Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 28 of 126
Found at i:7951462 original size:95 final size:97
Alignment explanation
Indices: 7951278--7951462 Score: 234
Period size: 95 Copynumber: 1.9 Consensus size: 97
7951268 TCCTACTGAA
* * *
7951278 AAAAAATTAAAATTAATTCTAGAAAAATAAAAATATAAAGGAAATTAAAAATATAAAATGATTTT
1 AAAAAATTAAAATCAATTCTA-AAAAAGAAAAATATAAAGGAAATTAAAAAGATAAAATGATTTT
** * *
7951343 TCTCTATAAATCCCCATGTTTTTCCCTTCTACT
65 TCTCTATAAAAACCCAAGTATTTCCCTTCTACT
*
7951376 AAAAAATTAAAATCAATTCT-AAAAAGAAAAA-ATAAATGAAATTAAAAAGATAAAAT-AGTTTT
1 AAAAAATTAAAATCAATTCTAAAAAAGAAAAATATAAAGGAAATTAAAAAGATAAAATGA-TTTT
*
7951438 TCT-TGTAAAAACCCAAGTAATTTCC
65 TCTCTATAAAAACCCAAGT-ATTTCC
7951463 TATAAAAACT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
94 12 0.16
95 35 0.46
96 10 0.13
98 19 0.25
ACGTcount: A:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (97 bp):
AAAAAATTAAAATCAATTCTAAAAAAGAAAAATATAAAGGAAATTAAAAAGATAAAATGATTTTT
CTCTATAAAAACCCAAGTATTTCCCTTCTACT
Found at i:7951986 original size:20 final size:21
Alignment explanation
Indices: 7951963--7952006 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7951953 TATATTAATT
7951963 TATA-TATAATGAAAAT-TAAA
1 TATATTATAATG-AAATGTAAA
*
7951983 TATATTATATTGAAATGTAAA
1 TATATTATAATGAAATGTAAA
7952004 TAT
1 TAT
7952007 TAAATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TATATTATAATGAAATGTAAA
Found at i:7952886 original size:14 final size:15
Alignment explanation
Indices: 7952861--7952893 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
7952851 GTTTTACATC
7952861 AACAAGAAACAAATA
1 AACAAGAAACAAATA
7952876 AACAA-AAACAAATA
1 AACAAGAAACAAATA
7952890 AACA
1 AACA
7952894 CCTTTTGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.76, C:0.15, G:0.03, T:0.06
Consensus pattern (15 bp):
AACAAGAAACAAATA
Found at i:7953275 original size:20 final size:20
Alignment explanation
Indices: 7953250--7953301 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
7953240 AACTAAAGCT
7953250 GAACCAGCATGCTTCAAACA
1 GAACCAGCATGCTTCAAACA
*
7953270 GAACCAACATGCTTCAAACA
1 GAACCAGCATGCTTCAAACA
*
7953290 GAACTAGCATGC
1 GAACCAGCATGC
7953302 ATCATAGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.29, G:0.15, T:0.15
Consensus pattern (20 bp):
GAACCAGCATGCTTCAAACA
Found at i:7954395 original size:43 final size:43
Alignment explanation
Indices: 7954330--7954517 Score: 198
Period size: 43 Copynumber: 4.4 Consensus size: 43
7954320 TTATGTGGAA
** *
7954330 AAACGCCGCTATAGAACATGACCTTTAGTGGTGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
* *
7954373 AAATGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
* * *** * * *
7954416 AAACGCCACTAAAGATTTTGACCTTTAATGGGGC-TTTCCTAAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCC-CAC
* * * *
7954459 AAACGCCACTATAGAACATAACCTTTAACAGCGCTTTTCCTAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
*
7954502 AAACGCCGCTAAAGAA
1 AAACGCCGCTATAGAA
7954518 AACGCCGCTA
Statistics
Matches: 119, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 5 0.04
43 109 0.92
44 5 0.04
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTTCCCAC
Found at i:7954452 original size:86 final size:86
Alignment explanation
Indices: 7954348--7954516 Score: 232
Period size: 86 Copynumber: 2.0 Consensus size: 86
7954338 CTATAGAACA
* * * * * * * *
7954348 TGACCTTTAGTGGTGCTTTTCC-CACAAATGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTC
1 TGACCTTTAATGGGGC-TTTCCTAACAAACGCCACTATAGAACATAACCTTTAACAGCGCTTTTC
7954412 CCACAAACGCCACTAAAGATTT
65 CCACAAACGCCACTAAAGATTT
7954434 TGACCTTTAATGGGGCTTTCCTAACAAACGCCACTATAGAACATAACCTTTAACAGCGCTTTTCC
1 TGACCTTTAATGGGGCTTTCCTAACAAACGCCACTATAGAACATAACCTTTAACAGCGCTTTTCC
* *
7954499 TACAAACGCCGCTAAAGA
66 CACAAACGCCACTAAAGA
7954517 AAACGCCGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 5 0.07
86 67 0.93
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (86 bp):
TGACCTTTAATGGGGCTTTCCTAACAAACGCCACTATAGAACATAACCTTTAACAGCGCTTTTCC
CACAAACGCCACTAAAGATTT
Found at i:7954935 original size:66 final size:65
Alignment explanation
Indices: 7954813--7954946 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 65
7954803 ATTCTGAAGC
*
7954813 TGTAGCTGGAGTTCGTCATATTTTCTACTTGCCTCTACTTCCCTCGCTGCTACCTCCGCTTTAAG
1 TGTAGCTGGAGTTCGTCATATTTTCTA-TTGCCTCTACTTCCCTCGATGCTACCTCCGCTTTAAG
7954878 T
65 T
* * * * * *
7954879 TGTAGCTGGAGTTCTTTATATTTTCT-TTGAGCCTCTGCTTCTCTTGATGCTTCCTCCGCTTTAA
1 TGTAGCTGGAGTTCGTCATATTTTCTATT--GCCTCTACTTCCCTCGATGCTACCTCCGCTTTAA
7954943 GT
64 GT
7954945 TG
1 TG
7954947 AGCAATTTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 2 0.03
66 57 0.97
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.43
Consensus pattern (65 bp):
TGTAGCTGGAGTTCGTCATATTTTCTATTGCCTCTACTTCCCTCGATGCTACCTCCGCTTTAAGT
Found at i:7960531 original size:13 final size:13
Alignment explanation
Indices: 7960513--7960539 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7960503 TGATTATCAT
7960513 CTTTAAATTTTAA
1 CTTTAAATTTTAA
7960526 CTTTAAATTTTAA
1 CTTTAAATTTTAA
7960539 C
1 C
7960540 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:7961182 original size:13 final size:13
Alignment explanation
Indices: 7961164--7961196 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
7961154 TAATTAAAAT
7961164 TTAAATTTTTTTA
1 TTAAATTTTTTTA
7961177 TTAAA-TTTTTTA
1 TTAAATTTTTTTA
7961189 TTAAATTT
1 TTAAATTT
7961197 AAAATAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTAAATTTTTTTA
Found at i:7984455 original size:4 final size:4
Alignment explanation
Indices: 7984428--7984466 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
7984418 AATGGCATAG
* *
7984428 AAAT AATAT GAAT AAAT GAAT AAAT AAAT AAAT AAAT AA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
7984467 TGACATGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 27 0.90
5 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:7984813 original size:17 final size:20
Alignment explanation
Indices: 7984793--7984833 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7984783 ATTAGTTTTA
7984793 AAAATATA-AT-TA-TACAT
1 AAAATATATATATATTACAT
7984810 AAAATATATATATATTACAT
1 AAAATATATATATATTACAT
7984830 AAAA
1 AAAA
7984834 AAATGATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 2 0.10
20 9 0.43
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATATATATATATTACAT
Found at i:7984878 original size:16 final size:17
Alignment explanation
Indices: 7984852--7984883 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7984842 CATGCATATG
7984852 AATATAATAATAATAAC
1 AATATAATAATAATAAC
7984869 AATA-AATAATAATAA
1 AATATAATAATAATAA
7984884 TGATAACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
AATATAATAATAATAAC
Found at i:7986098 original size:18 final size:17
Alignment explanation
Indices: 7986065--7986103 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
7986055 TTGTATAAAT
7986065 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
7986083 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
7986100 TGTG
1 TGTG
7986104 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:7986356 original size:23 final size:23
Alignment explanation
Indices: 7986329--7986426 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
7986319 AGTGTTATTG
7986329 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
7986352 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
7986375 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
7986397 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
7986420 ATCAGTG
1 ATCAGTG
7986427 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:7986395 original size:45 final size:45
Alignment explanation
Indices: 7986331--7986419 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
7986321 TGTTATTGAT
* *
7986331 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
7986376 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
7986420 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:7993470 original size:18 final size:17
Alignment explanation
