Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 312 of 345
Found at i:93696273 original size:75 final size:77
Alignment explanation
Indices: 93696181--93696461 Score: 421
Period size: 77 Copynumber: 3.7 Consensus size: 77
93696171 GAGTTGAGCC
* *
93696181 TTTT-AATTTCTGTTTTTC-AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
93696243 CGTGCTGAGCTA
66 CGTGCTGAGCTA
*
93696255 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTTTGCTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
93696320 CGTGCTGAGCTA
66 CGTGCTGAGCTA
** *
93696332 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
** *
93696397 CACGCTGAGGC-G
66 CGTGCTGA-GCTA
*
93696409 TTTTCAATTTCTGCTTTTC-AAA-AATCAACTCATATTGCAAGAGGTGAGTTGAG
1 TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAG
93696462 TCTCGGGCCA
Statistics
Matches: 192, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
74 4 0.02
75 43 0.22
76 6 0.03
77 137 0.71
78 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (77 bp):
TTTTCAATTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCA
CGTGCTGAGCTA
Found at i:93696514 original size:13 final size:13
Alignment explanation
Indices: 93696484--93696527 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
93696474 CACTGAGGTC
93696484 TTTTCAAATTT-TG
1 TTTTC-AATTTCTG
*
93696497 TTTTTAATTTCTG
1 TTTTCAATTTCTG
93696510 CTTTTCAATTTCTG
1 -TTTTCAATTTCTG
93696524 TTTT
1 TTTT
93696528 TTCAATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 10 0.37
14 12 0.44
ACGTcount: A:0.16, C:0.11, G:0.07, T:0.66
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:93696514 original size:14 final size:14
Alignment explanation
Indices: 93696497--93696535 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
93696487 TCAAATTTTG
93696497 TTTTTAATTTCTGC
1 TTTTTAATTTCTGC
* *
93696511 TTTTCAATTTCTGT
1 TTTTTAATTTCTGC
93696525 TTTTTCAATTT
1 TTTTT-AATTT
93696536 ATATTTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 16 0.76
15 5 0.24
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.67
Consensus pattern (14 bp):
TTTTTAATTTCTGC
Found at i:93697330 original size:30 final size:30
Alignment explanation
Indices: 93697294--93697394 Score: 166
Period size: 30 Copynumber: 3.4 Consensus size: 30
93697284 ACTTTTCTCA
93697294 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
93697324 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
93697354 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
93697384 ACTAGCCACAC
1 ACTAGCCACAC
93697395 TTGCTCCATT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 65 1.00
ACGTcount: A:0.28, C:0.49, G:0.04, T:0.20
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:93697402 original size:30 final size:29
Alignment explanation
Indices: 93697294--93697438 Score: 155
Period size: 30 Copynumber: 4.8 Consensus size: 29
93697284 ACTTTTCTCA
*
93697294 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACA-CTTCTCCACCACCAACTCC
* *
93697324 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACAC-TTCTCCACCACCAACTCC
*
93697354 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACA-CTTCTCCACCACCAACTCC
** *
93697384 ACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACTT-CTCCACCACCAACTCC
* * *
93697414 ACTAACTATACTTGCTCCACCACCA
1 ACTAGCCACACTT-CTCCACCACCA
93697439 CTTGTACCTA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
29 4 0.04
30 93 0.95
31 1 0.01
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.23
Consensus pattern (29 bp):
ACTAGCCACACTTCTCCACCACCAACTCC
Found at i:93697413 original size:60 final size:60
Alignment explanation
Indices: 93697294--93697417 Score: 176
Period size: 60 Copynumber: 2.1 Consensus size: 60
93697284 ACTTTTCTCA
* * * **
93697294 ACTAGCCACACCTTTTCCACCACCAACTCCACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACACTTGCTCCACCACCAACTCC
** *
93697354 ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACACTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACACTTGCTCCACCACCAACTCC
93697414 ACTA
1 ACTA
93697418 ACTATACTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.23
Consensus pattern (60 bp):
ACTAGCCACACCTTCTCCACCACCAAATCCACTAGCCACACTTGCTCCACCACCAACTCC
Found at i:93698011 original size:2 final size:2
Alignment explanation
Indices: 93698004--93698076 Score: 57
Period size: 2 Copynumber: 38.5 Consensus size: 2
93697994 CTATATTACG
* * * * *
93698004 TA TA TA TA TA TT TA TA CTA T- TT TA TG TA TA TA TC TT TA -A TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
93698045 T- TA TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93698077 TTTTTTTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
1 5 0.09
2 50 0.88
3 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (2 bp):
TA
Found at i:93698139 original size:25 final size:25
Alignment explanation
Indices: 93698111--93698159 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
93698101 ATATATCTTA
**
93698111 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
93698136 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
93698160 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:93698337 original size:16 final size:15
Alignment explanation
Indices: 93698313--93698360 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
93698303 TAATTATTAT
*
93698313 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
93698329 TATTTTAATATTTTA
1 TATTTTAATATTTTA
93698344 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
93698360 T
1 T
93698361 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:93698348 original size:7 final size:8
Alignment explanation
Indices: 93698313--93698364 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
93698303 TAATTATTAT
*
93698313 TATTCTAA
1 TATTTTAA
*
93698321 TATTTTGA
1 TATTTTAA
93698329 TATTTTAA
1 TATTTTAA
93698337 TATTTT-A
1 TATTTTAA
93698344 TATTTTATA
1 TATTTTA-A
*
93698353 TATTTTAT
1 TATTTTAA
93698361 TATT
1 TATT
93698365 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:93703789 original size:15 final size:14
Alignment explanation
Indices: 93703769--93703802 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
93703759 GTAAGAACCT
93703769 TTTTACTCTAGTTA
1 TTTTACTCTAGTTA
*
93703783 CTTTTACTTTAGTTA
1 -TTTTACTCTAGTTA
93703798 TTTTA
1 TTTTA
93703803 GTAAAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.21, C:0.12, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTTACTCTAGTTA
Found at i:93713031 original size:23 final size:26
Alignment explanation
Indices: 93713005--93713051 Score: 64
Period size: 23 Copynumber: 1.9 Consensus size: 26
93712995 ATTGATTTAT
*
93713005 GGAAATTATA-AT-TAT-TATTATTA
1 GGAAAATATATATATATATATTATTA
93713028 GGAAAATATATATATATATATTAT
1 GGAAAATATATATATATATATTAT
93713052 CGTATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 2 0.10
25 3 0.15
26 6 0.30
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (26 bp):
GGAAAATATATATATATATATTATTA
Found at i:93715060 original size:26 final size:26
Alignment explanation
Indices: 93715004--93715065 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
93714994 TTTATTAAAC
* *
93715004 TACCCCTAAGTATGAAAATTACCATTT
1 TACCCCT-AGTATGAAAATAACCATTA
*
93715031 TACCCCTAG-ATGCAAAATAACCGTTA
1 TACCCCTAGTATG-AAAATAACCATTA
93715057 TACCCCTAG
1 TACCCCTAG
93715066 GGTTAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 21 0.68
27 7 0.23
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (26 bp):
TACCCCTAGTATGAAAATAACCATTA
Found at i:93716795 original size:22 final size:22
Alignment explanation
Indices: 93716767--93716808 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
93716757 CACTAATGAA
93716767 CAGAGAGCAC-AGATGTGCTAGT
1 CAGAGAGCACTA-ATGTGCTAGT
93716789 CAGAGAGCACTAATGTGCTA
1 CAGAGAGCACTAATGTGCTA
93716809 ATAATCAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (22 bp):
CAGAGAGCACTAATGTGCTAGT
Found at i:93718296 original size:3 final size:3
Alignment explanation
