACTCCACTGCAACGCCAGGGAAACAAGATTCGCTACTATTAGCTTTAATC
TGTTCTACTACAACGCCAGGGAAATAAGATTCACTGCCTCAGTCCTAACGCCAGGGAGATAAGAT
TTGCTGC
Found at i:19121771 original size:51 final size:51
Alignment explanation
Indices: 19121635--19121785 Score: 167
Period size: 51 Copynumber: 3.0 Consensus size: 51
19121625 CCTCAGTCCT
* * *
19121635 AACGCCAGGGAGATAAGATTTGTTGCCCTCAGCATTAATCTGCTCCACTGC
1 AACGCCAGGGAGATAAGATTTGTTGCCTTCAGCTTTAATCTGCTCCACTAC
* * * *** * * *
19121686 AACGACAGGGAAACAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTAC
1 AACGCCAGGGAGATAAGATTTGTTGCCTTCAGCTTTAATCTGCTCCACTAC
** *
19121737 AACGCCAAAGAGATAAGATTTGTTGCCTTCAGCTTTAATCCGCTCCACT
1 AACGCCAGGGAGATAAGATTTGTTGCCTTCAGCTTTAATCTGCTCCACT
19121786 TCAGCTTTAA
Statistics
Matches: 76, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 76 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (51 bp):
AACGCCAGGGAGATAAGATTTGTTGCCTTCAGCTTTAATCTGCTCCACTAC
Found at i:19121804 original size:21 final size:21
Alignment explanation
Indices: 19121763--19121806 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
19121753 GATTTGTTGC
*
19121763 CTTCAGCTTTAATCCGCTCCA
1 CTTCAGCTTTAATCCACTCCA
* *
19121784 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCCACTCCA
19121805 CT
1 CT
19121807 GCAACGCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (21 bp):
CTTCAGCTTTAATCCACTCCA
Found at i:19122528 original size:24 final size:24
Alignment explanation
Indices: 19122501--19122558 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
19122491 CAAATTGCCC
*
19122501 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
19122525 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
19122549 CCACTGTAAT
1 CCACTGTAAT
19122559 TTTGGGACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:19141348 original size:368 final size:368
Alignment explanation
Indices: 19140671--19141406 Score: 1418
Period size: 368 Copynumber: 2.0 Consensus size: 368
19140661 TACCCGGTCC
*
19140671 GGTTGTCCGACCCGAGCTATAAGGTTGTCGGAATCTATTTTTTTGGAAAACGGGAGTCGACTTTA
1 GGTTGTCCGACCCGAGCTATAAGGTTGTCGAAATCTATTTTTTTGGAAAACGGGAGTCGACTTTA
19140736 GGAAACGAAAATAGAGTCGCCACCGATCTTTTTTAAGGTGTGATCGGGTCACCTTGAGATTTTAA
66 GGAAACGAAAATAGAGTCGCCACCGATCTTTTTTAAGGTGTGATCGGGTCACCTTGAGATTTTAA
*
19140801 TAAAACATTTTGATTTACTAAAATAACGATTTTGGTCTACGAAATTTGAGAAAACAGGTTCGGGA
131 TAAAACATTTTGATTTACTAAAATAACAATTTTGGTCTACGAAATTTGAGAAAACAGGTTCGGGA
19140866 GTCGGTTGTGCACAAGGAAGGGCTAGCACCCTCGTAACGCCCAAAATTGGTATCGGATTGATTAT
196 GTCGGTTGTGCACAAGGAAGGGCTAGCACCCTCGTAACGCCCAAAATTGGTATCGGATTGATTAT
*
19140931 TTAATGTCTTAGTGTCGAAAATTTGAAAAGATTTTAAAATACGATCCTTTTTAAAAGAAAATTTA
261 TTAATGTCTTAGTGTCGAAAATTTGAAAAGATTTCAAAATACGATCCTTTTTAAAAGAAAATTTA
19140996 AAATAAATTGAATTGGATGATATAAGACACTCTTATTTTGAAG
326 AAATAAATTGAATTGGATGATATAAGACACTCTTATTTTGAAG
19141039 GGTTGTCCGACCCGAGCTATAAGGTTGTCGAAATCTATTTTTTTGGAAAACGGGAGTCGACTTTA
1 GGTTGTCCGACCCGAGCTATAAGGTTGTCGAAATCTATTTTTTTGGAAAACGGGAGTCGACTTTA
* * *
19141104 GGAAACGAAAATGGAGTCGCCACCGATCTTTTTTGAGGTGTGATCGGGTGACCTTGAGATTTTAA