Indices: 7993437--7993475 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
7993427 TTGTATAAAT
7993437 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
7993455 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
7993472 TGTG
1 TGTG
7993476 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:7993728 original size:23 final size:23
Alignment explanation
Indices: 7993701--7993798 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
7993691 AGTGTTATTG
7993701 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
7993724 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
7993747 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
7993769 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
7993792 ATCAGTG
1 ATCAGTG
7993799 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:7993767 original size:45 final size:45
Alignment explanation
Indices: 7993703--7993791 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
7993693 TGTTATTGAT
* *
7993703 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
7993748 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
7993792 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:7997784 original size:18 final size:18
Alignment explanation
Indices: 7997761--7997800 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
7997751 ACTTATTTAT
7997761 AAAATTAAACAATAGTAG
1 AAAATTAAACAATAGTAG
**
7997779 AAAATTAAACCTTAGTAG
1 AAAATTAAACAATAGTAG
7997797 AAAA
1 AAAA
7997801 GTTTCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.07, G:0.10, T:0.23
Consensus pattern (18 bp):
AAAATTAAACAATAGTAG
Found at i:8000494 original size:31 final size:29
Alignment explanation
Indices: 8000424--8000495 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
8000414 ACCTTAGGTT
*
8000424 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTA
* ***
8000453 ACGTTTTAGTCACTTATGTTATCGTGTTGTA
1 ACATTTTAGTCACTTATGTT-T-GAAATGTA
8000484 ACATTTTAGTCA
1 ACATTTTAGTCA
8000496 TTGAGCCGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.54
30 1 0.03
31 15 0.43
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTA
Found at i:8007561 original size:16 final size:17
Alignment explanation
Indices: 8007540--8007575 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
8007530 AAATTATTTA
8007540 AATTAAATAATTTT-TC
1 AATTAAATAATTTTCTC
8007556 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
8007573 AAT
1 AAT
8007576 CCAATTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:8012412 original size:19 final size:19
Alignment explanation
Indices: 8012284--8012413 Score: 75
Period size: 19 Copynumber: 6.7 Consensus size: 19
8012274 GCACGTATAA
* *
8012284 TGCATACTAGCAGACGAAA-
1 TGCATCCTAGCACAC-AAAG
8012303 TGCATTCCTAGCACACAAAG
1 TGCA-TCCTAGCACACAAAG
** * * * *
8012323 CACATACTGGTACACGAAG
1 TGCATCCTAGCACACAAAG
* *
8012342 TGCATCCTAGCACAAAAAA
1 TGCATCCTAGCACACAAAG
8012361 TGCATTCCTAGGC-CACAAAG
1 TGCA-TCCTA-GCACACAAAG
** ** *
8012381 CACATATTGGCACACAAAG
1 TGCATCCTAGCACACAAAG
8012400 TGCATCCTAGCACA
1 TGCATCCTAGCACA
8012414 GGAGGTGCAT
Statistics
Matches: 78, Mismatches: 28, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
18 2 0.03
19 51 0.65
20 23 0.29
21 2 0.03
ACGTcount: A:0.38, C:0.28, G:0.17, T:0.18
Consensus pattern (19 bp):
TGCATCCTAGCACACAAAG
Found at i:8012424 original size:58 final size:58
Alignment explanation
Indices: 8012300--8012413 Score: 185
Period size: 58 Copynumber: 2.0 Consensus size: 58
8012290 CTAGCAGACG
* *
8012300 AAATGCATTCCTAGCACACAAAGCACATACTGGTACACGAAGTGCATCCTAGCACAAA
1 AAATGCATTCCTAGCACACAAAGCACATACTGGCACACAAAGTGCATCCTAGCACAAA
*
8012358 AAATGCATTCCTAGGC-CACAAAGCACATATTGGCACACAAAGTGCATCCTAGCACA
1 AAATGCATTCCTA-GCACACAAAGCACATACTGGCACACAAAGTGCATCCTAGCACA
8012414 GGAGGTGCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
58 50 0.96
59 2 0.04
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.18
Consensus pattern (58 bp):
AAATGCATTCCTAGCACACAAAGCACATACTGGCACACAAAGTGCATCCTAGCACAAA
Found at i:8013155 original size:19 final size:19
Alignment explanation
Indices: 8013131--8013182 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
8013121 CAATTTGAGT
8013131 CTTGTCTCGAGACACAAGC
1 CTTGTCTCGAGACACAAGC
*
8013150 CTTGTCTCGAGACACAGGC
1 CTTGTCTCGAGACACAAGC
*
8013169 ATTGTCTCGAGACA
1 CTTGTCTCGAGACA
8013183 AACCAATATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (19 bp):
CTTGTCTCGAGACACAAGC
Found at i:8018726 original size:44 final size:43
Alignment explanation
Indices: 8018676--8018865 Score: 208
Period size: 43 Copynumber: 4.4 Consensus size: 43
8018666 AATATTGTGA
* * *
8018676 AAGACCACGTCTGGGACGA-TGGCATTG-ATTTGAGATCTACGTGT
1 AAGACCACGTCTGGGAC-ATTGGCATCGTATAT--GATTTACGTGT
*
8018720 AAGACCATGTCTGGGACATTGGCATCGTATATGATTTACGTGT
1 AAGACCACGTCTGGGACATTGGCATCGTATATGATTTACGTGT
* *
8018763 AAGACCATGTCTGGGGCATTGGCATCGTATATGATTTACGTGT
1 AAGACCACGTCTGGGACATTGGCATCGTATATGATTTACGTGT
* * * *
8018806 AAGACC-CTGTCTGGGACAGTGGCATCGATATTTGA-TTACATGC
1 AAGACCAC-GTCTGGGACATTGGCATCG-TATATGATTTACGTGT
*
8018849 AAGACCTCGTCTGGGAC
1 AAGACCACGTCTGGGAC
8018866 GTAGGCATTG
Statistics
Matches: 130, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
43 97 0.75
44 30 0.23
45 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
AAGACCACGTCTGGGACATTGGCATCGTATATGATTTACGTGT
Found at i:8018770 original size:43 final size:43
Alignment explanation
Indices: 8018713--8018865 Score: 220
Period size: 43 Copynumber: 3.6 Consensus size: 43
8018703 ATTTGAGATC
8018713 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
1 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
*
8018756 TACGTGTAAGACCATGTCTGGGGCATTGGCATCGTATATGATT
1 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
* * *
8018799 TACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGA-T
1 TACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATT
* *
8018842 TACATGCAAGACC-TCGTCTGGGAC
1 TACGTGTAAGACCAT-GTCTGGGAC
8018866 GTAGGCATTG
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.01
43 94 0.93
44 6 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATT
Found at i:8026556 original size:61 final size:60
Alignment explanation
Indices: 8026487--8026605 Score: 220
Period size: 61 Copynumber: 2.0 Consensus size: 60
8026477 TTCTTATTAA
8026487 TAATATTGAGTTTGAACATACTCTCATACATATACCCTTTCCCCACAAAAATTCCTCCCT
1 TAATATTGAGTTTGAACATACTCTCATACATATACCCTTTCCCCACAAAAATTCCTCCCT
*
8026547 NTAATATTGAGTTTGAACATACTCTCATACATATACCCTTTCCCTACAAAAATTCCTCC
1 -TAATATTGAGTTTGAACATACTCTCATACATATACCCTTTCCCCACAAAAATTCCTCC
8026606 TTTAGAAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (60 bp):
TAATATTGAGTTTGAACATACTCTCATACATATACCCTTTCCCCACAAAAATTCCTCCCT
Found at i:8029536 original size:31 final size:31
Alignment explanation
Indices: 8029443--8029538 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
8029433 GGCAAATTAC
*
8029443 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
8029474 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
8029506 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
8029537 AA
1 AA
8029539 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:8033537 original size:15 final size:15
Alignment explanation
Indices: 8033517--8033547 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8033507 TGAGAGAATC
8033517 TCTGAAATTCAGAAG
1 TCTGAAATTCAGAAG
8033532 TCTGAAATTCAGAAG
1 TCTGAAATTCAGAAG
8033547 T
1 T
8033548 TCTTTATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (15 bp):
TCTGAAATTCAGAAG
Found at i:8044907 original size:2 final size:2
Alignment explanation
Indices: 8044900--8044952 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
8044890 AGGAGACCTC
* * * **
8044900 TG TG TG TG TG TG TG TG TG TG TG CG CG TG TG CG TG TG CA TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
8044942 TG TG TA TG TG T
1 TG TG TG TG TG T
8044953 AACACCCCAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.04, C:0.08, G:0.45, T:0.43
Consensus pattern (2 bp):
TG
Found at i:8048490 original size:109 final size:110
Alignment explanation
Indices: 8048283--8048592 Score: 432
