Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 18 of 290
Found at i:6204306 original size:6 final size:5
Alignment explanation
Indices: 6204273--6204333 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
6204263 CTTCTTTTGT
* *
6204273 TATATA TATATA TATAA TATAA TGTAA TATTAA TATAA TAATAA AATAA
1 TATA-A TATA-A TATAA TATAA TATAA TA-TAA TATAA T-ATAA TATAA
*
6204322 TATAT TATAA TA
1 TATAA TATAA TA
6204334 AAACTATTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
5 28 0.60
6 19 0.40
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:6204306 original size:11 final size:10
Alignment explanation
Indices: 6204273--6204333 Score: 59
Period size: 11 Copynumber: 5.7 Consensus size: 10
6204263 CTTCTTTTGT
6204273 TATATATATATA
1 TATA-ATATA-A
6204285 TATAATATAA
1 TATAATATAA
*
6204295 TGTAATATTAA
1 TATAATA-TAA
6204306 TATAATAATAA
1 TATAAT-ATAA
* *
6204317 AATAATATAT
1 TATAATATAA
6204327 TATAATA
1 TATAATA
6204334 AAACTATTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
10 16 0.38
11 21 0.50
12 5 0.12
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (10 bp):
TATAATATAA
Found at i:6204330 original size:21 final size:21
Alignment explanation
Indices: 6204278--6204334 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
6204268 TTTGTTATAT
**
6204278 ATATATATATAAT-ATAATGTA
1 ATATAT-TATAATAATAAAATA
*
6204299 ATATTAATATAATAATAAAATA
1 ATA-TATTATAATAATAAAATA
6204321 ATATATTATAATAA
1 ATATATTATAATAA
6204335 AACTATTCTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATATTATAATAATAAAATA
Found at i:6204421 original size:105 final size:105
Alignment explanation
Indices: 6204232--6204436 Score: 375
Period size: 100 Copynumber: 2.0 Consensus size: 105
6204222 CGTCCCTCAC
6204232 CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCTTTTGTTATATATATATATATAATATAATG
1 CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCTTTTGTTATATATATATATATAATATAATG
6204297 TAATATTAATATAATAATAAAATAATATATTATAATAAAA
66 TAATATTAATATAATAATAAAATAATATATTATAATAAAA
6204337 CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCTTTTG---T-TATATATATATAATAT-ATG
1 CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCTTTTGTTATATATATATATATAATATAATG
6204397 TAATATTAATATAATAATAAAATAATATATTATAATAAAA
66 TAATATTAATATAATAATAAAATAATATATTATAATAAAA
6204437 ATCTTAACTA
Statistics
Matches: 100, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
100 43 0.43
101 16 0.16
102 1 0.01
105 40 0.40
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.53
Consensus pattern (105 bp):
CTATTCTGTTTCTTTTGTTTTATTTCTTTTGCTTCTTTTGTTATATATATATATATAATATAATG
TAATATTAATATAATAATAAAATAATATATTATAATAAAA
Found at i:6205653 original size:8 final size:8
Alignment explanation
Indices: 6205640--6205665 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6205630 TTAAATTCAG
6205640 AATAATAA
1 AATAATAA
6205648 AATAATAA
1 AATAATAA
6205656 AATAATAA
1 AATAATAA
6205664 AA
1 AA
6205666 CCTAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:6209036 original size:27 final size:26
Alignment explanation
Indices: 6209005--6209074 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 26
6208995 TAAAATATTA
6209005 AAAATATTTTTTATTTGTTTATATTTGT
1 AAAATATTTTTTATTT-TTT-TATTTGT
*
6209033 -AAATATTTTTAATATTTTTTTATTTTT
1 AAAATATTTTT--TATTTTTTTATTTGT
6209060 AAAATAATTTTTTAT
1 AAAAT-ATTTTTTAT
6209075 AAATTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
27 19 0.51
28 7 0.19
29 11 0.30
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (26 bp):
AAAATATTTTTTATTTTTTTATTTGT
Found at i:6209051 original size:10 final size:10
Alignment explanation
Indices: 6209007--6209091 Score: 56
Period size: 8 Copynumber: 8.8 Consensus size: 10
6208997 AAATATTAAA
6209007 AATATTTTTT
1 AATATTTTTT
*
6209017 -AT-TTGTTT
1 AATATTTTTT
* *
6209025 -ATATTTGTA
1 AATATTTTTT
6209034 AATA-TTTTT
1 AATATTTTTT
6209043 AATATTTTTT
1 AATATTTTTT
*
6209053 --TATTTTTAA
1 AATATTTTT-T
6209062 AATAATTTTTT
1 AAT-ATTTTTT
*
6209073 ATAAATTTTTT
1 A-ATATTTTTT
6209084 AATATTTT
1 AATATTTT
6209092 AAAATTTAAC
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
8 14 0.25
9 12 0.21
10 14 0.25
11 10 0.18
12 7 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (10 bp):
AATATTTTTT
Found at i:6214933 original size:30 final size:29
Alignment explanation
Indices: 6214882--6214974 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 29
6214872 TAAATATATT
* *
6214882 TATAAGTTTTTAATACTTGTTTCTAATTTTAA
