Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 16 of 106
Found at i:7272413 original size:2 final size:2
Alignment explanation
Indices: 7272406--7272436 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7272396 GAATTCATTA
*
7272406 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7272437 AACANATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7275948 original size:15 final size:17
Alignment explanation
Indices: 7275913--7275949 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
7275903 ATTGATGGTT
7275913 AATATTGCTGACATGGC
1 AATATTGCTGACATGGC
*
7275930 AATATTG-TGGCAT-GC
1 AATATTGCTGACATGGC
7275945 AATAT
1 AATAT
7275950 CAGCATAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 5 0.26
17 7 0.37
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (17 bp):
AATATTGCTGACATGGC
Found at i:7282976 original size:3 final size:3
Alignment explanation
Indices: 7282970--7283003 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
7282960 GCTGCTGCTG
7282970 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
7283004 CGCAGAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:7288552 original size:2 final size:2
Alignment explanation
Indices: 7288545--7288573 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7288535 TTATGTGGAC
7288545 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
7288574 CAAGTTCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:7291074 original size:61 final size:61
Alignment explanation
Indices: 7291000--7291116 Score: 225
Period size: 61 Copynumber: 1.9 Consensus size: 61
7290990 AAGAATCTGC
*
7291000 CACTCAGTGTTCTCAGCATCATTCCAAGAAGCAAATGTCGTACTCTTTTTCAATCAACTAT
1 CACTCAGTGTTCTCAGCATCATTCCAAGAAGCAAATGTCGTAATCTTTTTCAATCAACTAT
7291061 CACTCAGTGTTCTCAGCATCATTCCAAGAAGCAAATGTCGTAATCTTTTTCAATCA
1 CACTCAGTGTTCTCAGCATCATTCCAAGAAGCAAATGTCGTAATCTTTTTCAATCA
7291117 TCATTTACTC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (61 bp):
CACTCAGTGTTCTCAGCATCATTCCAAGAAGCAAATGTCGTAATCTTTTTCAATCAACTAT
Found at i:7295917 original size:19 final size:19
Alignment explanation
Indices: 7295877--7295918 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7295867 TATAAAGAGG
* *
7295877 TACATTGGATTTGAGAAGA
1 TACATTGGATATAAGAAGA
7295896 TACATTGGATATAATGAA-A
1 TACATTGGATATAA-GAAGA
7295915 TACA
1 TACA
7295919 ATAGATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (19 bp):
TACATTGGATATAAGAAGA
Found at i:7296663 original size:125 final size:125
Alignment explanation
Indices: 7296504--7296738 Score: 310
Period size: 125 Copynumber: 1.9 Consensus size: 125
7296494 ATAAATTTTT
* * * * *
7296504 AAATTTATGCATGGTTAGAAGAAGTAACAACTATAGTTTATTTTACAGAACATCATGGAATAGTC
1 AAATTTATACATGGTTAGAAGAAGAAACAACTATAATTTATTTTACAGAACACCATGAAATAGTC
* * * * *
7296569 ATGCCTCCATATGTGAATAATTAACTTGTTTGACATCAAGCTTTGCCTCATGAATTGCTA
66 ATACCTCCATATGTGAATAAATAACCTATCTGACATCAAGCTTTGCCTCATGAATTGCTA
* ** *
7296629 AAATTTATACATGGTTGGAAGAA-AAAGCAACTATAATTTATTTTTTAGAACGCCATGAAATAGT
1 AAATTTATACATGGTTAGAAGAAGAAA-CAACTATAATTTATTTTACAGAACACCATGAAATAGT
* *
7296693 CGTACCTCCATATGTGAATAAATAACCTATCTGAGATCAAGCTTTG
65 CATACCTCCATATGTGAATAAATAACCTATCTGACATCAAGCTTTG
7296739 TGTGGATTAA
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
124 2 0.02
125 91 0.98
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (125 bp):
AAATTTATACATGGTTAGAAGAAGAAACAACTATAATTTATTTTACAGAACACCATGAAATAGTC
ATACCTCCATATGTGAATAAATAACCTATCTGACATCAAGCTTTGCCTCATGAATTGCTA
Found at i:7301716 original size:24 final size:24
Alignment explanation
Indices: 7301650--7301716 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
7301640 TTATGTAAAT
* *
7301650 TATTTAATTAAAATTGTAATATAA
1 TATTTAATTAAAATTATATTATAA
* *
7301674 TA-TT-ATTAGTTAAGTATATTATAA
1 TATTTAATTA--AAATTATATTATAA
7301698 TATTTAATTAAAATTATAT
1 TATTTAATTAAAATTATAT
7301717 CAAGCTTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
22 4 0.12
23 2 0.06
24 21 0.64
25 2 0.06
26 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TATTTAATTAAAATTATATTATAA
Found at i:7301976 original size:21 final size:21
Alignment explanation
Indices: 7301946--7301989 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
7301936 TCTTAATCTT
7301946 AATATAATATAATCTAAATTTA
1 AATATAATATAATC-AAATTTA
7301968 AATAT-ATATAATCAAATTTA
1 AATATAATATAATCAAATTTA
7301988 AA
1 AA
7301990 AATTTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 9 0.41
21 8 0.36
22 5 0.23
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
AATATAATATAATCAAATTTA
Found at i:7301989 original size:26 final size:27
Alignment explanation
Indices: 7301947--7301998 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
7301937 CTTAATCTTA
7301947 ATATAATATAATCT-AAATTTAAATAT
1 ATATAATATAATCTAAAATTTAAATAT
*
7301973 ATATAATCA-AATTTAAAAATTTAAAT
1 ATATAAT-ATAATCT-AAAATTTAAAT
7301999 CAAATTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 11 0.50
27 1 0.05
28 10 0.45
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (27 bp):
ATATAATATAATCTAAAATTTAAATAT
Found at i:7302001 original size:19 final size:20
Alignment explanation
Indices: 7301952--7302004 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
7301942 TCTTAATATA
*
7301952 ATATAATCTAAATTTAAATAT
1 ATATAATC-AAATTTAAAAAT
7301973 ATATAATCAAATTTAAAAAT
1 ATATAATCAAATTTAAAAAT
*
7301993 TTA-AATCAAATT
1 ATATAATCAAATT
7302005 ACATTACGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.30
20 13 0.43
21 8 0.27
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATAATCAAATTTAAAAAT
Found at i:7308299 original size:80 final size:80
Alignment explanation
Indices: 7308166--7308326 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
7308156 TGTTGCCAGC
7308166 TCAGATAAGTGAGGAAGTGATCAAACTGCTTATGAGTACAAGAACTCTATTTCAGGAGTACAGAA
1 TCAGATAAGTGAGGAAGTGATCAAACTGCTTATGAGTACAAGAACTCTATTTCAGGAGTACAGAA
7308231 AAAGAATAAGTAAGG
66 AAAGAATAAGTAAGG
7308246 TCAGATAAGTGAGGAAGTGATCAAACTGCTTATGAGTACAAGAACTCTATTTCAGGAGTACAGAA
1 TCAGATAAGTGAGGAAGTGATCAAACTGCTTATGAGTACAAGAACTCTATTTCAGGAGTACAGAA
7308311 AAAGAATAAGTAAGG
66 AAAGAATAAGTAAGG
7308326 T
1 T
7308327 AAGGAAAAAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.23
Consensus pattern (80 bp):
TCAGATAAGTGAGGAAGTGATCAAACTGCTTATGAGTACAAGAACTCTATTTCAGGAGTACAGAA
AAAGAATAAGTAAGG
Found at i:7315529 original size:2 final size:2
Alignment explanation
Indices: 7315522--7315554 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7315512 CTATCATGTA
*
7315522 AT AT AT AT AC AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7315555 TTTATCCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7316399 original size:87 final size:89
Alignment explanation
Indices: 7316221--7316399 Score: 240
Period size: 87 Copynumber: 2.0 Consensus size: 89
7316211 AAACATCTTG
* * *
7316221 TTGAATTTTATCAAGCATCATTGAAATATAGAGAAAAAAATATCGAAACAAATTTTGTTCAAGAT
1 TTGAATTTTATCAAGCATCATTAAAAGATAGAGAAAAAAATATCGAAACAAATTTTGTTAAAGAT
* *
7316286 GATAGCCAAGTTGATATAATATAT
66 GATAGCCAAGTTGATATAACACAT
* *
7316310 TTGAACTTTT-TCAAGCATCGTTAAAAGATA-A-AAGAAAATATCGAAACAAATTTTGTTAAAGA
1 TTGAA-TTTTATCAAGCATCATTAAAAGATAGAGAAAAAAATATCGAAACAAATTTTGTTAAAGA
*
7316372 TGATAGCC-AGATTTATATAACACAT
65 TGATAGCCAAG-TTGATATAACACAT
7316397 TTG
1 TTG
7316400 GATGTTAATT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
86 2 0.03
87 51 0.64
88 1 0.01
89 22 0.28
90 4 0.05
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.32
Consensus pattern (89 bp):
TTGAATTTTATCAAGCATCATTAAAAGATAGAGAAAAAAATATCGAAACAAATTTTGTTAAAGAT
GATAGCCAAGTTGATATAACACAT
Found at i:7320261 original size:20 final size:22
Alignment explanation
Indices: 7320221--7320262 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7320211 CTCTAAATAA
*
7320221 TTTTTTTATAATTATTCTCTTT
1 TTTTTTTATAATTAGTCTCTTT
7320243 TTTTTTTATAATT-GT-TCTTT
1 TTTTTTTATAATTAGTCTCTTT
7320263 CAATTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 1 0.05
22 13 0.68
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTTTTATAATTAGTCTCTTT
Found at i:7331010 original size:20 final size:20
Alignment explanation
Indices: 7330981--7331021 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
7330971 ATTGTTACTA
7330981 TATTTATTTATTATTATTTT
1 TATTTATTTATTATTATTTT
*
7331001 TATTTTTTTATTATTATTTT
1 TATTTATTTATTATTATTTT
7331021 T
1 T
7331022 TTAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
TATTTATTTATTATTATTTT
Found at i:7331011 original size:14 final size:14
Alignment explanation
Indices: 7330983--7331024 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
7330973 TGTTACTATA
7330983 TTTATTTATTATTATT
1 TTTATTT-TT-TTATT
7330999 TTTATTTTTTTATT
1 TTTATTTTTTTATT
*
7331013 ATTATTTTTTTA
1 TTTATTTTTTTA
7331025 AAAAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 16 0.64