Period size: 109 Copynumber: 2.8 Consensus size: 110
8048273 AAAAAAAAGG
* * * * * *
8048283 AAAATATTTCAAATTGAGGCAATATTTAGCGCTTGGAAATTCGAGAAAACGTGCCATAAGGTGCT
1 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
8048348 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCC-TTTT
65 GGGTGTCGATTTTTCTCGTTAAACCAAATGGCTTAATATCCTTTTT
* * * *
8048393 AAAGA-TTCAAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGTT
1 AAAAATTTC-AAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCT
*
8048457 GGGTGTCGATTTTTCTCGTTTAACCAAATGGCTTAATATCCTTTTT
65 GGGTGTCGATTTTTCTCGTTAAACCAAATGGCTTAATATCCTTTTT
* *
8048503 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGA-AGAACGTGCCCTAATGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
*
8048567 GGTTTCGA--TTTCTCGTTAAACCAAAT
66 GGTGTCGATTTTTCTCGTTAAACCAAAT
8048593 TGCCAAATAT
Statistics
Matches: 178, Mismatches: 19, Indels: 9
0.86 0.09 0.04
Matches are distributed among these distances:
107 17 0.10
108 3 0.02
109 111 0.62
110 44 0.25
111 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (110 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTAAACCAAATGGCTTAATATCCTTTTT
Found at i:8056470 original size:19 final size:20
Alignment explanation
Indices: 8056446--8056486 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
8056436 ATTATGGATA
*
8056446 TAATCCTTTTA-TTTTAATT
1 TAATCCTTGTACTTTTAATT
8056465 TAATCCTTGTACTTTTTAATT
1 TAATCCTTGTAC-TTTTAATT
8056486 T
1 T
8056487 TGGAATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
21 9 0.47
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.61
Consensus pattern (20 bp):
TAATCCTTGTACTTTTAATT
Found at i:8057533 original size:20 final size:21
Alignment explanation
Indices: 8057505--8057543 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
8057495 TTCATATTCT
*
8057505 AATAATTGA-AAATTAAGAGA
1 AATAATTGATAAATAAAGAGA
*
8057525 AATATTTGATAAATAAAGA
1 AATAATTGATAAATAAAGA
8057544 TAAAATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.13, T:0.28
Consensus pattern (21 bp):
AATAATTGATAAATAAAGAGA
Found at i:8062632 original size:18 final size:19
Alignment explanation
Indices: 8062594--8062630 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
8062584 TTTAGAAATT
8062594 TAAAAAAGTATTTTAAAAA
1 TAAAAAAGTATTTTAAAAA
8062613 TAAAAAAGTATTTTAAAA
1 TAAAAAAGTATTTTAAAA
8062631 TATTTTAAAA
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:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
TAAAAAAGTATTTTAAAAA
Found at i:8065667 original size:25 final size:25
Alignment explanation
Indices: 8065622--8065701 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
8065612 GTCATTAAGG
* *
8065622 TTACCAATTC-CAGCTCTTATGAGC
1 TTACCAATACTCAGCTCGTATGAGC
* * *
8065646 TTGCCGATACTCAGCTCGTATGAGT
1 TTACCAATACTCAGCTCGTATGAGC
* * *
8065671 TTACCAATATTTAGCTCGAATGAGC
1 TTACCAATACTCAGCTCGTATGAGC
8065696 TTACCA
1 TTACCA
8065702 TTTATCGTTC
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
24 7 0.16
25 37 0.84
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (25 bp):
TTACCAATACTCAGCTCGTATGAGC
Found at i:8068424 original size:15 final size:16
Alignment explanation
Indices: 8068381--8068424 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
8068371 TTCCAACATC
*
8068381 ATATATTTACTTATTA
1 ATATATTTAATTATTA
*
8068397 ATA-ATTTATTTATTA
1 ATATATTTAATTATTA
8068412 ATATA-TTAATTAT
1 ATATATTTAATTAT
8068425 GATTATAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATATATTTAATTATTA
Found at i:8068490 original size:7 final size:7
Alignment explanation
Indices: 8068473--8068509 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
8068463 TTCTTGAATT
8068473 ATTAT-A
1 ATTATGA
8068479 ATTATGA
1 ATTATGA
8068486 ATTATGA
1 ATTATGA
8068493 ATTATGA
1 ATTATGA
*
8068500 ATTATAA
1 ATTATGA
8068507 ATT
1 ATT
8068510 TATTTCAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (7 bp):
ATTATGA
Found at i:8068509 original size:14 final size:14
Alignment explanation
Indices: 8068467--8068509 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
8068457 TCACTTTTCT
8068467 TGAATTATTATAATTA
1 TGAATTA-TA-AATTA
*
8068483 TGAATTATGAATTA
1 TGAATTATAAATTA
8068497 TGAATTATAAATT
1 TGAATTATAAATT
8068510 TATTTCAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 17 0.68
15 1 0.04
16 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (14 bp):
TGAATTATAAATTA
Found at i:8069382 original size:9 final size:9
Alignment explanation
Indices: 8069368--8069420 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
8069358 CACTTTATCT
8069368 ATTTTTTTA
1 ATTTTTTTA
8069377 ATTTTTTTA
1 ATTTTTTTA
*
8069386 CTTTTATTTTA
1 -ATTT-TTTTA
*
8069397 ATTTTTATA
1 ATTTTTTTA
* *
8069406 ATTTTATAA
1 ATTTTTTTA
8069415 ATTTTT
1 ATTTTT
8069421 AAAAAGAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
9 24 0.69
10 6 0.17
11 5 0.14
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:8069397 original size:20 final size:20
Alignment explanation
Indices: 8069372--8069412 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8069362 TTATCTATTT
* *
8069372 TTTTAATTTTTTTACTTTTA
1 TTTTAATTTTTATAATTTTA
8069392 TTTTAATTTTTATAATTTTA
1 TTTTAATTTTTATAATTTTA
8069412 T
1 T
8069413 AAATTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTAATTTTTATAATTTTA
Found at i:8071539 original size:16 final size:16
Alignment explanation
Indices: 8071520--8071555 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8071510 ATTATTTAGT
*
8071520 TAATATAATATTATAA
1 TAATATAATATAATAA
*
8071536 TAATGTAATATAATAA
1 TAATATAATATAATAA
8071552 TAAT
1 TAAT
8071556 TTCTTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TAATATAATATAATAA
Found at i:8077323 original size:18 final size:18
Alignment explanation
Indices: 8077300--8077334 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8077290 GATTTGGTCA
8077300 TTTAGTTT-TTCACACGGT
1 TTTAGTTTGTT-ACACGGT
8077318 TTTAGTTTGTTACACGG
1 TTTAGTTTGTTACACGG
8077335 CCTATCCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.17, C:0.14, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAGTTTGTTACACGGT
Found at i:8078583 original size:20 final size:22
Alignment explanation
Indices: 8078536--8078583 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
8078526 TCTATATTGA
*
8078536 TCTT-TTATCTTTTTTATCTTT
1 TCTTATTATCTTTATTATCTTT
8078557 TCATTATTAT-TTTATTAT-TTT
1 TC-TTATTATCTTTATTATCTTT
8078578 TCTTAT
1 TCTTAT
8078584 AATTAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 7 0.29
22 9 0.38
23 4 0.17
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (22 bp):
TCTTATTATCTTTATTATCTTT
Found at i:8078803 original size:18 final size:18
Alignment explanation
Indices: 8078743--8078804 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
8078733 TATTTATTAG
*
8078743 AATATTAATTTAAATTAT
1 AATATTAATTTAAAATAT
** *** *
8078761 AATATTAAAAATAAGGGAA
1 AATATT-AATTTAAAATAT
8078780 AATATTAATTTAAAATAT
1 AATATTAATTTAAAATAT
8078798 AATATTA
1 AATATTA
8078805 GGAGATATAA
Statistics
Matches: 31, Mismatches: 12, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
18 19 0.61
19 12 0.39
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
AATATTAATTTAAAATAT
Found at i:8082897 original size:21 final size:21
Alignment explanation
Indices: 8082864--8083005 Score: 97
Period size: 21 Copynumber: 6.6 Consensus size: 21
8082854 ATAATTAATT
* *
8082864 GATTCAAAGAAACAAACAATC
1 GATTAAAAAAAACAAACAATC
*
8082885 GATTAAAAAAAACAATAATGAATC
1 GATTAAAAAAAAC-A-AA-CAATC
* * * *
8082909 GATTCAAAGAAGCAAATAATC
1 GATTAAAAAAAACAAACAATC
* * *
8082930 GATTTAAAACAATAAACAATC
1 GATTAAAAAAAACAAACAATC
* * *
8082951 GATTCAAAGAAGA-AAAGAATC
1 GATT-AAAAAAAACAAACAATC
* *
8082972 GATTTAAAACAACAAACAATC
1 GATTAAAAAAAACAAACAATC
8082993 GATTTAAAAAAAA
1 GA-TTAAAAAAAA
8083006 AGCAAAGAAT
Statistics
Matches: 90, Mismatches: 25, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
20 4 0.04
21 54 0.60
22 15 0.17
23 3 0.03
24 14 0.16
ACGTcount: A:0.58, C:0.13, G:0.10, T:0.19
Consensus pattern (21 bp):
GATTAAAAAAAACAAACAATC
Found at i:8082914 original size:45 final size:45