1 TATAA-TTTTTAATAATTGTTTATAA-TTT-A
*
6214914 TATAATTTTT-ATAATTGTTTATAATTTC
1 TATAATTTTTAATAATTGTTTATAATTTA
* * *
6214942 TATAGTTTTTAATAATTGTTAAT-GTTTA
1 TATAATTTTTAATAATTGTTTATAATTTA
6214970 TATAA
1 TATAA
6214975 AAAAATTTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
28 16 0.31
29 14 0.27
30 12 0.23
31 5 0.10
32 5 0.10
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.57
Consensus pattern (29 bp):
TATAATTTTTAATAATTGTTTATAATTTA
Found at i:6214938 original size:19 final size:18
Alignment explanation
Indices: 6214914--6214958 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
6214904 CTAATTTTAA
*
6214914 TATAATTTTTATAATTGTT
1 TATAATTTCTATAATT-TT
*
6214933 TATAATTTCTATAGTTTT
1 TATAATTTCTATAATTTT
6214951 TAATAATT
1 T-ATAATT
6214959 GTTAATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (18 bp):
TATAATTTCTATAATTTT
Found at i:6217001 original size:20 final size:20
Alignment explanation
Indices: 6216978--6217016 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6216968 TTTTTATATT
*
6216978 ACTATTATTGTTA-TATTATC
1 ACTATT-TTCTTACTATTATC
6216998 ACTATTTTCTTACTATTAT
1 ACTATTTTCTTACTATTAT
6217017 TATTACTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (20 bp):
ACTATTTTCTTACTATTATC
Found at i:6217020 original size:17 final size:17
Alignment explanation
Indices: 6216918--6217021 Score: 70
Period size: 17 Copynumber: 5.8 Consensus size: 17
6216908 TTTTTGTTGT
*
6216918 TTATATTATTCTTATT-
1 TTATATTATTATTATTC
*
6216934 AT-TATTATTATTATCTCC
1 TTATATTATTATTAT-T-C
*
6216952 GTTACTATTATTATTATTT
1 -TTA-TATTATTATTATTC
* *
6216971 TTATATTACTATTATTG
1 TTATATTATTATTATTC
6216988 TTATATTATCACTATT-TTC
1 TTATATTAT---TATTATTC
6217007 TTACTATTATTATTA
1 TTA-TATTATTATTA
6217022 CTACAACTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
15 11 0.16
16 2 0.03
17 24 0.35
18 3 0.04
19 6 0.09
20 11 0.16
21 12 0.17
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.61
Consensus pattern (17 bp):
TTATATTATTATTATTC
Found at i:6217036 original size:3 final size:3
Alignment explanation
Indices: 6216921--6217021 Score: 64
Period size: 3 Copynumber: 33.7 Consensus size: 3
6216911 TTGTTGTTTA
* * *
6216921 TAT TAT TCT TAT TAT TAT TAT TAT TAT CTCCGT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT TAT TAT TAT TAT TAT
* * * * * * *
6216969 TTT TA- TAT TAC TAT TAT TGT TA- TAT TAT CAC TAT T-T TCT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6217014 TAT TAT TA
1 TAT TAT TA
6217022 CTACAACTAT
Statistics
Matches: 73, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
2 6 0.08
3 64 0.88
4 1 0.01
5 1 0.01
6 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:6217344 original size:15 final size:15
Alignment explanation
Indices: 6217324--6217354 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6217314 TATTATTTTC
6217324 TATTTATTACTATTA
1 TATTTATTACTATTA
6217339 TATTTATTACTATTA
1 TATTTATTACTATTA
6217354 T
1 T
6217355 TAATATATAT
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:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:6217346 original size:9 final size:9
Alignment explanation
Indices: 6217294--6217356 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
6217284 TATCAACATA
6217294 TACTATTAT
1 TACTATTAT
6217303 TA-T-TTAT
1 TACTATTAT
6217310 GTACTATTATT
1 -TACTATTA-T
*
6217321 TTCTATTTAT
1 TACTA-TTAT
6217331 TACTATTA-
1 TACTATTAT
6217339 TA-T-TTAT
1 TACTATTAT
6217346 TACTATTAT
1 TACTATTAT
6217355 TA
1 TA
6217357 ATATATATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
6 3 0.07
7 7 0.16
8 6 0.14
9 12 0.27
10 12 0.27
11 4 0.09
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (9 bp):
TACTATTAT
Found at i:6217463 original size:15 final size:15
Alignment explanation
Indices: 6217445--6217482 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6217435 CCCACTTAGC
6217445 TATTATTACTATTAT
1 TATTATTACTATTAT
*
6217460 TATTTTTACTATTAT
1 TATTATTACTATTAT
*
6217475 AATTATTA
1 TATTATTA
6217483 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAT
Found at i:6222431 original size:7 final size:7
Alignment explanation
Indices: 6222419--6222467 Score: 73
Period size: 7 Copynumber: 7.0 Consensus size: 7
6222409 CTTTAAGACT
6222419 AAAAAAG
1 AAAAAAG
6222426 AAAAAAAG
1 -AAAAAAG
*
6222434 AGAAAA-
1 AAAAAAG
6222440 AAAAAAG
1 AAAAAAG
6222447 AAAAAAG
1 AAAAAAG
6222454 AAAAAAG
1 AAAAAAG
6222461 AAAAAAG
1 AAAAAAG