15 2 0.08
16 7 0.28
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTTTTATT
Found at i:7331074 original size:2 final size:2
Alignment explanation
Indices: 7331067--7331155 Score: 91
Period size: 2 Copynumber: 47.5 Consensus size: 2
7331057 ATTTACTTAT
* *
7331067 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TN T- TC T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
7331107 T- TG TA TA TT TA T- TA TG TA TA TA TA -A TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7331145 TA TA TA TA TA T
1 TA TA TA TA TA T
7331156 CTTCTAAACT
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
1 6 0.08
2 69 0.92
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (2 bp):
TA
Found at i:7331137 original size:11 final size:13
Alignment explanation
Indices: 7331064--7331155 Score: 98
Period size: 13 Copynumber: 7.1 Consensus size: 13
7331054 TTTATTTACT
7331064 TATTATATATATA
1 TATTATATATATA
7331077 TA-TATATATATA
1 TATTATATATATA
*
7331089 TA-TATATATATNT
1 TATTATATATAT-A
* * *
7331102 TCTTATTGTATATT
1 TATTA-TATATATA
*
7331116 TATTATGTATATA
1 TATTATATATATA
*
7331129 TAATATATATATA
1 TATTATATATATA
7331142 TATTATATATATA
1 TATTATATATATA
7331155 T
1 T
7331156 CTTCTAAACT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
12 21 0.31
13 34 0.50
14 7 0.10
15 6 0.09
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.54
Consensus pattern (13 bp):
TATTATATATATA
Found at i:7332274 original size:20 final size:19
Alignment explanation
Indices: 7332251--7332297 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
7332241 TTTGGTTATT
**
7332251 TTATATTTTATTTTATTTTA
1 TTATATTTTAAGTT-TTTTA
*
7332271 TTATAATTTAAGTTTTTTA
1 TTATATTTTAAGTTTTTTA
7332290 TT-TATTTT
1 TTATATTTT
7332298 TTTAGGTGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 5 0.22
19 7 0.30
20 11 0.48
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATATTTTAAGTTTTTTA
Found at i:7333093 original size:17 final size:17
Alignment explanation
Indices: 7333067--7333103 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7333057 ATTGAAACAT
7333067 TAATTATCTTTTAATTA
1 TAATTATCTTTTAATTA
* *
7333084 TAATTGTCTTTTATTTA
1 TAATTATCTTTTAATTA
7333101 TAA
1 TAA
7333104 ATAGTAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (17 bp):
TAATTATCTTTTAATTA
Found at i:7346349 original size:3 final size:3
Alignment explanation
Indices: 7346341--7346370 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7346331 CAAAAAATGA
7346341 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7346371 CATCATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7347116 original size:21 final size:21
Alignment explanation
Indices: 7347091--7347133 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7347081 CTTCGAATTT
* *
7347091 CACCATTAGTACTCGTCTTCA
1 CACCAATAGTACTCATCTTCA
*
7347112 CACCAATATTACTCATCTTCA
1 CACCAATAGTACTCATCTTCA
7347133 C
1 C
7347134 CATGGACCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.35, G:0.05, T:0.33
Consensus pattern (21 bp):
CACCAATAGTACTCATCTTCA
Found at i:7349572 original size:2 final size:2
Alignment explanation
Indices: 7349565--7349607 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7349555 ATTAATTAAT
7349565 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7349607 T
1 T
7349608 TTGTCTATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7355115 original size:19 final size:17
Alignment explanation
Indices: 7355092--7355157 Score: 73
Period size: 16 Copynumber: 3.8 Consensus size: 17
7355082 TGTAGACACT
7355092 TAAATAAAAAAAATTAAA
1 TAAATAAAAAAAA-TAAA
*
7355110 TTAAATTAAATAAAATAAA
1 -TAAA-TAAAAAAAATAAA
*
7355129 TAAA-AAAAATAAT-AA
1 TAAATAAAAAAAATAAA
7355144 TAAATAAAAAAAAT
1 TAAATAAAAAAAAT
7355158 TTTAAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 6 0.15
16 15 0.37
18 4 0.10
19 8 0.20
20 8 0.20
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAATAAAAAAAATAAA
Found at i:7355148 original size:33 final size:32
Alignment explanation
Indices: 7355092--7355157 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
7355082 TGTAGACACT
* *
7355092 TAAATAAAAAAAATTAAATTAAATTAAATAAAA
1 TAAATAAAAAAAATTAAAATAAA-TAAAAAAAA
7355125 TAAATAAAAAAAA-TAATAATAAATAAAAAAAA
1 TAAATAAAAAAAATTAA-AATAAATAAAAAAAA
7355157 T
1 T
7355158 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 12 0.40
33 18 0.60
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (32 bp):
TAAATAAAAAAAATTAAAATAAATAAAAAAAA
Found at i:7355157 original size:9 final size:9
Alignment explanation
Indices: 7355117--7355157 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
7355107 AAATTAAATT
*
7355117 AAATAAAAT
1 AAATAAAAA
7355126 AAATAAAAA
1 AAATAAAAA
*
7355135 AAATAATAAT
1 AAATAA-AAA
7355145 AAATAAAAA
1 AAATAAAAA
7355154 AAAT
1 AAAT
7355158 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAA
Found at i:7361197 original size:96 final size:98
Alignment explanation
Indices: 7361010--7361214 Score: 283
Period size: 96 Copynumber: 2.1 Consensus size: 98
7361000 AAAGGTCAAA
* * * * *
7361010 ATGACTTGGTCTTGAGCTTCGTATTTTGCTTCAAGGGTCTTGAACTTCCTTTTCTTCGAGGGTCT
1 ATGACTTGATCTTAAACTTCGTATTTTGCATCAAGGGTCTTGAACTTCC--TTCTTCAAGGGTCT
*
7361075 TATGACTTGAGCTTGTACTTGGCTTCAGGGGGT-TT
64 TATGACTTGAGCTTGTACTTGGCTTCA-GAGGTCTT
*
7361110 ATGACTTGATCTTAAACTTCTTATTTTGCATCAAGGGTCTTGAACTTCGC-T-TT-AAGGGTCTT
1 ATGACTTGATCTTAAACTTCGTATTTTGCATCAAGGGTCTTGAACTTC-CTTCTTCAAGGGTCTT
7361172 ATGACTTGAGCTTGTACTTGGCTTCAGAGGTCTT
65 ATGACTTGAGCTTGTACTTGGCTTCAGAGGTCTT
7361206 ATGACTTGA
1 ATGACTTGA
7361215 GCTTTTACTC
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
95 4 0.04
96 45 0.47
97 2 0.02
98 1 0.01
100 43 0.45
101 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (98 bp):
ATGACTTGATCTTAAACTTCGTATTTTGCATCAAGGGTCTTGAACTTCCTTCTTCAAGGGTCTTA
TGACTTGAGCTTGTACTTGGCTTCAGAGGTCTT
Found at i:7361209 original size:34 final size:32
Alignment explanation
Indices: 7361148--7361698 Score: 338
Period size: 34 Copynumber: 16.3 Consensus size: 32
7361138 CATCAAGGGT
*
7361148 CTTGAACTTCGCTTTAAGGGTCTTATGACTTGAG
1 CTTGAAC-TCGCTTCAA-GGTCTTATGACTTGAG
* *
7361182 CTTGTACTTGGCTTCAGAGGTCTTATGACTTGAG
1 CTTGAAC-TCGCTTCA-AGGTCTTATGACTTGAG
** *
7361216 CTTTTACTCAGCTTCAAGGGTCTTATGACTTAAG
1 CTTGAACTC-GCTTCAA-GGTCTTATGACTTGAG
* * *
7361250 TTTGAACTCTGCTTCAAAGATTTTATGACTTG-G
1 CTTGAACTC-GCTTC-AAGGTCTTATGACTTGAG
* * * *
7361283 TTTTGAACTTCGCTTCAAGGGTCTTAAGATTTGAC
1 -CTTGAAC-TCGCTTCAA-GGTCTTATGACTTGAG
* *
7361318 CTTGAACTCAGTTTCGAGGATCTTATGACTTGAG
1 CTTGAACTC-GCTTCAAGG-TCTTATGACTTGAG
* * *
7361352 CTTGAACTCTGCTTCAACGATCTTATGAGTTTAG
1 CTTGAACTC-GCTTCAA-GGTCTTATGACTTGAG
* *
7361386 CTTGTACTCAGCTTCAAGGGTTTTATGACTTG-G
1 CTTGAACTC-GCTTCAA-GGTCTTATGACTTGAG
**
7361419 TCTTGAACTCTGCTTCAAGAACTTATGACTTG-G
1 -CTTGAACTC-GCTTCAAGGTCTTATGACTTGAG
* * *
7361452 TCTTAAACTCCACTTCAAGGGCCTTATGACTTGAG
1 -CTTGAACT-CGCTTCAA-GGTCTTATGACTTGAG
* *
7361487 CTTGAACTCCGCTTCAAGGATCTTATGTCTTAAG
1 CTTGAACT-CGCTTCAAGG-TCTTATGACTTGAG
* * * * *
7361521 CTTGTACTCGGCTTGAGGGGTCTTGTTACTTGAG
1 CTTGAACTC-GCTTCA-AGGTCTTATGACTTGAG
* * * *
7361555 CTTGTACTTTGTTTTAAGGTCTTATGACTTGAG
1 CTTGAAC-TCGCTTCAAGGTCTTATGACTTGAG
* * *
7361588 CTTGTACTCAGTTTCAAGGATCTTATAACTT-AG
1 CTTGAACTC-GCTTCAAGG-TCTTATGACTTGAG
* * *
7361621 TCTTGAACTCTACTTTGAGGGTCTTATGACTTG-G
1 -CTTGAACTC-GC-TTCAAGGTCTTATGACTTGAG
* * * *
7361655 TCTTGAATTTCTCTTCAAAGGTCTTATGACTTAAT
1 -CTTGAA-CTCGCTTC-AAGGTCTTATGACTTGAG
7361690 CTTGAACTC
1 CTTGAACTC
7361699 TAATTTAAGG
Statistics
Matches: 409, Mismatches: 81, Indels: 55
0.75 0.15 0.10
Matches are distributed among these distances:
32 1 0.00
33 74 0.18
34 317 0.78
35 17 0.04
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (32 bp):
CTTGAACTCGCTTCAAGGTCTTATGACTTGAG
Found at i:7361276 original size:68 final size:68
Alignment explanation
Indices: 7361148--7361699 Score: 390
Period size: 68 Copynumber: 8.1 Consensus size: 68
7361138 CATCAAGGGT
* * * * **
7361148 CTTGAACT-TCGCTTTAAGGGTCTTATGACTTGAGCTTGTACTTGGCTTC-AGAGGTCTTATGAC
1 CTTGAACTCT-GCTTCAAGGATCTTATGACTTAAGCTTGAACTCAGCTTCAAG-GGTCTTATGAC
7361211 TTGAG
64 TTGAG
** * * * * * * *
7361216 CTTTTACTCAGCTTCAAGGGTCTTATGACTTAAGTTTGAACTCTGCTTCAAAGATTTTATGACTT
1 CTTGAACTCTGCTTCAAGGATCTTATGACTTAAGCTTGAACTCAGCTTCAAGGGTCTTATGACTT
7361281 G-G
66 GAG
* * * * * * * * *
7361283 TTTTGAACT-TCGCTTCAAGGGTCTTAAGATTTGACCTTGAACTCAGTTTCGAGGATCTTATGAC
1 -CTTGAACTCT-GCTTCAAGGATCTTATGACTTAAGCTTGAACTCAGCTTCAAGGGTCTTATGAC
7361347 TTGAG
64 TTGAG
* * * * *
7361352 CTTGAACTCTGCTTCAACGATCTTATGAGTTTAGCTTGTACTCAGCTTCAAGGGTTTTATGACTT
1 CTTGAACTCTGCTTCAAGGATCTTATGACTTAAGCTTGAACTCAGCTTCAAGGGTCTTATGACTT
7361417 G-G
66 GAG
* * * *
7361419 TCTTGAACTCTGCTTCAA-GAACTTATGACTT-GGTCTTAAACTCCA-CTTCAAGGGCCTTATGA