Alignment explanation
Indices: 8082821--8082986 Score: 180
Period size: 45 Copynumber: 3.8 Consensus size: 45
8082811 CAAAGAATAA
* * * * *
8082821 ATTCAAAGAAGCAAAGAGTCG-TTTAAAACAACAATAATTAATTG
1 ATTCAAAGAAACAAAGAATCGATTTAAAAAAACAATAATCAATCG
* * *
8082865 ATTCAAAGAAACAAACAATCGATTAAAAAAAACAATAATGAATCG
1 ATTCAAAGAAACAAAGAATCGATTTAAAAAAACAATAATCAATCG
* * *
8082910 ATTCAAAGAAGCAAATAATCGATTT---AAAACAATAAACAATCG
1 ATTCAAAGAAACAAAGAATCGATTTAAAAAAACAATAATCAATCG
*
8082952 ATTCAAAGAAGA-AAAGAATCGATTTAAAACAACAA
1 ATTCAAAGAA-ACAAAGAATCGATTTAAAAAAACAA
8082987 ACAATCGATT
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
42 37 0.36
44 18 0.18
45 47 0.46
ACGTcount: A:0.56, C:0.13, G:0.11, T:0.20
Consensus pattern (45 bp):
ATTCAAAGAAACAAAGAATCGATTTAAAAAAACAATAATCAATCG
Found at i:8082952 original size:42 final size:42
Alignment explanation
Indices: 8082795--8082996 Score: 183
Period size: 42 Copynumber: 4.7 Consensus size: 42
8082785 ATTAGAGTTT
* * * **
8082795 GAATCGAGTT-AAACAACAAAGAATAAATTCAAAGAAGCAAA
1 GAATCGATTTAAAACAATAAACAATCGATTCAAAGAAGCAAA
* ** * *
8082836 GAGTCG-TTTAAAACAACAATAATTAATTGATTCAAAGAAACAAA
1 GAATCGATTT--AA-AACAATAAACAATCGATTCAAAGAAGCAAA
* * **
8082880 CAATCGATTAAAAAAAACAATAATGAATCGATTCAAAGAAGCAAA
1 GAATCGATT---TAAAACAATAAACAATCGATTCAAAGAAGCAAA
* *
8082925 TAATCGATTTAAAACAATAAACAATCGATTCAAAGAAGAAAA
1 GAATCGATTTAAAACAATAAACAATCGATTCAAAGAAGCAAA
*
8082967 GAATCGATTTAAAACAACAAACAATCGATT
1 GAATCGATTTAAAACAATAAACAATCGATT
8082997 TAAAAAAAAA
Statistics
Matches: 132, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.02
41 5 0.04
42 57 0.43
43 1 0.01
44 28 0.21
45 37 0.28
46 2 0.02
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.20
Consensus pattern (42 bp):
GAATCGATTTAAAACAATAAACAATCGATTCAAAGAAGCAAA
Found at i:8082972 original size:63 final size:66
Alignment explanation
Indices: 8082877--8083001 Score: 159
Period size: 63 Copynumber: 1.9 Consensus size: 66
8082867 TCAAAGAAAC
* *
8082877 AAACAATCGATTAAAAAAAACAATAATGAATCGATTCAAAGA-AGCAAATAATCGATTTAAAACA
1 AAACAATCGATTAAAAAAAACAATAATGAATCGATTCAAA-ACAACAAACAATCGATTTAAAACA
8082941 AT
65 AT
* * * *
8082943 AAACAATCGATT-CAAAGAAGAA-AA-GAATCGATTTAAAACAACAAACAATCGATTTAAAA
1 AAACAATCGATTAAAAAAAACAATAATGAATCGATTCAAAACAACAAACAATCGATTTAAAA
8083002 AAAAAGCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
62 1 0.02
63 30 0.58
64 2 0.04
65 7 0.13
66 12 0.23
ACGTcount: A:0.58, C:0.13, G:0.10, T:0.20
Consensus pattern (66 bp):
AAACAATCGATTAAAAAAAACAATAATGAATCGATTCAAAACAACAAACAATCGATTTAAAACAA
T
Found at i:8084897 original size:6 final size:5
Alignment explanation
Indices: 8084827--8084899 Score: 53
Period size: 5 Copynumber: 14.4 Consensus size: 5
8084817 GTAGTAGAAT
* * * *
8084827 AGAGA AGAAA AGAGA AGAGA ATGAGAA ATGGGA A-AAA AGAGA ATAGA
1 AGAGA AGAGA AGAGA AGAGA A-GAG-A A-GAGA AGAGA AGAGA AGAGA
8084874 AGAGA A-AGA A-AGA AGAGA ATGAGA AG
1 AGAGA AGAGA AGAGA AGAGA A-GAGA AG
8084900 GGGGAAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
4 10 0.18
5 30 0.55
6 10 0.18
7 5 0.09
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (5 bp):
AGAGA
Found at i:8084898 original size:45 final size:45
Alignment explanation
Indices: 8084822--8084934 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 45
8084812 AGATAGTAGT
* *
8084822 AGAATAG-AGAAGAAA-AGAGAAGAGAATGAGAAATGGGAAAAAAG
1 AGAATAGAAG-AGAAAGAAAGAAGAGAATGAGAAAGGGGAAAAAAG
*
8084866 AGAATAGAAGAGAAAGAAAGAAGAGAATGAGAAGGGGGAAAAAAG
1 AGAATAGAAGAGAAAGAAAGAAGAGAATGAGAAAGGGGAAAAAAG
* * * *
8084911 AAAAGAGAAGAGAAGGAAAAAAGA
1 AGAATAGAAGAGAAAGAAAGAAGA
8084935 AAGGGAAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
44 12 0.20
45 48 0.80
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (45 bp):
AGAATAGAAGAGAAAGAAAGAAGAGAATGAGAAAGGGGAAAAAAG
Found at i:8084932 original size:23 final size:23
Alignment explanation
Indices: 8084861--8084936 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 23
8084851 GAAATGGGAA
*
8084861 AAAAGAGAATAGAAGAGAAAGAAAG
1 AAAAGAGAAGAGAAG-GAAA-AAAG
8084886 --AAGAGAATGAGAAGGGGGAAAAAAG
1 AAAAGAGAA-GAGAA---GGAAAAAAG
8084911 AAAAGAGAAGAGAAGGAAAAAAG
1 AAAAGAGAAGAGAAGGAAAAAAG
8084934 AAA
1 AAA
8084937 GGGAAAAATA
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
23 19 0.43
24 4 0.09
25 4 0.09
26 9 0.20
27 8 0.18
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.03
Consensus pattern (23 bp):
AAAAGAGAAGAGAAGGAAAAAAG
Found at i:8085333 original size:22 final size:22
Alignment explanation
Indices: 8085308--8085350 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
8085298 TATGTTTCTG
8085308 TTTTAT-TTTTTGATTTATATTTT
1 TTTTATGTTTTT-A-TTATATTTT
8085331 TTTTATGTTTTTATTATATT
1 TTTTATGTTTTTATTATATT
8085351 CAAATAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTATGTTTTTATTATATTTT
Found at i:8085341 original size:23 final size:22
Alignment explanation
Indices: 8085308--8085350 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
8085298 TATGTTTCTG
*
8085308 TTTTATTTTTTGATTTATATTTT
1 TTTTATGTTTTGA-TTATATTTT
*
8085331 TTTTATGTTTTTATTATATT
1 TTTTATGTTTTGATTATATT
8085351 CAAATAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (22 bp):
TTTTATGTTTTGATTATATTTT
Found at i:8085414 original size:20 final size:20
Alignment explanation
Indices: 8085386--8085427 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8085376 GTTTATTATG
*
8085386 TTAAGATAA-TTTATGTTGTT
1 TTAACATAATTTTAT-TTGTT
8085406 TTAACATAATTTTATTTGTT
1 TTAACATAATTTTATTTGTT
8085426 TT
1 TT
8085428 TTTATGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (20 bp):
TTAACATAATTTTATTTGTT
Found at i:8085553 original size:19 final size:19
Alignment explanation
Indices: 8085529--8085566 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8085519 GAAATAGTAT
8085529 GGCAAAAAATGTAATGTGC
1 GGCAAAAAATGTAATGTGC
8085548 GGCAAAAAATGTAATGTGC
1 GGCAAAAAATGTAATGTGC
8085567 ACCAAACTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (19 bp):
GGCAAAAAATGTAATGTGC
Found at i:8085572 original size:19 final size:19
Alignment explanation
Indices: 8085531--8085572 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
8085521 AATAGTATGG
**
8085531 CAAAAAATGTAATGTGCGG
1 CAAAAAATGTAATGTGCAC
8085550 CAAAAAATGTAATGTGCAC
1 CAAAAAATGTAATGTGCAC
8085569 CAAA
1 CAAA
8085573 CTCTTTAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (19 bp):
CAAAAAATGTAATGTGCAC
Found at i:8085627 original size:14 final size:13
Alignment explanation
Indices: 8085610--8085644 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
8085600 TTAGTGTACT
8085610 ATATTTATTGTATA
1 ATATTTATTG-ATA
8085624 ATATTTATTGATA
1 ATATTTATTGATA
8085637 ATTATTTA
1 A-TATTTA
8085645 AAATGTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (13 bp):
ATATTTATTGATA
Found at i:8089355 original size:16 final size:16
Alignment explanation
Indices: 8089318--8089348 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8089308 TTTGGTTCGT
8089318 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGC
8089334 TGTAATGGAATAGAG
1 TGTAATGGAATAGAG
8089349 ACGTAATAGT
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:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:8089388 original size:45 final size:44
Alignment explanation
Indices: 8089337--8089429 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
8089327 ATAGAGCTGT
8089337 AATGGAATAGAGAC-GTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGA-ACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
8089382 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
8089426 AATG
1 AATG
8089430 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
43 1 0.02
44 25 0.56
45 19 0.42
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:8089610 original size:18 final size:18
Alignment explanation
Indices: 8089587--8089633 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
8089577 TTATTATTAA
8089587 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
8089605 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
8089623 AT-TAATATTAA
1 ATATAAT-TTAA
