Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 54 of 318
Found at i:15270371 original size:25 final size:25
Alignment explanation
Indices: 15270325--15270372 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
15270315 ATATATAAAC
* * * *
15270325 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
15270350 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
15270373 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:15271594 original size:27 final size:27
Alignment explanation
Indices: 15271532--15271596 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
15271522 GGGCATATTC
15271532 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
*
15271559 GTCACTTTATCC-TACAGGGGCT-TTACG
1 GTCATTTTA-CCATACAGGGG-TATTACG
*
15271586 GTCTTTTTACC
1 GTCATTTTACC
15271597 TTTAGGGGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 28 0.85
28 3 0.09
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:15271679 original size:27 final size:26
Alignment explanation
Indices: 15271649--15271704 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
15271639 GTAAATCAAC
*
15271649 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTACTTCTA-TAATTTT-T
*
15271676 AAACCAATGGTACTTCTATAATTTTT
1 AAACCAAAGGTACTTCTATAATTTTT
15271702 AAA
1 AAA
15271705 AAGTCAAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
AAACCAAAGGTACTTCTATAATTTTT
Found at i:15271745 original size:27 final size:27
Alignment explanation
Indices: 15271657--15271795 Score: 95
Period size: 27 Copynumber: 5.0 Consensus size: 27
15271647 ACAAACCAAA
* * **
15271657 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTCTGTAATTTTGTAAATCAGG
* * *
15271684 GGTACTTCTATAATTTT-TAAAAAGTCAAG
1 GGTATTTCTGTAATTTTGT--AAA-TCAGG
*
15271713 GGTATTTCTGTAACTTTGTAAATCAGG
1 GGTATTTCTGTAATTTTGTAAATCAGG
** *
15271740 GGTATTT-TGGTAATTTTACAAAT-TGAG
1 GGTATTTCT-GTAATTTTGTAAATCAG-G
*
15271767 GGTATTTCGGTAATTTTGTAAATCGAGG
1 GGTATTTCTGTAATTTTGTAAATC-AGG
15271795 G
1 G
15271796 TAAAACAGTA
Statistics
Matches: 86, Mismatches: 17, Indels: 17
0.72 0.14 0.14
Matches are distributed among these distances:
26 3 0.03
27 56 0.65
28 8 0.09
29 18 0.21
30 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTCTGTAATTTTGTAAATCAGG
Found at i:15271796 original size:27 final size:27
Alignment explanation
Indices: 15271774--15272224 Score: 554
Period size: 27 Copynumber: 16.7 Consensus size: 27
15271764 GAGGGTATTT
*
15271774 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
15271801 CAGTAATTCTGTAAATCAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
** *
15271828 TAGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
15271855 CGGTAATTCTGTAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
15271882 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
15271909 CGATAATTATGTAAATC-AGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAA
* * *
15271936 CGGTAATTATGTAAATTGTGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
*
15271963 CGGTAATTCTGTAAGTCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* * *
15271990 TGATAATTATGTAAATC-AGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAA
* *
15272017 CGGTAATTATGTAAA-CTAGGGGTAAAA
1 CGGTAATTCTGTAAATCGA-GGGTAAAA
*
15272044 CGGTAATTCTATAAATCGAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
15272071 CGGTAATTCTATAAATCAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
* *
15272098 CAGTAATTCTGTAAATCAAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
**
15272125 CAATAATTCTGTAAA-CTGAGGGTAAAA
1 CGGTAATTCTGTAAATC-GAGGGTAAAA
* *
15272152 C-GTAATTCTATAAATCTAGGGTAAAA
1 CGGTAATTCTGTAAATCGAGGGTAAAA
**
15272178 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 CGGTAATTCTGTAAATC-GAGGGTAAAA
15272205 CGGTAATTCTGTAAATCGAG
1 CGGTAATTCTGTAAATCGAG
15272225 AGTACTTTGG
Statistics
Matches: 372, Mismatches: 42, Indels: 20
0.86 0.10 0.05
Matches are distributed among these distances:
26 25 0.07
27 344 0.92
28 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
CGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:15279777 original size:40 final size:40
Alignment explanation
Indices: 15279684--15279901 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
15279674 AAGCCAAGTA
* * *
15279684 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
15279722 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15279762 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
15279802 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
15279842 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAACGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
15279883 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15279902 TTATCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 12 0.07
39 17 0.10
40 106 0.65
41 24 0.15
42 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15284263 original size:25 final size:25
Alignment explanation
Indices: 15284229--15284279 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
15284219 TAACGGATAC
15284229 TTAGAAATCTTGCACATAAGTCCCA
1 TTAGAAATCTTGCACATAAGTCCCA
*
15284254 TTAGAAATCTTGCATATAAGTCCCA
1 TTAGAAATCTTGCACATAAGTCCCA
15284279 T
1 T
15284280 ATATGTAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (25 bp):
TTAGAAATCTTGCACATAAGTCCCA
Found at i:15287295 original size:6 final size:6
Alignment explanation
Indices: 15287265--15287389 Score: 71
Period size: 6 Copynumber: 20.3 Consensus size: 6
15287255 AAGAAACATT
* * *
15287265 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATC-GAA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAG-A ATCAGA AT--CAGA
* * * * *
15287314 ATCAGA ATCAAA ATTAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
15287363 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
15287390 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
5 6 0.07
6 71 0.79
7 10 0.11
8 3 0.03
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:15287315 original size:37 final size:37
Alignment explanation
Indices: 15287274--15287360 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
15287264 TATCAGAACT
* *
15287274 AGAATCAAAATGAGAATCAGAATC-GAAATCAGGTGAC
1 AGAATCAAAATCAAAATCAGAATCAG-AATCAGGTGAC
* * *
15287311 AGAATCAGAATCAAAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAAAATCAGAATCAGAATCAGGTGAC
*
15287348 AGAATCAGAATCA
1 AGAATCAAAATCA
15287361 GTATCAGGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
37 43 0.98
38 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATCAAAATCAGAATCAGAATCAGGTGAC
Found at i:15287321 original size:43 final size:37
Alignment explanation
Indices: 15287274--15287360 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 37
15287264 TATCAGAACT
15287274 AGAATCAAAATGAGAATCAGAATCGAAATCAGGTGACAGAATC
1 AGAATCAAAATGAGAATCAGAAT-----T-AGGTGACAGAATC
*
15287317 AGAATCAAAATTAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAAAATGAGAATCAGAATTAGGTGACAGAATC
15287354 AGAATCA
1 AGAATCA
15287361 GTATCAGGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
37 20 0.47
38 1 0.02
43 22 0.51
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATGAGAATCAGAATTAGGTGACAGAATC
Found at i:15287322 original size:19 final size:19
Alignment explanation
Indices: 15287291--15287361 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
15287281 AAATGAGAAT
15287291 CAGAATC-GAAATCAGGTGA
1 CAGAATCAG-AATCAGGTGA
**
15287310 CAGAATCAGAATCA--AAA
1 CAGAATCAGAATCAGGTGA
* *
15287327 TTAGAATCAGAATTAGGTGA
1 -CAGAATCAGAATCAGGTGA
15287347 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
15287362 TATCAGGTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
17 1 0.03
18 12 0.30
19 25 0.62
20 2 0.05
ACGTcount: A:0.46, C:0.14, G:0.21, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:15287359 original size:25 final size:25
Alignment explanation
Indices: 15287329--15287389 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
15287319 AATCAAAATT
* *
15287329 AGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
*
15287354 AGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGGTAACAGAATC
15287379 AGAATCAGAAT
1 AGAATCAGAAT
15287390 GTGAATGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGGTAACAGAATC
Found at i:15287521 original size:27 final size:27
Alignment explanation
Indices: 15287486--15287573 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
15287476 GCTACACACC
* * *
15287486 ACAGA-ATTTGCAGTATGGCTACCAGA
1 ACAGATATTTGCAGCATAGCCACCAGA
** *
15287512 ACAGATATTTGTGGCATAGCCACTAGA
1 ACAGATATTTGCAGCATAGCCACCAGA
**
15287539 ACAGATATTTGTGGCATAGCCACCAGAA
1 ACAGATATTTGCAGCATAGCCACCAG-A
15287567 ACAGATA
1 ACAGATA
15287574 ATGTGGTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.09
27 40 0.75
28 8 0.15
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (27 bp):
ACAGATATTTGCAGCATAGCCACCAGA
Found at i:15287588 original size:27 final size:27
Alignment explanation
Indices: 15287506--15287573 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
15287496 CAGTATGGCT
15287506 ACCAGAACAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATTTGTGGCATAGCC
*
15287533 ACTAGAACAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATTTGTGGCATAGCC
15287560 ACCAGAAACAGATA
1 ACCAG-AACAGATA
15287574 ATGTGGTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 30 0.79
28 8 0.21
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (27 bp):