1 -CTTGAACTCTGCTTCAAGGATCTTATGACTTAAG-CTTGAACT-CAGCTTCAAGGGTCTTATGA
7361481 CTTGAG
63 CTTGAG
* * * * * * * *
7361487 CTTGAACTCCGCTTCAAGGATCTTATGTCTTAAGCTTGTACTCGGCTTGAGGGGTCTTGTTACTT
1 CTTGAACTCTGCTTCAAGGATCTTATGACTTAAGCTTGAACTCAGCTTCAAGGGTCTTATGACTT
7361552 GAG
66 GAG
* * * * * * * * *
7361555 CTTGTACTTTGTTTTAAGG-TCTTATGACTTGAGCTTGTACTCAGTTTCAAGGATCTTATAACTT
1 CTTGAACTCTGCTTCAAGGATCTTATGACTTAAGCTTGAACTCAGCTTCAAGGGTCTTATGACTT
7361619 -AG
66 GAG
* ** * * * * *
7361621 TCTTGAACTCTACTTTGAGGGTCTTATGACTT-GGTCTTGAATTTC-TCTTCAAAGGTCTTATGA
1 -CTTGAACTCTGCTTCAAGGATCTTATGACTTAAG-CTTGAA-CTCAGCTTCAAGGGTCTTATGA
* *
7361684 CTTAAT
63 CTTGAG
7361690 CTTGAACTCT
1 CTTGAACTCT
7361700 AATTTAAGGG
Statistics
Matches: 381, Mismatches: 85, Indels: 36
0.76 0.17 0.07
Matches are distributed among these distances:
66 3 0.01
67 106 0.28
68 265 0.70
69 7 0.02
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (68 bp):
CTTGAACTCTGCTTCAAGGATCTTATGACTTAAGCTTGAACTCAGCTTCAAGGGTCTTATGACTT
GAG
Found at i:7361604 original size:135 final size:136
Alignment explanation
Indices: 7361145--7361652 Score: 483
Period size: 135 Copynumber: 3.8 Consensus size: 136
7361135 TTGCATCAAG
* * * **
7361145 GGTCTTGAACTTCGCTTTAAGGGTCTTATGACTTGAGCTTGTACTTGGCTTCAGAGG-TCTTATG
1 GGTCTTGAACTTTGCTTCAAGGGTCTTATGACTTGAGCTTGAACTCAGCTTCA-AGGATCTTATG
** * * * * * *
7361209 ACTTGAGCTTTTACTCAGCTTCAAGGGTCTTATGACTTAAGTTTGAACTCTGCTTCAAAGATTTT
65 ACTTGAGCTTGAACTCAGCTTCAAGGATCTTATGACTTAAGCTTGTACTCAGCTTCAAGGGTTTT
7361274 ATGACTT
130 ATGACTT
* * * * * * *
7361281 GGTTTTGAACTTCGCTTCAAGGGTCTTAAGATTTGACCTTGAACTCAGTTTCGAGGATCTTATGA
1 GGTCTTGAACTTTGCTTCAAGGGTCTTATGACTTGAGCTTGAACTCAGCTTCAAGGATCTTATGA
* * * *
7361346 CTTGAGCTTGAACTCTGCTTCAACGATCTTATGAGTTTAGCTTGTACTCAGCTTCAAGGGTTTTA
66 CTTGAGCTTGAACTCAGCTTCAAGGATCTTATGACTTAAGCTTGTACTCAGCTTCAAGGGTTTTA
7361411 TGACTT
131 TGACTT
* ** * **
7361417 GGTCTTGAACTCTGCTTCAA-GAACTTATGACTTG-GTCTTAAACTCCA-CTTCAAGGGCCTTAT
1 GGTCTTGAACTTTGCTTCAAGGGTCTTATGACTTGAG-CTTGAACT-CAGCTTCAAGGATCTTAT
* * * * * *
7361479 GACTTGAGCTTGAACTCCGCTTCAAGGATCTTATGTCTTAAGCTTGTACTCGGCTTGAGGGGTCT
64 GACTTGAGCTTGAACTCAGCTTCAAGGATCTTATGACTTAAGCTTGTACTCAGCTTCAAGGGTTT
* *
7361544 TGTTACTT
129 TATGACTT
* * * * * *
7361552 GAG-CTTGTACTTTGTTTTAA-GGTCTTATGACTTGAGCTTGTACTCAGTTTCAAGGATCTTATA
1 G-GTCTTGAACTTTGCTTCAAGGGTCTTATGACTTGAGCTTGAACTCAGCTTCAAGGATCTTATG
** *
7361615 ACTT-AGTCTTGAACTCTA-CTTTGAGGGTCTTATGACTT
65 ACTTGAG-CTTGAACTC-AGCTTCAAGGATCTTATGACTT
7361653 GGTCTTGAAT
Statistics
Matches: 301, Mismatches: 63, Indels: 17
0.79 0.17 0.04
Matches are distributed among these distances:
134 4 0.01
135 166 0.55
136 131 0.44
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (136 bp):
GGTCTTGAACTTTGCTTCAAGGGTCTTATGACTTGAGCTTGAACTCAGCTTCAAGGATCTTATGA
CTTGAGCTTGAACTCAGCTTCAAGGATCTTATGACTTAAGCTTGTACTCAGCTTCAAGGGTTTTA
TGACTT
Found at i:7361811 original size:34 final size:34
Alignment explanation
Indices: 7361773--7361958 Score: 140
Period size: 34 Copynumber: 5.2 Consensus size: 34
7361763 AATTCAAAAA
* * *
7361773 TCTTATGAAATGATCTTGAACTTCAATTCAGGGG
1 TCTTATGAATTGATCTTGAACTCCAATTCAAGGG
* * ** *
7361807 TCTTATGAATTGGTTTTGAACTCCGCTTCAAAGG
1 TCTTATGAATTGATCTTGAACTCCAATTCAAGGG
* * *
7361841 TCTTATGACTTGTTCTTGAAC-CCAACTTAAAGGG
1 TCTTATGAATTGATCTTGAACTCCAA-TTCAAGGG
* * *
7361875 TTTTATGACTTGATCTTGAACTCCGATTCAAGGGTATCAAGG
1 TCTTATGAATTGATCTTGAACTCCAATTCAA--G------GG
* *
7361917 TCTTATGACTTGATCTTGAACTTCAATTCAAGGG
1 TCTTATGAATTGATCTTGAACTCCAATTCAAGGG
7361951 TCTTATGA
1 TCTTATGA
7361959 CTTAGTCTTG
Statistics
Matches: 120, Mismatches: 22, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
33 2 0.02
34 83 0.69
35 3 0.03
36 1 0.01
40 1 0.01
42 30 0.25
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (34 bp):
TCTTATGAATTGATCTTGAACTCCAATTCAAGGG
Found at i:7361846 original size:68 final size:70
Alignment explanation
Indices: 7361773--7361958 Score: 189
Period size: 68 Copynumber: 2.6 Consensus size: 70
7361763 AATTCAAAAA
** * * * *
7361773 TCTTATGAAATGATCTTGAACTTCAATTCAGGGGTCTTATGAATTGGTTTTGAACTCCGCTTC-A
1 TCTTATGACTTGATCTTGAACTTCAATTCAAGGGTCTTATGAATTGATCTTGAACTCCGATTCGA
7361837 -AAGG
66 CAAGG
* * * * *
7361841 TCTTATGACTTGTTCTTGAAC-CCAACTTAAAGGGTTTTATGACTTGATCTTGAACTCCGATTCA
1 TCTTATGACTTGATCTTGAACTTCAA-TTCAAGGGTCTTATGAATTGATCTTGAACTCCGATTC-
7361905 AGGGTATCAAGG
64 ---G-A-CAAGG
7361917 TCTTATGACTTGATCTTGAACTTCAATTCAAGGGTCTTATGA
1 TCTTATGACTTGATCTTGAACTTCAATTCAAGGGTCTTATGA
7361959 CTTAGTCTTG
Statistics
Matches: 93, Mismatches: 15, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
67 3 0.03
68 48 0.52
74 1 0.01
76 38 0.41
77 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (70 bp):
TCTTATGACTTGATCTTGAACTTCAATTCAAGGGTCTTATGAATTGATCTTGAACTCCGATTCGA
CAAGG
Found at i:7362511 original size:17 final size:17
Alignment explanation
Indices: 7362486--7362531 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
7362476 CTTCAGAATC
* *
7362486 TTCTTTTTTCTCCCTTA
1 TTCTCTTTTCTCCATTA
* *
7362503 TTCTCTTTTCTCTATTG
1 TTCTCTTTTCTCCATTA
7362520 TTCTCTTTTCTC
1 TTCTCTTTTCTC
7362532 TATTGTTCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.04, C:0.28, G:0.02, T:0.65
Consensus pattern (17 bp):
TTCTCTTTTCTCCATTA
Found at i:7362532 original size:17 final size:17
Alignment explanation
Indices: 7362503--7362539 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
7362493 TTCTCCCTTA
7362503 TTCTCTTTTCTCTATTG
1 TTCTCTTTTCTCTATTG
7362520 TTCTCTTTTCTCTATTG
1 TTCTCTTTTCTCTATTG
7362537 TTC
1 TTC
7362540 ATCAAATGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.05, C:0.24, G:0.05, T:0.65
Consensus pattern (17 bp):
TTCTCTTTTCTCTATTG
Found at i:7362920 original size:79 final size:79
Alignment explanation
Indices: 7362778--7362935 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
7362768 ATTTTATCAA
* * ** *
7362778 TAAATTATCTTGATTTATGTAGAGACAAATTGGATGACCAATAGGTAAATTTTAATTGGTCAAAG
1 TAAATTATCTTGATTTATGTAAAGACAAATTAGATGACCAATAGGTAAATTTTAATTCATCAAAA
*
7362843 TTAAATATTATCTC
66 TTAAATATAATCTC
* * * * *
7362857 TAAATTATTTTGATTTATTTAAAGATAAATTAGATGACCAATAGGTGAATTTTTATTCATCAAAA
1 TAAATTATCTTGATTTATGTAAAGACAAATTAGATGACCAATAGGTAAATTTTAATTCATCAAAA
*
7362922 TTAGATATAATCTC
66 TTAAATATAATCTC
7362936 AAGGGATAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (79 bp):
TAAATTATCTTGATTTATGTAAAGACAAATTAGATGACCAATAGGTAAATTTTAATTCATCAAAA
TTAAATATAATCTC
Found at i:7363463 original size:31 final size:31
Alignment explanation
Indices: 7363428--7363492 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
7363418 TGGAATAGAG
7363428 TAGAATTGTTATTATAACTCATTCTGAAGTT
1 TAGAATTGTTATTATAACTCATTCTGAAGTT
*
7363459 TAGAATTGTTATTATAACTCATTCTGATGTT
1 TAGAATTGTTATTATAACTCATTCTGAAGTT
7363490 TAG
1 TAG
7363493 TAGGTAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TAGAATTGTTATTATAACTCATTCTGAAGTT
Found at i:7363865 original size:117 final size:118
Alignment explanation
Indices: 7363647--7363866 Score: 286
Period size: 117 Copynumber: 1.8 Consensus size: 118
7363637 ATTTTTCCTA
* * *
7363647 TTTTAATCTTTTAATTTTTATTTTCATTAAAATTTTAAAATATTTATAATATATTATCAAATTAT
1 TTTTAATCTTTTAATTTCTATTTTCATTAAAA-TTTAAAACATTAATAATATATTATCAAATTAT
*
7363712 TAATATGATTTTTTATTTCAATTTATTTTTATTTTTTCTCTATTTTTATTTTCAT
65 TAATATGATTTTTTATTTC-ATTTATTTTCATTTTTTCTCTATTTTTATTTTCAT
* *
7363767 TTTTAATCTTTTAATTTCTA-TTTCATTAAAA-TTCAAACATTAATAATTTATTAAT-AAATTAT
1 TTTTAATCTTTTAATTTCTATTTTCATTAAAATTTAAAACATTAATAATATATT-ATCAAATTAT
* *
7363829 TAATATATATTTTTTACTTTTC-TTTGTTTTCATTTTTT
65 TAATAT-GATTTTTTA--TTTCATTTATTTTCATTTTTT
7363867 ATTTGTAAGG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
117 30 0.34
118 24 0.27
119 11 0.12
120 23 0.26
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (118 bp):
TTTTAATCTTTTAATTTCTATTTTCATTAAAATTTAAAACATTAATAATATATTATCAAATTATT
AATATGATTTTTTATTTCATTTATTTTCATTTTTTCTCTATTTTTATTTTCAT
Found at i:7370652 original size:26 final size:27
Alignment explanation
Indices: 7370609--7370659 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
7370599 AAAGCCAAAC
*
7370609 ATCAAAACATCAAACATCGATATCATT
1 ATCAAAACATCAAACATCAATATCATT
* *
7370636 ATCAAATC-TCAATCATCAATATCA
1 ATCAAAACATCAAACATCAATATCA
7370660 GTTTACTGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (27 bp):
ATCAAAACATCAAACATCAATATCATT
Found at i:7372525 original size:39 final size:39
Alignment explanation
Indices: 7372464--7372570 Score: 115
Period size: 39 Copynumber: 2.7 Consensus size: 39
7372454 ACATTTTTTG
* * * * * *
7372464 GGCAATAATCAAGGCCGACTTTAGGTAGACTCATTGTCT
1 GGCAATAATCAAGGTCGGCTTTAGGTAAACCCACTATCT
*
7372503 GGCAATAATCAAGGTCGGCTTTACGTAAACCCACTATCT
1 GGCAATAATCAAGGTCGGCTTTAGGTAAACCCACTATCT
* * * *
7372542 AGTAATAATCATGGTTGGCTTTAGGTAAA
1 GGCAATAATCAAGGTCGGCTTTAGGTAAA