8089634 ATATTCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:8101956 original size:16 final size:17
Alignment explanation
Indices: 8101924--8101959 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8101914 AGGACATGAC
*
8101924 ATGATATATATCATTTT
1 ATGATATATAACATTTT
8101941 ATGATATA-AACATTTT
1 ATGATATATAACATTTT
8101957 ATG
1 ATG
8101960 TATTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (17 bp):
ATGATATATAACATTTT
Found at i:8107497 original size:21 final size:21
Alignment explanation
Indices: 8107451--8107497 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
8107441 ATGTAATAAT
*
8107451 TAAATTAAAAATAAAAATATTG
1 TAAA-TAAAAATAAAAATATGG
8107473 -AAATAAAAATAAAAA-ATGG
1 TAAATAAAAATAAAAATATGG
8107492 CTAAAT
1 -TAAAT
8107498 TAGTAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
19 3 0.14
20 12 0.55
21 7 0.32
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (21 bp):
TAAATAAAAATAAAAATATGG
Found at i:8109136 original size:2 final size:2
Alignment explanation
Indices: 8109129--8109300 Score: 344
Period size: 2 Copynumber: 86.0 Consensus size: 2
8109119 TAAGTCAAGA
8109129 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8109171 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8109213 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8109255 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8109297 TG TG
1 TG TG
8109301 ATGGAATTCT
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 170 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8111264 original size:17 final size:17
Alignment explanation
Indices: 8111244--8111304 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
8111234 ATTTCAAGAC
8111244 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * **
8111261 TTATGTAGTGATTCAAA
1 TTATGTAATGTTTTTAA
*
8111278 GGCTTATGTAATATTTTTAA
1 ---TTATGTAATGTTTTTAA
8111298 TTATGTA
1 TTATGTA
8111305 GTGATTCAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 20 0.62
20 12 0.38
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:8111284 original size:37 final size:37
Alignment explanation
Indices: 8111243--8111313 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
8111233 AATTTCAAGA
*
8111243 CTTATGTAATGTTTTTAATTATGTAGTGATTCAAAGG
1 CTTATGTAATATTTTTAATTATGTAGTGATTCAAAGG
8111280 CTTATGTAATATTTTTAATTATGTAGTGATTCAA
1 CTTATGTAATATTTTTAATTATGTAGTGATTCAA
8111314 TTCGGTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (37 bp):
CTTATGTAATATTTTTAATTATGTAGTGATTCAAAGG
Found at i:8111392 original size:47 final size:47
Alignment explanation
Indices: 8111314--8111425 Score: 170
Period size: 47 Copynumber: 2.4 Consensus size: 47
8111304 AGTGATTCAA
* *
8111314 TTCGGTTAATTCGGTTAATTTTTAACCAAAAATAAAAACATATAATT
1 TTCGCTTAATTCGGTTAATTTTTAACAAAAAATAAAAACATATAATT
* *
8111361 TTTGCTTAATTCTGTTAATTTTTAACAAAAAATAAAAACATATAATT
1 TTCGCTTAATTCGGTTAATTTTTAACAAAAAATAAAAACATATAATT
* *
8111408 TTCGGTTAATTTGGTTAA
1 TTCGCTTAATTCGGTTAA
8111426 CCAACCGAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (47 bp):
TTCGCTTAATTCGGTTAATTTTTAACAAAAAATAAAAACATATAATT
Found at i:8114898 original size:36 final size:36
Alignment explanation
Indices: 8114852--8114925 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
8114842 CACCTAAAAA
* * * *
8114852 ATACATTTTCAC-AGAAATTATAAATTTATTTAATAT
1 ATACAGTTTCACTAGAAAATAAAAATATATTT-ATAT
*
8114888 ATACAGTTTCACTATAAAATAAAAATATATTTATAT
1 ATACAGTTTCACTAGAAAATAAAAATATATTTATAT
8114924 AT
1 AT
8114926 TTTTACAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 17 0.53
37 15 0.47
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (36 bp):
ATACAGTTTCACTAGAAAATAAAAATATATTTATAT
Found at i:8117430 original size:28 final size:27
Alignment explanation
Indices: 8117398--8117451 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
8117388 TTTAAATCGG
*
8117398 TTTAAAATTTATAAGAA-ATTATTAAAAA
1 TTTAAAATTAATAA-AATATT-TTAAAAA
8117426 TTTAAAATTAATAAAATATTTTAAAA
1 TTTAAAATTAATAAAATATTTTAAAA
8117452 CAATATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
TTTAAAATTAATAAAATATTTTAAAAA
Found at i:8117435 original size:17 final size:19
Alignment explanation
Indices: 8117413--8117451 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
8117403 AATTTATAAG
*
8117413 AAATTATTAAAA-A-TTTA
1 AAATTAATAAAATATTTTA
8117430 AAATTAATAAAATATTTTA
1 AAATTAATAAAATATTTTA
8117449 AAA
1 AAA
8117452 CAATATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 1 0.05
19 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATTAATAAAATATTTTA
Found at i:8118077 original size:17 final size:15
Alignment explanation
Indices: 8118057--8118099 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
8118047 ATATTATTAA
*
8118057 AAATATTTATTTATTT
1 AAATATTTAATT-TTT
*
8118073 GAAATTTTTAATTTTT
1 -AAATATTTAATTTTT
8118089 AAATATTTAAT
1 AAATATTTAAT
8118100 GACACGACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 3 0.13
17 10 0.43
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
AAATATTTAATTTTT
Found at i:8124047 original size:16 final size:17
Alignment explanation
Indices: 8124026--8124057 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8124016 CTTCTGCCAC
8124026 CGCCGCC-ACGTCACGT
1 CGCCGCCAACGTCACGT
8124042 CGCCGCCAACGTCACG
1 CGCCGCCAACGTCACG
8124058 CCACCACCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.16, C:0.50, G:0.25, T:0.09
Consensus pattern (17 bp):
CGCCGCCAACGTCACGT
Found at i:8125039 original size:3 final size:3
Alignment explanation
Indices: 8125031--8125076 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
8125021 TGTAGTACCT
8125031 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8125077 ATAATTGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8125214 original size:23 final size:22
Alignment explanation
Indices: 8125183--8125228 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
8125173 TTAAAACATG
8125183 TATATTATATATAT-TATTATTT
1 TATATTATATATATATATT-TTT
8125205 TATATCTATATATATATATTTTT
1 TATAT-TATATATATATATTTTT
8125228 T
1 T
8125229 GAAATACGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 13 0.59
24 4 0.18
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TATATTATATATATATATTTTT
Found at i:8128042 original size:35 final size:35
Alignment explanation
Indices: 8127992--8128064 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
8127982 TCACTTCACA
8127992 AAATACATACACAAATTCAAATTCTATGTTGCAAC
1 AAATACATACACAAATTCAAATTCTATGTTGCAAC
* * **
8128027 AAATACATGCCCAAATTCAGGTTCTATGTTGCAAC
1 AAATACATACACAAATTCAAATTCTATGTTGCAAC
8128062 AAA
1 AAA
8128065 AGTATGCGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (35 bp):
AAATACATACACAAATTCAAATTCTATGTTGCAAC
Found at i:8130092 original size:35 final size:35
Alignment explanation
Indices: 8130048--8130120 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
8130038 TCACTTCACA
8130048 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
1 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
8130083 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
1 AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
8130118 AAA
1 AAA
8130121 AGTATGCGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (35 bp):
AAATACATGCACAAATTCAGGTTCTATGTTGCAAC
Found at i:8135412 original size:3 final size:3
Alignment explanation
Indices: 8135404--8135438 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
8135394 GTGATGTGTC
* *
8135404 AGA AGA AGA AGA AGA AGA AGA AGG AGA GGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
8135439 GGGTATGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:8151941 original size:28 final size:27
Alignment explanation
Indices: 8151888--8151942 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
8151878 AAATTTTAAA
* **
8151888 TTTTTATAAAAATTTCAAAATTTATAT
1 TTTTTAAAAAAATTTCAAAAGATATAT
*
8151915 TTTTTAAAAAAATTTCTAAAGGATATAT
1 TTTTTAAAAAAATTTC-AAAAGATATAT
8151943 AAAGAAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (27 bp):
TTTTTAAAAAAATTTCAAAAGATATAT
Found at i:8154425 original size:26 final size:27
Alignment explanation