6222468 GAGAGGCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
6 5 0.13
7 26 0.68
8 7 0.18
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:6222442 original size:11 final size:11
Alignment explanation
Indices: 6222419--6222467 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
6222409 CTTTAAGACT
6222419 AAAAAAG-AAA
1 AAAAAAGAAAA
*
6222429 AAAAGAGAAAA
1 AAAAAAGAAAA
6222440 AAAAAAGAAAA
1 AAAAAAGAAAA
* *
6222451 AAGAAA-AAAG
1 AAAAAAGAAAA
6222461 AAAAAAG
1 AAAAAAG
6222468 GAGAGGCCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
10 14 0.44
11 18 0.56
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:6222444 original size:13 final size:13
Alignment explanation
Indices: 6222426--6222466 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
6222416 ACTAAAAAAG
6222426 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
6222439 AAAAAAAGA-AAA
1 AAAAAAAGAGAAA
6222451 AAGAAAAA-AGAAA
1 AA-AAAAAGAGAAA
6222464 AAA
1 AAA
6222467 GGAGAGGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.27
13 19 0.73
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:6222444 original size:20 final size:19
Alignment explanation
Indices: 6222419--6222465 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 19
6222409 CTTTAAGACT
6222419 AAAAAAGAAAAAAAGAGAAAA
1 AAAAAAG-AAAAAAGA-AAAA
6222440 AAAAAAGAAAAAAGAAAAA
1 AAAAAAGAAAAAAGAAAAA
6222459 AGAAAAA
1 A-AAAAA
6222466 AGGAGAGGCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.20
20 13 0.52
21 7 0.28
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAAAAAGAAAAA
Found at i:6223749 original size:47 final size:47
Alignment explanation
Indices: 6223697--6223844 Score: 125
Period size: 47 Copynumber: 3.3 Consensus size: 47
6223687 TCAGGCGAGG
6223697 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* * * * * *
6223744 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGCG-GGG
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGA
*
6223785 AGCAGATCGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
* *
6223832 AGCAAATCCAAGA
1 AGCAGATCGAAGA
6223845 TGATTTGGCG
Statistics
Matches: 74, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
39 3 0.04
40 5 0.07
41 20 0.27
42 4 0.05
46 4 0.05
47 30 0.41
48 5 0.07
49 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (47 bp):
AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
Found at i:6223769 original size:88 final size:87
Alignment explanation
Indices: 6223653--6223884 Score: 376
Period size: 88 Copynumber: 2.6 Consensus size: 87
6223643 TGACCTTCGC
* *
6223653 TGAAGCAGATCCAAGATGATTTGACATCTCTGTATCAGGCGAGGAGCAGATCGAAGACATAGCTG
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCG-GGAGCAGATCGAAGACATAGCTA
6223718 ATTTGGCTTTCACGTGTTTACGT
65 ATTTGGCTTTCACGTGTTTACGT
6223741 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAGCTA
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTA
6223806 ATTTGGCTTTCACGTGTTTACGT
65 ATTTGGCTTTCACGTGTTTACGT
* * * *
6223829 TGAAGCAAATCCAAGATGATTTGGCGTCTCTATAGC-GGCGGAGAGCAGATCGAAGA
1 TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGG-GAGCAGATCGAAGA
6223885 TTGCAGATTT
Statistics
Matches: 136, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
86 2 0.01
87 17 0.12
88 116 0.85
89 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (87 bp):
TGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGAGCAGATCGAAGACATAGCTAA
TTTGGCTTTCACGTGTTTACGT
Found at i:6223789 original size:41 final size:41
Alignment explanation
Indices: 6223656--6223797 Score: 101
Period size: 41 Copynumber: 3.3 Consensus size: 41
6223646 CCTTCGCTGA
*
6223656 AGCAGATCCAAGATGATTTGACATCTCTGTATCAGGCGAGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGAGG
* * * * * *
6223697 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGT-TTA--CGTTGA
1 AGCAGATC-----CA-AGATGATTTGGC-ATCTC-TGTATCAGGCG-AGG
*
6223744 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGAGG
*
6223785 AGCAGATCGAAGA
1 AGCAGATCCAAGA
6223798 CATAGCTAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 24
0.66 0.12 0.21
Matches are distributed among these distances:
39 3 0.04
40 5 0.07
41 32 0.43
42 4 0.05
46 4 0.05
47 19 0.25
48 5 0.07
49 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (41 bp):
AGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGAGG
Found at i:6224000 original size:88 final size:88
Alignment explanation
Indices: 6223874--6224677 Score: 634