7372571 GCCATTAAAG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (39 bp):
GGCAATAATCAAGGTCGGCTTTAGGTAAACCCACTATCT
Found at i:7374287 original size:21 final size:20
Alignment explanation
Indices: 7374261--7374300 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7374251 AATCTTATTT
*
7374261 AAAACCTGAAAATAAATAAAG
1 AAAACCGGAAAA-AAATAAAG
*
7374282 AAAACCGGAGAAAAATAAA
1 AAAACCGGAAAAAAATAAA
7374301 CTATCGACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.68, C:0.10, G:0.12, T:0.10
Consensus pattern (20 bp):
AAAACCGGAAAAAAATAAAG
Found at i:7375492 original size:22 final size:22
Alignment explanation
Indices: 7375464--7375521 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
7375454 TTCTCTGATC
7375464 TAACGGATTCAGATAAGGACTT
1 TAACGGATTCAGATAAGGACTT
7375486 TAACGGATTCAGATAAGGACTT
1 TAACGGATTCAGATAAGGACTT
*
7375508 CAACGGATTCAGAT
1 TAACGGATTCAGAT
7375522 CACATAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (22 bp):
TAACGGATTCAGATAAGGACTT
Found at i:7377420 original size:2 final size:2
Alignment explanation
Indices: 7377413--7377452 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7377403 TTAGAATCAA
7377413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7377453 GTTAGATTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7390850 original size:16 final size:16
Alignment explanation
Indices: 7390811--7390857 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
7390801 AAAACTTTTT
*
7390811 AAACTCAAAATAATTA
1 AAACTTAAAATAATTA
* * *
7390827 AAATTTAAAGTAATTC
1 AAACTTAAAATAATTA
7390843 AAACTTAAAATAATT
1 AAACTTAAAATAATT
7390858 TCAATCCAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (16 bp):
AAACTTAAAATAATTA
Found at i:7393461 original size:216 final size:216
Alignment explanation
Indices: 7392540--7393492 Score: 1222
Period size: 216 Copynumber: 4.4 Consensus size: 216
7392530 TTGCAAAAGT
* * * * * *
7392540 AGAAAATAGTAGTG-TCCCTGAGGGAATTGGTGAGAGTATTAG-TAAAACTGAGGGTACTACTTT
1 AGAAAATAGTGGTGCT-TCTGAGGGAAATGGTGAGAATGTT-GTTAAAATTGAGGGTACTACTTT
* * * * *
7392603 GAATACGGTGTCAAACATGGATGTAGTTCCTGTTGTAGAAAAGGTTTCT-CTCCCATTGGCAGCA
64 GAATATGGTGTCAAAGATGGATTTAGTTCCTGATGTAGAAAAGGTTTCTCCT-CCATTGGCAGCT
*
7392667 TCTGCTGTTGAAAGTGAAATTACTACTCAATTAGCTCCTTCAGAGTCC-GATTCTAAAATTGAAG
128 TCTGCTGTTGAAAGTGAAATTACTACTCAATTAGCTTCTTCAGAGTCCAG-TTCTAAAATTGAAG
*
7392731 TGCCTCATGGTGTTAAGTTCCAGGA
192 TGCCCCATGGTGTTAAGTTCCAGGA
* * * * * *
7392756 AGAAAATACTGATGCTTTTGAGGAAAATGGTGAGAATGTTGTTAAAATTGAGGGCACTACCTTGA
1 AGAAAATAGTGGTGCTTCTGAGGGAAATGGTGAGAATGTTGTTAAAATTGAGGGTACTACTTTGA
* * **
7392821 ATATGGTGTCGAAGATGGATTTAGCTCCTGATGTAGAAAAGGTTTCTCCTCCAAGGGCAGCTTCT
66 ATATGGTGTCAAAGATGGATTTAGTTCCTGATGTAGAAAAGGTTTCTCCTCCATTGGCAGCTTCT
** *
7392886 GCTGTTGAAAGTGAAATTACTACTCAATTATATTCTTCAGAGTCCAGTTCTAAAATTGAAGTTCC
131 GCTGTTGAAAGTGAAATTACTACTCAATTAGCTTCTTCAGAGTCCAGTTCTAAAATTGAAGTGCC
*
7392951 CCATGGTATTAAGTTCCAGGA
196 CCATGGTGTTAAGTTCCAGGA
** * *
7392972 AGAAAATAGTGGTGCTTCTGAGGGAAATGGTGAGAATGTTAATAAAATCGAGGGCACTACTTTGA
1 AGAAAATAGTGGTGCTTCTGAGGGAAATGGTGAGAATGTTGTTAAAATTGAGGGTACTACTTTGA
* *
7393037 ATATGGTGTCAAAGATGGATCTAGTTCCTGATGTAGAAAATGTTTCTCCTCCATTGGCAGCTTCT
66 ATATGGTGTCAAAGATGGATTTAGTTCCTGATGTAGAAAAGGTTTCTCCTCCATTGGCAGCTTCT
*
7393102 GCTGTTGAAAGTGAAATTACTACTCAATTAGCTTCTTCAGAGTCCAGTTCTACAATTGAAGTGCC
131 GCTGTTGAAAGTGAAATTACTACTCAATTAGCTTCTTCAGAGTCCAGTTCTAAAATTGAAGTGCC
* * *
7393167 CCATGGTCTTAAGTCCCATGA
196 CCATGGTGTTAAGTTCCAGGA
* * *
7393188 AGAAAATAGTGGTGCTTCTGAGGGAAATGGTGAGAATGTTGGTAAATTTGAGGGTACTTCTTTGA
1 AGAAAATAGTGGTGCTTCTGAGGGAAATGGTGAGAATGTTGTTAAAATTGAGGGTACTACTTTGA
*
7393253 ATATGGTGTCAAAGATGGATTTAGTTCCTGACGTAGAAAAGGTTTCTCCTCCATTGGCAGCTTCT
66 ATATGGTGTCAAAGATGGATTTAGTTCCTGATGTAGAAAAGGTTTCTCCTCCATTGGCAGCTTCT
* * ** * *
7393318 GCTGTCGAAAGTGCAATTAC-ATCTCAATTAGCTTCTTTGGAGTCC-GCTTCTGAAAGTGAAGTG
131 GCTGTTGAAAGTGAAATTACTA-CTCAATTAGCTTCTTCAGAGTCCAG-TTCTAAAATTGAAGTG
* *
7393381 CCTCACGGTGTTAAGTTCCAGGA
194 CCCCATGGTGTTAAGTTCCAGGA
* * * * ** * *
7393404 AGAAAAT-GCTGGTACTCCTAACGGAAATCTTGA-AA-GTACTGTTAAGATTGGGGGTACTACTT
1 AGAAAATAG-TGGTGCTTCTGAGGGAAATGGTGAGAATGT--TGTTAAAATTGAGGGTACTACTT
** *
7393466 TGAATACAGAGTCAAAGATGGATTTAG
63 TGAATATGGTGTCAAAGATGGATTTAG
7393493 CAATGAAAGA
Statistics
Matches: 645, Mismatches: 83, Indels: 18
0.86 0.11 0.02
Matches are distributed among these distances:
214 2 0.00
215 6 0.01
216 633 0.98
217 4 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (216 bp):
AGAAAATAGTGGTGCTTCTGAGGGAAATGGTGAGAATGTTGTTAAAATTGAGGGTACTACTTTGA
ATATGGTGTCAAAGATGGATTTAGTTCCTGATGTAGAAAAGGTTTCTCCTCCATTGGCAGCTTCT
GCTGTTGAAAGTGAAATTACTACTCAATTAGCTTCTTCAGAGTCCAGTTCTAAAATTGAAGTGCC
CCATGGTGTTAAGTTCCAGGA
Found at i:7401486 original size:2 final size:2
Alignment explanation
Indices: 7401479--7401572 Score: 137
Period size: 2 Copynumber: 49.5 Consensus size: 2
7401469 AATGCAACTA
7401479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7401521 AT -T A- AT -T A- AT -T A- ANT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
7401558 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
7401573 GCAGTTATTA
Statistics
Matches: 85, Mismatches: 0, Indels: 14
0.86 0.00 0.14
Matches are distributed among these distances:
1 6 0.07
2 78 0.92
3 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7404208 original size:7 final size:7
Alignment explanation
Indices: 7404196--7404230 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
7404186 ATGAGTGGTC
7404196 CAGCACT
1 CAGCACT
7404203 CAGCACT
1 CAGCACT
7404210 CAGCACT
1 CAGCACT
7404217 CAGCACT
1 CAGCACT
*
7404224 CAACACT
1 CAGCACT
7404231 GCCCTATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.31, C:0.43, G:0.11, T:0.14
Consensus pattern (7 bp):
CAGCACT
Found at i:7410717 original size:27 final size:26
Alignment explanation
Indices: 7410670--7410721 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
7410660 TTGATGTGGC
*
7410670 AAAAATATTGATATAACAATTGTTAAA
1 AAAAATATTGAAATAACAATT-TTAAA
*
7410697 AAAAATTTTGAAATTAA-AATTTTAA
1 AAAAATATTGAAA-TAACAATTTTAA
7410722 TTACTTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 4 0.18
27 15 0.68
28 3 0.14
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (26 bp):
AAAAATATTGAAATAACAATTTTAAA
Found at i:7412242 original size:17 final size:18
Alignment explanation
Indices: 7412222--7412267 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
7412212 TGGAAGAAAG
*
7412222 AGAAAAATGG-ACAATCA
1 AGAAAAAAGGTACAATCA
*
7412239 AGAAAAAAGGTGCAATCA
1 AGAAAAAAGGTACAATCA
7412257 AGAAAAAAGGT
1 AGAAAAAAGGT
7412268 GCAGTACGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.59, C:0.09, G:0.22, T:0.11
Consensus pattern (18 bp):
AGAAAAAAGGTACAATCA
Found at i:7412254 original size:18 final size:18
Alignment explanation
Indices: 7412233--7412270 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
7412223 GAAAAATGGA
7412233 CAATCAAGAAAAAAGGTG
1 CAATCAAGAAAAAAGGTG
7412251 CAATCAAGAAAAAAGGTG
1 CAATCAAGAAAAAAGGTG
7412269 CA
1 CA
7412271 GTACGGCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.13, G:0.21, T:0.11
Consensus pattern (18 bp):
CAATCAAGAAAAAAGGTG
Found at i:7412678 original size:16 final size:16
Alignment explanation
Indices: 7412642--7412680 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
7412632 TATTTTTATA
7412642 ATTTTACTTAATAAATT
1 ATTTTA-TTAATAAATT
7412659 -TTTTATTAATAAATT
1 ATTTTATTAATAAATT
7412674 ATTTTAT
1 ATTTTAT
7412681 GATTTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTATTAATAAATT
Found at i:7412721 original size:21 final size:22
Alignment explanation
Indices: 7412684--7412726 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
7412674 ATTTTATGAT
*
7412684 TTAATTTATAAATTAAA-ATTA
1 TTAATTTATAAAGTAAAGATTA
7412705 TTAATTTGAT-AAGTAAAGATTA
1 TTAATTT-ATAAAGTAAAGATTA
7412727 AGCACATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
TTAATTTATAAAGTAAAGATTA
Found at i:7418289 original size:30 final size:30
Alignment explanation
Indices: 7418255--7418311 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
7418245 ATAGTGGAGG
* *
7418255 GTGATTTGCAGAGAGAGGGAGNGGAGATGA
1 GTGATTTGCAAAGAGAGGGAGAGGAGATGA
7418285 GTGATTTGCAAAGAGAGGGAGAGGAGA
1 GTGATTTGCAAAGAGAGGGAGAGGAGA
7418312 GGGAGATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.46, T:0.16
Consensus pattern (30 bp):
GTGATTTGCAAAGAGAGGGAGAGGAGATGA
Found at i:7418452 original size:19 final size:17
Alignment explanation
Indices: 7418407--7418456 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
7418397 TTTCTTTAAG
7418407 CTTTTTTTAAAAAAAAT
1 CTTTTTTTAAAAAAAAT
* *
7418424 GTATTCTTTAAAAAAAACT
1 CT-TTTTTTAAAAAAAA-T
7418443 ACTTTTTTTAAAAA
1 -CTTTTTTTAAAAA
7418457 GCTTTCTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 11 0.42