Indices: 93718288--93718328 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
93718278 CTTTAATTTG
93718288 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
93718329 TCTTTTACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:93725883 original size:3 final size:3
Alignment explanation
Indices: 93725877--93725915 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
93725867 AATGAGTAGT
* * *
93725877 AGA AGA AGA TGA TGA TGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
93725916 TGTTGAGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.08
Consensus pattern (3 bp):
AGA
Found at i:93728718 original size:41 final size:41
Alignment explanation
Indices: 93728664--93728746 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
93728654 ATATATATTG
*
93728664 ATATTGTTGTTGATTAAGTTGATGTCACAACTCAACTCGAT
1 ATATTGTTGTTGATTAAGTTGATATCACAACTCAACTCGAT
*
93728705 ATATTGTTGTTGATTAAGTTGATATCACAACTCAACTTGAT
1 ATATTGTTGTTGATTAAGTTGATATCACAACTCAACTCGAT
93728746 A
1 A
93728747 CTAACTCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (41 bp):
ATATTGTTGTTGATTAAGTTGATATCACAACTCAACTCGAT
Found at i:93728908 original size:23 final size:24
Alignment explanation
Indices: 93728882--93728927 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
93728872 TTTCATATGT
93728882 TATAATTAATCAATT-TTAAATCA
1 TATAATTAATCAATTATTAAATCA
* * *
93728905 TATATTTTATCATTTATTAAATC
1 TATAATTAATCAATTATTAAATC
93728928 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
TATAATTAATCAATTATTAAATCA
Found at i:93730220 original size:2 final size:2
Alignment explanation
Indices: 93730213--93730243 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
93730203 ATCTATTAAC
93730213 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 T
93730244 TGAAAGAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93730451 original size:31 final size:30
Alignment explanation
Indices: 93730402--93730467 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
93730392 TTATATTTTG
*
93730402 GTATTATAATTTTTTATCAGTTTGACCCTT
1 GTATTATAATTTTTTATCAATTTGACCCTT
* * * *
93730432 GTATTTTATTTTTGTTATCAATTTTATCCTT
1 GTATTATAATTTT-TTATCAATTTGACCCTT
93730463 GTATT
1 GTATT
93730468 CTCATTCTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.21, C:0.11, G:0.09, T:0.59
Consensus pattern (30 bp):
GTATTATAATTTTTTATCAATTTGACCCTT
Found at i:93731063 original size:18 final size:18
Alignment explanation
Indices: 93731040--93731079 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
93731030 TTTTAAAGTT
*
93731040 TTTTAATAATTTTTTAAG
1 TTTTAAGAATTTTTTAAG
* *
93731058 TTTTAAGATTTTTTTGAG
1 TTTTAAGAATTTTTTAAG
93731076 TTTT
1 TTTT
93731080 TTTTTAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTAAGAATTTTTTAAG
Found at i:93731072 original size:11 final size:11
Alignment explanation
Indices: 93731058--93731104 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
93731048 ATTTTTTAAG
93731058 TTTTAAGATTT
1 TTTTAAGATTT
* *
93731069 TTTTGAGTTTT
1 TTTTAAGATTT
*
93731080 TTTTTAGA-TT
1 TTTTAAGATTT
93731090 TTTTAATGATTT
1 TTTTAA-GATTT
93731102 TTT
1 TTT
93731105 GGATTTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
10 7 0.24
11 17 0.59
12 5 0.17
ACGTcount: A:0.19, C:0.00, G:0.11, T:0.70
Consensus pattern (11 bp):
TTTTAAGATTT
Found at i:93731490 original size:19 final size:19
Alignment explanation
Indices: 93731466--93731510 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
93731456 TTTTATAAAT
93731466 ATAATATGAAAAAATAATTA
1 ATAATATGAAAAAAT-ATTA
* *
93731486 A-AATAAGAACAAATATTA
1 ATAATATGAAAAAATATTA
93731504 ATAATAT
1 ATAATAT
93731511 ATTTACAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.24
19 15 0.71
20 1 0.05
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATGAAAAAATATTA
Found at i:93733336 original size:21 final size:21
Alignment explanation
Indices: 93733307--93733348 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
93733297 CAAAAATGTG
*
93733307 TTTGAGTCAAATA-TGTTTTC
1 TTTGAGTCAAAAAGTGTTTTC
93733327 TTTGAAGTCAAAAAGTGTTTTC
1 TTTG-AGTCAAAAAGTGTTTTC
93733349 AAATTCACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (21 bp):
TTTGAGTCAAAAAGTGTTTTC
Found at i:93734805 original size:43 final size:43
Alignment explanation
Indices: 93734748--93734841 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
93734738 AGTGTGGCAG
* * *
93734748 TTTATTTGTAAATATGTTGTGCATCCACAGTCC-AGTGGTAGTT
1 TTTATCTGTAAATATGTTGTGCACCCACA-ACCTAGTGGTAGTT
93734791 TTTATCTGTAAATATGTTGTGCACCCACAACCTAGTGGTAGTT
1 TTTATCTGTAAATATGTTGTGCACCCACAACCTAGTGGTAGTT
93734834 TTTATCTG
1 TTTATCTG
93734842 CAAAGTGGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 2 0.04
43 45 0.96
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.41
Consensus pattern (43 bp):
TTTATCTGTAAATATGTTGTGCACCCACAACCTAGTGGTAGTT
Found at i:93742067 original size:35 final size:35
Alignment explanation
Indices: 93742028--93742195 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
93742018 GACGATATGT
93742028 AAATATGTTGTGCATCCACAACAGTTTTTATCTGC
1 AAATATGTTGTGCATCCACAACAGTTTTTATCTGC
* ** *
93742063 AAATATGTTGTACATCTACAGCCTAGTGGTAGTTTTTATCTGTG
1 AAATATGTTGTGCATC--CA--C-A---ACAGTTTTTATCTG-C
* * * *
93742107 AAA-ATGTTGTGCATCTACAATAATTATTATCTGC
1 AAATATGTTGTGCATCCACAACAGTTTTTATCTGC
*
93742141 AAATATGTTGTGCATCCACAACAGTTTTTATCTAC
1 AAATATGTTGTGCATCCACAACAGTTTTTATCTGC
93742176 AAATATGTTGTGCATCCACA
1 AAATATGTTGTGCATCCACA
93742196 TCCTAGTGGT
Statistics
Matches: 108, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
34 3 0.03
35 72 0.67
37 2 0.02
38 1 0.01
39 2 0.02
40 1 0.01
41 1 0.01
43 23 0.21
44 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (35 bp):
AAATATGTTGTGCATCCACAACAGTTTTTATCTGC
Found at i:93742097 original size:43 final size:41
Alignment explanation
Indices: 93742050--93742350 Score: 261
Period size: 43 Copynumber: 7.4 Consensus size: 41
93742040 CATCCACAAC
* * *
93742050 AGTTTTTATCTGCAAATATGTTGTACATCTACAGCCTAGTGGT
1 AGTTTTTATCTACAAATATGTTGTGCATCCACA-CC-AGTGGT
** *
93742093 AGTTTTTATCTGTGAAA-ATGTTGTGCATCTACA--A----T
1 AGTTTTTATCT-ACAAATATGTTGTGCATCCACACCAGTGGT
* * * *
93742128 AATTATTATCTGCAAATATGTTGTGCATCCACA--A----C
1 AGTTTTTATCTACAAATATGTTGTGCATCCACACCAGTGGT
93742163 AGTTTTTATCTACAAATATGTTGTGCATCCACATCCTAGTGGT
1 AGTTTTTATCTACAAATATGTTGTGCATCCACA-CC-AGTGGT
**
93742206 AGTTTTTATCTGTGAAA-ATGTTGTGCATCCACAACCCAGTGGT
1 AGTTTTTATCT-ACAAATATGTTGTGCATCCAC-A-CCAGTGGT
*
93742249 AGTTTTTATCTACAAATATGTTATGCATCCACAATCCAGTGGT
1 AGTTTTTATCTACAAATATGTTGTGCATCCAC-A-CCAGTGGT
* *
93742292 AGTTTTTATCTACAAATATGTTATGCATCCACAACCCAGTAGT
1 AGTTTTTATCTACAAATATGTTGTGCATCCAC-A-CCAGTGGT
93742335 AGTTTTTATCTACAAA
1 AGTTTTTATCTACAAA
93742351 GCAATGGTGG
Statistics
Matches: 223, Mismatches: 22, Indels: 26
0.82 0.08 0.10
Matches are distributed among these distances:
34 3 0.01
35 56 0.25
39 2 0.01
42 3 0.01
43 150 0.67
44 9 0.04
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (41 bp):
AGTTTTTATCTACAAATATGTTGTGCATCCACACCAGTGGT
Found at i:93742226 original size:113 final size:113
Alignment explanation
Indices: 93742028--93742239 Score: 379
Period size: 113 Copynumber: 1.9 Consensus size: 113
93742018 GACGATATGT
* *
93742028 AAATATGTTGTGCATCCACAACAGTTTTTATCTGCAAATATGTTGTACATCTACAGCCTAGTGGT
1 AAATATGTTGTGCATCCACAACAGTTTTTATCTACAAATATGTTGTACATCCACAGCCTAGTGGT
*
93742093 AGTTTTTATCTGTGAAAATGTTGTGCATCTACAATAATTATTATCTGC
66 AGTTTTTATCTGTGAAAATGTTGTGCATCCACAATAATTATTATCTGC
* *
93742141 AAATATGTTGTGCATCCACAACAGTTTTTATCTACAAATATGTTGTGCATCCACATCCTAGTGGT
1 AAATATGTTGTGCATCCACAACAGTTTTTATCTACAAATATGTTGTACATCCACAGCCTAGTGGT
93742206 AGTTTTTATCTGTGAAAATGTTGTGCATCCACAA
66 AGTTTTTATCTGTGAAAATGTTGTGCATCCACAA
93742240 CCCAGTGGTA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 94 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (113 bp):
AAATATGTTGTGCATCCACAACAGTTTTTATCTACAAATATGTTGTACATCCACAGCCTAGTGGT
AGTTTTTATCTGTGAAAATGTTGTGCATCCACAATAATTATTATCTGC