Period size: 88 Copynumber: 9.1 Consensus size: 88
6223864 CGGCGGAGAG
* * * *
6223874 CAGATCGAAGATTGCAGATTTGGCATCCCTATGTTTATAGGGAA-AAGATCGAAGATAGCAGATC
1 CAGATCGAAGATTTCAGA-TTGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGATC
* * * *
6223938 TAACATTCCTGTGCTTACAGTGAA
65 TGACATCCCTGTGCTTATAGGGAA
* * * * *
6223962 GCAGATCGAAGATTTTAGCA-TGGCATCCCTGTACTTATAGGGAACAAG-TTGAAAATAGCAGAT
1 -CAGATCGAAGATTTCAG-ATTGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGAT
* *
6224025 TTGGCATCCCTGTGCTTATAGGGAA
64 CTGACATCCCTGTGCTTATAGGGAA
** * * * * * * **
6224050 CAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG--C
1 CAGATCGAAGATTTCAGAT-TGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGATC
**
6224113 ATGGTATCCCTGTGCTTATAGGGAA
65 -TGACATCCCTGTGCTTATAGGGAA
* * ** *
6224138 CA-AGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAACAGAT
1 CAGA-TCGAAGATTTCAGA-TTGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGAT
* *
6224201 CTGACATTCCTGTGCTTATAGTGAA
64 CTGACATCCCTGTGCTTATAGGGAA
*
6224226 GCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAACAGAT
1 -CAGATCGAAGATTTCAG-ATTGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGAT
* * *
6224289 CTGACATTCCTGTGCTTACAGTGAA
64 CTGACATCCCTGTGCTTATAGGGAA
* * * *
6224314 GCAGATCGAAGATTTCAGCA-TGGCATCCTTGTGCTTATAGGGAACAAG-TTGAAAATAGCAGAT
1 -CAGATCGAAGATTTCAG-ATTGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGAT
* * * *
6224377 TTGGCATCCCTGTGTTTAAAGGGAA
64 CTGACATCCCTGTGCTTATAGGGAA
** * * * * * * * **
6224402 CAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGTGAAGCAGATTGAAGATTTCAG--C
1 CAGATCGAAGATTTCAGAT-TGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGATC
* *
6224465 ATGGCATCCCTGTGTTTATAGGGAA
65 -TGACATCCCTGTGCTTATAGGGAA
* * ** *
6224490 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAAGGAA-CAGATCGAAGATAGCAGAT
1 CAGA-TCGAAGATTTCAGA-TTGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGAT
* * * * *
6224553 CTAACATTCATGTGCTTACAGTGAA
64 CTGACATCCCTGTGCTTATAGGGAA
* * * * * *
6224578 GTAGATTGAAGATTTCAGCA-TGGCATCCTTGTGCTTATAGGGAACAAG-TTGAAAATAGCAGAT
1 -CAGATCGAAGATTTCAG-ATTGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGAT
* * *
6224641 TTGGCATCCCTGTGTTTATAGGGAA
64 CTGACATCCCTGTGCTTATAGGGAA
6224666 CAGATCGAAGAT
1 CAGATCGAAGAT
6224678 AGCAAATCTG
Statistics
Matches: 579, Mismatches: 110, Indels: 54
0.78 0.15 0.07
Matches are distributed among these distances:
86 2 0.00
87 69 0.12
88 437 0.75
89 66 0.11
90 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (88 bp):
CAGATCGAAGATTTCAGATTGGCATCCCTGTGCTTATAGGGAACCAGATCGAAGATAGCAGATCT
GACATCCCTGTGCTTATAGGGAA
Found at i:6224030 original size:132 final size:132
Alignment explanation
Indices: 6223887--6224326 Score: 684
Period size: 132 Copynumber: 3.3 Consensus size: 132
6223877 ATCGAAGATT
* * * * *
6223887 GCAGATTTGGCATCCCTATGTTTATAGGGAAAAGATCGAAGATAGCAGATCTAACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* *
6223952 TTACAGTGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTACTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
6224017 TA
131 TA
6224019 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* *
6224084 TTACAGTGAAGCAGATCAAAGATTTCAGCATGGTATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
6224149 TA
131 TA
*
6224151 ACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
* * *
6224216 TTATAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAG
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAA
6224280 ATA
130 ATA
* * * * * *
6224283 ACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
6224327 TTCAGCATGG
Statistics
Matches: 286, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
131 2 0.01
132 272 0.95
133 12 0.04
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.26
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGC
TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
TA
Found at i:6224290 original size:220 final size:220
Alignment explanation
Indices: 6224026--6224526 Score: 833
Period size: 220 Copynumber: 2.3 Consensus size: 220
6224016 ATAGCAGATT
6224026 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
*
6224091 GAAGCAGATCAAAGATTTCAGCATGGTATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
66 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
* * *
6224156 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTATA
131 TTTGGCATCCCTGTGCTTAAAGGGAACAGATCGAAGATAACAGATCTGACATTCATGTGCTTACA