20 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (17 bp):
CTTTTTTTAAAAAAAAT
Found at i:7418455 original size:18 final size:19
Alignment explanation
Indices: 7418407--7418456 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
7418397 TTTCTTTAAG
*
7418407 CTTTTTTTAAAAAAAATGTA
1 CTTTTTTT-AAAAAAATCTA
* *
7418427 --TTCTTTAAAAAAAACTA
1 CTTTTTTTAAAAAAATCTA
7418444 CTTTTTTTAAAAA
1 CTTTTTTTAAAAA
7418457 GCTTTCTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
17 9 0.38
18 5 0.21
19 10 0.42
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (19 bp):
CTTTTTTTAAAAAAATCTA
Found at i:7421138 original size:89 final size:90
Alignment explanation
Indices: 7420987--7421165 Score: 306
Period size: 89 Copynumber: 2.0 Consensus size: 90
7420977 GATGCCACTG
** * *
7420987 GTGTCAATGTCAGTAACAGCTGTAAGAATGTAAATTTATAAGAAAGAATTCTTTCGGCAAGCTTG
1 GTGTCAATGTCAGTAACAGCTGTAAGAACATAAATTCATAAGAAAGAATTCTTGCGGCAAGCTTG
7421052 ATGACC-AAAAAATTGAATGAGGTA
66 ATGACCAAAAAAATTGAATGAGGTA
*
7421076 GTGTCAATGTCAGTAACAGCTGTAAGCACATAAATTCATAAGAAAGAATTCTTGCGGCAAGCTTG
1 GTGTCAATGTCAGTAACAGCTGTAAGAACATAAATTCATAAGAAAGAATTCTTGCGGCAAGCTTG
7421141 ATGACCAAAAAAATTGAATGAGGTA
66 ATGACCAAAAAAATTGAATGAGGTA
7421166 AATTGAAGAT
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 66 0.79
90 18 0.21
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (90 bp):
GTGTCAATGTCAGTAACAGCTGTAAGAACATAAATTCATAAGAAAGAATTCTTGCGGCAAGCTTG
ATGACCAAAAAAATTGAATGAGGTA
Found at i:7442779 original size:59 final size:59
Alignment explanation
Indices: 7442687--7442800 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 59
7442677 CCTCAACCTC
* * * *
7442687 GATTTATTAAAGATCTCAAGGAGATTACCCATGCAGAAGTCAGTGCTTGGAAGAATCTG
1 GATTTATTAAAGATATCAAGGAGATGACCCATGCAAAAGTCAGTCCTTGGAAGAATCTG
* **
7442746 GATTTATTAAAGATATCAAGGAGGTGATGCATGCAAAAGTCAGTCCTTGGAAGAA
1 GATTTATTAAAGATATCAAGGAGATGACCCATGCAAAAGTCAGTCCTTGGAAGAA
7442801 GACGCATGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (59 bp):
GATTTATTAAAGATATCAAGGAGATGACCCATGCAAAAGTCAGTCCTTGGAAGAATCTG
Found at i:7453629 original size:2 final size:2
Alignment explanation
Indices: 7453622--7453655 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
7453612 CCCCCAAAAT
* *
7453622 GA GA GA GA GA AA GA GA GA GA GA GA GA GA GC GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
7453656 AAACTATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7460014 original size:2 final size:2
Alignment explanation
Indices: 7460007--7460032 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7459997 AAATTCCTGG
7460007 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
7460033 GTCTGCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7460440 original size:2 final size:2
Alignment explanation
Indices: 7460433--7460457 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7460423 CACGAAGAAA
7460433 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7460458 CTCTTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7468846 original size:24 final size:23
Alignment explanation
Indices: 7468802--7468848 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
7468792 TGGGCAAAAG
*
7468802 AAACAAAGAAGGGAAAGGAATAA
1 AAACAAAGAAGGAAAAGGAATAA
* *
7468825 AAACAAAAGGAGGAAAATGAATAA
1 AAAC-AAAGAAGGAAAAGGAATAA
7468849 CCGATTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.66, C:0.04, G:0.23, T:0.06
Consensus pattern (23 bp):
AAACAAAGAAGGAAAAGGAATAA
Found at i:7468955 original size:2 final size:2
Alignment explanation
Indices: 7468948--7469011 Score: 85
Period size: 2 Copynumber: 31.5 Consensus size: 2
7468938 ACATAAACAA
* *
7468948 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AGN CT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T A-T AT AT AT AT AT
7468991 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
7469012 GATGTTCACT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 52 0.93
3 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7481964 original size:16 final size:14
Alignment explanation
Indices: 7481910--7481965 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
7481900 ATACTGAGTG
*
7481910 ATTAAAATATTAATT
1 ATTAAAATA-TAATA
*
7481925 TTTATAAATATAATA
1 ATTA-AAATATAATA
7481940 ATTAAAATATAATA
1 ATTAAAATATAATA
* *
7481954 TTTAAAAAATAA
1 ATTAAAATATAA
7481966 AATGATAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 20 0.57
15 10 0.29
16 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAAAATATAATA
Found at i:7481975 original size:29 final size:30
Alignment explanation
Indices: 7481910--7481965 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7481900 ATACTGAGTG
* *
7481910 ATTAAAATATTAATTTTTATAAATATAATA
1 ATTAAAATATTAATATTTATAAAAATAATA
7481940 ATTAAAATA-TAATATTTA-AAAAATAA
1 ATTAAAATATTAATATTTATAAAAATAA
7481966 AATGATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 8 0.33
30 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
ATTAAAATATTAATATTTATAAAAATAATA
Found at i:7485056 original size:33 final size:33
Alignment explanation
Indices: 7485018--7485100 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
7485008 ATCGAGTTAA
* *
7485018 ATTAACATATCACATCATTATCAATTATAATAT
1 ATTAACATATCACATCATCATCAATTACAATAT
* * * *
7485051 ATTAACATTTTATAAT-ATCATCAATTACGATAT
1 ATTAACATATCA-CATCATCATCAATTACAATAT
*
7485084 ATTAATATATCACATCA
1 ATTAACATATCACATCA
7485101 GTTTCACCAA
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
32 2 0.05
33 34 0.89
34 2 0.05
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (33 bp):
ATTAACATATCACATCATCATCAATTACAATAT
Found at i:7516330 original size:2 final size:2
Alignment explanation
Indices: 7516323--7516355 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7516313 CGTAATTCAT
7516323 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7516356 TCCCAATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7517498 original size:22 final size:23
Alignment explanation
Indices: 7517447--7517503 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 23
7517437 TTTTATATTG
*
7517447 TGATTTCATGA-TTAATTGTTCA
1 TGATTGCATGATTTAATTGTTCA
*
7517469 -AATATGCATGATTTAATT-TTCA
1 TGAT-TGCATGATTTAATTGTTCA
7517491 TGATTGCAATGAT
1 TGATTGC-ATGAT
7517504 ATACTCTCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
21 2 0.07
22 13 0.46
23 13 0.46
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.46
Consensus pattern (23 bp):
TGATTGCATGATTTAATTGTTCA
Found at i:7517576 original size:20 final size:20
Alignment explanation
Indices: 7517538--7517576 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7517528 ACAATTCTTT
*
7517538 CATTTTTTATTCTTAATAAA
1 CATTTTTTATTATTAATAAA
7517558 CATTTTTTA-TATTATATAA
1 CATTTTTTATTATTA-ATAA
7517577 TATGTAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (20 bp):
CATTTTTTATTATTAATAAA
Found at i:7517909 original size:13 final size:13
Alignment explanation
Indices: 7517891--7517924 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7517881 ATGTGTATTT
*
7517891 AATTATGGTTGAG
1 AATTATGGTTAAG
*
7517904 AATTATGGTTAAT
1 AATTATGGTTAAG
7517917 AATTATGG
1 AATTATGG
7517925 ATGTTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (13 bp):
AATTATGGTTAAG
Found at i:7525926 original size:14 final size:15
Alignment explanation
Indices: 7525895--7525926 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7525885 AAATTTTATT
7525895 AATATTTTTAATATA
1 AATATTTTTAATATA
7525910 AATATTTTTAATA-A
1 AATATTTTTAATATA
7525924 AAT
1 AAT
7525927 TCATTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATATTTTTAATATA
Found at i:7528577 original size:63 final size:63
Alignment explanation
Indices: 7528478--7528666 Score: 351
Period size: 63 Copynumber: 3.0 Consensus size: 63
7528468 AACTTGATTT
* *
7528478 CACTTATCTTATTCTTTTAACCAACTGCAACTAAGCCATCTATCATGTACTCTTACACTATCC
1 CACTTATCTCATTCCTTTAACCAACTGCAACTAAGCCATCTATCATGTACTCTTACACTATCC
*
7528541 CACTTATCTCATTCCTCTAACCAACTGCAACTAAGCCATCTATCATGTACTCTTACACTATCC
1 CACTTATCTCATTCCTTTAACCAACTGCAACTAAGCCATCTATCATGTACTCTTACACTATCC
7528604 CACTTATCTCATTCCTTTAACCAACTGCAACTAAGCCATCTATCATGTACTCTTACACTATCC
1 CACTTATCTCATTCCTTTAACCAACTGCAACTAAGCCATCTATCATGTACTCTTACACTATCC
7528667 TACTATCATA
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 122 1.00
ACGTcount: A:0.29, C:0.33, G:0.05, T:0.34
Consensus pattern (63 bp):
CACTTATCTCATTCCTTTAACCAACTGCAACTAAGCCATCTATCATGTACTCTTACACTATCC
Found at i:7539621 original size:36 final size:36
Alignment explanation
Indices: 7539566--7539710 Score: 89
Period size: 36 Copynumber: 4.0 Consensus size: 36
7539556 ATTCGCTGTG
** * *
7539566 CTTTCTACGCCGTTTATAAACTAACTTAGTTGGTTT
1 CTTTCTACGCCGTACATAAACCAACTCAGTTGGTTT
* *
7539602 CTTTCTGCGCCGTACATAAACCATCTCAGTTGG-TT