Indices: 8154381--8154431 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
8154371 TTATTTTTAA
*
8154381 TTTCTATTTGATTACA-TTTATATAAT
1 TTTCTATTTGATTAAATTTTATATAAT
8154407 TTTCTATTT-ATTAAAATTTTATATA
1 TTTCTATTTGATT-AAATTTTATATA
8154432 TAGACAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 3 0.14
26 11 0.50
27 8 0.36
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTCTATTTGATTAAATTTTATATAAT
Found at i:8154429 original size:25 final size:24
Alignment explanation
Indices: 8154373--8154429 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
8154363 TATTTGTATT
*
8154373 ATTTT-TAATTTCTATTTGATTAC
1 ATTTTATAATTTCTATTTGATTAA
8154396 ATTTATATAATTTTCTATTT-ATTAAA
1 ATTT-TATAA-TTTCTATTTGATT-AA
8154422 ATTTTATA
1 ATTTTATA
8154430 TATAGACAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 4 0.14
24 1 0.03
25 10 0.34
26 14 0.48
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTATAATTTCTATTTGATTAA
Found at i:8154789 original size:20 final size:22
Alignment explanation
Indices: 8154766--8154811 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
8154756 TCGGGGCATT
8154766 TTTAATATGTT-TATA-ATTTA
1 TTTAATATGTTATATATATTTA
* *
8154786 TTTAATTTGTTATATATTTTTA
1 TTTAATATGTTATATATATTTA
8154808 TTTA
1 TTTA
8154812 GTTTGGAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 4 0.18
22 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTAATATGTTATATATATTTA
Found at i:8156613 original size:22 final size:22
Alignment explanation
Indices: 8156587--8156628 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8156577 ATAAGAAGTA
*
8156587 TTTAAAA-AGTAATAAAAATAGC
1 TTTAAAATACTAA-AAAAATAGC
8156609 TTTAAAATACTAAAAAAATA
1 TTTAAAATACTAAAAAAATA
8156629 AGAAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
TTTAAAATACTAAAAAAATAGC
Found at i:8160625 original size:16 final size:16
Alignment explanation
Indices: 8160588--8160630 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
8160578 ATACACGGGA
*
8160588 AATTTT-AAATAAATT
1 AATTTTAAAATAAACT
*
8160603 AA-ATTAAAATAAACT
1 AATTTTAAAATAAACT
8160618 AATTTTAAAATAA
1 AATTTTAAAATAA
8160631 CATATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 12 0.52
16 9 0.39
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTTTAAAATAAACT
Found at i:8161400 original size:12 final size:13
Alignment explanation
Indices: 8161383--8161426 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
8161373 AATCAAAACC
8161383 AAAACCG-AAAAG
1 AAAACCGAAAAAG
8161395 AAAACCGAAAAAG
1 AAAACCGAAAAAG
**
8161408 AAAAAAGGAAAAAG
1 -AAAACCGAAAAAG
8161422 AAAAC
1 AAAAC
8161427 GGAAGAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 7 0.26
13 9 0.33
14 11 0.41
ACGTcount: A:0.73, C:0.11, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAACCGAAAAAG
Found at i:8161430 original size:13 final size:13
Alignment explanation
Indices: 8161390--8161430 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
8161380 ACCAAAACCG
*
8161390 AAAAGAAAACCGA
1 AAAAGAAAACGGA
*
8161403 AAAAGAAAAAAGGA
1 AAAAG-AAAACGGA
8161417 AAAAGAAAACGGA
1 AAAAGAAAACGGA
8161430 A
1 A
8161431 GAAGCAAGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.73, C:0.07, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAGAAAACGGA
Found at i:8168726 original size:103 final size:104
Alignment explanation
Indices: 8168482--8168747 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
8168472 GTTGTACATA
** *
8168482 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
8168547 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
8168586 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
8168651 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
8168689 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
8168748 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:8186727 original size:13 final size:13
Alignment explanation
Indices: 8186709--8186736 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8186699 TCACATGAGG
8186709 TTCAATTAACAAA
1 TTCAATTAACAAA
8186722 TTCAATTAACAAA
1 TTCAATTAACAAA
8186735 TT
1 TT
8186737 TAAGAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (13 bp):
TTCAATTAACAAA
Found at i:8188041 original size:37 final size:36
Alignment explanation
Indices: 8187959--8188041 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 36
8187949 ATACATACGC
* *
8187959 ATATTTTATATATAATATATTCATATTTTTAACATAA
1 ATATTTT-TTTATAATATATGCATATTTTTAACATAA
*
8187996 ATATTTTTTTATAA-ATATGCATATATTTTATACATAC
1 ATATTTTTTTATAATATATGCATAT-TTTTA-ACATAA
*
8188033 ATGTTTTTT
1 ATATTTTTT
8188042 ATTTTTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
35 9 0.22
36 11 0.28
37 20 0.50
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.54
Consensus pattern (36 bp):
ATATTTTTTTATAATATATGCATATTTTTAACATAA
Found at i:8188398 original size:17 final size:17
Alignment explanation
Indices: 8188376--8188410 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8188366 TGGTTTTTTT
* *
8188376 TTTGTTTTTTTTATTTA
1 TTTGTTTATCTTATTTA
8188393 TTTGTTTATCTTATTTA
1 TTTGTTTATCTTATTTA
8188410 T
1 T
8188411 ATACAATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTGTTTATCTTATTTA
Found at i:8188845 original size:98 final size:98
Alignment explanation
Indices: 8188725--8188921 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
8188715 TAAAAAATTA
* * *
8188725 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGTTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
8188790 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
* * *
8188823 TAAAGGAAATATTTCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTT
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
8188888 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
8188921 T
1 T
8188922 TTTATTGTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
Found at i:8198754 original size:22 final size:21
Alignment explanation
Indices: 8198719--8198761 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
8198709 ATGAGTTGGG
* *
8198719 TTTTTTATTTTTATTTTTATT
1 TTTTTTAATTTTATTTATATT
8198740 TTTTCTTAATTTTATTTATATT
1 TTTT-TTAATTTTATTTATATT
8198762 AAAATCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTAATTTTATTTATATT
Found at i:8201045 original size:43 final size:43
Alignment explanation
Indices: 8200978--8201078 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 43
8200968 TTTATGTGGG
* * *
8200978 AAAACACCGCTATAGAACATGACCTTTAACGGCGA-TTTCCCCA
1 AAAACGCCGCTAAAGAACATGACCTTTAACGAC-ACTTTCCCCA
* * *
8201021 CAAACGCCGCTAAAGAACATGACCTTTAGCGACACTTTTCCCA
1 AAAACGCCGCTAAAGAACATGACCTTTAACGACACTTTCCCCA
8201064 AAAACGCCGCTAAAG
1 AAAACGCCGCTAAAG
8201079 GTCATGTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 49 0.98
ACGTcount: A:0.36, C:0.31, G:0.15, T:0.19
Consensus pattern (43 bp):
AAAACGCCGCTAAAGAACATGACCTTTAACGACACTTTCCCCA
Found at i:8207197 original size:9 final size:9
Alignment explanation
Indices: 8207185--8207286 Score: 68
Period size: 9 Copynumber: 11.6 Consensus size: 9
8207175 TGATATATAT
8207185 TTATGTAAG
1 TTATGTAAG
8207194 TTATGTAAG
1 TTATGTAAG
*
8207203 TTATGATATG
1 TTATG-TAAG
* * *
8207213 ATATAT-AT
1 TTATGTAAG
8207221 TTATGT-A-
1 TTATGTAAG
8207228 TTATGTAAG
1 TTATGTAAG
*
8207237 CTATGTAAG
1 TTATGTAAG
*
8207246 TTATGATATG
1 TTATG-TAAG
* * *
8207256 ATATAT-AT
1 TTATGTAAG
8207264 TTATGTAAG
1 TTATGTAAG
*
8207273 TTATGTAAT
1 TTATGTAAG
8207282 TTATG
1 TTATG
8207287 GTATGATATA
Statistics
Matches: 70, Mismatches: 18, Indels: 10
0.71 0.18 0.10
Matches are distributed among these distances:
7 6 0.09
8 10 0.14
9 42 0.60
10 12 0.17
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:8207199 original size:36 final size:36
Alignment explanation
Indices: 8207158--8207327 Score: 227
Period size: 36 Copynumber: 4.6 Consensus size: 36
8207148 ATCCAAAGTT
8207158 TTATGTAAGTTATGATATGATATATATTTATGTAAG
1 TTATGTAAGTTATGATATGATATATATTTATGTAAG
8207194 TTATGTAAGTTATGATATGATATATATTTATGTATTATG
1 TTATGTAAGTTATGATATGATATATATTTATGTA--A-G
8207233 TAAGCTATGTAAGTTATGATATGATATATATTTATGTAAG
1 T----TATGTAAGTTATGATATGATATATATTTATGTAAG