6224221 GTGAAGCAGATCGAAGATTTCAGCA
196 GTGAAGCAGATCGAAGATTTCAGCA
6224246 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
* * *
6224311 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
* *
6224376 TTTGGCATCCCTGTGTTTAAAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACA
131 TTTGGCATCCCTGTGCTTAAAGGGAACAGATCGAAGATAACAGATCTGACATTCATGTGCTTACA
*
6224441 GTGAAGCAGATTGAAGATTTCAGCA
196 GTGAAGCAGATCGAAGATTTCAGCA
* * * * * * *
6224466 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTA
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAACAGATCTGACATTCCTGTGCTTA
6224527 TAAGGAACAG
Statistics
Matches: 263, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
219 1 0.00
220 262 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (220 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
TTTGGCATCCCTGTGCTTAAAGGGAACAGATCGAAGATAACAGATCTGACATTCATGTGCTTACA
GTGAAGCAGATCGAAGATTTCAGCA
Found at i:6224347 original size:132 final size:130
Alignment explanation
Indices: 6223982--6224773 Score: 814
Period size: 132 Copynumber: 6.0 Consensus size: 130
6223972 GATTTTAGCA
* * * * * * *
6223982 TGGCATCCCTGTACTTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
* ** * * *
6224046 GGAA-CAGATCGAAGATAACAG-ATCTGACATTCCTGTGCTTACAGTGAAGC-AGATC-AAAGAT
65 TGAAGCAGATCGAAGATTTCAGCA--TGGCA-TCCTGTGCTTATAGGGAA-CAAG-TCGAAA-AT
**
6224107 TTCAGCA-
124 AGCAG-AT
* * * * * * * *
6224114 TGGTATCCCTGTGCTTATAGGGAACA-AGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
* ** * * * *
6224178 GGAA-CAGATCGAAGATAACAG-ATCTGACATTCCTGTGCTTATAGTGAAGC-AGATCGAAGATT
65 TGAAGCAGATCGAAGATTTCAGCA--TGGCA-TCCTGTGCTTATAGGGAA-CAAG-TCGAAAATA
*
6224240 TCAGCA-
125 GCAG-AT
*
6224246 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
*
6224311 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCC-TGTGCTTATAGGGAACAAGTCGAAAATAGCAGA
6224376 TT
130 -T
* * *
6224378 TGGCATCCCTGTGTTTAAAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * *
6224443 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCAT-CCTGTGCTTATAGGGAACAAGTCGAAAATAGCAGA
6224508 TT
130 -T
* * *
6224510 TGGCATCCCTGTGCTTATAAGGAACAGATCGAAGATAGCAGATCTAACATTCATGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * *
6224575 GAAGTAGATTGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCC-TGTGCTTATAGGGAACAAGTCGAAAATAGCAGA
6224640 TT
130 -T
* * ** *
6224642 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAAATCTGACATTATTGTGCTTACAAT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * * * *
6224707 GAAGCAAATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCAT-CCTGTGCTTATAGGGAACAAGTCGAAAATAGCAGA
6224772 T
130 T
6224773 T
1 T
6224774 TGACCCCCTA
Statistics
Matches: 605, Mismatches: 44, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
130 1 0.00
131 17 0.03
132 564 0.93
133 22 0.04
134 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (130 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCTGTGCTTATAGGGAACAAGTCGAAAATAGCAGAT
Found at i:6224604 original size:220 final size:219
Alignment explanation
Indices: 6224026--6224677 Score: 733
Period size: 220 Copynumber: 3.0 Consensus size: 219
6224016 ATAGCAGATT
* * *
6224026 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAAATAACAGATCTGACATCCCTGTGCTTAAAGT
* ** *** * * *
6224091 GAAGCAGATCAAAGATTTCAGCATGGTATCCCTGTGCTTATAGGGAACAAGTTGAAAATAACAGA
66 GAAGCAGATCGAAGATAGCAGCATAACATCCATGTGCTTACAGGGAACAAGTTGAAAATAGCAGA
* * *
6224156 TTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTATA
131 -TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACA
6224221 GTGAAGCAGATCGAAGATTTCAGCA
195 GTGAAGCAGATCGAAGATTTCAGCA
* * *
6224246 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAAATAACAGATCTGACATCCCTGTGCTTAAAGT
** ** * *
6224311 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATCGAAGATAGCAGCATAACATCCATGTGCTTACAGGGAACAAGTTGAAAATAGCAGA
* *
6224376 TTTGGCATCCCTGTGTTTAAAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACA
131 -TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACA
*
6224441 GTGAAGCAGATTGAAGATTTCAGCA
195 GTGAAGCAGATCGAAGATTTCAGCA
* * * * *
6224466 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAA
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAAATAACAGATCTGACATCCCTGTGCTTA-AA
* * ** * *
6224530 G-GAA-CAGATCGAAGATAGCAG-ATCTAACATTCATGTGCTTACAGTGAAGTAGATTGAAGATT
64 GTGAAGCAGATCGAAGATAGCAGCA--TAACATCCATGTGCTTACAGGGAACAAG-TTGAAAATA