1 CTTTCTACGCCGTACATAAACCAACTCAGTTGGTTT
* * * * * **
7539637 CATTTCCACACC-AAGCATAAACTATCTGGGTTGGTTT
1 C-TTTCTACGCCGTA-CATAAACCAACTCAGTTGGTTT
** * *
7539674 CTGACTACGCCG-AGCATAAACTATCTCAGTTGGTTT
1 CTTTCTACGCCGTA-CATAAACCAACTCAGTTGGTTT
7539710 C
1 C
7539711 AAGCCACTGA
Statistics
Matches: 86, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
35 4 0.05
36 79 0.92
37 3 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (36 bp):
CTTTCTACGCCGTACATAAACCAACTCAGTTGGTTT
Found at i:7540881 original size:20 final size:19
Alignment explanation
Indices: 7540833--7540882 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
7540823 TCTAAAAGAA
* *
7540833 AAAAAGTAAAGGAGAAAAAT
1 AAAAA-TAAAGGAAAAAAAG
7540853 AAAAGATAAAGGAAAAATAAG
1 AAAA-ATAAAGGAAAAA-AAG
7540874 AAAAATAAA
1 AAAAATAAA
7540883 AATAAATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAAATAAAGGAAAAAAAG
Found at i:7548417 original size:22 final size:22
Alignment explanation
Indices: 7548365--7548424 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
7548355 TTTTATTTCA
*
7548365 ATTTC-TTTTTATTTTTTCACT
1 ATTTCATTTTTATTTTTTAACT
*
7548386 ATTTGTATTTTTATTTTTTAATCT
1 ATTT-CATTTTTATTTTTTAA-CT
*
7548410 -TTTCATTTCTATTTT
1 ATTTCATTTTTATTTT
7548425 CATTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 4 0.12
22 10 0.31
23 16 0.50
24 2 0.06
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.72
Consensus pattern (22 bp):
ATTTCATTTTTATTTTTTAACT
Found at i:7549107 original size:30 final size:29
Alignment explanation
Indices: 7549038--7549110 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
7549028 TAAATTATTT
*
7549038 AAAT-AATTTTTATTTTTTTATTAAATTC
1 AAATAAATTTTTATATTTTTATTAAATTC
*
7549066 -AATCAAGTTTTTATATTTTTATTTCAAA-TC
1 AAAT-AAATTTTTATATTTTTA-TT-AAATTC
7549096 AAATAAATTTTTATA
1 AAATAAATTTTTATA
7549111 ATTAATGATT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
27 3 0.08
29 14 0.38
30 14 0.38
31 6 0.16
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.55
Consensus pattern (29 bp):
AAATAAATTTTTATATTTTTATTAAATTC
Found at i:7555766 original size:26 final size:27
Alignment explanation
Indices: 7555731--7555781 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
7555721 CTTCTTCTCA
*
7555731 TTTCTCCCTCTACTATTTT-CTCTCTTT
1 TTTCTCCCTCT-CCATTTTGCTCTCTTT
7555758 TTTCT-CCTCTCCATTTTGCTCTCT
1 TTTCTCCCTCTCCATTTTGCTCTCT
7555782 CTCTTCACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 11 0.50
27 5 0.23
ACGTcount: A:0.06, C:0.35, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTCTCCCTCTCCATTTTGCTCTCTTT
Found at i:7555899 original size:15 final size:15
Alignment explanation
Indices: 7555879--7555908 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7555869 CCAACTGTAG
7555879 ATGAACCCGAAGCCT
1 ATGAACCCGAAGCCT
7555894 ATGAACCCGAAGCCT
1 ATGAACCCGAAGCCT
7555909 TATCCCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.13
Consensus pattern (15 bp):
ATGAACCCGAAGCCT
Found at i:7556295 original size:36 final size:37
Alignment explanation
Indices: 7556224--7556296 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 37
7556214 AACTAAGCCT
* * **
7556224 AGTAAGACCCAAGTCCCAAGAGGCCCAATTACCCAAG
1 AGTAAGACACAAGTACCAAGAGGCCCAACCACCCAAG
*
7556261 AGTAAGACACAAG-ACCAAGAGGCCCAACCGCCCAAG
1 AGTAAGACACAAGTACCAAGAGGCCCAACCACCCAAG
7556297 TCCCTAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
36 19 0.61
37 12 0.39
ACGTcount: A:0.40, C:0.33, G:0.21, T:0.07
Consensus pattern (37 bp):
AGTAAGACACAAGTACCAAGAGGCCCAACCACCCAAG
Found at i:7559915 original size:24 final size:24
Alignment explanation
Indices: 7559850--7559916 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
7559840 TCCCTCATTA
* *
7559850 ATTTATGGTTTTGATTGATTGAAT
1 ATTTAAGGTTTTGATTGTTTGAAT
** *
7559874 ACGTGAGGATTTTG-TTGTTTGAAT
1 ATTTAAGG-TTTTGATTGTTTGAAT
7559898 ATTTAAGGTTTTGATTGTT
1 ATTTAAGGTTTTGATTGTT
7559917 GTGGATTTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 5 0.15
24 23 0.70
25 5 0.15
ACGTcount: A:0.22, C:0.01, G:0.24, T:0.52
Consensus pattern (24 bp):
ATTTAAGGTTTTGATTGTTTGAAT
Found at i:7560040 original size:18 final size:20
Alignment explanation
Indices: 7560019--7560059 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
7560009 TTATTTGTTA
*
7560019 TTTGAGGTTTG-TAA-TTGT
1 TTTGAGGCTTGATAATTTGT
*
7560037 TTTGGGGCTTGATAATTTGT
1 TTTGAGGCTTGATAATTTGT
7560057 TTT
1 TTT
7560060 TATTGGCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.47
19 3 0.16
20 7 0.37
ACGTcount: A:0.15, C:0.02, G:0.27, T:0.56
Consensus pattern (20 bp):
TTTGAGGCTTGATAATTTGT
Found at i:7560286 original size:14 final size:14
Alignment explanation
Indices: 7560263--7560296 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
7560253 ATGATTAAGT
7560263 TAAT-TAAGTAATG
1 TAATGTAAGTAATG
7560276 TAATGTAAGTAATG
1 TAATGTAAGTAATG
7560290 TAATGTA
1 TAATGTA
7560297 TTAATTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (14 bp):
TAATGTAAGTAATG
Found at i:7568964 original size:27 final size:28
Alignment explanation
Indices: 7568906--7568985 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
7568896 TTCGATGGGT
* *
7568906 TAAAAGTATTCATCCACTTTTAGTGAGC
1 TAAAAGTATCCATCCACTTTTGGTGAGC
* *
7568934 TAAAGGTATCCATCCACTTTTGGTTAG-
1 TAAAAGTATCCATCCACTTTTGGTGAGC
* *
7568961 TAAAATTATCCATCTACTTTTGGTG
1 TAAAAGTATCCATCCACTTTTGGTG
7568986 GGTACACTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 21 0.48
28 23 0.52
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (28 bp):
TAAAAGTATCCATCCACTTTTGGTGAGC
Found at i:7574053 original size:14 final size:14
Alignment explanation
Indices: 7574034--7574062 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7574024 TTAAGATAAG
7574034 AGCATATACTAATT
1 AGCATATACTAATT
7574048 AGCATATACTAATT
1 AGCATATACTAATT
7574062 A
1 A
7574063 ACTAACCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
AGCATATACTAATT
Found at i:7574112 original size:26 final size:26
Alignment explanation
Indices: 7574072--7574124 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
7574062 AACTAACCAT
*
7574072 TGCTTCAGAGTTAACTCAGAAAGGGA
1 TGCTTCAGAGCTAACTCAGAAAGGGA
7574098 TGCTTCAGAGCTAACTCAGAAAGGGA
1 TGCTTCAGAGCTAACTCAGAAAGGGA
7574124 T
1 T
7574125 TCTTAGTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (26 bp):
TGCTTCAGAGCTAACTCAGAAAGGGA
Found at i:7574922 original size:15 final size:15
Alignment explanation
Indices: 7574902--7574930 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7574892 TTATTCCTAT
7574902 TTAAAAATAAATAAA
1 TTAAAAATAAATAAA
7574917 TTAAAAATAAATAA
1 TTAAAAATAAATAA
7574931 CATNNNNNNN
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAAAAATAAATAAA
Found at i:7575394 original size:22 final size:26
Alignment explanation
Indices: 7575368--7575430 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 26
7575358 NNNNNNNNAA
7575368 TATTAATATTTAAATT-A-T-TA-AT
1 TATTAATATTTAAATTAATTCTAGAT
*
7575390 TATTAATATTTTAATTAAATTCTAGAT
1 TATTAATATTTAAATT-AATTCTAGAT
7575417 TATTAATATTTAAA
1 TATTAATATTTAAA
7575431 AAATTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 15 0.44
24 1 0.03
25 1 0.03
26 2 0.06
27 15 0.44
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTAATATTTAAATTAATTCTAGAT
Found at i:7577688 original size:2 final size:2
Alignment explanation
Indices: 7577681--7577706 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7577671 GGATGTATGT
7577681 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
7577707 AAAACACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7579317 original size:2 final size:2
Alignment explanation
Indices: 7579310--7579343 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
7579300 CAAGTTGATG
*
7579310 AT AT AT AT AT AT AT AT AT AT AT -T AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7579344 AAGAAAAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7581824 original size:30 final size:30
Alignment explanation
Indices: 7581790--7581877 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
7581780 GGGACTGAAT
*
7581790 CTGGTTTCTGTTGTGGTGACAACCTTGAGC
1 CTGGTTTCTGATGTGGTGACAACCTTGAGC
* * *
7581820 CTGGTTTTTGCTGTGGTGACAACCTTGAGT
1 CTGGTTTCTGATGTGGTGACAACCTTGAGC
*
7581850 CTGGTTTCTGATGTGGTGATAATCCTTG
1 CTGGTTTCTGATGTGGTGACAA-CCTTG
7581878 CCATGATGCC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 46 0.90
31 5 0.10
ACGTcount: A:0.14, C:0.17, G:0.30, T:0.40
Consensus pattern (30 bp):
CTGGTTTCTGATGTGGTGACAACCTTGAGC
Found at i:7588042 original size:14 final size:14
Alignment explanation
Indices: 7588006--7588032 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7587996 ATAATAACAA
7588006 GACAATATTAAAAT
1 GACAATATTAAAAT
7588020 GACAATATTAAAA
1 GACAATATTAAAA
7588033 GAATAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (14 bp):