ACCAGAACAGATATTTGTGGCATAGCC
Found at i:15287774 original size:22 final size:22
Alignment explanation
Indices: 15287746--15287810 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
15287736 GCAAATACGT
*
15287746 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
15287768 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
* *
15287790 TCGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
15287811 AATAATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:15288228 original size:27 final size:27
Alignment explanation
Indices: 15288198--15288521 Score: 459
Period size: 27 Copynumber: 12.0 Consensus size: 27
15288188 GGGGCAAAAT
* * * *
15288198 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
15288225 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
15288252 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
15288279 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
15288306 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
15288333 GGTAATTCTACCCTATAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
15288360 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
15288387 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
15288414 GATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
15288441 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
15288468 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
15288495 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
15288522 AATCATTTTG
Statistics
Matches: 272, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 272 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:15293649 original size:40 final size:39
Alignment explanation
Indices: 15293489--15293651 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
15293479 TGTGTATGAA
*
15293489 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
15293528 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
15293567 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
15293606 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
15293646 TGTGCG
1 TGTGCG
15293652 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:15293667 original size:40 final size:40
Alignment explanation
Indices: 15293506--15293687 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
15293496 ATTGTGATAT
* * *** *
15293506 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
15293545 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
15293584 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
15293623 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
15293663 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15293688 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 80 0.64
40 45 0.36
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:15295444 original size:20 final size:20
Alignment explanation
Indices: 15295419--15295460 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
15295409 ACAAACGCAA
15295419 CCCCCGCACCTACAATACCT
1 CCCCCGCACCTACAATACCT
15295439 CCCCCGCACCTACAATACCT
1 CCCCCGCACCTACAATACCT
15295459 CC
1 CC
15295461 AGTAACTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.57, G:0.05, T:0.14
Consensus pattern (20 bp):
CCCCCGCACCTACAATACCT
Found at i:15301534 original size:39 final size:39
Alignment explanation
Indices: 15301423--15301584 Score: 227
Period size: 39 Copynumber: 4.2 Consensus size: 39
15301413 TGTGTATGAA
*
15301423 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
15301462 TGTGTGAATTGTGATAT-CGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * * *
15301500 GGTGCGAGCTATGATATCCGGGCTAAGCCTGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
15301539 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
15301579 TGTGCG
1 TGTGCG
15301585 GGTTACCATA
Statistics
Matches: 108, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
38 33 0.31
39 59 0.55
40 16 0.15
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:15304541 original size:10 final size:10
Alignment explanation
Indices: 15304526--15304560 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
15304516 CTAAACCGAC
15304526 AATTTTAGAA
1 AATTTTAGAA
15304536 AATTTTAGAA
1 AATTTTAGAA
*
15304546 AA-CTTAGAA
1 AATTTTAGAA
15304555 AATTTT
1 AATTTT
15304561 CCACTAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (10 bp):
AATTTTAGAA
Found at i:15309047 original size:21 final size:21
Alignment explanation
Indices: 15309022--15309067 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15309012 TTACATCTCA
*
15309022 AAAAATCAT-TAAAAAAAACTT
1 AAAAAT-ATATAAAAAAAACTC
*
15309043 AAAAATATATATAAAAAACTC
1 AAAAATATATAAAAAAAACTC
15309064 AAAA
1 AAAA
15309068 CCCTACGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATATATAAAAAAAACTC
Found at i:15310125 original size:19 final size:20
Alignment explanation
Indices: 15310074--15310125 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
15310064 TTCTTTCTAG
15310074 AAATTAATTTATCATTTTAAA
1 AAATT-ATTTATCATTTTAAA
* * *
15310095 AAGATAAATTAT-TTTTTAAA
1 AA-ATTATTTATCATTTTAAA
15310115 AAATTATTTAT
1 AAATTATTTAT
15310126 AAATAATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 7 0.28
22 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
AAATTATTTATCATTTTAAA
Found at i:15310269 original size:40 final size:41
Alignment explanation
Indices: 15310200--15310277 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
15310190 ATTTTTTTAA
*
15310200 ATATTTAAATATTAATATAAAATATTATAATGTTAACATTC
1 ATATTTAAATATTAATATAAAATAATATAATGTTAACATTC
* ** *
15310241 ATATTT-AATATTTATATTTAATAATATAATTTTAACA
1 ATATTTAAATATTAATATAAAATAATATAATGTTAACA
15310278 ATAAATGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 26 0.81
41 6 0.19
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (41 bp):
ATATTTAAATATTAATATAAAATAATATAATGTTAACATTC
Found at i:15315814 original size:18 final size:17
Alignment explanation
Indices: 15315774--15315821 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
15315764 TATCATTAAG
*
15315774 TTTA-TATAAGATATTA
1 TTTATTATAAAATATTA
15315790 TTTATTATAAAATATTA
1 TTTATTATAAAATATTA
15315807 TCTTATTATAAAATA
1 T-TTATTATAAAATA
15315822 AATTTTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 4 0.14
17 12 0.41
18 13 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTATTATAAAATATTA
Found at i:15317238 original size:2 final size:2
Alignment explanation
Indices: 15317231--15317269 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15317221 GCATGAAACT
15317231 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15317270 TCATACTAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15318743 original size:30 final size:30
Alignment explanation
Indices: 15318708--15318767 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
15318698 TCATGATTAA
*
15318708 AATCTAAATTATTTCAAGAAAACATTGGTT
1 AATCTAAACTATTTCAAGAAAACATTGGTT
15318738 AATCTAAACTATTTCAAGAAAACATTGGTT
1 AATCTAAACTATTTCAAGAAAACATTGGTT
15318768 TGTTTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (30 bp):
AATCTAAACTATTTCAAGAAAACATTGGTT
Found at i:15324420 original size:138 final size:138
Alignment explanation
Indices: 15324252--15324529 Score: 538
Period size: 138 Copynumber: 2.0 Consensus size: 138
15324242 GAGTTAAGGA
15324252 TTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGAA
1 TTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGAA
*
15324317 TCGACCTCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTGTATTTTGGTACC
66 TCGACCTCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTCTATTTTGGTACC
15324382 AAGGTAAG
131 AAGGTAAG
15324390 TTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGAA
1 TTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGAA
*
15324455 TTGACCTCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTCTATTTTGGTACC
66 TCGACCTCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTCTATTTTGGTACC
15324520 AAGGTAAG
131 AAGGTAAG
15324528 TT
1 TT
15324530 CATGTGTAAA
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (138 bp):
TTAATTTGATAATGTGAGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGAA
TCGACCTCAATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTCTATTTTGGTACC
AAGGTAAG
Found at i:15324848 original size:46 final size:46
Alignment explanation
Indices: 15324798--15324973 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
15324788 TGGTTGAGCA
15324798 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15324844 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
15324889 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
15324937 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15324974 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15324954 original size:93 final size:93
Alignment explanation
Indices: 15324795--15324966 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
15324785 GGATGGTTGA
*
15324795 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
15324860 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
15324888 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
15324952 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
15324967 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15329243 original size:20 final size:22
Alignment explanation
Indices: 15329218--15329262 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