Found at i:93742313 original size:86 final size:86
Alignment explanation
Indices: 93742163--93742350 Score: 299
Period size: 86 Copynumber: 2.2 Consensus size: 86
93742153 CATCCACAAC
* **
93742163 AGTTTTTATCTACAAATATGTTGTGCATCCACATCCTAGTGGTAGTTTTTATCTGTGAAAATGTT
1 AGTTTTTATCTACAAATATGTTATGCATCCACATCCTAGTGGTAGTTTTTATCTGACAAAATGTT
* *
93742228 GTGCATCCACAACCCAGTGGT
66 ATGCATCCACAACCCAGTAGT
93742249 AGTTTTTATCTACAAATATGTTATGCATCCACAATCC-AGTGGTAGTTTTTATCT-ACAAATATG
1 AGTTTTTATCTACAAATATGTTATGCATCCAC-ATCCTAGTGGTAGTTTTTATCTGACAAA-ATG
93742312 TTATGCATCCACAACCCAGTAGT
64 TTATGCATCCACAACCCAGTAGT
93742335 AGTTTTTATCTACAAA
1 AGTTTTTATCTACAAA
93742351 GCAATGGTGG
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
85 3 0.03
86 88 0.93
87 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (86 bp):
AGTTTTTATCTACAAATATGTTATGCATCCACATCCTAGTGGTAGTTTTTATCTGACAAAATGTT
ATGCATCCACAACCCAGTAGT
Found at i:93743495 original size:12 final size:13
Alignment explanation
Indices: 93743478--93743515 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
93743468 AAAAAATGTG
93743478 ATAATTATAA-TT
1 ATAATTATAATTT
93743490 ATAATT-TAATTT
1 ATAATTATAATTT
*
93743502 ATAATTATTATTT
1 ATAATTATAATTT
93743515 A
1 A
93743516 AAAAATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 3 0.13
12 14 0.61
13 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATAATTATAATTT
Found at i:93743505 original size:18 final size:18
Alignment explanation
Indices: 93743482--93743516 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93743472 AATGTGATAA
93743482 TTATAATTATAATTTAAT
1 TTATAATTATAATTTAAT
*
93743500 TTATAATTATTATTTAA
1 TTATAATTATAATTTAA
93743517 AAAATTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATAATTATAATTTAAT
Found at i:93747455 original size:21 final size:21
Alignment explanation
Indices: 93747429--93747471 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
93747419 TTACTTTTAA
93747429 GCTTATCAATGATGATTTGAC
1 GCTTATCAATGATGATTTGAC
* *
93747450 GCTTATTAGTGATGATTTGAC
1 GCTTATCAATGATGATTTGAC
93747471 G
1 G
93747472 GAAGCAACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTATCAATGATGATTTGAC
Found at i:93747814 original size:18 final size:17
Alignment explanation
Indices: 93747787--93747845 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
93747777 AAGACCAATT
*
93747787 TAATCAAAATATTAAATA
1 TAATCTAAAT-TTAAATA
93747805 TAATCTAAATTTATAATA
1 TAATCTAAATTTA-AATA
93747823 TAAT-TAAAATTTTAAATCA
1 TAATCT-AAA-TTTAAAT-A
93747842 TAAT
1 TAAT
93747846 ATGTTTCCAG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
17 4 0.11
18 23 0.64
19 9 0.25
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATCTAAATTTAAATA
Found at i:93748166 original size:18 final size:19
Alignment explanation
Indices: 93748131--93748167 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
93748121 AATCAAATTT
*
93748131 TAAAAACCATTTTAAAAAA
1 TAAAAACCAATTTAAAAAA
*
93748150 TAAAAACGAATTTAAAAA
1 TAAAAACCAATTTAAAAA
93748168 GAAAAGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (19 bp):
TAAAAACCAATTTAAAAAA
Found at i:93749791 original size:64 final size:64
Alignment explanation
Indices: 93749705--93749825 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
93749695 GGTGGCCCTG
*
93749705 TAATGGAGTGTCAGGTCCTAACGATAATGCCACATATTCGACATATGTAAAGTTTTGAGGGTCT
1 TAATGGAGTGTCAGATCCTAACGATAATGCCACATATTCGACATATGTAAAGTTTTGAGGGTCT
* * * * * *
93749769 TAATGGAGTGAT-AGATGCTAACGTTAATGCTACATGTTCGACGTGTGTAAAGTTTTG
1 TAATGGAGTG-TCAGATCCTAACGATAATGCCACATATTCGACATATGTAAAGTTTTG
93749826 GTGATTCTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
64 48 0.98
65 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (64 bp):
TAATGGAGTGTCAGATCCTAACGATAATGCCACATATTCGACATATGTAAAGTTTTGAGGGTCT
Found at i:93757410 original size:18 final size:18
Alignment explanation
Indices: 93757383--93757421 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
93757373 ATTGGTTTTC
* *
93757383 ATATAATTGATGTGGAGG
1 ATATAATTGAGGAGGAGG
*
93757401 ATATATTTGAGGAGGAGG
1 ATATAATTGAGGAGGAGG
93757419 ATA
1 ATA
93757422 CATGAGAGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.31
Consensus pattern (18 bp):
ATATAATTGAGGAGGAGG
Found at i:93758411 original size:14 final size:14
Alignment explanation
Indices: 93758373--93758416 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
93758363 CAAAATGTAC
93758373 AATATAATTAAA-T
1 AATATAATTAAATT
93758386 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
93758401 AA-ATAATTTAATT
1 AATATAATTAAATT
93758414 AAT
1 AAT
93758417 TGTTTACCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:93761925 original size:17 final size:18
Alignment explanation
Indices: 93761903--93761936 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93761893 AACGCCTCTG
93761903 TTCTTC-TACTTCTTCAC
1 TTCTTCTTACTTCTTCAC
*
93761920 TTCTTCTTATTTCTTCA
1 TTCTTCTTACTTCTTCA
93761937 AATCAAAGTT
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:0.29, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCTTCTTACTTCTTCAC
Found at i:93778445 original size:39 final size:39
Alignment explanation
Indices: 93778395--93778473 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
93778385 TCGTATTAAT
93778395 ATCTATTTCACTTATCTAATTTTGTACTCTTAACAATTA
1 ATCTATTTCACTTATCTAATTTTGTACTCTTAACAATTA
*
93778434 ATCTATTTCACTTATCTAATTTTGTACTCTTAGCAATTA
1 ATCTATTTCACTTATCTAATTTTGTACTCTTAACAATTA
93778473 A
1 A
93778474 GTCTTTAATC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.18, G:0.04, T:0.48
Consensus pattern (39 bp):
ATCTATTTCACTTATCTAATTTTGTACTCTTAACAATTA
Found at i:93779143 original size:3 final size:3
Alignment explanation
Indices: 93779137--93779217 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
93779127 GATGATGACC
93779137 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93779185 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93779218 CTTCTCTCTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:93781759 original size:73 final size:73
Alignment explanation
Indices: 93781672--93781820 Score: 253
Period size: 73 Copynumber: 2.0 Consensus size: 73
93781662 ATAACCTTTT
* * *
93781672 CATGTTATAAAACATATACAAGTAAACACAATAGATATGCCATTTATTCAACATCTATTCATTTA
1 CATGTTATAAAACATATACAAGTAAACACAATAGATATACCACTCATTCAACATCTATTCATTTA
93781737 ACATTTCA
66 ACATTTCA
* *
93781745 CATGTTATAAAACATATACAAGTAAACACATTAGATATATCACTCATTCAACATCTATTCATTTA
1 CATGTTATAAAACATATACAAGTAAACACAATAGATATACCACTCATTCAACATCTATTCATTTA
93781810 ACATTTCA
66 ACATTTCA
93781818 CAT
1 CAT
93781821 TTCTCATTTC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.34
Consensus pattern (73 bp):
CATGTTATAAAACATATACAAGTAAACACAATAGATATACCACTCATTCAACATCTATTCATTTA
ACATTTCA
Found at i:93782983 original size:42 final size:41
Alignment explanation
Indices: 93782871--93782985 Score: 106
Period size: 42 Copynumber: 2.8 Consensus size: 41
93782861 CAAAAACCCT
* * * * * *
93782871 TAAGGGTTGAACGGAAGCTCATAGGAGCTGAACTGAAATGCA
1 TAAGGGTTAAACGGAAACTCATAAGAG-TTAAATGAAATCCA
* *
93782913 TAAGGGTTAAAC-TAAAGCTCAAAAGAGTTAAATGGAAATCCA
1 TAAGGGTTAAACGGAAA-CTCATAAGAGTTAAAT-GAAATCCA
* *
93782955 TTAGGGTTAAACGGAAACTCATATGAGTTAA
1 TAAGGGTTAAACGGAAACTCATAAGAGTTAA
93782986 CAGAAACTCA
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
41 6 0.10
42 49 0.84
43 3 0.05
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.23
Consensus pattern (41 bp):
TAAGGGTTAAACGGAAACTCATAAGAGTTAAATGAAATCCA
Found at i:93783010 original size:21 final size:20
Alignment explanation
Indices: 93782962--93783012 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
93782952 CCATTAGGGT
*
93782962 TAAACGGAAACTCATATGAG
1 TAAACAGAAACTCATATGAG
*
93782982 TTAACAGAAACTCATGA-GAG
1 TAAACAGAAACTCAT-ATGAG
93783002 CTAAACAGAAA
1 -TAAACAGAAA
93783013 GTAAATACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (20 bp):
TAAACAGAAACTCATATGAG
Found at i:93783490 original size:36 final size:36