GACAATATTAAAAT
Found at i:7588526 original size:14 final size:15
Alignment explanation
Indices: 7588499--7588531 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7588489 ATGCCTCGTT
*
7588499 AAAACCTTACTGAAA
1 AAAACCTCACTGAAA
7588514 AAAACCTCA-TGAAA
1 AAAACCTCACTGAAA
7588528 AAAA
1 AAAA
7588532 ATTCGAGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.61, C:0.18, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAACCTCACTGAAA
Found at i:7594894 original size:13 final size:13
Alignment explanation
Indices: 7594876--7594921 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
7594866 AAAGAATATT
7594876 AAACATATAATTA
1 AAACATATAATTA
7594889 AAACATATAA-TA
1 AAACATATAATTA
* *
7594901 AGAACATATCATTT
1 A-AACATATAATTA
7594915 AAACATA
1 AAACATA
7594922 GTAAAGCATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 3 0.10
13 24 0.83
14 2 0.07
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (13 bp):
AAACATATAATTA
Found at i:7595327 original size:28 final size:28
Alignment explanation
Indices: 7595280--7595351 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
7595270 GTGTTTTCAT
7595280 TATTCATCCACTTCTGGTGGGTTGAAAG
1 TATTCATCCACTTCTGGTGGGTTGAAAG
* * * *
7595308 TATTCATCCATTTTTTGTGGGTTGAAAT
1 TATTCATCCACTTCTGGTGGGTTGAAAG
*
7595336 TATCCATCCACTTCTG
1 TATTCATCCACTTCTG
7595352 ATGATAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (28 bp):
TATTCATCCACTTCTGGTGGGTTGAAAG
Found at i:7595400 original size:25 final size:25
Alignment explanation
Indices: 7595344--7595400 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
7595334 ATTATCCATC
*
7595344 CACTTCTGATGATAAAATTATTCTT
1 CACTTCTGATGATAAAATTATTATT
* *
7595369 -AGATTCTGATGGTAAAATTATTATT
1 CA-CTTCTGATGATAAAATTATTATT
7595394 CACTTCT
1 CACTTCT
7595401 TCCATATCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.04
25 24 0.92
26 1 0.04
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.44
Consensus pattern (25 bp):
CACTTCTGATGATAAAATTATTATT
Found at i:7601458 original size:16 final size:15
Alignment explanation
Indices: 7601439--7601532 Score: 58
Period size: 15 Copynumber: 6.5 Consensus size: 15
7601429 TTGGGATTAC
*
7601439 AAAATTTTAATTAATT
1 AAAATATTAATTAA-T
*
7601455 AAAATATTATTTAAT
1 AAAATATTAATTAAT
7601470 AAAATA--AATTAAT
1 AAAATATTAATTAAT
7601483 --AAT-TT-ATTGAAT
1 AAAATATTAATT-AAT
* * *
7601495 TATATATTAATTAGT
1 AAAATATTAATTAAT
*
7601510 AAAA-ATTAATTTATT
1 AAAATATTAA-TTAAT
7601525 AAAATATT
1 AAAATATT
7601533 TTTTATTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
11 6 0.10
12 3 0.05
13 6 0.10
14 7 0.11
15 21 0.34
16 18 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
AAAATATTAATTAAT
Found at i:7603240 original size:22 final size:22
Alignment explanation
Indices: 7603212--7603256 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7603202 GGCCACATCA
7603212 CCGGGACATGGAGAGGGGCAAC
1 CCGGGACATGGAGAGGGGCAAC
7603234 CCGGGACATGGAGAGGGGCAAC
1 CCGGGACATGGAGAGGGGCAAC
7603256 C
1 C
7603257 ACACCTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.44, T:0.04
Consensus pattern (22 bp):
CCGGGACATGGAGAGGGGCAAC
Found at i:7603716 original size:29 final size:30
Alignment explanation
Indices: 7603659--7603726 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
7603649 TTATAAAATT
7603659 TTAAAT-TTTTTATTTTTTTATTATTATCAA
1 TTAAATATTTTTATTTTTTTATTA-TATCAA
7603689 TTAAATATTTTTATTTTTATT-TTA-ATCAA
1 TTAAATATTTTTATTTTT-TTATTATATCAA
*
7603718 ATAAA-ATTT
1 TTAAATATTT
7603727 ACTAACTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 4 0.11
29 9 0.26
30 6 0.17
31 14 0.40
32 2 0.06
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTAAATATTTTTATTTTTTTATTATATCAA
Found at i:7603719 original size:25 final size:25
Alignment explanation
Indices: 7603669--7603720 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
7603659 TTAAATTTTT
*
7603669 TATTTTTTTATTATTATCAATTAAA
1 TATTTTTTTATTATTATCAATCAAA
* *
7603694 TATTTTTATTTTTATT-TTAATCAAA
1 TATTTTT-TTATTATTATCAATCAAA
7603719 TA
1 TA
7603721 AAATTTACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTTTTTATTATTATCAATCAAA
Found at i:7604019 original size:31 final size:30
Alignment explanation
Indices: 7603984--7604049 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
7603974 CATAGTTAAT
* **
7603984 TATAAAAATTTATTTAAATTTAAAATAAAAA
1 TATAAAAATTTAATTAAATACAAAA-AAAAA
7604015 TATAAAAATTTAATTAAATACAAAAAAAAA
1 TATAAAAATTTAATTAAATACAAAAAAAAA
7604045 T-TAAA
1 TATAAA
7604050 TACTTCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 4 0.12
30 6 0.19
31 22 0.69
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (30 bp):
TATAAAAATTTAATTAAATACAAAAAAAAA
Found at i:7610041 original size:15 final size:15
Alignment explanation
Indices: 7609990--7610041 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
7609980 AAGATTAAGT
*
7609990 TTTTATTTA-ATTTT
1 TTTTATTTATATTTA
7610004 TTTTATTTATA-TTA
1 TTTTATTTATATTTA
7610018 TTATTATTTATATTTA
1 TT-TTATTTATATTTA
*
7610034 TTTAATTT
1 TTTTATTT
7610042 TTTCAATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 13 0.39
15 15 0.45
16 5 0.15
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTATTTATATTTA
Found at i:7610203 original size:15 final size:16
Alignment explanation
Indices: 7610183--7610212 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7610173 CTGTTATGTG
7610183 GATTTT-ATTTTTAAT
1 GATTTTAATTTTTAAT
7610198 GATTTTAATTTTTAA
1 GATTTTAATTTTTAA
7610213 AAATTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (16 bp):
GATTTTAATTTTTAAT
Found at i:7610218 original size:16 final size:16
Alignment explanation
Indices: 7610184--7610221 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
7610174 TGTTATGTGG
**
7610184 ATTTT-ATTTTTAATG
1 ATTTTAATTTTTAAAA
7610199 ATTTTAATTTTTAAAA
1 ATTTTAATTTTTAAAA
7610215 ATTTTAA
1 ATTTTAA
7610222 AAATTATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTTTAATTTTTAAAA
Found at i:7611313 original size:20 final size:20
Alignment explanation
Indices: 7611290--7611357 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 20
7611280 AAAAATAGAA
***
7611290 AAAAAAGAAATTCAAATTTC
1 AAAAAAGAAATTCAAAAAAC
7611310 -AAAAAG-AATTCCAAAAAAC
1 AAAAAAGAAATT-CAAAAAAC
*
7611329 AAAAAAGAAATTCAAACAA-
1 AAAAAAGAAATTCAAAAAAC
*
7611348 GAAAAAGAAA
1 AAAAAAGAAA
7611358 ACATTCCAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.10
19 20 0.50
20 12 0.30
21 4 0.10
ACGTcount: A:0.69, C:0.10, G:0.07, T:0.13
Consensus pattern (20 bp):
AAAAAAGAAATTCAAAAAAC
Found at i:7612018 original size:10 final size:10
Alignment explanation
Indices: 7611991--7612035 Score: 54
Period size: 10 Copynumber: 4.3 Consensus size: 10
7611981 AAAATTATTA
*
7611991 TTATATAATTC
1 TTAT-TAATTT
7612002 TTATTAATTT
1 TTATTAATTT
*
7612012 TTGTTAATTTT
1 TTATTAA-TTT
7612023 TTATTAATTT
1 TTATTAATTT
7612033 TTA
1 TTA
7612036 AAAATTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
10 17 0.57
11 13 0.43
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATTAATTT
Found at i:7612023 original size:11 final size:11
Alignment explanation
Indices: 7612002--7612034 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
7611992 TATATAATTC
7612002 TTATTAA-TTT
1 TTATTAATTTT
*
7612012 TTGTTAATTTT
1 TTATTAATTTT
7612023 TTATTAATTTT
1 TTATTAATTTT
7612034 T
1 T
7612035 AAAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (11 bp):
TTATTAATTTT
Found at i:7612041 original size:21 final size:21
Alignment explanation
Indices: 7612002--7612042 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7611992 TATATAATTC
***
7612002 TTATTAATTTTTGTTAATTTT
1 TTATTAATTTTTAAAAATTTT
7612023 TTATTAATTTTTAAAAATTT
1 TTATTAATTTTTAAAAATTT
7612043 AGGGGAGCAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTATTAATTTTTAAAAATTTT
Found at i:7613527 original size:12 final size:12
Alignment explanation
Indices: 7613510--7613547 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7613500 GGCCATGTTG
*
7613510 CCCTTCCCCTTC
1 CCCTTCCCCTCC
7613522 CCCTTCCCCTCC
1 CCCTTCCCCTCC
7613534 CCC-TCTCCCTCC
1 CCCTTC-CCCTCC
7613546 CC
1 CC
7613548 ATCCATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 2 0.08
12 22 0.92
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (12 bp):
CCCTTCCCCTCC
Found at i:7621670 original size:14 final size:15
Alignment explanation
Indices: 7621646--7621675 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7621636 TTTGAAATAA
7621646 AAAATAAATAAAAAT
1 AAAATAAATAAAAAT
7621661 AAAA-AAATAAAAAT
1 AAAATAAATAAAAAT
7621675 A
1 A
7621676 TCCTTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:7621783 original size:22 final size:22
Alignment explanation
Indices: 7621706--7621783 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
7621696 TATTTTATTT
* * * *