15329208 AAATACATGT
*
15329218 AAAAAAAA-AGGCTAGTTTTAA
1 AAAAAAAAGAGGCTAGTTGTAA
15329239 AAAAAAAAGAGGCTAGTTGTAA
1 AAAAAAAAGAGGCTAGTTGTAA
15329261 AA
1 AA
15329263 GTGATTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.20
Consensus pattern (22 bp):
AAAAAAAAGAGGCTAGTTGTAA
Found at i:15331246 original size:16 final size:14
Alignment explanation
Indices: 15331220--15331255 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15331210 GATAAGAATG
*
15331220 AAAAAAAGAGAGAA
1 AAAAAAAGTGAGAA
*
15331234 AAGAAAAGTGAGAA
1 AAAAAAAGTGAGAA
15331248 AAAAAAAG
1 AAAAAAAG
15331256 GAAAACAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (14 bp):
AAAAAAAGTGAGAA
Found at i:15331291 original size:30 final size:30
Alignment explanation
Indices: 15331250--15331313 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
15331240 AGTGAGAAAA
*
15331250 AAAAAGGAAAACAAGTGATTAAATCGAGAG
1 AAAAAGGAAAACAAGTGATTAAACCGAGAG
*
15331280 AAAAAGTAAAACAAGTGATTAAACCGAGAG
1 AAAAAGGAAAACAAGTGATTAAACCGAGAG
15331310 AAAA
1 AAAA
15331314 GAGCAAAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.59, C:0.08, G:0.20, T:0.12
Consensus pattern (30 bp):
AAAAAGGAAAACAAGTGATTAAACCGAGAG
Found at i:15335634 original size:57 final size:58
Alignment explanation
Indices: 15335571--15335683 Score: 158
Period size: 58 Copynumber: 2.0 Consensus size: 58
15335561 CATATATGCA
* * **
15335571 TATGGCCCACTAGGCCCAA-TCTTATTCAAATGGCCCATCT-GGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATTCTCATTCAAATGACCCAT-TAGGCCCAAATCATATTCT
*
15335628 TATGGCCCACTAGGCCCAATTCTCATTCATATGACCCATTAGGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAATTCTCATTCAAATGACCCATTAGGCCCAAATCATATT
15335684 ATATTCATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 20 0.41
58 29 0.59
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (58 bp):
TATGGCCCACTAGGCCCAATTCTCATTCAAATGACCCATTAGGCCCAAATCATATTCT
Found at i:15335655 original size:29 final size:28
Alignment explanation
Indices: 15335569--15335675 Score: 119
Period size: 29 Copynumber: 3.8 Consensus size: 28
15335559 TACATATATG
15335569 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCACTAGGCCCAATTC-TATT
* *
15335597 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTC-TATT
*
15335626 CTTATGGCCCACTAGGCCCAATTCTCATT
1 CATATGGCCCACTAGGCCCAATTCT-ATT
* *
15335655 CATATGACCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
15335676 ATCATATTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATTCTATT
Found at i:15335920 original size:16 final size:16
Alignment explanation
Indices: 15335899--15335929 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15335889 GTAGCCCAAC
15335899 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
15335915 TTTCAGCTTTTCGGC
1 TTTCAGCTTTTCGGC
15335930 TTTTGATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.26, G:0.19, T:0.45
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:15352359 original size:43 final size:42
Alignment explanation
Indices: 15352297--15352551 Score: 248
Period size: 43 Copynumber: 6.0 Consensus size: 42
15352287 CATACGATTT
* *
15352297 TCGATATGTGTATTTGTGTAAGACCACGTATGGGACGTTGGCA
1 TCGATATGTG-ATTCGTGTAAGACCACGTCTGGGACGTTGGCA
* * * *
15352340 TCGATATGTGATTACGTGTATGACCATGTCTTGGACATTGGCA
1 TCGATATGTGATT-CGTGTAAGACCACGTCTGGGACGTTGGCA
* *
15352383 TCG-TATTTGATTCGTGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATGTGATTCGTGTAAGACCACGTCTGGGACGTTGGCA
* * * * *
15352424 TCGATATGTGATTACATGTAAGACCATGTCTGGGACATCGGTA
1 TCGATATGTGATT-CGTGTAAGACCACGTCTGGGACGTTGGCA
* *
15352467 TC-ATATTTGATTCGTGTAAGACC-CTATCTGGGACAG-TGGCA
1 TCGATATGTGATTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* * * * *
15352508 TCGATTTATGATTACATGTAAGACCACGTTTGGGATGTTGGCA
1 TCGATATGTGATT-CGTGTAAGACCACGTCTGGGACGTTGGCA
15352551 T
1 T
15352552 TGTATGATAT
Statistics
Matches: 171, Mismatches: 32, Indels: 18
0.77 0.14 0.08
Matches are distributed among these distances:
41 50 0.29
42 37 0.22
43 83 0.49
44 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TCGATATGTGATTCGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:15352453 original size:84 final size:84
Alignment explanation
Indices: 15352312--15352542 Score: 304
Period size: 84 Copynumber: 2.8 Consensus size: 84
15352302 ATGTGTATTT
* * * * *
15352312 GTGTAAGACCACGTATGGGACGTTGGCATCGATATGTGATTACGTGTATGACCATGTCTTGGACA
1 GTGTAAGACCACGTCTGGGAAGTTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGACA
* *
15352377 TTGGCATCGTATTTGATTC
66 TCGGCATCATATTTGATTC
*
15352396 GTGTAAGACCACGTCTGGGATGTTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTGGGAAGTTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGACA
*
15352461 TCGGTATCATATTTGATTC
66 TCGGCATCATATTTGATTC
* * * * *
15352480 GTGTAAGACC-CTATCTGGGACAG-TGGCATCGATTTATGATTACATGTAAGACCACGTTTGGGA
1 GTGTAAGACCAC-GTCTGGGA-AGTTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGA
15352543 TGTTGGCATT
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
83 1 0.01
84 129 0.98
85 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGGAAGTTGGCATCGATATGTGATTACATGTAAGACCATGTCTGGGACA
TCGGCATCATATTTGATTC
Found at i:15354315 original size:16 final size:15
Alignment explanation
Indices: 15354281--15354328 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
15354271 ATAATTAGGC
15354281 TTATAAGCCAAAACA
1 TTATAAGCCAAAACA
*
15354296 TTATAAGCCATAATCA
1 TTATAAGCCA-AAACA
*
15354312 TTATAAGCCAATACA
1 TTATAAGCCAAAACA
15354327 TT
1 TT
15354329 TGGCTACTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (15 bp):
TTATAAGCCAAAACA
Found at i:15356118 original size:24 final size:25
Alignment explanation
Indices: 15356091--15356145 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
15356081 TTCATGTTTT
*
15356091 CATGGTAACAATT-A-ACATATAATA
1 CATGGTAAC-ATTAAGACACATAATA
*
15356115 CAT-GAAACATTAAGACACATAATA
1 CATGGTAACATTAAGACACATAATA
15356139 CATGGTA
1 CATGGTA
15356146 CAAATGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 3 0.12
23 5 0.20
24 15 0.60
25 2 0.08
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (25 bp):
CATGGTAACATTAAGACACATAATA
Found at i:15356197 original size:32 final size:35
Alignment explanation
Indices: 15356147--15356217 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
15356137 TACATGGTAC
15356147 AAATGAAATATTTACATTT-CA-CATATTATGTG-
1 AAATGAAATATTTACATTTGCACCATATTATGTGT
*
15356179 AAATGTAAATATTT-CATTTGTACCATATTATGTGT
1 AAATG-AAATATTTACATTTGCACCATATTATGTGT
15356214 AAAT
1 AAAT
15356218 AAGTGTCCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
32 10 0.29
33 9 0.26
34 11 0.32
35 4 0.12
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (35 bp):
AAATGAAATATTTACATTTGCACCATATTATGTGT
Found at i:15361254 original size:19 final size:19
Alignment explanation
Indices: 15361230--15361266 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
15361220 GTCATCATAG
15361230 ATTCATAGGCATAACTTAA
1 ATTCATAGGCATAACTTAA
15361249 ATTCATAGGCATAACTTA
1 ATTCATAGGCATAACTTA
15361267 CACATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (19 bp):
ATTCATAGGCATAACTTAA
Found at i:15370001 original size:17 final size:17
Alignment explanation
Indices: 15369975--15370008 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15369965 TATATATTTG
*
15369975 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
15369992 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
15370009 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:15370412 original size:24 final size:24
Alignment explanation
Indices: 15370380--15370489 Score: 125
Period size: 24 Copynumber: 4.6 Consensus size: 24
15370370 GAAATAACAT
*
15370380 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTAGAA
*
15370404 TGGCACTATGTGTAG-GGATTTGAA
1 TGGCACTATGTGT-GCGGATTAGAA
* *
15370428 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTAG-AA
* *
15370453 -GGCACTATGTGTGCGGGTTAGCA
1 TGGCACTATGTGTGCGGATTAGAA
*
15370476 TGGCTCTATGTGTG
1 TGGCACTATGTGTG
15370490 TGAATTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
23 2 0.03
24 70 0.93
25 3 0.04
ACGTcount: A:0.20, C:0.14, G:0.35, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTAGAA
Found at i:15377408 original size:7 final size:7
Alignment explanation
Indices: 15377396--15377420 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15377386 AAATTAACAT
15377396 ATTTATC
1 ATTTATC
15377403 ATTTATC
1 ATTTATC
15377410 ATTTATC
1 ATTTATC
15377417 ATTT
1 ATTT
15377421 TCCGGGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (7 bp):
ATTTATC
Found at i:15382285 original size:55 final size:56
Alignment explanation
Indices: 15382220--15382334 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
15382210 AGCATGGCTG
* *
15382220 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * * *
15382276 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAATAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
15382331 CCAG
1 CCAG
15382335 GATGCTTCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.55
56 22 0.43
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:15382297 original size:27 final size:27
Alignment explanation
Indices: 15382245--15382334 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
15382235 GTGACAGAGT
15382245 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