66 GGAAACGAAAATAGAGTCGCCACCGATCTTTTTTAAGGTGTGATCGGGTCACCTTGAGATTTTAA
19141169 TAAAACATTTTGATTTACTAAAATAACAATTTTGGTCTACGAAATTTGAGAAAACAGGTTCGGGA
131 TAAAACATTTTGATTTACTAAAATAACAATTTTGGTCTACGAAATTTGAGAAAACAGGTTCGGGA
19141234 GTCGGTTGTGCACAAGGAAGGGCTAGCACCCTCGTAACGCCCAAAATTGGTATCGGATTGATTAT
196 GTCGGTTGTGCACAAGGAAGGGCTAGCACCCTCGTAACGCCCAAAATTGGTATCGGATTGATTAT
19141299 TTAATGTCTTAGTGTCGAAAATTTGAAAAGATTTCAAAATACGATCCTTTTTAAAAGAAAATTTA
261 TTAATGTCTTAGTGTCGAAAATTTGAAAAGATTTCAAAATACGATCCTTTTTAAAAGAAAATTTA
19141364 AAATAAATTGAATTGGATGATATAAGACACTCTTATTTTGAAG
326 AAATAAATTGAATTGGATGATATAAGACACTCTTATTTTGAAG
19141407 AAGTAAAATG
Statistics
Matches: 362, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
368 362 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.32
Consensus pattern (368 bp):
GGTTGTCCGACCCGAGCTATAAGGTTGTCGAAATCTATTTTTTTGGAAAACGGGAGTCGACTTTA
GGAAACGAAAATAGAGTCGCCACCGATCTTTTTTAAGGTGTGATCGGGTCACCTTGAGATTTTAA
TAAAACATTTTGATTTACTAAAATAACAATTTTGGTCTACGAAATTTGAGAAAACAGGTTCGGGA
GTCGGTTGTGCACAAGGAAGGGCTAGCACCCTCGTAACGCCCAAAATTGGTATCGGATTGATTAT
TTAATGTCTTAGTGTCGAAAATTTGAAAAGATTTCAAAATACGATCCTTTTTAAAAGAAAATTTA
AAATAAATTGAATTGGATGATATAAGACACTCTTATTTTGAAG
Found at i:19142777 original size:3 final size:3
Alignment explanation
Indices: 19142750--19142824 Score: 114
Period size: 3 Copynumber: 25.0 Consensus size: 3
19142740 TAAAATCAAG
* * * *
19142750 TAA TAT TAA TAA TAG TAG TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19142798 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
19142825 CAAGAGTATT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:19144733 original size:51 final size:51
Alignment explanation
Indices: 19144657--19144756 Score: 164
Period size: 51 Copynumber: 2.0 Consensus size: 51
19144647 GACAATATTC
*
19144657 GCTTTAATCTATTCCACTGCAACGCCAAAGAAACAATATTTGCTACCTTTA
1 GCTTTAATCTATTCCACTGCAACGCCAAAGAAACAAGATTTGCTACCTTTA
** *
19144708 GCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTTGCTACCTT
1 GCTTTAATCTATTCCACTGCAACGCCAAAGAAACAAGATTTGCTACCTT
19144757 CAGTCTTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (51 bp):
GCTTTAATCTATTCCACTGCAACGCCAAAGAAACAAGATTTGCTACCTTTA
Found at i:19145009 original size:123 final size:124
Alignment explanation
Indices: 19144790--19145530 Score: 541
Period size: 123 Copynumber: 5.8 Consensus size: 124
19144780 GATTCGTTGC
* * * *
19144790 CTTCAGCTTTAATCTACTCCGCTGCAACA-TCAGGGAAACAAGATTTGCTACCTTTACCTTTAAT
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* * * * *
19144854 CTATTCTAATGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCA
66 CTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCA
* *
19144913 CTTCAGCTTTACTCTATTCCACTGCAACACT-AGAGAAACAAGATTCGCTA-CTCTTAGCTTTAA
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCT-TTAGCTTTAA
* * * ** *
19144976 TCTGTTCTACTGCAACGCCAGGGAAATAAGATTCATTGCCTTCAG-TCTTAACGCCAGGGAGATA
65 TCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCT-TTAA-TCC---------
*
19145040 AGATTTGCTGCA
119 --A----CTCCA
* * *
19145052 -TTCTGCTTTAATCTACTCCACTGCAACA-TCAGGGAAATAAGATTCGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* * * * ***