7621706 TATTTTATTTTTTAAATATTAC
1 TATTTTATTTATAAAATACTAA
7621728 TATTTTATTTAT--AAT-CTAA
1 TATTTTATTTATAAAATACTAA
* * *
7621747 TCTTTAACATTATAAAATACTAA
1 TATTTTA-TTTATAAAATACTAA
7621770 TATTTTATTTATAA
1 TATTTTATTTATAA
7621784 TTTAAATATT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
19 7 0.16
20 7 0.16
22 20 0.47
23 9 0.21
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTATTTATAAAATACTAA
Found at i:7621813 original size:26 final size:27
Alignment explanation
Indices: 7621774--7621824 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
7621764 TACTAATATT
7621774 TTATTTATAATTTAAA-TATTATTATGA
1 TTATTTATAATTTAAATTATT-TTATGA
*
7621801 TTATTTAT-TTTTAAATTATTTTAT
1 TTATTTATAATTTAAATTATTTTAT
7621825 TTTTAAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (27 bp):
TTATTTATAATTTAAATTATTTTATGA
Found at i:7621820 original size:15 final size:16
Alignment explanation
Indices: 7621800--7621831 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7621790 TATTATTATG
7621800 ATTA-TTTATTTTTAA
1 ATTATTTTATTTTTAA
7621815 ATTATTTTATTTTTAA
1 ATTATTTTATTTTTAA
7621831 A
1 A
7621832 CATTAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATTTTATTTTTAA
Found at i:7625369 original size:25 final size:25
Alignment explanation
Indices: 7625335--7625392 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
7625325 ATTTTCATGT
7625335 TGATTTTTGTAAAATAAAATCAATC
1 TGATTTTTGTAAAATAAAATCAATC
7625360 TGATTTTTGTAAAATAAAATCAATC
1 TGATTTTTGTAAAATAAAATCAATC
*
7625385 TAATTTTT
1 TGATTTTT
7625393 TATAACTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (25 bp):
TGATTTTTGTAAAATAAAATCAATC
Found at i:7626071 original size:21 final size:22
Alignment explanation
Indices: 7626020--7626071 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
7626010 CGGAAGAGTA
*
7626020 TTTAACAAACCATGCTATTTTAG
1 TTTAA-AAACCATGCAATTTTAG
*
7626043 TTT-GAAACCATGCAATTTT-G
1 TTTAAAAACCATGCAATTTTAG
7626063 TTTAAAAAC
1 TTTAAAAAC
7626072 ATAAAACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
23 3 0.12
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (22 bp):
TTTAAAAACCATGCAATTTTAG
Found at i:7626726 original size:224 final size:224
Alignment explanation
Indices: 7626324--7626769 Score: 660
Period size: 224 Copynumber: 2.0 Consensus size: 224
7626314 AACAAACTCT
* * * * ** * **
7626324 TCCTTAATAGTTTGCACAAATTATCAAAAATATAGGAGCATTAGAAAATTAAAGAAGTAAGAGCC
1 TCCTGAATAGTTTGCACAAATTATAAAAAATACAAGAGCAACAAAAAATTAAAGAAGTAAGAAAC
*
7626389 CAGCAAATCGAAGAGATCAATTAAGTCAAGAAGAGGGAGAAGAGAAAATTAATTTTCGATATGTT
66 CAACAAATCGAAGAGATCAATTAAGTCAAGAAGAGGGAGAAGAGAAAATTAATTTTCGATATGTT
* * * *
7626454 GGGAATGAACATGGAGCATGGTATTTATAGGGAAGGAATGGTTGTTTGGTGATATATTTGAGAAT
131 GAGAATGAACATGGAGCATGGTATTTATAGGGAAAGAATGGCTGTTTGGTGAAATATTTGAGAAT
* *
7626519 AGAGAATTAACCAAAAATTAGGAAATATA
196 AGAGAATTAACAAAAAATTAGAAAATATA
* *
7626548 TCCTGAATAGTTTGCACAAATTGTAAAAAATGCAAGAGCAACAAAAAATTAAAGAAGTAAGAAAC
1 TCCTGAATAGTTTGCACAAATTATAAAAAATACAAGAGCAACAAAAAATTAAAGAAGTAAGAAAC
* * *
7626613 CAACAAATCGAAGAGGTCAATTAAGT-AGAGAAGAGGGAGAAGAGAAAATTAATTTTTGGTATGT
66 CAACAAATCGAAGAGATCAATTAAGTCA-AGAAGAGGGAGAAGAGAAAATTAATTTTCGATATGT
* * *
7626677 TGAGAATGAACGTGGAGCATTGTATTTATAGGGAAAGAATGGCTGTTTGGTGAAATATTTGAGGA
130 TGAGAATGAACATGGAGCATGGTATTTATAGGGAAAGAATGGCTGTTTGGTGAAATATTTGAGAA
7626742 TAGAGAATTAACAAAAAATTAGAAAATA
195 TAGAGAATTAACAAAAAATTAGAAAATA
7626770 AACGTTTAAA
Statistics
Matches: 197, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
223 1 0.01
224 196 0.99
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (224 bp):
TCCTGAATAGTTTGCACAAATTATAAAAAATACAAGAGCAACAAAAAATTAAAGAAGTAAGAAAC
CAACAAATCGAAGAGATCAATTAAGTCAAGAAGAGGGAGAAGAGAAAATTAATTTTCGATATGTT
GAGAATGAACATGGAGCATGGTATTTATAGGGAAAGAATGGCTGTTTGGTGAAATATTTGAGAAT
AGAGAATTAACAAAAAATTAGAAAATATA
Found at i:7627830 original size:28 final size:28
Alignment explanation
Indices: 7627796--7627924 Score: 170
Period size: 28 Copynumber: 4.6 Consensus size: 28
7627786 TTTTACCATC
* *
7627796 AGAAGTGGATGGATAATTTCAATCCACA
1 AGAAGTGGATGAATAATTTCAACCCACA
*
7627824 AGAAGTGGATGGATAATTTCAACCCACA
1 AGAAGTGGATGAATAATTTCAACCCACA
* * *
7627852 AGATGTGGATGAATACTTTCAACCCACT
1 AGAAGTGGATGAATAATTTCAACCCACA
* *
7627880 AGAAGTGGATGAATACTTTTAACCCACCA
1 AGAAGTGGATGAATAATTTCAACCCA-CA
7627909 A-AAGTGGATGAATAAT
1 AGAAGTGGATGAATAAT
7627925 GAAAATACAA
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 89 0.98
29 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (28 bp):
AGAAGTGGATGAATAATTTCAACCCACA
Found at i:7632447 original size:126 final size:126
Alignment explanation
Indices: 7632222--7632473 Score: 504
Period size: 126 Copynumber: 2.0 Consensus size: 126
7632212 TTTTCCCCCA
7632222 AACACTTTCTTCCTTCTCTTTAATTATTCTTTCAAGTTATCTTTATTTATTCTTTTAAGATTTAT
1 AACACTTTCTTCCTTCTCTTTAATTATTCTTTCAAGTTATCTTTATTTATTCTTTTAAGATTTAT
7632287 TTCATAACAATAACTACTAAAGTACAAAAATATCACTTATGTCTAGCCCTCATGTATATTT
66 TTCATAACAATAACTACTAAAGTACAAAAATATCACTTATGTCTAGCCCTCATGTATATTT
7632348 AACACTTTCTTCCTTCTCTTTAATTATTCTTTCAAGTTATCTTTATTTATTCTTTTAAGATTTAT
1 AACACTTTCTTCCTTCTCTTTAATTATTCTTTCAAGTTATCTTTATTTATTCTTTTAAGATTTAT
7632413 TTCATAACAATAACTACTAAAGTACAAAAATATCACTTATGTCTAGCCCTCATGTATATTT
66 TTCATAACAATAACTACTAAAGTACAAAAATATCACTTATGTCTAGCCCTCATGTATATTT
7632474 GCGTGCAAGG
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.46
Consensus pattern (126 bp):
AACACTTTCTTCCTTCTCTTTAATTATTCTTTCAAGTTATCTTTATTTATTCTTTTAAGATTTAT
TTCATAACAATAACTACTAAAGTACAAAAATATCACTTATGTCTAGCCCTCATGTATATTT
Found at i:7633529 original size:23 final size:23
Alignment explanation
Indices: 7633499--7633545 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7633489 GGTCGACATG
7633499 ATACATGAGGTCATATATCTCTT
1 ATACATGAGGTCATATATCTCTT
7633522 ATACATGAGGTCATATATCTCTT
1 ATACATGAGGTCATATATCTCTT
7633545 A
1 A
7633546 CTTTTCTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (23 bp):
ATACATGAGGTCATATATCTCTT
Found at i:7633648 original size:4 final size:4
Alignment explanation
Indices: 7633598--7633663 Score: 50
Period size: 4 Copynumber: 16.5 Consensus size: 4
7633588 GAGAAAGGTG
* *
7633598 AGAA AAAA AG-A AGAAA AGAA AGATA A-AGA AG-A AGAA GGAA A-AA AGAA
1 AGAA AGAA AGAA AG-AA AGAA AGA-A AGA-A AGAA AGAA AGAA AGAA AGAA
7633645 AGAA AGAA AGAA AGCAA AG
1 AGAA AGAA AGAA AG-AA AG
7633664 TAGGTGGTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
3 9 0.18
4 32 0.64
5 9 0.18
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:7633778 original size:41 final size:42
Alignment explanation
Indices: 7633692--7633778 Score: 133
Period size: 41 Copynumber: 2.1 Consensus size: 42
7633682 TAAAAAATTA
* *
7633692 AATTTGTTTTGTTGAATAAAAATAAAAATTAATTAAATNATT
1 AATTTGTTTTGTTGAATAAAAATAAAAAATAATTAAATTATT
7633734 AATTTGTTTTGTTGAAT-AAAATAAAAAATAATTAAATGTA-T
1 AATTTGTTTTGTTGAATAAAAATAAAAAATAATTAAAT-TATT
7633775 AATT
1 AATT
7633779 GATAAATTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
41 24 0.57
42 18 0.43
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.43
Consensus pattern (42 bp):
AATTTGTTTTGTTGAATAAAAATAAAAAATAATTAAATTATT
Found at i:7643068 original size:207 final size:209
Alignment explanation
Indices: 7642708--7643128 Score: 632
Period size: 207 Copynumber: 2.0 Consensus size: 209
7642698 AGAAGAATAA
* * *
7642708 TTCTGTTGATCACCATCTAAAGCCTTGACTCTGAGAATATTATGATTCATTTCTTTCCTTCTGCC
1 TTCTGTTGATCACAATCTAAAGCCTTGACTCTGAG-AGATTATGATTCATTTATTTCCTTCTGCC
* * *
7642773 TGGATGACAATAATAATATGGAAAATTTTCTGATTTGAATCTTCTTTTGATTCTCTTAGCTTGGT
65 TGGATGAAAATAATAATATGGAAAATTTTCTGATTTGAATCTTCTTTTGATTCACTTAGCTTGAT
* *
7642838 GAGTGGTGTGAGTGATATTAGCAAGTTGTTGACATTTTGAGGCAAACTTCCCTTACTTGTAAATT
130 GAGTAGTGTGACTGATATTAGCAAGTTGTTGACATTTTGAGGCAAACTTCCCTTACTTGTAAATT
* *
7642903 GCTTAGTAAATTTGC
195 GCATAGTAAACTTGC
* * * **
7642918 TTCTGTTGATCATAATCTAGAGCCTTGACTTTG-G-GATTATGATTCATTTATTTTTTTCTGCCT
1 TTCTGTTGATCACAATCTAAAGCCTTGACTCTGAGAGATTATGATTCATTTATTTCCTTCTGCCT
* *
7642981 GGATGAAAATATTAATATGGAAAATTTTCTGATTTTAATCTTCTTTTGATTCACTGT-GCTTGAT
66 GGATGAAAATAATAATATGGAAAATTTTCTGATTTGAATCTTCTTTTGATTCACT-TAGCTTGAT
* *
7643045 GAGTAGTGTGACTGATGTTAGCAAGTTGTTGACATTTTGAGGCAAACTTCCCTTACTTTTAAATT
130 GAGTAGTGTGACTGATATTAGCAAGTTGTTGACATTTTGAGGCAAACTTCCCTTACTTGTAAATT
7643110 GCATAGTAAACTTGC
195 GCATAGTAAACTTGC
7643125 TTCT
1 TTCT
7643129 TTATCTGTCA
Statistics
Matches: 191, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
207 160 0.84
208 1 0.01
209 1 0.01
210 29 0.15
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (209 bp):
TTCTGTTGATCACAATCTAAAGCCTTGACTCTGAGAGATTATGATTCATTTATTTCCTTCTGCCT
GGATGAAAATAATAATATGGAAAATTTTCTGATTTGAATCTTCTTTTGATTCACTTAGCTTGATG
AGTAGTGTGACTGATATTAGCAAGTTGTTGACATTTTGAGGCAAACTTCCCTTACTTGTAAATTG
CATAGTAAACTTGC
Done.