15382274 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
*
15382301 CACCAGAATAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
15382329 CACCAG
1 CACCAG
15382335 GATGCTTCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:15382330 original size:28 final size:27
Alignment explanation
Indices: 15382245--15382334 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
15382235 GTGACAGAGT
*
15382245 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
15382274 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
15382301 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
15382329 CACCAG
1 CACCAG
15382335 GATGCTTCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:15382487 original size:28 final size:28
Alignment explanation
Indices: 15382440--15382504 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
15382430 AAATTAACCC
*
15382440 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
15382468 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
15382496 TAGGGGTAT
1 TAGGGGTAT
15382505 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:15383612 original size:18 final size:19
Alignment explanation
Indices: 15383591--15383638 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
15383581 TGGAGAGAAA
15383591 AAGAAAAGAAAAGAAAGG-
1 AAGAAAAGAAAAGAAAGGT
* *
15383609 AAGAGAAG-AAAGAATGGT
1 AAGAAAAGAAAAGAAAGGT
*
15383627 CAGAAAAGAAAA
1 AAGAAAAGAAAA
15383639 AAAAACGGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 8 0.33
18 13 0.54
19 3 0.12
ACGTcount: A:0.67, C:0.02, G:0.27, T:0.04
Consensus pattern (19 bp):
AAGAAAAGAAAAGAAAGGT
Found at i:15387423 original size:88 final size:88
Alignment explanation
Indices: 15387274--15387450 Score: 354
Period size: 88 Copynumber: 2.0 Consensus size: 88
15387264 CTCACTTAAA
15387274 ATGTTTTTCTTATTAATTTAACTGAGAGACTTAATATTTGAGAACAAGGGAAAGTATTAAATATA
1 ATGTTTTTCTTATTAATTTAACTGAGAGACTTAATATTTGAGAACAAGGGAAAGTATTAAATATA
15387339 AATTTTTACACCAAACTTGTTAC
66 AATTTTTACACCAAACTTGTTAC
15387362 ATGTTTTTCTTATTAATTTAACTGAGAGACTTAATATTTGAGAACAAGGGAAAGTATTAAATATA
1 ATGTTTTTCTTATTAATTTAACTGAGAGACTTAATATTTGAGAACAAGGGAAAGTATTAAATATA
15387427 AATTTTTACACCAAACTTGTTAC
66 AATTTTTACACCAAACTTGTTAC
15387450 A
1 A
15387451 ACTCATTAAA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (88 bp):
ATGTTTTTCTTATTAATTTAACTGAGAGACTTAATATTTGAGAACAAGGGAAAGTATTAAATATA
AATTTTTACACCAAACTTGTTAC
Found at i:15393544 original size:51 final size:50
Alignment explanation
Indices: 15393450--15393545 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
15393440 CGGATACCCG
15393450 GTGGCCTGCACATAGTACCACCTTGTAGTCAAAGCTATTTTATTCACAAA
1 GTGGCCTGCACATAGTACCACCTTGTAGTCAAAGCTATTTTATTCACAAA
*
15393500 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTC
1 GTGGCCTGCACATAGTACCAC-CTTGTAGT-CAAAGCTATTTTATTC
15393546 CTAAGGTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
50 22 0.51
51 21 0.49
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (50 bp):
GTGGCCTGCACATAGTACCACCTTGTAGTCAAAGCTATTTTATTCACAAA
Found at i:15393606 original size:28 final size:28
Alignment explanation
Indices: 15393573--15393668 Score: 74
Period size: 28 Copynumber: 3.6 Consensus size: 28
15393563 AATTTCCCAC
*
15393573 TTAGCACAATGCTATAAACTTATTTCAA
1 TTAGCACAATGCCATAAACTTATTTCAA
* ** *
15393601 TTAGCACATTGCCATGGACTTATTTCAC
1 TTAGCACAATGCCATAAACTTATTTCAA
*** *
15393629 TT---A-AATGCCATGGTCTTATTTCAC
1 TTAGCACAATGCCATAAACTTATTTCAA
*
15393653 TTAGCACAATGTCATA
1 TTAGCACAATGCCATA
15393669 CCCTAGATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
24 21 0.38
25 1 0.02
27 1 0.02
28 32 0.58
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (28 bp):
TTAGCACAATGCCATAAACTTATTTCAA
Found at i:15393646 original size:24 final size:24
Alignment explanation
Indices: 15393610--15393655 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
15393600 ATTAGCACAT
15393610 TGCCATGGACTTATTTCACTTAAA
1 TGCCATGGACTTATTTCACTTAAA
*
15393634 TGCCATGGTCTTATTTCACTTA
1 TGCCATGGACTTATTTCACTTA
15393656 GCACAATGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (24 bp):
TGCCATGGACTTATTTCACTTAAA
Found at i:15400217 original size:40 final size:40
Alignment explanation
Indices: 15400162--15400380 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
15400152 TTAATGATAC
* ** *
15400162 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
15400202 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTA-AT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
15400241 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
15400281 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* * *** *
15400321 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
*
15400361 CCGGGTTAAGACCC-AAGGCA
1 CCGGGCTAAGACCCGAAGGCA
15400381 ATTGTGCTTG
Statistics
Matches: 166, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 45 0.27
40 119 0.72
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:15400293 original size:79 final size:80
Alignment explanation
Indices: 15400162--15400380 Score: 318
Period size: 79 Copynumber: 2.8 Consensus size: 80
15400152 TTAATGATAC
* * *
15400162 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTC
15400226 GTGCGAGTTGTTA-AT
65 GTGCGAGTTGTTATAT
* *
15400241 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCG
15400306 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
*** * *
15400321 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCC-AAGGCA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
15400381 ATTGTGCTTG
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 76 0.60
80 51 0.40
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTTGTTATAT
Found at i:15400379 original size:119 final size:119
Alignment explanation
Indices: 15400162--15400380 Score: 316
Period size: 119 Copynumber: 1.8 Consensus size: 119
15400152 TTAATGATAC
* * *
15400162 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
* ***
15400227 TGCGAGTTGTTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
66 TGCAAGTTCCAAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
* *
15400281 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTCATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTC
*
15400345 GTGCAAGTTACCAAATCCGGGTTAAGACCC-AAGGCA
65 GTGCAAGTT-CCAAATCCGGGCTAAGACCCGAAGGCA
15400381 ATTGTGCTTG
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
119 70 0.80
120 18 0.20
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (119 bp):
CCGGGCTAAGACCCGAAGGCATTCATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTCCAAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
Found at i:15405701 original size:40 final size:39
Alignment explanation
Indices: 15405642--15405849 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 39
15405632 AGAATGATAC
* * *
15405642 CCGGGCTAAGTCCCAAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
* *
15405682 CCAGGCTAAGACCCGAAGGCATTCGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
15405722 CCGGGCTAAGACCCAAAGGCATTCGTGCGAGGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGTTATAT
* * *
15405762 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGT--TATAT
* * * *
15405802 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGCGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
15405842 CC-GGCTAA
1 CCGGGCTAA
15405850 ATTCTGAAGA
Statistics
Matches: 141, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
38 1 0.01
39 7 0.05
40 129 0.91
41 3 0.02
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:15409458 original size:24 final size:24
Alignment explanation
Indices: 15409423--15409501 Score: 149
Period size: 24 Copynumber: 3.3 Consensus size: 24
15409413 CCGATCACAC
*
15409423 CTCCCCTCAACTACTCAATTTGAA
1 CTCCCCTTAACTACTCAATTTGAA
15409447 CTCCCCTTAACTACTCAATTTGAA
1 CTCCCCTTAACTACTCAATTTGAA
15409471 CTCCCCTTAACTACTCAATTTGAA
1 CTCCCCTTAACTACTCAATTTGAA
15409495 CTCCCCT
1 CTCCCCT
15409502 CAACCACTTC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.27, C:0.38, G:0.04, T:0.32
Consensus pattern (24 bp):
CTCCCCTTAACTACTCAATTTGAA
Found at i:15415472 original size:34 final size:34
Alignment explanation
Indices: 15415434--15415498 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
15415424 TTTCAGTTAA
*
15415434 GGCCTTAACCCATTACAGTAACAGTATCAGTGTG
1 GGCCTTAACCCATTACAGTAACAGTAACAGTGTG
* * * *
15415468 GGCCTTAGCCTATTTCAGTGACAGTAACAGT
1 GGCCTTAACCCATTACAGTAACAGTAACAGT
15415499 ACAGATATGC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (34 bp):
GGCCTTAACCCATTACAGTAACAGTAACAGTGTG
Found at i:15415980 original size:27 final size:27
Alignment explanation
Indices: 15415942--15416001 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
15415932 CCATAATGCG
*
15415942 GGCCCATGTGGGCTTACAAGCCCGTGT
1 GGCCCATGTGGGCCTACAAGCCCGTGT
*
15415969 GGCCCATGTGGGCCTACAATCCCGTGT
1 GGCCCATGTGGGCCTACAAGCCCGTGT
15415996 GGCCCA
1 GGCCCA
15416002 CCAAGCCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.15, C:0.33, G:0.32, T:0.20
Consensus pattern (27 bp):
GGCCCATGTGGGCCTACAAGCCCGTGT
Found at i:15431809 original size:16 final size:17
Alignment explanation
Indices: 15431788--15431819 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15431778 TTCGTCTGAA
15431788 ATACATGA-AAATGATG
1 ATACATGACAAATGATG
15431804 ATACATGACAAATGAT
1 ATACATGACAAATGAT
15431820 ATATGAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.09, G:0.16, T:0.25