19145115 CTATTCCACTGCAACGCCAAAGAGATAAGATTCACTGCCTTCAGTTTTAATTTGCTCCA
66 CTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCA
* ** * *
19145174 CTTCAGCTTTAATCTATTCCACTACAATGC-CAAGGAAACAAGATTCGCTA-ATCTTAGCTTTAA
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCT-TTAGCTTTAA
* * * * * * * * *
19145237 TCTGTTCTACTGCGACGGCAGGGAAATAAGATTCGCTGCCTTCAGCCTTAACGCCAAGGAGATAA
65 TCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAA-TCC----A-CT-C
*
19145302 GA
123 CA
* * * * * * *
19145304 TTTGTTGCCTTTAGCTTGAATCTGCTT-CACTGCAAC-GTCAGGGAAATAAGATTTGCTACTTTT
1 --------CTTCAGCTTTAATCT-ATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTT
* * * * * *
19145367 ATCTTTAATCTGTTCCAGTGCAACACCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCT
57 AGCTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCACT
19145432 CCA
122 CCA
* * *
19145435 CTTCAGCTCTAATCTATTCCACTGCAACGCT-AGGGAAACAAGATTTGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* *
19145499 CAATTCCACTGCAACGCCAGGGAAATAAGATT
66 CTATTCCACTGCAACGCCAAGGAAATAAGATT
19145531 ATTGGCTTTA
Statistics
Matches: 478, Mismatches: 95, Indels: 90
0.72 0.14 0.14
Matches are distributed among these distances:
122 10 0.02
123 262 0.55
124 4 0.01
129 1 0.00
130 1 0.00
131 1 0.00
132 1 0.00
135 1 0.00
137 3 0.01
138 184 0.38
139 10 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (124 bp):
CTTCAGCTTTAATCTATTCCACTGCAACACTCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
CTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCACTCCA
Found at i:19145133 original size:261 final size:261
Alignment explanation
Indices: 19144657--19145530 Score: 1153
Period size: 261 Copynumber: 3.3 Consensus size: 261
19144647 GACAATATTC
* * * *
19144657 GCTTTAATCTATTCCACTGCAACGCCAAAGAAACAATATTTGCTACCTTTAGCTTTAATCTATTC
1 GCTTTAATCTATTCCACTGCAACGCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTC
** * * * * * *
19144722 CACTGCAACGCCAGGGAAATAAGATTTGCTACCTTCAGTCTTAATGTCAGGGAAACAAGATTCGT
66 CACTGCAACGCCAGGGAAATAAGATTCACTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTGT
* * *
19144787 TGCCTTCAGCTTTAATCTACTCCGCTGCAACATCAGGGAAACAAGATTTGCTACCTTTACCTTTA
131 TGCCTTCTGCTTTAATCTACTCCACTGCAACATCAGGGAAATAAGATTTGCTACCTTTACCTTTA
* * * * *
19144852 ATCTATTCTAATGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTC
196 ATCTATTCCAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTC
19144917 A
261 A
* * *
19144918 GCTTTACTCTATTCCACTGCAACACTAGAGAAACAAGATTCGCTA-CTCTTAGCTTTAATCTGTT
1 GCTTTAATCTATTCCACTGCAACGCTAGAGAAACAAGATTCGCTACCT-TTAGCTTTAATCTATT
* *
19144982 CTACTGCAACGCCAGGGAAATAAGATTCATTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTG
65 CCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTG
* * * *
19145047 CTGCATTCTGCTTTAATCTACTCCACTGCAACATCAGGGAAATAAGATTCGCTACCTTTAGCTTT
130 TTGCCTTCTGCTTTAATCTACTCCACTGCAACATCAGGGAAATAAGATTTGCTACCTTTACCTTT
* * * **
19145112 AATCTATTCCACTGCAACGCCAAAGAGATAAGATTCACTGCCTTCAGTTTTAATTTGCTCCACTT
195 AATCTATTCCAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTT
19145177 CA
260 CA
* * * * *
19145179 GCTTTAATCTATTCCACTACAATGCCA-AGGAAACAAGATTCGCTA-ATCTTAGCTTTAATCTGT
1 GCTTTAATCTATTCCACTGCAACGCTAGA-GAAACAAGATTCGCTACCT-TTAGCTTTAATCTAT
* * * * * *
19145242 TCTACTGCGACGGCAGGGAAATAAGATTCGCTGCCTTCAGCCTTAACGCCAAGGAGATAAGATTT
64 TCCACTGCAACGCCAGGGAAATAAGATTCACTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTT
* * * * * *
19145307 GTTGCCTT-TAGCTTGAATCTGCTTCACTGCAACGTCAGGGAAATAAGATTTGCTACTTTTATCT
129 GTTGCCTTCT-GCTTTAATCTACTCCACTGCAACATCAGGGAAATAAGATTTGCTACCTTTACCT
* * * *
19145371 TTAATCTGTTCCAGTGCAACACCAAAGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCAC
193 TTAATCTATTCCAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCAC
19145436 TTCA
258 TTCA
* * * *
19145440 GCTCTAATCTATTCCACTGCAACGCTAGGGAAACAAGATTTGCTACCTTTAGCTTTAATCAATTC
1 GCTTTAATCTATTCCACTGCAACGCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTC
19145505 CACTGCAACGCCAGGGAAATAAGATT
66 CACTGCAACGCCAGGGAAATAAGATT
19145531 ATTGGCTTTA
Statistics
Matches: 533, Mismatches: 75, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
260 4 0.01
261 528 0.99
262 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (261 bp):
GCTTTAATCTATTCCACTGCAACGCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTC
CACTGCAACGCCAGGGAAATAAGATTCACTGCCTTCAGTCTTAACGCCAGGGAGATAAGATTTGT
TGCCTTCTGCTTTAATCTACTCCACTGCAACATCAGGGAAATAAGATTTGCTACCTTTACCTTTA
ATCTATTCCAATGCAACGCCAAAGAGATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTC
A
Found at i:19145143 original size:51 final size:51
Alignment explanation
Indices: 19145025--19145175 Score: 160
Period size: 51 Copynumber: 3.0 Consensus size: 51
19145015 CTTCAGTCTT
* *
19145025 AACGCCAGGGAGATAAGATTTGCTGCATTCT-GCTTTAATCTACTCCACTGC
1 AACGCCAGGGAGATAAGATTCGCTGCCTT-TAGCTTTAATCTACTCCACTGC
** * * *
19145076 AACATCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGC
1 AACGCCAGGGAGATAAGATTCGCTGCCTTTAGCTTTAATCTACTCCACTGC
** * * * * *
19145127 AACGCCAAAGAGATAAGATTCACTGCCTTCAGTTTTAATTTGCTCCACT
1 AACGCCAGGGAGATAAGATTCGCTGCCTTTAGCTTTAATCTACTCCACT
19145176 TCAGCTTTAA
Statistics
Matches: 80, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
50 1 0.01
51 79 0.99
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (51 bp):
AACGCCAGGGAGATAAGATTCGCTGCCTTTAGCTTTAATCTACTCCACTGC
Found at i:19145747 original size:24 final size:24
Alignment explanation
Indices: 19145709--19145757 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
19145699 GCCTTTACTA
* *
19145709 TAATCTTCAAGGTTCAATCCACTG
1 TAATCTTAAAAGTTCAATCCACTG
19145733 TAATCTTAAAAGTTCAATCCACTG
1 TAATCTTAAAAGTTCAATCCACTG
19145757 T
1 T
19145758 CATTTTGGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (24 bp):
TAATCTTAAAAGTTCAATCCACTG
Found at i:19160203 original size:17 final size:17
Alignment explanation
Indices: 19160181--19160233 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
19160171 TATTCTATTA
19160181 ATTTATTAAGATTTAAT
1 ATTTATTAAGATTTAAT
* *
19160198 ATTTATCAAGA-TAAAT
1 ATTTATTAAGATTTAAT
*
19160214 ATTAGATTAA-ATTTAAT