* *
8207273 TTATGTAATTTATGGTATGATATATATTTATGT-A-
1 TTATGTAAGTTATGATATGATATATATTTATGTAAG
* *
8207307 TTATGTAAGTTAAGTTATGAT
1 TTATGTAAGTTATGATATGAT
8207328 CCAAAGTTTT
Statistics
Matches: 122, Mismatches: 5, Indels: 16
0.85 0.03 0.11
Matches are distributed among these distances:
34 18 0.15
35 1 0.01
36 64 0.52
38 1 0.01
39 2 0.02
40 2 0.02
41 1 0.01
43 33 0.27
ACGTcount: A:0.35, C:0.01, G:0.16, T:0.48
Consensus pattern (36 bp):
TTATGTAAGTTATGATATGATATATATTTATGTAAG
Found at i:8207235 original size:43 final size:43
Alignment explanation
Indices: 8207185--8207318 Score: 192
Period size: 43 Copynumber: 3.3 Consensus size: 43
8207175 TGATATATAT
8207185 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
*
8207228 TTATGTAAGCTATGTAAGTTATGATATG--ATATA--TA--T-
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
* *
8207264 TTATGTAAGTTATGTAATTTATGGTATGATATATATTTATGTA
1 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
8207307 TTATGTAAGTTA
1 TTATGTAAGTTA
8207319 AGTTATGATC
Statistics
Matches: 80, Mismatches: 4, Indels: 14
0.82 0.04 0.14
Matches are distributed among these distances:
36 25 0.31
37 1 0.01
38 5 0.06
39 2 0.03
40 2 0.03
41 5 0.06
42 1 0.01
43 39 0.49
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:8207246 original size:79 final size:79
Alignment explanation
Indices: 8207159--8207315 Score: 296
Period size: 79 Copynumber: 2.0 Consensus size: 79
8207149 TCCAAAGTTT
8207159 TATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
1 TATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
8207224 TGTATTATGTAAGC
66 TGTATTATGTAAGC
* *
8207238 TATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAATTTATGGTATGATATATATTTA
1 TATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
8207303 TGTATTATGTAAG
66 TGTATTATGTAAG
8207316 TTAAGTTATG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.48
Consensus pattern (79 bp):
TATGTAAGTTATGATATGATATATATTTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
TGTATTATGTAAGC
Found at i:8207301 original size:18 final size:18
Alignment explanation
Indices: 8207246--8207304 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
8207236 GCTATGTAAG
*
8207246 TTATGATATGATATATAT
1 TTATGGTATGATATATAT
* * *
8207264 TTAT-GTAAGTTATGTAAT
1 TTATGGTATGATATAT-AT
8207282 TTATGGTATGATATATAT
1 TTATGGTATGATATATAT
8207300 TTATG
1 TTATG
8207305 TATTATGTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
17 7 0.22
18 17 0.53
19 8 0.25
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (18 bp):
TTATGGTATGATATATAT
Found at i:8207392 original size:13 final size:13
Alignment explanation
Indices: 8207374--8207400 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8207364 TGATTATCAT
8207374 CTTTAAATTTTAA
1 CTTTAAATTTTAA
8207387 CTTTAAATTTTAA
1 CTTTAAATTTTAA
8207400 C
1 C
8207401 CCTTAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:8207626 original size:12 final size:12
Alignment explanation
Indices: 8207609--8207634 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8207599 TCAATTTATT
8207609 TTTATGAAAATA
1 TTTATGAAAATA
8207621 TTTATGAAAATA
1 TTTATGAAAATA
8207633 TT
1 TT
8207635 AAAATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (12 bp):
TTTATGAAAATA
Found at i:8208189 original size:19 final size:17
Alignment explanation
Indices: 8208161--8208200 Score: 55
Period size: 19 Copynumber: 2.3 Consensus size: 17
8208151 AGATTTGTTA
8208161 TTTC-TTTTGTTTACTTCT
1 TTTCATTTTGTTTA-TT-T
8208179 TTTCATTTTGTTTATTT
1 TTTCATTTTGTTTATTT
8208196 TTTCA
1 TTTCA
8208201 ATACTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTCATTTTGTTTATTT
Found at i:8208325 original size:28 final size:28
Alignment explanation
Indices: 8208294--8208348 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
8208284 CTAAATAAAT
*
8208294 AAAAACGCATAATTGAACAAGCGGTTTA
1 AAAAACGCATAAATGAACAAGCGGTTTA
*
8208322 AAAAAGGCATAAATGAACAAGCGGTTT
1 AAAAACGCATAAATGAACAAGCGGTTT
8208349 TACTTTGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (28 bp):
AAAAACGCATAAATGAACAAGCGGTTTA
Found at i:8208457 original size:72 final size:72
Alignment explanation
Indices: 8208371--8208568 Score: 211
Period size: 71 Copynumber: 2.8 Consensus size: 72
8208361 CAGAATAAAT
* * * *
8208371 GGTTCCACTTAATATCAAAACTCAATAAGTTGAACTAAATTAACCTTTTTAAAAAT-TCAGAATT
1 GGTTTCACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAATGT-AGAACT
*
8208435 GAACAAAC
65 AAACAAAC
* * ** ** * * * *
8208443 GTTTTTACTTAATATCAAATTTTAATAAATCAAACTAAATTAAGC-TTCTGAAAATGTATAACTA
1 GGTTTCACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAATGTAGAACTA
* *
8208507 AATAAAT
66 AACAAAC
*
8208514 GGTTTCGCTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAA
1 GGTTTCACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAA
8208569 CACATAATTA
Statistics
Matches: 97, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
71 54 0.56
72 43 0.44
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (72 bp):
GGTTTCACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAATGTAGAACTA
AACAAAC
Found at i:8209370 original size:116 final size:116
Alignment explanation
Indices: 8209161--8209396 Score: 418
Period size: 116 Copynumber: 2.0 Consensus size: 116
8209151 TTAAATACCA
* * *
8209161 AGCGAAGAGAAAGCAACAGTTTTAAATATAATGGTGAAATTCATTGCTATTACCTTTACAAACTT
1 AGCGAAGAGAAAGCAACAGTTTTAAATATAAGGGTGAAATTCACTACTATTACCTTTACAAACTT
8209226 TGGCCTGCTTAATACATCTGACCAAAAAAGAGAAAGAAATAGATAATTTGG
66 TGGCCTGCTTAATACATCTGACCAAAAAAGAGAAAGAAATAGATAATTTGG
8209277 AGCGAAGAGAAAGCAACAGTTTTAAATATAAGGGTGAAATTCACTACTATTACCTTTACAAACTT
1 AGCGAAGAGAAAGCAACAGTTTTAAATATAAGGGTGAAATTCACTACTATTACCTTTACAAACTT
* *
8209342 TGGCTTGCTTAATACGGTCTGACCAAAAAAGAGAAAGAAATAGATAATTTGG
66 TGGCCTGCTTAATAC-ATCTGACCAAAAAAGAGAAAGAAATAGATAATTTGG
8209394 AGC
1 AGC
8209397 TTAGTAACTG
Statistics
Matches: 114, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
116 76 0.67
117 38 0.33
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (116 bp):
AGCGAAGAGAAAGCAACAGTTTTAAATATAAGGGTGAAATTCACTACTATTACCTTTACAAACTT
TGGCCTGCTTAATACATCTGACCAAAAAAGAGAAAGAAATAGATAATTTGG
Found at i:8210693 original size:21 final size:23
Alignment explanation
Indices: 8210664--8210707 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
8210654 AACATATAAT
*
8210664 TAAACTAAT-CAAAATTTACAAA
1 TAAACTAATCCAAAAATTACAAA
8210686 TAAA-TAATCCAAAAATTACAAA
1 TAAACTAATCCAAAAATTACAAA
8210708 CAGCAGCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAACTAATCCAAAAATTACAAA
Found at i:8211511 original size:25 final size:25
Alignment explanation
Indices: 8211477--8211524 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
8211467 GGACATGATT
8211477 TTGTTAAATGAAATAATAAAAATAA
1 TTGTTAAATGAAATAATAAAAATAA
8211502 TTGTTAAATGAAATAATAAAAAT
1 TTGTTAAATGAAATAATAAAAAT
8211525 TGAGCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (25 bp):
TTGTTAAATGAAATAATAAAAATAA
Found at i:8217050 original size:29 final size:32
Alignment explanation
Indices: 8217016--8217078 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
8217006 TAAAAAAAAT
* *
8217016 AAAAAAAACT-TCATAATAATATAACTTATTC
1 AAAAAATACTCTCATAATAATACAACTTATTC
8217047 AAAAAATACTCTCATAATAATACAACTTATTC
1 AAAAAATACTCTCATAATAATACAACTTATTC
8217079 TCTAGTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 9 0.31
32 20 0.69
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (32 bp):
AAAAAATACTCTCATAATAATACAACTTATTC
Found at i:8229462 original size:224 final size:224
Alignment explanation
Indices: 8229072--8229515 Score: 888
Period size: 224 Copynumber: 2.0 Consensus size: 224
8229062 AATTTATCAT
8229072 TATACATTAATAATTTAAATTGATCTAGATTAATATTTGAAGACAAATCTTGTATCATTTTATTT
1 TATACATTAATAATTTAAATTGATCTAGATTAATATTTGAAGACAAATCTTGTATCATTTTATTT
8229137 TGAAGTGATAGGGTAAATCTTTTTATTTTTGAATTCTAAAAGGTAACTTAAATTGAAGAATGTTG
66 TGAAGTGATAGGGTAAATCTTTTTATTTTTGAATTCTAAAAGGTAACTTAAATTGAAGAATGTTG
8229202 GGATCGACCTTATAAACAACGAAATAGAAATGTGAAGATTGAATACAAATATTTACGTAGAAAAT
131 GGATCGACCTTATAAACAACGAAATAGAAATGTGAAGATTGAATACAAATATTTACGTAGAAAAT