Alignment explanation
Indices: 93783443--93783520 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
93783433 TTATAGTTTT
93783443 TACAATTTAGTCCTTCCCCAATTAGTATAATTTTCC
1 TACAATTTAGTCCTTCCCCAATTAGTATAATTTTCC
93783479 TACAATTTAGTCCTTCCCCAATTAGTATAATTTTCC
1 TACAATTTAGTCCTTCCCCAATTAGTATAATTTTCC
93783515 T-CAATT
1 TACAATT
93783521 AACAATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 5 0.12
36 37 0.88
ACGTcount: A:0.28, C:0.24, G:0.05, T:0.42
Consensus pattern (36 bp):
TACAATTTAGTCCTTCCCCAATTAGTATAATTTTCC
Found at i:93784974 original size:45 final size:44
Alignment explanation
Indices: 93784902--93784999 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 44
93784892 TTCAATTATG
* * *
93784902 GTCTTACACGTTGAATCGTGATGCCATAGCATCTTAT-AGCTACA
1 GTCTTACTCGTTGAATCATGATACCATAGCATCTT-TCAGCTACA
* **
93784946 GTCTTACTCGTTTGAATCATGATACCATAGCGTCTTTCAGCTATG
1 GTCTTACTCG-TTGAATCATGATACCATAGCATCTTTCAGCTACA
93784991 GTCTTACTC
1 GTCTTACTC
93785000 ATTTCCAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 10 0.22
45 36 0.78
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (44 bp):
GTCTTACTCGTTGAATCATGATACCATAGCATCTTTCAGCTACA
Found at i:93785721 original size:44 final size:44
Alignment explanation
Indices: 93785671--93785759 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
93785661 TATTTACGGG
93785671 CTTGGTTTACAGAAACGAGGTCTCAAAACTTTATTTTTTAAAAC
1 CTTGGTTTACAGAAACGAGGTCTCAAAACTTTATTTTTTAAAAC
93785715 CTTGGTTTACAGAAACGAGGTCTCAAAACTTTATTTTTTAAAAC
1 CTTGGTTTACAGAAACGAGGTCTCAAAACTTTATTTTTTAAAAC
93785759 C
1 C
93785760 ACTTGACTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (44 bp):
CTTGGTTTACAGAAACGAGGTCTCAAAACTTTATTTTTTAAAAC
Found at i:93800902 original size:19 final size:19
Alignment explanation
Indices: 93800880--93800923 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
93800870 TATTTACTCA
*
93800880 TATTCTTTTTATTTAGTAT
1 TATTCTTTTCATTTAGTAT
* *
93800899 TATTATTTTCATTTATTAT
1 TATTCTTTTCATTTAGTAT
93800918 T-TTCTT
1 TATTCTT
93800924 ATTTTATTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (19 bp):
TATTCTTTTCATTTAGTAT
Found at i:93802454 original size:6 final size:6
Alignment explanation
Indices: 93802426--93802498 Score: 74
Period size: 6 Copynumber: 11.5 Consensus size: 6
93802416 ATTTTATTTC
* * * *
93802426 TTTTCT TTTCAT TCTTAT TTTTAT GTTTATT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT
93802475 TTTTAGTT GTTTTAT TTTTAT TTT
1 TTTTA--T -TTTTAT TTTTAT TTT
93802499 CTTAGTCTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
6 44 0.79
7 6 0.11
8 1 0.02
9 5 0.09
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:93802464 original size:19 final size:19
Alignment explanation
Indices: 93802440--93802478 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
93802430 CTTTTCATTC
93802440 TTATTTTTATGTTTATTTT
1 TTATTTTTATGTTTATTTT
*
93802459 TTATTTTTATTTTTATTTT
1 TTATTTTTATGTTTATTTT
93802478 T
1 T
93802479 AGTTGTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (19 bp):
TTATTTTTATGTTTATTTT
Found at i:93812012 original size:20 final size:19
Alignment explanation
Indices: 93811976--93812039 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 19
93811966 TTATCATTTT
*
93811976 TAATCTCTCATAGTTTTTAG
1 TAATCT-TCATAATTTTTAG
*
93811996 TACATCTTCATAATTTTTTGG
1 TA-ATCTTCATAA-TTTTTAG
*
93812017 TAATCCTTCATAATTTTTGG
1 TAAT-CTTCATAATTTTTAG
93812037 TAA
1 TAA
93812040 ACTGTCATGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 19 0.49
21 20 0.51
ACGTcount: A:0.27, C:0.14, G:0.09, T:0.50
Consensus pattern (19 bp):
TAATCTTCATAATTTTTAG
Found at i:93812014 original size:21 final size:21
Alignment explanation
Indices: 93811989--93812034 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
93811979 TCTCTCATAG
93811989 TTTTTAGTACAT-CTTCATAAT
1 TTTTTAGTA-ATCCTTCATAAT
*
93812010 TTTTTGGTAATCCTTCATAAT
1 TTTTTAGTAATCCTTCATAAT
93812031 TTTT
1 TTTT
93812035 GGTAAACTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTTAGTAATCCTTCATAAT
Found at i:93812047 original size:20 final size:21
Alignment explanation
Indices: 93812001--93812077 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
93811991 TTTAGTACAT
*
93812001 CTTCATAATTTTTTGGTAATC
1 CTTCATAATTTTTTGGTAATA
93812022 CTTCATAA-TTTTTGGTAA-A
1 CTTCATAATTTTTTGGTAATA
** * *
93812041 CTGTCATGGTTTTTTGATAACCA
1 CT-TCATAATTTTTTGGTAA-TA
93812064 C-TCATAATTTTTTG
1 CTTCATAATTTTTTG
93812078 TATTTCTCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.04
20 14 0.30
21 28 0.61
23 2 0.04
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (21 bp):
CTTCATAATTTTTTGGTAATA
Found at i:93812086 original size:19 final size:20
Alignment explanation
Indices: 93812064--93812109 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
93812054 TTGATAACCA
**
93812064 CTCATAATTTTTTGTATTT-
1 CTCATAATTTTTTACATTTG
*
93812083 CTCATATTTTTTTACATTTG
1 CTCATAATTTTTTACATTTG
93812103 CTCATAA
1 CTCATAA
93812110 ATATTGGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.57
Consensus pattern (20 bp):
CTCATAATTTTTTACATTTG
Found at i:93812419 original size:19 final size:19
Alignment explanation
Indices: 93812369--93812419 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
93812359 TTGATAACCA
*
93812369 CTCATAATTTTTGGTATTTT
1 CTCAT-ATTTTTAGTATTTT
93812389 CTCATATCTTTTAGTA-TTT
1 CTCATAT-TTTTAGTATTTT
93812408 CTTCATATTTTT
1 C-TCATATTTTT
93812420 TGATAATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.20, C:0.14, G:0.06, T:0.61
Consensus pattern (19 bp):
CTCATATTTTTAGTATTTT
Found at i:93812828 original size:20 final size:20
Alignment explanation
Indices: 93812803--93812868 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
93812793 TTCTCATGTT
*
93812803 TTTTTGCTATTCCCTCATAA
1 TTTTTGCTATTCCCTCAAAA
* * * *
93812823 TTTTTGGTAATCCTTCACAA
1 TTTTTGCTATTCCCTCAAAA
*
93812843 TTTTTTCTACTT-CCTCAAAA
1 TTTTTGCTA-TTCCCTCAAAA
93812863 TTTTTG
1 TTTTTG
93812869 ATACACGCCT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
20 34 0.97
21 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTTGCTATTCCCTCAAAA
Found at i:93812927 original size:41 final size:42
Alignment explanation
Indices: 93812850--93812950 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 42
93812840 CAATTTTTTC
* * * *
93812850 TACTTCCTCAAAATTTTTGATACACGCCTCTTATATTTTG-A
1 TACTTCTTCAAAATTTTTGACACACGCCTCTAATATTTGGTA
93812891 TACTTCTTCAAAATTTTTGACA-ATC-CCTCATAATATTTGGTA
1 TACTTCTTCAAAATTTTTGACACA-CGCCTC-TAATATTTGGTA
*
93812933 TGCTT-TT-AAAATTTTTGA
1 TACTTCTTCAAAATTTTTGA
93812951 ATAAGTTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
40 16 0.31
41 31 0.60
42 5 0.10
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.46
Consensus pattern (42 bp):
TACTTCTTCAAAATTTTTGACACACGCCTCTAATATTTGGTA
Found at i:93814096 original size:50 final size:49
Alignment explanation
Indices: 93814021--93814120 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 49
93814011 TTCATCATCG
93814021 AGACATTGGCTCTTCCTCATTGAAACGTCAATTTCGTAAATACAAGGCAT
1 AGACATTGGCTCTTCCTCATTGAAACGTCAA-TTCGTAAATACAAGGCAT
* **
93814071 AGACATTGGCTCTTCCTCCTTGAAACGTCAATTCGTAAATATGAGGCAT
1 AGACATTGGCTCTTCCTCATTGAAACGTCAATTCGTAAATACAAGGCAT
93814120 A
1 A
93814121 CTCCACAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 17 0.36
50 30 0.64
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (49 bp):
AGACATTGGCTCTTCCTCATTGAAACGTCAATTCGTAAATACAAGGCAT
Found at i:93816228 original size:20 final size:21
Alignment explanation
Indices: 93816182--93816228 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
93816172 CCCCATCAAG
*
93816182 TTTTTTAGTAATTCCTCATAA
1 TTTTTTAGTAATTCCTCACAA
*
93816203 TTTTTT-GTATTTCCTCACAA
1 TTTTTTAGTAATTCCTCACAA
93816223 TTTTTT
1 TTTTTT
93816229 TACAATCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.21, C:0.15, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTTTAGTAATTCCTCACAA
Found at i:93816229 original size:21 final size:21
Alignment explanation
Indices: 93816182--93816248 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
93816172 CCCCATCAAG
* *
93816182 TTTTTTAGTAATTCCTCATAA
1 TTTTTTTGTAATTCCTCACAA
*
93816203 -TTTTTTGTATTTCCTCACAA
1 TTTTTTTGTAATTCCTCACAA
** *
93816223 TTTTTTTACAATCCCTCACAA
1 TTTTTTTGTAATTCCTCACAA
*
93816244 ATTTT
1 TTTTT
93816249 GGTATTCTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.52
Consensus pattern (21 bp):
TTTTTTTGTAATTCCTCACAA
Found at i:93816323 original size:20 final size:21
Alignment explanation
Indices: 93816285--93816329 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
93816275 CCTCGTGTTT
* *
93816285 TTTTGGTATTCTCTCAT-AAA
1 TTTTGGTACTCCCTCATAAAA
*
93816305 TTTTGGTACTCCCTTATAAAA
1 TTTTGGTACTCCCTCATAAAA
93816326 TTTT
1 TTTT
93816330 TTATATGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (21 bp):
TTTTGGTACTCCCTCATAAAA
Found at i:93818522 original size:26 final size:26
Alignment explanation
Indices: 93818480--93818548 Score: 63
Period size: 26 Copynumber: 2.6 Consensus size: 26
93818470 CTCTTTTAAG
93818480 TAAATTCATCAAAATTATAAT-TAATC
1 TAAATTCATCAAAATTA-AATATAATC
*
93818506 TAAATTGAT-AAACATTAAATATAATC
1 TAAATTCATCAAA-ATTAAATATAATC
*
93818532 AAACATATCAT-AAAATT
1 TAA-AT-TCATCAAAATT
93818549 TATATAGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
25 6 0.17
26 19 0.53
27 5 0.14
28 6 0.17
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (26 bp):
TAAATTCATCAAAATTAAATATAATC
Found at i:93823285 original size:4 final size:4
Alignment explanation
Indices: 93823276--93823309 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
93823266 AATGTGATCA
93823276 TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
93823310 CAGTTCGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:93824697 original size:15 final size:15
Alignment explanation
Indices: 93824665--93824711 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
93824655 TGATAAATTA
* *
93824665 AAAAAATAAGTGC-A
1 AAAAAATAAGTACTG
*
93824679 AAAAAATAAGTATTG
1 AAAAAATAAGTACTG
*
93824694 AAAAATTAAGTACTG
1 AAAAAATAAGTACTG
93824709 AAA
1 AAA
93824712 TTAAATTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.62, C:0.04, G:0.13, T:0.21
Consensus pattern (15 bp):
AAAAAATAAGTACTG
Found at i:93824830 original size:20 final size:21
Alignment explanation
Indices: 93824807--93824847 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
93824797 CAAAAAAAAA
*
93824807 ATTATATTTT-ACATTTTATC
1 ATTAAATTTTAACATTTTATC
93824827 ATTAAATTTTAAACATTTTAT
1 ATTAAATTTT-AACATTTTAT
93824848 TTATTCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTAAATTTTAACATTTTATC
Found at i:93825962 original size:13 final size:15
Alignment explanation
Indices: 93825944--93825976 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
93825934 AAATAATTAA
93825944 TTAATTGA-AAAT-T
1 TTAATTGATAAATAT
93825957 TTAATTGATAAATAT
1 TTAATTGATAAATAT
93825972 TTAAT
1 TTAAT
93825977 ATACATTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 4 0.22
15 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TTAATTGATAAATAT
Found at i:93830971 original size:18 final size:18
Alignment explanation
Indices: 93830948--93831000 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
93830938 ATTTACAGGT
93830948 TCACATGATCATATAGGC
1 TCACATGATCATATAGGC
*
93830966 TCACATGTTC-T-TAGGGC
1 TCACATGATCATATA-GGC
*
93830983 TCGCATGA-CATATAGGC
1 TCACATGATCATATAGGC
93831000 T
1 T
93831001 TGCATGCACC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 3 0.10
17 15 0.52
18 11 0.38
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (18 bp):
TCACATGATCATATAGGC
Found at i:93831083 original size:58 final size:58
Alignment explanation
Indices: 93830991--93831328 Score: 281
Period size: 58 Copynumber: 5.9 Consensus size: 58
93830981 GCTCGCATGA
* * ** * * *
93830991 CATATAGGCTTGCATGCACCTAAGGTTCGTATATAGGCTCACAAGTTCCTAGGGTTCG
1 CATATAGGCTCGCAAGTTCCTAAGGTTCGCATATAGGCTCACATGTACCTAGGGTTCG
* * * ** * * *
93831049 CATATAGGCTCACATGTACCT-AGTGTTCGCATATAGGCTCGTAGGTTCCTAGGATTCG
1 CATATAGGCTCGCAAGTTCCTAAG-GTTCGCATATAGGCTCACATGTACCTAGGGTTCG
*** * * * * * * *
93831107 CATATAAAATCGCAAATTCCTAA-GTT-TCACA-A-GCTCGCATGTACATGGGGCTCG
1 CATATAGGCTCGCAAGTTCCTAAGGTTCGCATATAGGCTCACATGTACCTAGGGTTCG
* * * * * *
93831161 AATACAGGCTCGCAAGTTCCTAGGGTTCGCATATAGGCTCGCGTGTACCTAGTGTTCG
1 CATATAGGCTCGCAAGTTCCTAAGGTTCGCATATAGGCTCACATGTACCTAGGGTTCG
* * * * *
93831219 CATACAAGCTTGCAAGTTTCTAGGGTTCGCATATAGGCTCACATGTACCTAGGGTTCG
1 CATATAGGCTCGCAAGTTCCTAAGGTTCGCATATAGGCTCACATGTACCTAGGGTTCG
* **
93831277 CATAAAGGCTCATAAGTTCCTAAGGTTCGCATATAGGCTCACATGTACCTAG
1 CATATAGGCTCGCAAGTTCCTAAGGTTCGCATATAGGCTCACATGTACCTAG
93831329 TCCTAAGGTT
Statistics
Matches: 222, Mismatches: 52, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
54 31 0.14
55 4 0.02
56 6 0.03
57 6 0.03
58 174 0.78
59 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (58 bp):
CATATAGGCTCGCAAGTTCCTAAGGTTCGCATATAGGCTCACATGTACCTAGGGTTCG
Found at i:93831377 original size:29 final size:29
Alignment explanation
Indices: 93830991--93831328 Score: 243
Period size: 29 Copynumber: 11.8 Consensus size: 29
93830981 GCTCGCATGA
* * *
93830991 CATATAGGCTTGCATGCACCTAAGGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
* * * *
93831020 TATATAGGCTCACAAGTTCCTAGGGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
* *
93831049 CATATAGGCTCACATGTACCTAGTGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
* * * *
93831078 CATATAGGCTCGTAGGTTCCTAGGATTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
*** ** * * *
93831107 CATATAAAATCGCAAATTCCTA-AGTT-T
1 CATATAGGCTCGCATGTACCTAGGGTTCG
* * * *
93831134 CACA-A-GCTCGCATGTACATGGGGCTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
* * * *
93831161 AATACAGGCTCGCAAGTTCCTAGGGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
* *
93831190 CATATAGGCTCGCGTGTACCTAGTGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
* * * * **
93831219 CATACAAGCTTGCAAGTTTCTAGGGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
*
93831248 CATATAGGCTCACATGTACCTAGGGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
* ** * * *
93831277 CATAAAGGCTCATAAGTTCCTAAGGTTCG
1 CATATAGGCTCGCATGTACCTAGGGTTCG
*
93831306 CATATAGGCTCACATGTACCTAG
1 CATATAGGCTCGCATGTACCTAG
93831329 TCCTAAGGTT
Statistics
Matches: 230, Mismatches: 75, Indels: 8
0.73 0.24 0.03
Matches are distributed among these distances:
25 8 0.03
26 3 0.01
27 5 0.02
28 3 0.01
29 211 0.92
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (29 bp):
CATATAGGCTCGCATGTACCTAGGGTTCG
Found at i:93831487 original size:22 final size:22
Alignment explanation
Indices: 93831462--93831507 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
93831452 ATCCTAGGGT
* *
93831462 TCGCATAACATATATTCATGGC
1 TCGCATAACATAAATACATGGC
93831484 TCGCATAACATAAATACATGGC
1 TCGCATAACATAAATACATGGC
93831506 TC
1 TC
93831508 ACCTAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (22 bp):
TCGCATAACATAAATACATGGC
Found at i:93831514 original size:22 final size:22
Alignment explanation
Indices: 93831465--93831515 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
93831455 CTAGGGTTCG
* * *
93831465 CATAACATATATTCATGGCTCG
1 CATAACATAAATACATGGCTCA
93831487 CATAACATAAATACATGGCTCA
1 CATAACATAAATACATGGCTCA
*
93831509 CCTAACA
1 CATAACA
93831516 CATAATCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.25
Consensus pattern (22 bp):
CATAACATAAATACATGGCTCA
Found at i:93831626 original size:15 final size:15
Alignment explanation
Indices: 93831606--93831644 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
93831596 GTTTTACATA
*
93831606 GGGGTTCACTTAACT
1 GGGGTTCACTTAACC
*
93831621 GGGGTTCGCTTAACC
1 GGGGTTCACTTAACC
93831636 GGGGTTCAC
1 GGGGTTCAC
93831645 AATTTAAGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.28
Consensus pattern (15 bp):
GGGGTTCACTTAACC
Found at i:93832765 original size:2 final size:2