1 ATT-TATTAAGATTTAAT
19160231 ATT
1 ATT
19160234 AAAGTGATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (17 bp):
ATTTATTAAGATTTAAT
Found at i:19162445 original size:3 final size:3
Alignment explanation
Indices: 19162439--19162465 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
19162429 GTAGTAGTAG
19162439 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
19162466 CAGTATTAAA
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):
TAA
Found at i:19163318 original size:19 final size:19
Alignment explanation
Indices: 19163294--19163337 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19163284 TATTATTTTT
**
19163294 TTTGCTATCATTTGGTTTC
1 TTTGCTATCATTCAGTTTC
*
19163313 TTTGCTCTCATTCAGTTTC
1 TTTGCTATCATTCAGTTTC
19163332 TTTGCT
1 TTTGCT
19163338 GTTTGTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.20, G:0.14, T:0.57
Consensus pattern (19 bp):
TTTGCTATCATTCAGTTTC
Found at i:19163936 original size:50 final size:50
Alignment explanation
Indices: 19163855--19163952 Score: 133
Period size: 50 Copynumber: 2.0 Consensus size: 50
19163845 TCCACTTCAG
* * *
19163855 CTTTAATCTATTCCACTGCGATGCCAAGGAAATAATATTTGCTACCTTTA
1 CTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTTGCTACCTTTA
* * * *
19163905 CTTTAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTTGCTGCCTT
1 CTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTTGCTACCTT
19163953 CAGTCTTAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (50 bp):
CTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTTGCTACCTTTA
Found at i:19164205 original size:123 final size:123
Alignment explanation
Indices: 19163986--19164708 Score: 554
Period size: 123 Copynumber: 5.6 Consensus size: 123
19163976 GATTCGTTGC
* * **
19163986 CTTCAGCTTTAATCTACTCCGCTGCAACATCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* * * * * *
19164051 TATTCTAATGCAACGCCAAAGAGATAGGATTCGCTGCCTTTAGGTTTAATCCGCTCCG
66 TGTTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTTAGGTTTAATCCGCTCTG
* * *
19164109 CTTCAGCTTTAATTTATTCCATTGAAACGCCAGGGAAACAAGATTCGCTA-CTCTTAGCTTTAAT
1 CTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCT-TTAGCTTTAAT
* * * * *
19164173 CTGTTCTACTGCCACGCCAAGGAAATAAGATTCGCTGCCTTCA-GTCATAATACCAGAGAGATAA
65 CTGTTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTTAGGT-TTAAT-CC----------
* *
19164237 GATTTGTTG
118 G--CT-CTG
** * *
19164246 CCTTCAGCTTTAATCTGCTCCACTGCAACGTCAGGGAAACAAGATTCACTACCTTTAGCTTTAAT
1 -CTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* ** * * * * * *
19164311 CTGTTCCACTGTAAATCCAAAGAGATAATATTCGCAGCCTTTAGCTTTAATTCGCTCTA
65 CTGTTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTTAGGTTTAATCCGCTCTG
* * * *
19164370 CTTCATCTTTAATCTATTCCATTGCAATGCCAGGGAAACAAGATTCGCTACTTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
* * * ** * *
19164435 TGTTCTATTGCAATGCCAGGGAAATAAGATTTGCTG-CTTTCA-GTCTTAACGCCAGGGAGATAA
66 TGTTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTT-AGGT-TTAA-TCC----------
*
19164498 GATTTGCTG
118 G--CT-CTG
* * * ** *