* * * * * * * *
6224592 TCAGCA-TGGCATCCTTGTGCTTATAGGGAACA-AGTTGAAAATAGCAGATTTGGCATCCCTGTG
126 GCAG-ATTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCATGTG
* * *
6224655 TTTATAGGGAA-CAGATCGAAGAT
189 CTTACAGTGAAGCAGATCGAAGAT
6224678 AGCAAATCTG
Statistics
Matches: 381, Mismatches: 44, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
218 1 0.00
219 28 0.07
220 339 0.89
221 12 0.03
222 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (219 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAAATAACAGATCTGACATCCCTGTGCTTAAAGT
GAAGCAGATCGAAGATAGCAGCATAACATCCATGTGCTTACAGGGAACAAGTTGAAAATAGCAGA
TTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAG
TGAAGCAGATCGAAGATTTCAGCA
Found at i:6224698 original size:88 final size:86
Alignment explanation
Indices: 6223874--6224772 Score: 602
Period size: 88 Copynumber: 10.2 Consensus size: 86
6223864 CGGCGGAGAG
* * * * * *
6223874 CAGATCGAAGATTGCAGATTTGGCATCCCTATGTTTATAGGGAAAAGATCGAAGATAGCAGATCT
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAG-TTGAAGATAGCAGAT-T
** * * *
6223939 AACATTCCTGTGCTTACAGTGAA
64 GGCATCCCTGTGCTTATAGGGAA
*** * *
6223962 GCAGATCGAAGATTTTAG--CATGGCATCCCTGTACTTATAGGGAACAAGTTGAAAATAGCAGAT
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAAC-AGTTGAAGATAGCAGA-
6224025 TTGGCATCCCTGTGCTTATAGGGAA
62 TTGGCATCCCTGTGCTTATAGGGAA
* * * * * ** **
6224050 CAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA-
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAG-TTGAAGATAGCAG-AT
*
6224114 TGGTATCCCTGTGCTTATAGGGAA
63 TGGCATCCCTGTGCTTATAGGGAA
* * * * * *
6224138 CA-AGTTGAAAATAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATC
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAG-TTGAAGATAGCAGAT-
* * *
6224202 TGACATTCCTGTGCTTATAGTGAA
63 TGGCATCCCTGTGCTTATAGGGAA
** * *
6224226 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGAT
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAACAG-TTGAAGATAGCAGAT
* * * *
6224289 CTGACATTCCTGTGCTTACAGTGAA
63 -TGGCATCCCTGTGCTTATAGGGAA
** * *
6224314 GCAGATCGAAGATTTCAG--CATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGAT
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAAC-AGTTGAAGATAGCAGA-
* *
6224377 TTGGCATCCCTGTGTTTAAAGGGAA
62 TTGGCATCCCTGTGCTTATAGGGAA
* * * * * **
6224402 CAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGTGAAGCAGATTGAAGATTTCAGCA-
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-CAG-TTGAAGATAGCAG-AT
*
6224466 TGGCATCCCTGTGTTTATAGGGAA
63 TGGCATCCCTGTGCTTATAGGGAA
* * * * *
6224490 CA-AGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAAGGAACAGATCGAAGATAGCAGATC
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAG-TTGAAGATAGCAGAT-
** * * * *
6224554 TAACATTCATGTGCTTACAGTGAA
63 TGGCATCCCTGTGCTTATAGGGAA
* * ** * *
6224578 GTAGATTGAAGATTTCAG--CATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGAT
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAAC-AGTTGAAGATAGCAGA-
*
6224641 TTGGCATCCCTGTGTTTATAGGGAA
62 TTGGCATCCCTGTGCTTATAGGGAA
* * *** * ** * **
6224666 CAGATCGAAGATAGCAAATCTGACATTATTGTGCTTACAATGAAGCAAATTGAAGATTTCAGCA-
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA-C-AGTTGAAGATAGCAG-AT
*
6224730 TGGCATCCCTGTGTTTATAGGGAA
63 TGGCATCCCTGTGCTTATAGGGAA
*
6224754 CA-AGTTGAAGATAGCAGAT
1 CAGA-TCGAAGATAGCAGAT
6224773 TTGACCCCCT
Statistics
Matches: 656, Mismatches: 120, Indels: 69
0.78 0.14 0.08
Matches are distributed among these distances:
86 2 0.00
87 72 0.11
88 495 0.75
89 82 0.12
90 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (86 bp):
CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAACAGTTGAAGATAGCAGATTGG
CATCCCTGTGCTTATAGGGAA
Found at i:6224774 original size:132 final size:132
Alignment explanation
Indices: 6224246--6224775 Score: 891
Period size: 132 Copynumber: 4.0 Consensus size: 132
6224236 GATTTCAGCA
* *
6224246 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
* *
6224311 GAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
6224376 TT
131 TT
* *
6224378 TGGCATCCCTGTGTTTAAAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
*
6224443 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
6224508 TT
131 TT
* *
6224510 TGGCATCCCTGTGCTTATAAGGAACAGATCGAAGATAGCAGATCTAACATTCATGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
* *
6224575 GAAGTAGATTGAAGATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