Alignment explanation
Indices: 93832760--93832784 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93832750 AAAAACTATT
93832760 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 T
93832785 TGTAAGATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93837053 original size:2 final size:2
Alignment explanation
Indices: 93837046--93837070 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93837036 AAACAACCAT
93837046 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 A
93837071 TTAGATTGTG
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:93838880 original size:12 final size:12
Alignment explanation
Indices: 93838865--93838889 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93838855 ATTATATTAT
93838865 ATTGTATATAAA
1 ATTGTATATAAA
93838877 ATTGTATATAAA
1 ATTGTATATAAA
93838889 A
1 A
93838890 AATATAAAGT
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
ATTGTATATAAA
Found at i:93853047 original size:17 final size:18
Alignment explanation
Indices: 93853027--93853068 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
93853017 TATTAAAAAA
*
93853027 TAAAAAAATTTATAAT-T
1 TAAAAAAATTTAGAATAT
* *
93853044 TAAATAATTTTAGAATAT
1 TAAAAAAATTTAGAATAT
93853062 TAAAAAA
1 TAAAAAA
93853069 TCCTATTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAAAAAATTTAGAATAT
Found at i:93853134 original size:2 final size:2
Alignment explanation
Indices: 93853127--93853159 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
93853117 ATTCTTCAAA
93853127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93853160 CAAAATCGAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93854337 original size:20 final size:21
Alignment explanation
Indices: 93854314--93854358 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
93854304 GAAAACAAAT
93854314 AATTGAA-TGACAAAAAAAGA
1 AATTGAAGTGACAAAAAAAGA
* * *
93854334 AATTTAAGTGACCAAAAGAGA
1 AATTGAAGTGACAAAAAAAGA
93854355 AATT
1 AATT
93854359 TACTTATAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.20
Consensus pattern (21 bp):
AATTGAAGTGACAAAAAAAGA
Found at i:93854345 original size:21 final size:21
Alignment explanation
Indices: 93854321--93854360 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
93854311 AATAATTGAA
93854321 TGACAAAAAAAGAAATTTAAG
1 TGACAAAAAAAGAAATTTAAG
* *
93854342 TGACCAAAAGAGAAATTTA
1 TGACAAAAAAAGAAATTTA
93854361 CTTATAGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.20
Consensus pattern (21 bp):
TGACAAAAAAAGAAATTTAAG
Found at i:93857234 original size:14 final size:13
Alignment explanation
Indices: 93857211--93857242 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
93857201 GGGATATCAA
93857211 AACAATAATTAAG
1 AACAATAATTAAG
93857224 AACACATAATTAAG
1 AACA-ATAATTAAG
93857238 AACAA
1 AACAA
93857243 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:93857826 original size:21 final size:19
Alignment explanation
Indices: 93857786--93857829 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
93857776 ATCTTCTCGA
*
93857786 TTTGGTCATTTTGTCCCCT
1 TTTGGTCATTTTGGCCCCT
*
93857805 TTTGGCTCATTTTTGGCTCCT
1 TTTGG-TCA-TTTTGGCCCCT
93857826 TTTG
1 TTTG
93857830 ACTCTTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 3 0.14
21 13 0.62
ACGTcount: A:0.05, C:0.23, G:0.18, T:0.55
Consensus pattern (19 bp):
TTTGGTCATTTTGGCCCCT
Found at i:93862430 original size:5 final size:5
Alignment explanation
Indices: 93862420--93862455 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
93862410 ATTTGTGTTC
93862420 TTTAT TTTA- TTTAT TTTA- TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
93862456 TCACAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.28
5 21 0.72
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:93862434 original size:9 final size:9
Alignment explanation
Indices: 93862420--93862455 Score: 63
Period size: 9 Copynumber: 3.9 Consensus size: 9
93862410 ATTTGTGTTC
93862420 TTTATTTTA
1 TTTATTTTA
93862429 TTTATTTTA
1 TTTATTTTA
93862438 TTTATTTTA
1 TTTATTTTA
93862447 TTTTATTTT
1 -TTTATTTT
93862456 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:93862439 original size:14 final size:15
Alignment explanation
Indices: 93862420--93862455 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
93862410 ATTTGTGTTC
93862420 TTTATTTTA-TTTAT
1 TTTATTTTATTTTAT
93862434 TTTA-TTTATTTTAT
1 TTTATTTTATTTTAT
93862448 TTTATTTT
1 TTTATTTT
93862456 TCACAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.20
14 13 0.65
15 3 0.15
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTTATTTTAT
Found at i:93866872 original size:5 final size:5
Alignment explanation
Indices: 93866862--93866893 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
93866852 TTGTGTGTTC
93866862 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
93866894 TCACAGCTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:93866876 original size:9 final size:9
Alignment explanation
Indices: 93866862--93866892 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
93866852 TTGTGTGTTC
93866862 TTTATTTTA
1 TTTATTTTA
93866871 TTTATTTTA
1 TTTATTTTA
93866880 TTTTATTTTA
1 -TTTATTTTA
93866890 TTT
1 TTT
93866893 TTCACAGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:93877441 original size:20 final size:21
Alignment explanation
Indices: 93877416--93877456 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
93877406 ACAAAGTTGC
*
93877416 AGAGAAGAACAAGA-AAAATT
1 AGAGAAAAACAAGAGAAAATT
*
93877436 AGAGAAAAAGAAGAGAAAATT
1 AGAGAAAAACAAGAGAAAATT
93877457 TTGTGAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.66, C:0.02, G:0.22, T:0.10
Consensus pattern (21 bp):
AGAGAAAAACAAGAGAAAATT
Found at i:93885412 original size:20 final size:19
Alignment explanation
Indices: 93885387--93885424 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
93885377 CACGGTCCTT
93885387 GCACACGAGTGTGTGAGGTC
1 GCACACGAGTGTGT-AGGTC
*
93885407 GCACACGTGTGTGTAGGT
1 GCACACGAGTGTGTAGGT
93885425 TAACCACACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.18, C:0.18, G:0.39, T:0.24
Consensus pattern (19 bp):
GCACACGAGTGTGTAGGTC
Found at i:93886417 original size:19 final size:20
Alignment explanation
Indices: 93886390--93886430 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
93886380 TCACCTTTGT
93886390 TTTAATAAAACA-ATTTTAG
1 TTTAATAAAACACATTTTAG
*
93886409 TTTACTAAAACAGCATTTTAG
1 TTTAATAAAACA-CATTTTAG
93886430 T
1 T
93886431 CTACGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (20 bp):
TTTAATAAAACACATTTTAG
Found at i:93887259 original size:24 final size:23
Alignment explanation
Indices: 93887232--93887287 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
93887222 AAAACGAATA
*
93887232 AATAATAAAAAGCCTCAAGTAAAT
1 AATAATAAAAA-CCTAAAGTAAAT
* *
93887256 AATATATATAAACTTAAAGTAAAT
1 AATA-ATAAAAACCTAAAGTAAAT
93887280 AATAATAA
1 AATAATAA
93887288 TACGATTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 18 0.67
25 6 0.22
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (23 bp):
AATAATAAAAACCTAAAGTAAAT
Found at i:93897972 original size:19 final size:20
Alignment explanation
Indices: 93897948--93897995 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
93897938 GGTCTTTTCG
* *
93897948 TGAAATTTAATGCATATG-A
1 TGAAATGTAATGCAAATGAA
93897967 TGAAATGTAATGCAAATGAA
1 TGAAATGTAATGCAAATGAA
93897987 TG-AATGTAA
1 TGAAATGTAA
93897996 AAAGAGGCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 23 0.88
20 3 0.12
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (20 bp):
TGAAATGTAATGCAAATGAA
Found at i:93901932 original size:23 final size:21
Alignment explanation
Indices: 93901901--93901952 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
93901891 TGTAAAAGTT
93901901 TAAAATAAAATAACATATACATA
1 TAAAATAAAATAA-ATA-ACATA
93901924 -AAACATAAAATAAATAACATA
1 TAAA-ATAAAATAAATAACATA
93901945 TAAAATAA
1 TAAAATAA
93901953 TTTGAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 9 0.33