Consensus pattern (17 bp):
ATACATGACAAATGATG
Found at i:15439313 original size:24 final size:24
Alignment explanation
Indices: 15439281--15439331 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
15439271 TAGTATAAAG
15439281 ACAAATGTATAG-TAAATAAAATAT
1 ACAAATGTATAGATAAA-AAAATAT
* * *
15439305 ACAAGTGTATGGATAAAAATATAT
1 ACAAATGTATAGATAAAAAAATAT
15439329 ACA
1 ACA
15439332 TTTGTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (24 bp):
ACAAATGTATAGATAAAAAAATAT
Found at i:15439540 original size:2 final size:2
Alignment explanation
Indices: 15439533--15439558 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15439523 AATACATGTG
15439533 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
15439559 AAGAAATAAA
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15441550 original size:46 final size:46
Alignment explanation
Indices: 15441236--15441540 Score: 450
Period size: 46 Copynumber: 6.6 Consensus size: 46
15441226 GCTCTTTGAA
*
15441236 ATGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
15441282 ATGAATTGAATAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** **
15441328 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* **
15441374 ACGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
15441420 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
15441466 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
15441512 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
15441541 CATTATGGCA
Statistics
Matches: 234, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 233 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:15443023 original size:20 final size:20
Alignment explanation
Indices: 15442981--15443025 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15442971 AAGCTATGTG
** *
15442981 TTATATGGATGAATTACTGT
1 TTATATGGATGAAGCACTAT
*
15443001 TTATATGGATTAAGCACTAT
1 TTATATGGATGAAGCACTAT
15443021 TTATA
1 TTATA
15443026 CAGATGAGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (20 bp):
TTATATGGATGAAGCACTAT
Found at i:15446520 original size:71 final size:71
Alignment explanation
Indices: 15446437--15446600 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
15446427 CGATTTGTCT
*
15446437 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
15446502 CTTTCA
66 CTTTCA
15446508 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
15446573 CTTTCA
66 CTTTCA
15446579 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
15446601 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:15446638 original size:71 final size:70
Alignment explanation
Indices: 15446437--15446634 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
15446427 CGATTTGTCT
* * * * *
15446437 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
15446502 CTTTCA
65 CTTTCA
* * * *
15446508 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
15446573 CTTTCA
65 CTTTCA
*
15446579 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGCGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
15446635 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 95 0.79
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:15451193 original size:3 final size:3
Alignment explanation
Indices: 15451185--15451451 Score: 174
Period size: 3 Copynumber: 88.3 Consensus size: 3
15451175 AATGACAATG
15451185 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
15451233 ATAA ATGA A-A ATA ATAA ATCA ACA AAA ACA AAA AGA GCATA CTA ATTC
1 AT-A AT-A ATA ATA AT-A AT-A ATA ATA ATA ATA ATA --ATA ATA A-TA
* * * * * ** *
15451281 A-A ATA ATA GA-A ACA A-A CT- ATA ATA GCTA AAA AT- ATC ACG ACA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * *
15451323 ATA ATA AGA AGA AGA GTA ATA A-A CATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
15451368 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
15451416 ATA ATA AGA ATA AGA A-A ATGA AT- ATA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA A
15451452 ATAAAATTAG
Statistics
Matches: 215, Mismatches: 31, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
2 13 0.06
3 181 0.84
4 19 0.09
5 2 0.01
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:15457615 original size:23 final size:25
Alignment explanation
Indices: 15457589--15457635 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
15457579 TATCATTCAT
*
15457589 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
15457612 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
15457636 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:15457979 original size:46 final size:46
Alignment explanation
Indices: 15457912--15458154 Score: 326
Period size: 46 Copynumber: 5.5 Consensus size: 46
15457902 AGTGTCTTTC
* * *
15457912 GGTCTTACTCATTTTCA-GTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
** * * *
15457958 GGTCTTATTCTTTTCATGTCATGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
*
15458004 GGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
15458050 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
15458096 GGTCTT--ACA---C--A-CA-GTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
15458133 GGTCTTACACATTTCATATCAG
1 GGTCTTACACATTTCATATCAG
15458155 AGAGCACACT
Statistics
Matches: 178, Mismatches: 9, Indels: 20
0.86 0.04 0.10
Matches are distributed among these distances:
37 30 0.17
38 2 0.01
39 4 0.02
41 1 0.01
42 1 0.01
44 4 0.02
45 7 0.04
46 129 0.72
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
Found at i:15458122 original size:37 final size:37
Alignment explanation
Indices: 15458072--15458143 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
15458062 TTCATATCAG
15458072 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACA
15458109 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
15458144 TTTCATATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (37 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACA
Found at i:15460334 original size:31 final size:32
Alignment explanation
Indices: 15460277--15460359 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
15460267 CTTTATATAC
*
15460277 TAATAAAATAATAAAATATCTTATTAAAGT-AT
1 TAATAAAATAATAAAATATCTAATTAAA-TAAT
**
15460309 TAATAAAATAAT-ATTTATCTAATTAAATAAT
1 TAATAAAATAATAAAATATCTAATTAAATAAT
15460340 T-ATAAAAT-ATCAAAATATCT
1 TAATAAAATAAT-AAAATATCT
15460360 CTAGCATCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 2 0.05
30 8 0.19
31 21 0.49
32 12 0.28
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (32 bp):
TAATAAAATAATAAAATATCTAATTAAATAAT
Found at i:15465300 original size:28 final size:28
Alignment explanation
Indices: 15465264--15465423 Score: 146
Period size: 28 Copynumber: 5.7 Consensus size: 28
15465254 GAATCATTCG
*
15465264 ATATTTCGCACACTAAGTGTCATTCTTA
1 ATATCTCGCACACTAAGTGTCATTCTTA
* *
15465292 ATATCTCGCGCACTAAGTGTCATTCTCA
1 ATATCTCGCACACTAAGTGTCATTCTTA
** *
15465320 ATATCTTACACACTAAGTGTCATTCTCA
1 ATATCTCGCACACTAAGTGTCATTCTTA
* * *
15465348 ATATTTCGCACACTAAGTGCCATAT-TTG
1 ATATCTCGCACACTAAGTGTCAT-TCTTA
* * *
15465376 ATTTC-CTGCACACTAAGTGTTATAT-TTG
1 ATATCTC-GCACACTAAGTGTCAT-TCTTA
* *
15465404 ATTTCCCGCACACTAAGTGT
1 ATATCTCGCACACTAAGTGT
15465424 TGTACATAGC
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 1 0.01
28 110 0.97
29 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (28 bp):
ATATCTCGCACACTAAGTGTCATTCTTA
Found at i:15470181 original size:40 final size:39
Alignment explanation
Indices: 15470135--15470311 Score: 205
Period size: 39 Copynumber: 4.5 Consensus size: 39
15470125 ACGACTAGCT
*
15470135 CAAATGCCTTCAGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAA-CCCGGATT-TAGTAACTCGCA
* * *
15470175 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
* *
15470215 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
* *
15470254 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
* *
15470293 CGAACGCCTTCGGATCTTA
1 CAAATGCCTTCGGA-CTTA
15470312 GTCCGGATAT
Statistics
Matches: 122, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 74 0.61
40 44 0.36
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:15470249 original size:39 final size:39
Alignment explanation
Indices: 15470166--15470305 Score: 217
Period size: 39 Copynumber: 3.6 Consensus size: 39
15470156 CCGGTTATAG
* * *
15470166 TAACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAG
1 TAACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTAT
*
15470206 TAACTTGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
1 TAACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
15470245 TAACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
1 TAACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
* *
15470284 TAACTCGCACGAACGCCTTCGG
1 TAACTCGCACAAATGCCTTCGG
15470306 ATCTTAGTCC
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 72 0.77
40 21 0.23
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (39 bp):
TAACTCGCACAAATGCCTTCGGGCTTAACCCGGATTTAT
Found at i:15473074 original size:2 final size:2
Alignment explanation
Indices: 15473067--15473100 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15473057 TGTTCTGTTT
15473067 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
15473101 AATTATATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15477574 original size:44 final size:43
Alignment explanation