19164507 CCTTTAGGTTTAATCTACTCCACTGCAACATCAGGGAAACAAGATTTGCTACCTTTAGCTTTAAT
1 -CTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* * * * * * * **
19164572 CTGTTCCACCGCAAGGCCAAAGAGATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCA
65 CTGTTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTTAGGTTTAATCCGCTCTG
*
19164631 CTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCACTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
*
19164696 AGTTCCACTGCAA
66 TGTTCCACTGCAA
19164709 TGCAAGGGAA
Statistics
Matches: 462, Mismatches: 100, Indels: 76
0.72 0.16 0.12
Matches are distributed among these distances:
122 9 0.02
123 250 0.54
124 5 0.01
125 2 0.00
127 2 0.00
134 2 0.00
136 2 0.00
137 5 0.01
138 178 0.39
139 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (123 bp):
CTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATC
TGTTCCACTGCAACGCCAAAGAAATAAGATTCGCTGCCTTTAGGTTTAATCCGCTCTG
Found at i:19164382 original size:261 final size:261
Alignment explanation
Indices: 19163844--19164723 Score: 1183
Period size: 261 Copynumber: 3.4 Consensus size: 261
19163834 TTTCAATCCA
* * * * * *
19163844 CTCCACTTCAGCTTTAATCTATTCCACTGCGATGCCAAGGAAATAATATTTGCTACCTTTA-CTT
1 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* * **
19163908 TAATCTGTTCCACTGCAACGTCAGGGAAATAAGATTTGCTGCCTTCAGTCTTAACGTTAGGGAGA
66 TAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGA
* *
19163973 TAAGATTCGTTGCCTTCAGCTTTAATCTACTCCGCTGCAACATCAGGGAAACAAGATTCGCTACC
131 TAAGATTTGTTGCCTTCAGCTTTAATCTACTCCACTGCAACATCAGGGAAACAAGATTCGCTACC
* * * * * * *
19164038 TTTAGCTTTAATCTATTCTAATGCAACGCCAAAGAGATAGGATTCGCTGCCTTTAGGTTTAATCC
196 TTTAGCTTTAATCTGTTCCACTGCAAAGCCAAAGAGATAAGATTCGCTGCCTTTAGCTTTAATTC
19164103 G
261 G
* * * *
19164104 CTCCGCTTCAGCTTTAATTTATTCCATTGAAACGCCAGGGAAACAAGATTCGCTA-CTCTTAGCT
1 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCT-TTAGCT
* * * * ** *
19164168 TTAATCTGTTCTACTGCCACGCCAAGGAAATAAGATTCGCTGCCTTCAGTCATAATACCAGAGAG
65 TTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAG
* * *
19164233 ATAAGATTTGTTGCCTTCAGCTTTAATCTGCTCCACTGCAACGTCAGGGAAACAAGATTCACTAC
130 ATAAGATTTGTTGCCTTCAGCTTTAATCTACTCCACTGCAACATCAGGGAAACAAGATTCGCTAC
* * * *
19164298 CTTTAGCTTTAATCTGTTCCACTGTAAATCCAAAGAGATAATATTCGCAGCCTTTAGCTTTAATT
195 CTTTAGCTTTAATCTGTTCCACTGCAAAGCCAAAGAGATAAGATTCGCTGCCTTTAGCTTTAATT
19164363 CG
260 CG
* * * * *
19164365 CTCTACTTCATCTTTAATCTATTCCATTGCAATGCCAGGGAAACAAGATTCGCTACTTTTAGCTT
1 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* * * * *
19164430 TAATCTGTTCTATTGCAATGCCAGGGAAATAAGATTTGCTGCTTTCAGTCTTAACGCCAGGGAGA
66 TAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGA
* * * *
19164495 TAAGATTTGCTGCCTTTAGGTTTAATCTACTCCACTGCAACATCAGGGAAACAAGATTTGCTACC
131 TAAGATTTGTTGCCTTCAGCTTTAATCTACTCCACTGCAACATCAGGGAAACAAGATTCGCTACC
* * * *
19164560 TTTAGCTTTAATCTGTTCCACCGCAAGGCCAAAGAGATAAGATTCGTTGCCTTCAGCTTTAA-TC
196 TTTAGCTTTAATCTGTTCCACTGCAAAGCCAAAGAGATAAGATTCGCTGCCTTTAGCTTTAATTC
19164624 TG
261 -G
*
19164626 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCACTACCTTTAGCTT
1 CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
* *
19164691 TAATCAGTTCCACTGCAATG-CAAGGGAAATAAG
66 TAATCTGTTCCACTGCAACGCCAA-GGAAATAAG
19164724 TTCATTGGAT
Statistics
Matches: 536, Mismatches: 79, Indels: 9
0.86 0.13 0.01
Matches are distributed among these distances:
259 2 0.00
260 52 0.10
261 481 0.90
262 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (261 bp):
CTCCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTT
TAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTTGCTGCCTTCAGTCTTAACGCCAGGGAGA
TAAGATTTGTTGCCTTCAGCTTTAATCTACTCCACTGCAACATCAGGGAAACAAGATTCGCTACC
TTTAGCTTTAATCTGTTCCACTGCAAAGCCAAAGAGATAAGATTCGCTGCCTTTAGCTTTAATTC
G
Found at i:19164445 original size:51 final size:51
Alignment explanation
Indices: 19164376--19164474 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
19164366 TCTACTTCAT
19164376 CTTTAATCTATTCCATTGCAATGCCAGGGAAACAAGATTCGCTACTTTTAG
1 CTTTAATCTATTCCATTGCAATGCCAGGGAAACAAGATTCGCTACTTTTAG
* * * * *
19164427 CTTTAATCTGTTCTATTGCAATGCCAGGGAAATAAGATTTGCTGCTTT
1 CTTTAATCTATTCCATTGCAATGCCAGGGAAACAAGATTCGCTACTTT
19164475 CAGTCTTAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (51 bp):
CTTTAATCTATTCCATTGCAATGCCAGGGAAACAAGATTCGCTACTTTTAG
Found at i:19164602 original size:51 final size:51
Alignment explanation
Indices: 19164491--19164631 Score: 147
Period size: 51 Copynumber: 2.8 Consensus size: 51
19164481 TAACGCCAGG
* * * * **
19164491 GAGATAAGATTTGCTGCCTTTAGGTTTAATCTACTCCACTGCAACATCAGG
1 GAGATAAGATTTGCTGCCTTTAGCTTTAATCTGCTCCACCGCAACACCAAA
* * * * **
19164542 GAAACAAGATTTGCTACCTTTAGCTTTAATCTGTTCCACCGCAAGGCCAAA
1 GAGATAAGATTTGCTGCCTTTAGCTTTAATCTGCTCCACCGCAACACCAAA
* * *
19164593 GAGATAAGATTCGTTGCCTTCAGCTTTAATCTGCTCCAC
1 GAGATAAGATTTGCTGCCTTTAGCTTTAATCTGCTCCAC
19164632 TTCAGCTTTA
Statistics
Matches: 71, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (51 bp):
GAGATAAGATTTGCTGCCTTTAGCTTTAATCTGCTCCACCGCAACACCAAA
Found at i:19164651 original size:21 final size:21
Alignment explanation
Indices: 19164610--19164653 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
19164600 GATTCGTTGC
*
19164610 CTTCAGCTTTAATCTGCTCCA
1 CTTCAGCTTTAATCTACTCCA
*
19164631 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCTACTCCA
19164652 CT
1 CT
19164654 GCAACGCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.07, T:0.41
Consensus pattern (21 bp):
CTTCAGCTTTAATCTACTCCA
Found at i:19164690 original size:72 final size:72
Alignment explanation
Indices: 19164563--19164704 Score: 167
Period size: 72 Copynumber: 2.0 Consensus size: 72
19164553 TGCTACCTTT
* * * * ** * *
19164563 AGCTTTAATCTGTTCCACCGCAAGGCCAAAGAGATAAGATTCGTTGCCTTCAGCTTTAATCTGCT
1 AGCTTTAATCTATTCCACCGCAACGCCAAAGAAACAAGATTCACTACCTTCAGCTTTAATCAGCT
19164628 CCACTTC
66 CCACTTC
* ** * *
19164635 AGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCACTACCTTTAGCTTTAATCAGTT
1 AGCTTTAATCTATTCCACCGCAACGCCAAAGAAACAAGATTCACTACCTTCAGCTTTAATCAGCT
19164700 CCACT
66 CCACT
19164705 GCAATGCAAG
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (72 bp):