22 9 0.33
23 9 0.33
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAATAAAATAAATAACATA
Found at i:93904344 original size:20 final size:21
Alignment explanation
Indices: 93904315--93904362 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
93904305 AAATAGTGAG
93904315 AATT-TATTTTCTA-AATATA-
1 AATTCTATTTTCTAGAATA-AC
93904334 AATTCTATTTTCTAGAATAAC
1 AATTCTATTTTCTAGAATAAC
93904355 AATTCTAT
1 AATTCTAT
93904363 CGCTTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 12 0.46
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (21 bp):
AATTCTATTTTCTAGAATAAC
Found at i:93916315 original size:24 final size:25
Alignment explanation
Indices: 93916287--93916344 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
93916277 ATGAATAAAA
*
93916287 TTTAATAAATAAAA-AATATTA-ATT
1 TTTAA-AAATAAAATAATATAATATT
*
93916311 TTT-AAATTAAAATAATATAATATT
1 TTTAAAAATAAAATAATATAATATT
93916335 TTTAAAAATA
1 TTTAAAAATA
93916345 TATATATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 7 0.25
23 7 0.25
24 9 0.32
25 5 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTAAAAATAAAATAATATAATATT
Found at i:93916676 original size:21 final size:22
Alignment explanation
Indices: 93916647--93916687 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
93916637 TGAATTGACA
*
93916647 TTAAAAATA-AGTTTTTATTTT
1 TTAAAAATAGAATTTTTATTTT
*
93916668 TTAATAATAGAATTTTTATT
1 TTAAAAATAGAATTTTTATT
93916688 CATTCCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (22 bp):
TTAAAAATAGAATTTTTATTTT
Found at i:93921573 original size:10 final size:10
Alignment explanation
Indices: 93921558--93921585 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
93921548 AGGTTATATC
93921558 AAAATTTTTA
1 AAAATTTTTA
93921568 AAAATTTTTA
1 AAAATTTTTA
93921578 AAAATTTT
1 AAAATTTT
93921586 CCTAGTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
AAAATTTTTA
Found at i:93923153 original size:35 final size:35
Alignment explanation
Indices: 93922940--93923141 Score: 246
Period size: 35 Copynumber: 5.6 Consensus size: 35
93922930 TCCTCATTAA
**
93922940 AATACCATACCTACATTTTTCAACTC-GATATGGGA-
1 AATACCATACCTACATTTCACAACTCAG-TAT-GGAT
* **
93922975 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
* *
93923015 AATACCATACCTACATTTCACAGCTTAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
93923050 AATACCATACCTACATTTCACAACTCAGTATGAAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
93923085 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
93923120 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
93923142 CTTTGCCATG
Statistics
Matches: 148, Mismatches: 13, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
35 118 0.80
36 1 0.01
39 3 0.02
40 26 0.18
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:93930636 original size:117 final size:117
Alignment explanation
Indices: 93930430--93930663 Score: 371
Period size: 117 Copynumber: 2.0 Consensus size: 117
93930420 AATCACCTCC
* * *
93930430 TAAGCATGTTTACATCCTCAATCTCTCCGTTAAAGTTTAGGGTTCCTATAGTATAGTGAGAAAAA
1 TAAGCATGTTTACATCCTCAATCTCTCCATTAAAGCTTAGGGTTCCTATAGTATAATGAGAAAAA
*
93930495 GTTTGGGTTAAAGAGAGAAAGCTTTAATTAAGGTAAAAAATTAAGTATCCTT
66 GTATGGGTTAAAGAGAGAAAGCTTTAATTAAGGTAAAAAATTAAGTATCCTT
* * * *
93930547 TAAGCATGTTTACATCCTTAATCTCTCCATTGAAGCTTATGGTTTCTATAGTATAATGAGATAAA
1 TAAGCATGTTTACATCCTCAATCTCTCCATTAAAGCTTAGGGTTCCTATAGTATAATGAGA-AAA
*
93930612 A-TATGGGTTAAAGAGAGAAAGCTTTAATTAAGGTAATAAATTAAGTATCCTT
65 AGTATGGGTTAAAGAGAGAAAGCTTTAATTAAGGTAAAAAATTAAGTATCCTT
93930664 CTTCCTCATC
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
117 103 0.96
118 4 0.04
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.35
Consensus pattern (117 bp):
TAAGCATGTTTACATCCTCAATCTCTCCATTAAAGCTTAGGGTTCCTATAGTATAATGAGAAAAA
GTATGGGTTAAAGAGAGAAAGCTTTAATTAAGGTAAAAAATTAAGTATCCTT
Found at i:93930997 original size:98 final size:98
Alignment explanation
Indices: 93930800--93930979 Score: 254
Period size: 98 Copynumber: 1.8 Consensus size: 98
93930790 TTAAAATGTT
* * * * * *
93930800 TTTTTTTTTTATTACAATGATTTGAACTCAAGATATTTTTGGGCATATGAATACTTGATCAATAG
1 TTTTTTTTTTATAACAATAATTCGAACTCAAGATATTTTTGAGCATATGAACACTTGATCAATAA
93930865 GCCATAACTTAGGGTTCAAAAGGATTCATAGTG
66 GCCATAACTTAGGGTTCAAAAGGATTCATAGTG
* *
93930898 TTTTTTTTTTATAATAATAATTCGAACTCGAGATATTTTTGAG-ATAAATGAACACTTGATCAAT
1 TTTTTTTTTTATAACAATAATTCGAACTCAAGATATTTTTGAGCAT--ATGAACACTTGATCAAT
*
93930962 AAGCCATAACTTCGGGTT
64 AAGCCATAACTTAGGGTT
93930980 AGAAAGATTC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
97 2 0.03
98 37 0.52
99 32 0.45
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (98 bp):
TTTTTTTTTTATAACAATAATTCGAACTCAAGATATTTTTGAGCATATGAACACTTGATCAATAA
GCCATAACTTAGGGTTCAAAAGGATTCATAGTG
Found at i:93932677 original size:18 final size:18
Alignment explanation
Indices: 93932654--93932688 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93932644 TTCGTTATTT
*
93932654 TTTTTTTAAATTGTATAA
1 TTTTTTAAAATTGTATAA
*
93932672 TTTTTTAAAATTTTATA
1 TTTTTTAAAATTGTATA
93932689 TAGTTCCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TTTTTTAAAATTGTATAA
Found at i:93939270 original size:13 final size:13
Alignment explanation
Indices: 93939252--93939281 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
93939242 TTTGAAAGGG
93939252 GGGGTTTGGGGTT
1 GGGGTTTGGGGTT
*
93939265 GGGGTTTGGGTTT
1 GGGGTTTGGGGTT
93939278 GGGG
1 GGGG
93939282 GGAGGAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (13 bp):
GGGGTTTGGGGTT
Found at i:93939629 original size:23 final size:22
Alignment explanation
Indices: 93939579--93939629 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
93939569 CAATTTTTCT
*
93939579 TTTTTAATATTTTTTATTAAAA
1 TTTTTAAGATTTTTTATTAAAA
* *
93939601 -TATTAAGATTTTTTTTTATAAA
1 TTTTTAAGATTTTTTATTA-AAA
93939623 TTTTTAA
1 TTTTTAA
93939630 ATAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 15 0.65
22 3 0.13
23 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTTAAGATTTTTTATTAAAA
Found at i:93940675 original size:19 final size:17
Alignment explanation
Indices: 93940635--93940677 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
93940625 ATTTTATAAA
93940635 TATATATATTGAAATTT
1 TATATATATTGAAATTT
*
93940652 AATATATATTGAAAATATT
1 TATATATATTG-AAAT-TT
93940671 TATATAT
1 TATATAT
93940678 TTTTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 4 0.18
19 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
TATATATATTGAAATTT
Found at i:93941893 original size:20 final size:19
Alignment explanation
Indices: 93941868--93941905 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
93941858 AATTTCTTTG
93941868 GATCTTACCAAATCCTTGAT
1 GATCTTACCAAAT-CTTGAT
*
93941888 GATCTTGCCAAATCTTGA
1 GATCTTACCAAATCTTGA
93941906 CACTAATCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (19 bp):
GATCTTACCAAATCTTGAT
Found at i:93943497 original size:22 final size:21
Alignment explanation
Indices: 93943469--93943517 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
93943459 AATGCACTAT
* *
93943469 AGTGCAAATACAGAGGCATCAA
1 AGTGCAAA-ACAGAGACACCAA
93943491 AGTGC-AAACAGAGACACCAA
1 AGTGCAAAACAGAGACACCAA
93943511 AGTGCAA
1 AGTGCAA
93943518 TCCGTACAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 16 0.67
21 3 0.12
22 5 0.21
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.10
Consensus pattern (21 bp):
AGTGCAAAACAGAGACACCAA
Found at i:93947216 original size:22 final size:21
Alignment explanation
Indices: 93947182--93947244 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
93947172 AATTTTTATT
* *
93947182 ATGAGTAGTTTATCTACAACA
1 ATGAGTGGTTTATCCACAACA
**
93947203 ATGAGTGTGTTTATCCACAATG
1 ATGAGTG-GTTTATCCACAACA
93947225 ATGAGTGGTTTCATCCACAA
1 ATGAGTGGTTT-ATCCACAA
93947245 TGTGGTGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 10 0.28
22 26 0.72
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (21 bp):
ATGAGTGGTTTATCCACAACA