Indices: 15477511--15477633 Score: 165
Period size: 44 Copynumber: 2.8 Consensus size: 43
15477501 TTACATGTAT
*
15477511 CGCATCCATTATGAACTCGGACCAACTCAACGAGCTCGAATGC
1 CGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGAATGC
*
15477554 ACGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
1 -CGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGAATGC
* * * *
15477598 CTCATACATATCACGAACCCGGACCAACTCAACGAG
1 CGCATCCATA--ATGAACTCGGACCAACTCAACGAG
15477634 TTCGGATTTC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
43 8 0.11
44 41 0.58
45 22 0.31
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.16
Consensus pattern (43 bp):
CGCATCCATAATGAACTCGGACCAACTCAACGAGCTCGAATGC
Found at i:15481975 original size:2 final size:2
Alignment explanation
Indices: 15481968--15482002 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
15481958 AATGGTATGC
15481968 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15482003 GGTTAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15489565 original size:2 final size:2
Alignment explanation
Indices: 15489558--15489586 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15489548 AATGGTATGC
15489558 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 T
15489587 GGTTAAATTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15490202 original size:2 final size:2
Alignment explanation
Indices: 15490195--15490220 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15490185 TAATTGAGGA
15490195 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
15490221 GGGTTAAGTC
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:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15490365 original size:40 final size:40
Alignment explanation
Indices: 15490221--15490361 Score: 246
Period size: 40 Copynumber: 3.5 Consensus size: 40
15490211 ATATATATAT
15490221 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTATATCC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTATATCC
15490261 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTATATCC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTATATCC
* *
15490301 GGGTTAAGTCCCGAAGGCATTTGTGCTGGTTATTATATTC
1 GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTATATCC
* *
15490341 GGATTAAGTCCCAAAGGCATT
1 GGGTTAAGTCCCGAAGGCATT
15490362 TGTGTTTTAA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (40 bp):
GGGTTAAGTCCCGAAGGCATTCGTGCTGGTTATTATATCC
Found at i:15493397 original size:50 final size:50
Alignment explanation
Indices: 15493287--15493700 Score: 278
Period size: 50 Copynumber: 8.6 Consensus size: 50
15493277 GGGTAAGATA
* * * * *
15493287 CCGATGCCATGTCCC-GAACACGGTCTTACACT-AGT-TCACACATCAAAG
1 CCGATGCCATGTCCCAG-ACATGGTCTTACACTGACTCTCATATATCAAGG
* *
15493335 TCGATGCCATGTCCCAGACATGGTTTTACACTGACTCTCATATATCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCAAGG
* * * * * *
15493385 CTGATGCAATGTCCCAGACATGGTCTTATACCGACTCTCATCTATC-GGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCAAG-G
* * * * * * *
15493435 CCAATACCATGTCCTAGACATGGTCATATATTGA----CACATATCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCAAGG
* * * * *
15493480 CCGATGTCATGTCCCAAACATGGTTTTACACT-AGCTTTCATATCTCAAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCAAGG
* * * * *
15493530 CTGATGCCATGTCCCAGACATTGTCTTACACT-AGCTCTCGTCT-T-AATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATATATCAAGG
*
15493578 CCGATGCCATGTCCCAGACATGGTCTTACACTGA----CACATATCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCAAGG
* * * * * * **
15493623 CCGGTGCCATGTCCTAGACATGATCTTATAATGGCTCTCATA-AT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCAAGG
*
15493671 TCGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
15493701 AGCACACATA
Statistics
Matches: 281, Mismatches: 66, Indels: 40
0.73 0.17 0.10
Matches are distributed among these distances:
44 3 0.01
45 54 0.19
46 15 0.05
47 13 0.05
48 67 0.24
49 17 0.06
50 112 0.40
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCAAGG
Found at i:15493664 original size:143 final size:145
Alignment explanation
Indices: 15493287--15493703 Score: 438
Period size: 145 Copynumber: 2.9 Consensus size: 145
15493277 GGGTAAGATA
* * * *
15493287 CCGATGCCATGTCCC-GAACACGGTCTTACACTAGTTCACACATCAAAGTCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAG-ACATGGTCTTACACT-G-ACACATATC-AAGCCGATGCCATGTCCCA
* * * *
15493351 GACATGGTTTTACACTGACTCTCATATATCAAGGCTGATGCAATGTCCCAGACATGGTCTTATAC
62 GACATGGTTTTACACTGGCTCTCATATATCAAGGCTGATGCCATGTCCCAGACATTGTCTTACAC
* **
15493416 -CGACTCTCATCTATCGGTG
127 TAG-CTCTCATCTATCAATG
* * * * * * * *
15493435 CCAATACCATGTCCTAGACATGGTCATATATTGACACATATCAAGCCGATGTCATGTCCCAAACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACA
* * *
15493500 TGGTTTTACACTAGCTTTCATATCTCAAGGCTGATGCCATGTCCCAGACATTGTCTTACACTAGC
66 TGGTTTTACACTGGCTCTCATATATCAAGGCTGATGCCATGTCCCAGACATTGTCTTACACTAGC
*
15493565 TCTCGTCT-T-AATG
131 TCTCATCTATCAATG
* *
15493578 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCGGTGCCATGTCCTAGACA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACA
* * * * **
15493643 TGATCTTATAATGGCTCTCATA-AT-GTGG-TCGATG-CATGTCCCAGACA-TGTCTTACACTAG
66 TGGTTTTACACTGGCTCTCATATATCAAGGCT-GATGCCATGTCCCAGACATTGTCTTACACTAG
15493703 C
130 C
15493704 ACACATATCA
Statistics
Matches: 224, Mismatches: 42, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
139 14 0.06
140 14 0.06
141 6 0.03
142 1 0.00
143 73 0.33
144 1 0.00
145 82 0.37
146 8 0.04
147 1 0.00
148 23 0.10
149 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (145 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAAGCCGATGCCATGTCCCAGACA
TGGTTTTACACTGGCTCTCATATATCAAGGCTGATGCCATGTCCCAGACATTGTCTTACACTAGC
TCTCATCTATCAATG
Found at i:15494857 original size:40 final size:40
Alignment explanation
Indices: 15494798--15495128 Score: 279
Period size: 41 Copynumber: 8.1 Consensus size: 40
15494788 CAAAAATTGT
** **
15494798 AAAACACAGAGCAACAGCGGCGTTTTACAAAAAAAGCCACTA
1 AAAAC-CAGAGCATTAGCGGCGTTTT-CGTAAAAAGCCACTA
* * * * *
15494840 AAAA-TAGAGCATTAGCGGCATTTTTTGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGC-GTTTTCGTAAAAAGCCACTA
* * *
15494880 AAAACCAAAGCATTAGCGGCGCTTTCGGTAAAATGCCACTA
1 AAAACCAGAGCATTAGCGGCGTTTTC-GTAAAAAGCCACTA
* * *
15494921 AAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGTTTTC-GTAAAAAGCCACTA
* * *
15494962 AAAACCAGAGCATTAGCGGTGCTTTCGGTAAAACGCCACTA
1 AAAACCAGAGCATTAGCGGCGTTTTC-GTAAAAAGCCACTA
* * * * *
15495003 AAAACCACATCATTAGCGGCGCTTTCCGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCG-TTTTCGTAAAAAGCCACTA
* * * *
15495044 AAAACCACAGCATTAGCGGCACTTTCCG-AAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGC-GTTTTCGTAAAAA-GCCACTA
* * * *
15495085 AAAACCAAAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGTTTTC-GTAAAAAGCCACTA
15495126 AAA
1 AAA
15495129 GTCATATAAC
Statistics
Matches: 244, Mismatches: 37, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
40 36 0.15
41 197 0.81
42 11 0.05
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (40 bp):
AAAACCAGAGCATTAGCGGCGTTTTCGTAAAAAGCCACTA
Found at i:15494898 original size:41 final size:41
Alignment explanation
Indices: 15494847--15495128 Score: 402
Period size: 41 Copynumber: 6.9 Consensus size: 41
15494837 CTAAAAATAG
** *
15494847 AGCATTAGCGGCATTTTTTGTAAAACGCCGCTAAAAACCAA
1 AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAA
* * * *
15494888 AGCATTAGCGGCGCTTTCGGTAAAATGCCACTAAAAACCAG
1 AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAA
*
15494929 AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAG
1 AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAA
* * * *
15494970 AGCATTAGCGGTGCTTTCGGTAAAACGCCACTAAAAACCAC
1 AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAA
* * *
15495011 ATCATTAGCGGCGCTTTCCGTAAAACGCCGCTAAAAACCAC
1 AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAA
* * *
15495052 AGCATTAGCGGCACTTTCCGAAAAACGCCGCTAAAAACCAA
1 AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAA
15495093 AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAA
1 AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAA
15495129 GTCATATAAC
Statistics
Matches: 216, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 216 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTCTGTAAAACGCCGCTAAAAACCAA
Found at i:15495762 original size:22 final size:22
Alignment explanation
Indices: 15495708--15495759 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
15495698 TATGGTTAAA
*
15495708 GGTTTAAGGTTTATGAGTTACT
1 GGTTTAAGGTTTATGAATTACT
**
15495730 ATTTTAAGGTTTATGAATTA-T
1 GGTTTAAGGTTTATGAATTACT
15495751 GGTTTAAGG
1 GGTTTAAGG
15495760 GTTGAGGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (22 bp):
GGTTTAAGGTTTATGAATTACT
Found at i:15496535 original size:19 final size:20
Alignment explanation
Indices: 15496488--15496535 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
15496478 ATATTAGATT
15496488 TAAA-AAAAACATTGATAAA
1 TAAATAAAAACATTGATAAA
15496507 TAAATAAAAACATTGAT-AA
1 TAAATAAAAACATTGATAAA
15496526 TAAATAAAAA
1 TAAATAAAAA
15496536 TAAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (20 bp):
TAAATAAAAACATTGATAAA
Found at i:15496538 original size:6 final size:6
Alignment explanation
Indices: 15496522--15496555 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
15496512 AAAAACATTG