AGCTTTAATCTATTCCACCGCAACGCCAAAGAAACAAGATTCACTACCTTCAGCTTTAATCAGCT
CCACTTC
Found at i:19165120 original size:24 final size:24
Alignment explanation
Indices: 19165087--19165196 Score: 186
Period size: 24 Copynumber: 4.6 Consensus size: 24
19165077 CTGATTGCCC
*
19165087 CCACTATAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
19165111 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
19165135 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
* *
19165159 CCACTGTAATCTTTAAAGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
19165183 CCACTGTAAT-TTCA
1 CCACTGTAATCTTCA
19165197 GGACATAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
23 3 0.04
24 79 0.96
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:19166201 original size:46 final size:46
Alignment explanation
Indices: 19166149--19166239 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 46
19166139 CTTTTTTATA
*
19166149 TTTTTTTATT-ACTCAAAGT-GCCCTTTGTGGGTTTTCACCTTGGTCG
1 TTTTTTT-TTAACT-AAAGTCGCCCTTTGCGGGTTTTCACCTTGGTCG
* *
19166195 TTTTTTTTTGAACTTAAGTCGCCCTTTGCGGGTTTTCACTTTGGT
1 TTTTTTTTT-AACTAAAGTCGCCCTTTGCGGGTTTTCACCTTGGT
19166240 TCCTTTCTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
45 2 0.05
46 11 0.28
47 26 0.67
ACGTcount: A:0.12, C:0.19, G:0.20, T:0.49
Consensus pattern (46 bp):
TTTTTTTTTAACTAAAGTCGCCCTTTGCGGGTTTTCACCTTGGTCG
Found at i:19178916 original size:17 final size:17
Alignment explanation
Indices: 19178894--19178946 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
19178884 TATTCTATTA
19178894 ATTTATTAAGATTTAAT
1 ATTTATTAAGATTTAAT
*
19178911 ATTTATTAAGA-TAAAT
1 ATTTATTAAGATTTAAT
*
19178927 ATTAGATTAA-ATTTAAT
1 ATT-TATTAAGATTTAAT
19178944 ATT
1 ATT
19178947 AAAGTGATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 8 0.26
17 23 0.74
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTATTAAGATTTAAT
Found at i:19181409 original size:43 final size:44
Alignment explanation
Indices: 19181347--19181444 Score: 153
Period size: 43 Copynumber: 2.2 Consensus size: 44
19181337 CAGTGTTTAT
**
19181347 ATGTAAGACCATAGTTGGGCTATTGGCATCGATTTGAGATTT-C
1 ATGTAAGACCATAGTTGGGCTATTGGCATCGATACGAGATTTCC
* *
19181390 GTGTAAGACCATAGTTGGGCTATTGGCATCGGTACGAGATTTCC
1 ATGTAAGACCATAGTTGGGCTATTGGCATCGATACGAGATTTCC
19181434 ATGTAAGACCA
1 ATGTAAGACCA
19181445 CGTCTCTGAC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 38 0.78
44 11 0.22
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (44 bp):
ATGTAAGACCATAGTTGGGCTATTGGCATCGATACGAGATTTCC
Found at i:19189072 original size:40 final size:40
Alignment explanation
Indices: 19188982--19189079 Score: 160
Period size: 40 Copynumber: 2.5 Consensus size: 40
19188972 AGGTTCTGTT
* *
19188982 TCTAGCAGGCATATTGTCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
19189022 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
1 TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
* *
19189062 TGTAGCAGGCTTAATGCC
1 TCTAGCAGGCTTATTGCC
19189080 GGTGTCCTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (40 bp):
TCTAGCAGGCTTATTGCCAGTGAAATTTTCAGACTTAATG
Done.