8229267 CCTCAATTAAGAGGATAAAAAACCACGGA
196 CCTCAATTAAGAGGATAAAAAACCACGGA
8229296 TATACATTAATAATTTAAATTGATCTAGATTAATATTTGAAGACAAATCTTGTATCATTTTATTT
1 TATACATTAATAATTTAAATTGATCTAGATTAATATTTGAAGACAAATCTTGTATCATTTTATTT
8229361 TGAAGTGATAGGGTAAATCTTTTTATTTTTGAATTCTAAAAGGTAACTTAAATTGAAGAATGTTG
66 TGAAGTGATAGGGTAAATCTTTTTATTTTTGAATTCTAAAAGGTAACTTAAATTGAAGAATGTTG
8229426 GGATCGACCTTATAAACAACGAAATAGAAATGTGAAGATTGAATACAAATATTTACGTAGAAAAT
131 GGATCGACCTTATAAACAACGAAATAGAAATGTGAAGATTGAATACAAATATTTACGTAGAAAAT
8229491 CCTCAATTAAGAGGATAAAAAACCA
196 CCTCAATTAAGAGGATAAAAAACCA
8229516 TGGACAAAGA
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
224 220 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (224 bp):
TATACATTAATAATTTAAATTGATCTAGATTAATATTTGAAGACAAATCTTGTATCATTTTATTT
TGAAGTGATAGGGTAAATCTTTTTATTTTTGAATTCTAAAAGGTAACTTAAATTGAAGAATGTTG
GGATCGACCTTATAAACAACGAAATAGAAATGTGAAGATTGAATACAAATATTTACGTAGAAAAT
CCTCAATTAAGAGGATAAAAAACCACGGA
Found at i:8233341 original size:20 final size:22
Alignment explanation
Indices: 8233307--8233348 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
8233297 ATGTTTAGTA
8233307 TTTTGCTTTTAATTTAATTTTT
1 TTTTGCTTTTAATTTAATTTTT
*
8233329 TTTTG-TTTT-ATTTAGTTTTT
1 TTTTGCTTTTAATTTAATTTTT
8233349 CACCTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 4 0.21
22 5 0.26
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.76
Consensus pattern (22 bp):
TTTTGCTTTTAATTTAATTTTT
Found at i:8233856 original size:16 final size:15
Alignment explanation
Indices: 8233837--8233875 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
8233827 TATTGCATAG
8233837 TTTTT-ATATTATTT
1 TTTTTAATATTATTT
8233851 ATTTTTAATATTATTT
1 -TTTTTAATATTATTT
8233867 TTTTATAAT
1 TTTT-TAAT
8233876 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTAATATTATTT
Found at i:8242269 original size:19 final size:18
Alignment explanation
Indices: 8242245--8242283 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
8242235 ATAAATATGC
* *
8242245 ATTTTAATAATATAAAGAT
1 ATTTTAAAAAAATAAA-AT
8242264 ATTTTAAAAAAATAAAAT
1 ATTTTAAAAAAATAAAAT
8242282 AT
1 AT
8242284 AAAGAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTTTAAAAAAATAAAAT
Found at i:8242286 original size:26 final size:28
Alignment explanation
Indices: 8242249--8242311 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
8242239 ATATGCATTT
*
8242249 TAATAATATAAAGATATT-TTAAAAAAA
1 TAATAATATAAAGAAATTATTAAAAAAA
* *
8242276 TAA-AATATAAAGAAATTATTATAAATA
1 TAATAATATAAAGAAATTATTAAAAAAA
8242303 TAATAATAT
1 TAATAATAT
8242312 TTAACTTGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.42
27 13 0.42
28 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (28 bp):
TAATAATATAAAGAAATTATTAAAAAAA
Found at i:8247481 original size:21 final size:19
Alignment explanation
Indices: 8247455--8247503 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
8247445 TTTAGATAAA
8247455 ATTAAAATTAAAATTTTATTT
1 ATTAAAATT--AATTTTATTT
*
8247476 ATTAAAAATTATTTTTATTT
1 ATT-AAAATTAATTTTATTT
*
8247496 AATAAAAT
1 ATTAAAAT
8247504 ATAACTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 3 0.12
22 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAAAATTAATTTTATTT
Found at i:8251936 original size:17 final size:17
Alignment explanation
Indices: 8251914--8251965 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
8251904 CTTCACTCGA
*
8251914 AAAAAAGAAATGAAAAC
1 AAAAAAGAAAAGAAAAC
*
8251931 AAAAAAGAAAAGAAAAG
1 AAAAAAGAAAAGAAAAC
*
8251948 AAGAACAAAAAAAGAAAA
1 AA-AA-AAGAAAAGAAAA
8251966 AGGAGAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 17 0.57
18 2 0.07
19 11 0.37
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAGAAAAC
Found at i:8251954 original size:23 final size:23
Alignment explanation
Indices: 8251916--8251965 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
8251906 TCACTCGAAA
*
8251916 AAAAGAAATGAAAAC-AAAAAAG
1 AAAAGAAAAGAAAACAAAAAAAG
8251938 AAAAGAAAAGAAGAACAAAAAAAG
1 AAAAGAAAAGAA-AACAAAAAAAG
8251962 AAAA
1 AAAA
8251966 AGGAGAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.44
23 3 0.12
24 11 0.44
ACGTcount: A:0.80, C:0.04, G:0.14, T:0.02
Consensus pattern (23 bp):
AAAAGAAAAGAAAACAAAAAAAG
Found at i:8252921 original size:44 final size:43
Alignment explanation
Indices: 8252854--8253116 Score: 219
Period size: 44 Copynumber: 6.0 Consensus size: 43
8252844 AAGACATTAA
* *
8252854 AGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGCA-GAAGTAGATCGAAGAT
* * * *
8252898 AGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGCA-GAAGTAGATCGAAGAT
* * ** * *
8252942 -GTAGATCTTGTTTTCCCCTACTGGTGGC-GAAGTAGATCAAAGAA
1 AGCAGATCTTGTCTT--CCTA-TATTGGCAGAAGTAGATCGAAGAT
* * *
8252986 AGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGCA-GAAGTAGATCGAAGAT
* * * *
8253030 AGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGCA-GAAGTAGATCGAAGAT
* *
8253074 -GTAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAGATCGAAGA
1 AGCAGATCTTGTCTTCCTATA-T--TGGCAGAAGTAGATCGAAGA
8253117 ACCATAGATC
Statistics
Matches: 172, Mismatches: 38, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
42 5 0.03
43 28 0.16
44 115 0.67
45 17 0.10
46 7 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
AGCAGATCTTGTCTTCCTATATTGGCAGAAGTAGATCGAAGAT
Found at i:8253096 original size:132 final size:132
Alignment explanation
Indices: 8252852--8253117 Score: 496
Period size: 132 Copynumber: 2.0 Consensus size: 132
8252842 TGAAGACATT
8252852 AAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
* *
8252917 TATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTTTTCCCCTACTGGTGGCGAAGTAGATCAA
66 TATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
8252982 AG
131 AG
*
8252984 AAAGTAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
*
8253049 TATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
8253114 AG
131 AG
8253116 AA
1 AA
8253118 CCATAGATCT
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 130 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCAA
AG
Found at i:8254689 original size:104 final size:104
Alignment explanation
Indices: 8254567--8254790 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
8254557 AATGGATATC
8254567 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
8254632 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
8254671 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
8254736 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
8254775 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
8254791 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:8255152 original size:29 final size:29
Alignment explanation
Indices: 8255119--8255182 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
8255109 TAATCCACCA
8255119 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
8255148 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
8255178 CCCAA
1 CCCAA
8255183 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:8255156 original size:30 final size:30
Alignment explanation
Indices: 8255126--8255182 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8255116 CCACCCAACT
8255126 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
8255155 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
8255183 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:8261564 original size:29 final size:29
Alignment explanation
Indices: 8261531--8261594 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
8261521 TAATCCACCA
8261531 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
8261560 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
8261590 CCCAA
1 CCCAA
8261595 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:8261568 original size:30 final size:30
Alignment explanation
Indices: 8261538--8261594 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8261528 CCACCCAACT
8261538 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
8261567 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
8261595 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Done.