15496522 ATAATAA ATAAAA ATAAAA TATAAAA ATAAAA AT
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA AT
15496556 GTATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
ATAAAA
Found at i:15496545 original size:13 final size:13
Alignment explanation
Indices: 15496529--15496553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15496519 TTGATAATAA
15496529 ATAAAAATAAAAT
1 ATAAAAATAAAAT
15496542 ATAAAAATAAAA
1 ATAAAAATAAAA
15496554 ATGTATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:15496565 original size:15 final size:14
Alignment explanation
Indices: 15496529--15496570 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
15496519 TTGATAATAA
15496529 ATAAAAAT-AAAAT
1 ATAAAAATAAAAAT
15496542 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
* *
15496556 GTATAAAATAGAAAT
1 ATA-AAAATAAAAAT
15496571 TAGTGCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 8 0.32
14 7 0.28
15 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:15496790 original size:6 final size:6
Alignment explanation
Indices: 15496778--15496820 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
15496768 ACCCATACGA
* *
15496778 TCCCTT CCCCTT CCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T
1 TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T
15496821 GGTTTTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (6 bp):
TCCCTT
Found at i:15498925 original size:2 final size:2
Alignment explanation
Indices: 15498918--15498958 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
15498908 TTGTTATTTG
15498918 AT AT AT AT 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 AT AT AT AT A
15498959 GCGGTGGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:15499277 original size:13 final size:13
Alignment explanation
Indices: 15499234--15499277 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
15499224 GTTTATCTAC
*
15499234 AATATTTAAATTT
1 AATATTTAAAATT
*
15499247 AAAATTTAAAATT
1 AATATTTAAAATT
*
15499260 TATATTTAAAATT
1 AATATTTAAAATT
15499273 AATAT
1 AATAT
15499278 AATTTAATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTTAAAATT
Found at i:15499338 original size:22 final size:21
Alignment explanation
Indices: 15499299--15499339 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
15499289 TTTACATAAT
*
15499299 ATTATTTAACTAATATATTTA
1 ATTATTTAACTAAAATATTTA
*
15499320 ATTATTTTAATTAAAATATT
1 ATTA-TTTAACTAAAATATT
15499340 GAAGTCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATTTAACTAAAATATTTA
Found at i:15500815 original size:73 final size:73
Alignment explanation
Indices: 15500692--15500837 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
15500682 GTCAGTAACT
15500692 AATTGAACTTGGATGGGGCATTTTCATCATTACATGAGCAAAGTTATTTTTTACTTGTACAATAC
1 AATTGAACTTGGATGGGGCATTTTCATCATTACATGAGCAAAGTTATTTTTTACTTGTACAATAC
15500757 CATTATAA
66 CATTATAA
* *
15500765 AATTGAACTTGGATGGGGCATTTTCATCATTACATGATCAAAGTTGTTTTTTACTTGTACAATAC
1 AATTGAACTTGGATGGGGCATTTTCATCATTACATGAGCAAAGTTATTTTTTACTTGTACAATAC
15500830 CATTATAA
66 CATTATAA
15500838 CAGCCATGAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (73 bp):
AATTGAACTTGGATGGGGCATTTTCATCATTACATGAGCAAAGTTATTTTTTACTTGTACAATAC
CATTATAA
Found at i:15501584 original size:20 final size:20
Alignment explanation
Indices: 15501546--15501584 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15501536 ATTGCTGTAA
** *
15501546 CTTTTCTTTTTTTTTTTTGC
1 CTTTTCTTTTTGGTATTTGC
15501566 CTTTTCTTTTTGGTATTTG
1 CTTTTCTTTTTGGTATTTG
15501585 ATATTTTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.13, G:0.10, T:0.74
Consensus pattern (20 bp):
CTTTTCTTTTTGGTATTTGC
Found at i:15502198 original size:19 final size:21
Alignment explanation
Indices: 15502170--15502217 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
15502160 TTATTATTTA
15502170 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
15502190 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
15502210 TTTTAGTT
1 TTTTAGTT
15502218 AATATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:15502219 original size:13 final size:14
Alignment explanation
Indices: 15502193--15502225 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15502183 TCTAAATTTT
*
15502193 TATTTTTATTTTAA
1 TATTTTTATGTTAA
15502207 TATTTTTA-GTTAA
1 TATTTTTATGTTAA
15502220 TATTTT
1 TATTTT
15502226 AATAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TATTTTTATGTTAA
Found at i:15502423 original size:43 final size:43
Alignment explanation
Indices: 15502362--15502553 Score: 278
Period size: 43 Copynumber: 4.5 Consensus size: 43
15502352 TTTAAATTTA
* *
15502362 ATGACTTTTAGCAGCGTTTTTGGGAAAAGCGCCGCCAAAGGTC
1 ATGACCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCCAAAGGTC
*
15502405 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCCAAAGGTC
1 ATGACCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCCAAAGGTC
* ** * *
15502448 TTGACCTTTAGCGGCGTTTTAAGGAAAAGCGCCGCTAAA-ATC
1 ATGACCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCCAAAGGTC
* *
15502490 ATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCCAAAGGTC
*
15502533 ATGACTTTTAGCGGCGTTTTT
1 ATGACCTTTAGCGGCGTTTTT
15502554 TTAAATAAAC
Statistics
Matches: 132, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 37 0.28
43 95 0.72
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGTTTTTGGGAAAAGCGCCGCCAAAGGTC
Found at i:15502513 original size:85 final size:86
Alignment explanation
Indices: 15502362--15502552 Score: 303
Period size: 85 Copynumber: 2.2 Consensus size: 86
15502352 TTTAAATTTA
* ** *
15502362 ATGACTTTTAGCAGCGTTTTTGGGAAAAGCGCCGCCAAAGGTCATGACCTTTAGCGGCGTTTGTG
1 ATGACTTTTAGCGGCGTTTTAAGGAAAAGCGCCGCCAAAGATCATGACCTTTAGCGGCGTTTGTG
15502427 GGAAAAGCGCCGCCAAAGGTC
66 GGAAAAGCGCCGCCAAAGGTC
* * *
15502448 TTGACCTTTAGCGGCGTTTTAAGGAAAAGCGCCGCTAAA-ATCATGACCTTTAGCGGCGTTTGTG
1 ATGACTTTTAGCGGCGTTTTAAGGAAAAGCGCCGCCAAAGATCATGACCTTTAGCGGCGTTTGTG
*
15502512 GGAAAAGCGCCGCTAAAGGTC
66 GGAAAAGCGCCGCCAAAGGTC
15502533 ATGACTTTTAGCGGCGTTTT
1 ATGACTTTTAGCGGCGTTTT
15502553 TTTAAATAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
85 62 0.65
86 33 0.35
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (86 bp):
ATGACTTTTAGCGGCGTTTTAAGGAAAAGCGCCGCCAAAGATCATGACCTTTAGCGGCGTTTGTG
GGAAAAGCGCCGCCAAAGGTC
Found at i:15504731 original size:30 final size:28
Alignment explanation
Indices: 15504691--15504791 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
15504681 GACAAGATTG
* * *
15504691 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
15504721 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
15504749 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
15504778 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
15504792 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:15504755 original size:28 final size:29
Alignment explanation
Indices: 15504720--15504791 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
15504710 AAAATTGTAC
*
15504720 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
15504748 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
15504777 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
15504792 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:15511396 original size:27 final size:25
Alignment explanation
Indices: 15511354--15511403 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
15511344 TGCATTATGG
15511354 AAGGAAAATAAAGAAATGAAAAAAAAA
1 AAGGAAAATAAAGAAA--AAAAAAAAA
* *
15511381 AAGGAAAATGATGAAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAA
15511404 GAGTGTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
27 14 0.67
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (25 bp):
AAGGAAAATAAAGAAAAAAAAAAAA
Found at i:15512732 original size:30 final size:28
Alignment explanation
Indices: 15512692--15512792 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
15512682 GACAAGATTG
* * *
15512692 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
15512722 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
15512750 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
15512779 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
15512793 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:15512756 original size:28 final size:29
Alignment explanation
Indices: 15512721--15512792 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
15512711 AAAATTGTAC
*
15512721 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
15512749 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
15512778 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
15512793 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:15517669 original size:47 final size:47
Alignment explanation
Indices: 15517610--15517705 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
15517600 TTAACCAAAA
*
15517610 TAATACAAACTATAACTCTAGGTACGAAGGAACTCACCAAAATGTCT
1 TAATACAAACTATAACTCTAGGTACCAAGGAACTCACCAAAATGTCT
* * *
15517657 TAATACAGACTATAACTTTAGGTACCAAGGAACTCGCCAAAATGTCT
1 TAATACAAACTATAACTCTAGGTACCAAGGAACTCACCAAAATGTCT
15517704 TA
1 TA
15517706 CTTTAGAGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (47 bp):
TAATACAAACTATAACTCTAGGTACCAAGGAACTCACCAAAATGTCT
Found at i:15520630 original size:20 final size:20
Alignment explanation
Indices: 15520616--15520654 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15520606 TGAAAAGTTG