Found at i:93947245 original size:22 final size:22
Alignment explanation
Indices: 93947189--93947246 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
93947179 ATTATGAGTA
* **
93947189 GTTTATCTACAACAATGAGTGT
1 GTTTATCCACAATGATGAGTGT
93947211 GTTTATCCACAATGATGAGTG-
1 GTTTATCCACAATGATGAGTGT
93947232 GTTTCATCCACAATG
1 GTTT-ATCCACAATG
93947247 TGGTGTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (22 bp):
GTTTATCCACAATGATGAGTGT
Found at i:93951583 original size:47 final size:47
Alignment explanation
Indices: 93951475--93951584 Score: 120
Period size: 47 Copynumber: 2.4 Consensus size: 47
93951465 CCTGGATAAG
* *
93951475 CACATAGTGT-TCATCGGAATAAATCCAGAACTTTAACATTATAGTA
1 CACATAGTGTCTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
* * *
93951521 CACAAAGT-ACTTCATCGGAACAAATCC-GAAACTTTAACAGTAGTCG-A
1 CACATAGTGTC-TCATCGGAACAAATCCAG-AACTTTAACAGTA-TAGTA
93951568 CACATAGTGTCTCATCG
1 CACATAGTGTCTCATCG
93951585 ACTCAATGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
46 8 0.15
47 41 0.79
48 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGTCTCATCGGAACAAATCCAGAACTTTAACAGTATAGTA
Found at i:93952447 original size:42 final size:43
Alignment explanation
Indices: 93952351--93952447 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
93952341 TTTATTTCTT
* * *
93952351 TCTTTCT-TTCCTTCTTTCTTTCTCACGTTTGCTCTCTGTTAG
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
93952393 TCTTTCTA-TCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
1 TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
93952435 T-TTTCTATTCTTT
1 TCTTTCTATTCTTT
93952448 ACTTATTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 6 0.12
42 44 0.88
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.59
Consensus pattern (43 bp):
TCTTTCTATTCTTTCTTTCTTTCTCACGTTTGCTCTCTGTAAC
Found at i:93954846 original size:5 final size:5
Alignment explanation
Indices: 93954836--93954868 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
93954826 ACCAATTTAT
*
93954836 AAATA AAATA AAATA AAATA TAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA
93954869 AACACACAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:93957299 original size:23 final size:23
Alignment explanation
Indices: 93957273--93957317 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
93957263 TATTATTTTG
*
93957273 TTTAAAAAATATATAAAAAGTTA
1 TTTAAAAAATATAAAAAAAGTTA
* *
93957296 TTTATAATATATAAAAAAAGTT
1 TTTAAAAAATATAAAAAAAGTT
93957318 TAAAAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
TTTAAAAAATATAAAAAAAGTTA
Found at i:93957325 original size:21 final size:21
Alignment explanation
Indices: 93957272--93957325 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
93957262 ATATTATTTT
*
93957272 GTTTAAAAA-ATATATAAAAA
1 GTTTAAAAATATATAAAAAAA
* *
93957292 GTTATTTATAATATATAAAAAAA
1 G-T-TTAAAAATATATAAAAAAA
93957315 GTTTAAAAATA
1 GTTTAAAAATA
93957326 ATTCCTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
20 1 0.04
21 8 0.31
22 6 0.23
23 11 0.42
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (21 bp):
GTTTAAAAATATATAAAAAAA
Found at i:93960916 original size:50 final size:49
Alignment explanation
Indices: 93960798--93960973 Score: 203
Period size: 50 Copynumber: 3.5 Consensus size: 49
93960788 CTGGTACGCA
* **
93960798 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
93960847 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* *** * *
93960897 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
93960948 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
93960974 TGCGACCTCA
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 30 0.27
50 41 0.37
51 36 0.33
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:93960971 original size:101 final size:99
Alignment explanation
Indices: 93960798--93960984 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 99
93960788 CTGGTACGCA
* * *
93960798 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
93960863 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* *
93960897 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
93960961 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
93960985 AATAGATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 31 0.40
101 43 0.55
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:93964533 original size:30 final size:30
Alignment explanation
Indices: 93964499--93964558 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
93964489 ATTTAATACG
93964499 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
93964529 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
93964559 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:93970500 original size:17 final size:18
Alignment explanation
Indices: 93970468--93970502 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
93970458 GTTCTTGCCC
*
93970468 CATTTTTAATGTTCTTTA
1 CATTTTTAAAGTTCTTTA
93970486 CATTTTTAAAG-TCTTTA
1 CATTTTTAAAGTTCTTTA
93970503 TCACTAGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (18 bp):
CATTTTTAAAGTTCTTTA
Found at i:93971234 original size:42 final size:42
Alignment explanation
Indices: 93971177--93971339 Score: 191
Period size: 42 Copynumber: 3.8 Consensus size: 42
93971167 AGGGTTACTA
* * *
93971177 AGACTACGTGTAAGACCATATCTGGGATATGACATCAATATG
1 AGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATAAG
* * *
93971219 AGACTTCGTGGAAGACCATATCTGAGATATGGCATCGATAAG
1 AGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATAAG
* * * *
93971261 AGACTTCGTGTAAGACCATAGCTGGGTTATTGGCATTAATACG
1 AGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCAATAAG
* * *
93971304 AGAATCCCATGTAAGACCATATCTGGGATATGGCAT
1 AGACT-TCGTGTAAGACCATATCTGGGATATGGCAT
93971340 TGGTAAGGTA
Statistics
Matches: 101, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 61 0.60
43 20 0.20
44 20 0.20
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
AGACTTCGTGTAAGACCATATCTGGGATATGGCATCAATAAG
Found at i:93972727 original size:29 final size:29
Alignment explanation
Indices: 93972695--93972826 Score: 255
Period size: 29 Copynumber: 4.6 Consensus size: 29
93972685 CATGGTCTGA
*
93972695 CACATGGCCATGTGGCTTACACGGCCTGG
1 CACATGACCATGTGGCTTACACGGCCTGG
93972724 CACATGACCATGTGGCTTACACGGCCTGG
1 CACATGACCATGTGGCTTACACGGCCTGG
93972753 CACATGACCATGTGGCTTACACGGCCTGG
1 CACATGACCATGTGGCTTACACGGCCTGG
93972782 CACATGACCATGTGGCTTACACGGCCTGG
1 CACATGACCATGTGGCTTACACGGCCTGG
93972811 CACATGACCATGTGGC
1 CACATGACCATGTGGC
93972827 GTTAACAATT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 102 1.00
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.20
Consensus pattern (29 bp):
CACATGACCATGTGGCTTACACGGCCTGG
Found at i:93973949 original size:16 final size:16
Alignment explanation
Indices: 93973928--93973972 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
93973918 TACTGTTATT
93973928 CAGGCTTTGTACCTAG
1 CAGGCTTTGTACCTAG
*
93973944 CAGGCTTTGTGCCTAG
1 CAGGCTTTGTACCTAG
93973960 CAGG-TTTAGTACC
1 CAGGCTTT-GTACC
93973973 AGTGTTATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 3 0.12
16 23 0.88
ACGTcount: A:0.18, C:0.24, G:0.27, T:0.31
Consensus pattern (16 bp):
CAGGCTTTGTACCTAG
Found at i:93976829 original size:32 final size:32
Alignment explanation
Indices: 93976788--93976848 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
93976778 TGAAGTCAAG
93976788 CTACAAGCTCGAGGACTGTCAGACAAGCTTAT
1 CTACAAGCTCGAGGACTGTCAGACAAGCTTAT
*
93976820 CTACAAGCTCGGGGACTGTCAGACAAGCT
1 CTACAAGCTCGAGGACTGTCAGACAAGCT
93976849 CATCACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.20
Consensus pattern (32 bp):
CTACAAGCTCGAGGACTGTCAGACAAGCTTAT
Found at i:93977762 original size:2 final size:2
Alignment explanation
Indices: 93977750--93977786 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
93977740 CTAGAGATTT
*
93977750 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
93977787 GTACTTATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Done.