15520616 TAAAATTTGATGAAACATTC
1 TAAAATTTGATGAAACATTC
*
15520636 TAAAATTTTATGAATACAT
1 TAAAATTTGATGAA-ACAT
15520655 GTGCTGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (20 bp):
TAAAATTTGATGAAACATTC
Found at i:15527318 original size:48 final size:48
Alignment explanation
Indices: 15527246--15527530 Score: 500
Period size: 48 Copynumber: 5.9 Consensus size: 48
15527236 AAGATAAATA
*
15527246 TATATAGTGTTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATAT-GTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
15527295 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
15527343 TATATGTGGTAAA-CCGAATGGCTAGTGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
15527390 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
15527438 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
15527486 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
15527531 GTGTGTATAT
Statistics
Matches: 225, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
47 45 0.20
48 175 0.78
49 5 0.02
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:15527397 original size:95 final size:96
Alignment explanation
Indices: 15527246--15527530 Score: 509
Period size: 95 Copynumber: 3.0 Consensus size: 96
15527236 AAGATAAATA
* *
15527246 TATATAGTGTTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCC
1 TATAT-GTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCC
*
15527311 GAATGGCTAATGTGAAATATGTATGAGATATG
65 GAATGGCTAGTGTGAAATATGTATGAGATATG
15527343 TATATGTGGTAAA-CCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
15527407 AATGGCTAGTGTGAAATATGTATGAGATATG
66 AATGGCTAGTGTGAAATATGTATGAGATATG
*
15527438 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
*
15527503 AATGGCTAGTGTGAAATATGTAGGAGAT
66 AATGGCTAGTGTGAAATATGTATGAGAT
15527531 GTGTGTATAT
Statistics
Matches: 182, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
95 93 0.51
96 84 0.46
97 5 0.03
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (96 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
AATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:15527563 original size:143 final size:142
Alignment explanation
Indices: 15527258--15527565 Score: 456
Period size: 143 Copynumber: 2.2 Consensus size: 142
15527248 TATAGTGTTA
* * *
15527258 AAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
1 AAGCCGAATGCCAAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
* *
15527323 TGAAATATGTATGAGATATGTATATGTGGTAAACCGAATGGCTAGTGTGAAATATATATGAGATA
66 TGAAATATATATGAGATATGTATATGTGGTAAACCGAATGGCTAGTGTGAAATATATAGGAGATA
*
15527388 TGTATATGTGGT
131 TGTATATATGGT
* * *
15527400 AAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 -AAGCCGAATGCCAAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
15527465 GTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGA
65 GTGAAATATATATGAGATATGTATATGTGGTAAA-CCGAATGGCTAGTGTGAAATATATAGGAGA
* * *
15527530 TGTGTGTATATTGT
129 TATGTATATATGGT
*
15527544 -GGCCGAATGACCAAATGTGAAA
1 AAGCCGAATG-CCAAATGTGAAA
15527566 GGTGTGTATT
Statistics
Matches: 152, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
142 8 0.05
143 106 0.70
144 38 0.25
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (142 bp):
AAGCCGAATGCCAAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
TGAAATATATATGAGATATGTATATGTGGTAAACCGAATGGCTAGTGTGAAATATATAGGAGATA
TGTATATATGGT
Found at i:15527721 original size:37 final size:37
Alignment explanation
Indices: 15527671--15527810 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
15527661 GGAAATATAT
15527671 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
15527708 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
15527745 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
15527782 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
15527811 GGACTATTCG
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:15529550 original size:40 final size:40
Alignment explanation
Indices: 15529094--15529541 Score: 751
Period size: 40 Copynumber: 11.3 Consensus size: 40
15529084 GAGTTATATA
*
15529094 TATCCGGGCTAAG-TCCGAAGAGCATTCGTACTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
15529133 AATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
15529173 TATCCGGGCTAAGTTCCGAAGAGCATCCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
15529213 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
15529253 AATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
15529293 TATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
15529333 AATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* *
15529373 TAT-CGGGCTAAGTTCCGAA-AGCATTTGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
15529411 TATCCGGGCTAAGTT-CGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
15529450 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
15529490 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
15529530 TATCCAGGCTAA
1 TATCCGGGCTAA
15529542 ACCTCGAAGG
Statistics
Matches: 386, Mismatches: 19, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
38 24 0.06
39 72 0.19
40 290 0.75
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:15529612 original size:28 final size:28
Alignment explanation
Indices: 15529572--15529726 Score: 107
Period size: 28 Copynumber: 5.5 Consensus size: 28
15529562 GAGTTATGAG
* *
15529572 GCACTGTGTGTGCAAGTTCTTCAACCGA
1 GCACTATGTGTGCAAGTTCTTCAATCGA
* * * * *
15529600 GCACTATGTGTGCCAGATCAGT-AGTTGA
1 GCACTATGTGTGCAAGTTC-TTCAATCGA
* *
15529628 GGCACTATGTGTCCGAGTTCTTCAATCGA
1 -GCACTATGTGTGCAAGTTCTTCAATCGA
* ** *
15529657 GCACTATGTGTGCGAGATTGGT-AATTGA
1 GCACTATGTGTGCAAG-TTCTTCAATCGA
* * *
15529685 GGCACTATGTGTGCGAGTTCTTTAATCAA
1 -GCACTATGTGTGCAAGTTCTTCAATCGA
*
15529714 GCGCTATGTGTGC
1 GCACTATGTGTGC
15529727 GAAATCAGTC
Statistics
Matches: 99, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
28 55 0.56
29 44 0.44
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCAAGTTCTTCAATCGA
Found at i:15529658 original size:57 final size:57
Alignment explanation
Indices: 15529568--15529735 Score: 228
Period size: 57 Copynumber: 2.9 Consensus size: 57
15529558 GCTGGAGTTA
* * * * *
15529568 TGAGGCACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* **
15529625 TGAGGCACTATGTGTCCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * * *
15529682 TGAGGCACTATGTGTGCGAGTTCTTTAATCAAGCGCTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
15529736 CAGTGGGCAC
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 96 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:15529699 original size:29 final size:29
Alignment explanation
Indices: 15529600--15529701 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
15529590 CTTCAACCGA
* * *
15529600 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
* ** *
15529629 GCACTATGTGTCCGAG-TTCTTCAATCGA-
1 GCACTATGTGTGCGAGATTAGT-AATTGAG
*
15529657 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
15529686 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
15529702 TTCTTTAATC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
28 22 0.37
29 37 0.63
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:15533327 original size:48 final size:48
Alignment explanation
Indices: 15533259--15533500 Score: 430
Period size: 48 Copynumber: 5.0 Consensus size: 48
15533249 TACAAGATAA
* *
15533259 ATATATATATGTGTTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
15533307 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
15533355 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
15533403 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
15533451 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
15533499 AT
1 AT
15533501 GTGTGTATAT
Statistics
Matches: 187, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 187 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:15533691 original size:37 final size:37
Alignment explanation
Indices: 15533641--15533780 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
15533631 GGAAATATAT
15533641 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
15533678 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
15533715 TCCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
15533752 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
15533781 GGACTATTCG
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:15534899 original size:31 final size:31
Alignment explanation
Indices: 15534861--15534924 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
15534851 CCTTTTCATG
* *
15534861 TTTCATATTTCATAACACTGGGTCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
**
15534892 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
15534923 TT
1 TT
15534925 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCAAAGCCT
Found at i:15535161 original size:25 final size:26
Alignment explanation
Indices: 15535133--15535192 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
15535123 CTAGAGGCCT
15535133 AGCCTCTTTT-AAT-AACTGGGGCATA
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
15535158 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
15535184 AGCCCTTTT
1 AGCCCTTTT
15535193 GCACTTCCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 5 0.16
25 5 0.16
26 21 0.68
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Done.