66 GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
6224640 TT
131 TT
* * *
6224642 TGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAAATCTGACATT-ATTGTGCTTACAA
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCA-TGTGCTTACAG
* * *
6224706 TGAAGCAAATTGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAG
65 TGAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAG
6224771 ATT
130 ATT
6224774 TG
1 TG
6224776 ACCCCCTAAG
Statistics
Matches: 373, Mismatches: 24, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 372 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCATGTGCTTACAGT
GAAGCAGATTGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGA
TT
Found at i:6224829 original size:44 final size:43
Alignment explanation
Indices: 6224778--6225234 Score: 233
Period size: 43 Copynumber: 10.5 Consensus size: 43
6224768 CAGATTTGAC
* *
6224778 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTTAA
* * * * * * * *
6224821 CTCCCTAAGTAGTAGGGTAACAG-GCTAAATTTACAGATCTTAA
1 C-CCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTTAA
* * * *
6224864 CCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGAACCTTAAA
1 -CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTT-AA
* * * * * * ** **
6224909 CCCCTAAGCAGTAGGGTAATAGGTTG-AATTTACAAATTTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTTAA
* ** * *
6224951 CCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAACCTTAAA
1 -CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTT-AA
* * * * * * ** *
6224996 CCCCTAAGCAGTAGGGTAACAGGTTG-GATTTACAAATCTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTTAA
* * *
6225038 CCCCCTAAGCAGTAGGGAAACAAATC-AAAGGCGATGGACCTTAAA
1 -CCCCTAAGCAGTAGGGAAACAGATCGAAA-GTGACGGACCTT-AA
* * * * * * *
6225083 CCCCTAAGCAGTAGGGTAACAGGT-GGAATTTACAGATCTTAAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTT-AA
* * * * * * *
6225126 CCCCTAAGCAGTAGGGTAACAGGT-GGAATTTACAGATCTTAA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTTAA
* * * *
6225168 CCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGACCTTAAA
1 -CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTT-AA
*
6225213 CCCCTAAGCAGTAGGGTAACAG
1 CCCCTAAGCAGTAGGGAAACAG
6225235 GCTGAATTTA
Statistics
Matches: 309, Mismatches: 90, Indels: 29
0.72 0.21 0.07
Matches are distributed among these distances:
42 6 0.02
43 158 0.51
44 137 0.44
45 8 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (43 bp):
CCCCTAAGCAGTAGGGAAACAGATCGAAAGTGACGGACCTTAA
Found at i:6224881 original size:87 final size:87
Alignment explanation
Indices: 6224768--6225147 Score: 523
Period size: 87 Copynumber: 4.4 Consensus size: 87
6224758 TTGAAGATAG
* * ** *
6224768 CAGAT-TTGACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTT-AACTCCCTAAGT
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAACCTTAAAC-CCCTAAGC
* *
6224831 AGTAGGGTAACAGGCTAAATTTA
65 AGTAGGGTAACAGGTTGAATTTA
* * *
6224854 CAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGAACCTTAAACCCCTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAACCTTAAACCCCTAAGCA
*
6224919 GTAGGGTAATAGGTTGAATTTA
66 GTAGGGTAACAGGTTGAATTTA
* * * *
6224941 CAAATTTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAACCTTAAACCCCTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAACCTTAAACCCCTAAGCA
*
6225006 GTAGGGTAACAGGTTGGATTTA
66 GTAGGGTAACAGGTTGAATTTA
* * *
6225028 CAAATCTTAACCCCCTAAGCAGTAGGGAAACAAATC-AAAGGCGATGGACCTTAAACCCCTAAGC
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAA-GCGATGAACCTTAAACCCCTAAGC
*
6225092 AGTAGGGTAACAGGTGGAATTTA
65 AGTAGGGTAACAGGTTGAATTTA
* *
6225115 CAGATCTTAAACCCCTAAGCAGTAGGGTAACAG
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
6225148 GTGGAATTTA
Statistics
Matches: 262, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
86 7 0.03
87 252 0.96
88 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (87 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGATGAACCTTAAACCCCTAAGCA
GTAGGGTAACAGGTTGAATTTA
Found at i:6225211 original size:87 final size:88
Alignment explanation
Indices: 6225120--6225328 Score: 305
Period size: 88 Copynumber: 2.4 Consensus size: 88
6225110 ATTTACAGAT
6225120 CTTAAACCCCTAAGCAGTAGGGTAACAGG-TGGAATTTAC-AGATCTTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAAGATCTTAACCCCCTAAGCAGTAG
6225183 GGAAATAGATCGAAGGCGATGGAC
65 GGAAATAGATCGAAGGCGATGGAC
* *
6225207 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAATATCTTAACCCCTTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGG
* *
6225272 GAAATAGATCGAAGGTGATGGGC
66 GAAATAGATCGAAGGCGATGGAC
* * ** * *
6225295 TTTAAGCCCAAAAGCAATAGGGTAGCAGGCTGAA
1 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAA
6225329 AATTATAAAT
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
87 37 0.34
88 73 0.66
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (88 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAAGATCTTAACCCCCTAAGCAGTAGG
GAAATAGATCGAAGGCGATGGAC
Found at i:6225219 original size:174 final size:174
Alignment explanation
Indices: 6224778--6225233 Score: 434
Period size: 174 Copynumber: 2.6 Consensus size: 174
6224768 CAGATTTGAC
* * * ** * *
6224778 CCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTT-AACTCCCTAAGTAGTAGGGTAAC
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAACCTTAAAC-CCCTAAGCAGTAGGGAAAC
* * *** * * * * * *
6224842 AG-GCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGAACCTT
65 AGATC-GAAGCGACAAACCTTAACCCCCTAAGCAGTAGGGAAACAAATCAAAGGCGATGAACCTT
* * * *
6224906 AAACCCCTAAGCAGTAGGGTAATAGGTTGAATTTACAAATTTTAAC
129 AAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAAATCTTAAA
*
6224952 CCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAACCTTAAACCCCTAAGCAGTAGGGTAACA
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAACCTTAAACCCCTAAGCAGTAGGGAAACA
* * * *** * *
6225017 GGTTGGATTTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAAATCAAAGGCGATGGACCTTAA
66 GATCGAAGCGACAAACCTTAACCCCCTAAGCAGTAGGGAAACAAATCAAAGGCGATGAACCTTAA
*
6225082 ACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAGATCTTAAA
131 ACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAAATCTTAAA
* * * *** * * *
6225126 CCCCTAAGCAGTAGGGTAACAGGTGGAATTTACA-G-ATCTTAACCCCCTAAGCAGTAGGGAAAT
1 CCCCTAAGCAGTAGGGAAACAGATCGAAGGCA-ATGAACCTTAAACCCCTAAGCAGTAGGGAAAC
*** * *
6225189 AGATCGAAGGCGATGGACCTTAAACCCCTAAGCAGTAGGGTAACA
65 AGATCGAA-GCGACAAACCTTAACCCCCTAAGCAGTAGGGAAACA
6225234 GGCTGAATTT
Statistics
Matches: 235, Mismatches: 43, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
173 29 0.12
174 202 0.86
175 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (174 bp):
CCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAACCTTAAACCCCTAAGCAGTAGGGAAACA
GATCGAAGCGACAAACCTTAACCCCCTAAGCAGTAGGGAAACAAATCAAAGGCGATGAACCTTAA
ACCCCTAAGCAGTAGGGTAACAGGTGGAATTTACAAATCTTAAA
Found at i:6225235 original size:130 final size:130
Alignment explanation
Indices: 6224768--6225272 Score: 497
Period size: 130 Copynumber: 3.9 Consensus size: 130
6224758 TTGAAGATAG
* * * *
6224768 CAGAT-TTGACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGGGCCTT-AACTCCCTAAGT
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACGGACCTTAAAC-CCCTAAGC
* * * * * * *
6224831 AGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGT
65 AGTAGGGTAACAGGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAA-TT
*
6224896 GA
129 TA
* * * * * * * *** ** ** *
6224898 -TGAACCTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAA-TTTACAAATTTTAACCCCCTAAGC
1 CAG-ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACGGACCTTAAACCCCTAAGC
* * *** *
6224961 AGTAGGGAAACA-GATCGAAGGCA-ATGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGG-
65 AGTAGGGTAACAGGCT-GAATTTACA-G-ATCTTAAACCCCTAAGCAGTAGGGTAACAGG-TGGA
6225023 ATTTA
126 ATTTA
* * * *
6225028 CAAATCTTAACCCCCTAAGCAGTAGGGAAACAAATCAAAGGCGATGGACCTTAAACCCCTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACGGACCTTAAACCCCTAAGCA
6225093 GTAGGGTAACAGG-TGGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTT
66 GTAGGGTAACAGGCT-GAATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTT
6225157 A
130 A
* *
6225158 CAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGACCTTAAACCCCTAAGCA
1 CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACGGACCTTAAACCCCTAAGCA
*
6225223 GTAGGGTAACAGGCTGAATTTACAATATCTT-AACCCCTTAAGCAGTAGGG
66 GTAGGGTAACAGGCTGAATTTAC-AGATCTTAAACCCC-TAAGCAGTAGGG
6225273 AAATAGATCG
Statistics
Matches: 298, Mismatches: 62, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
129 7 0.02
130 180 0.60
131 107 0.36
132 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (130 bp):
CAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACGGACCTTAAACCCCTAAGCA
GTAGGGTAACAGGCTGAATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAGGTGGAATTTA
Found at i:6227608 original size:52 final size:51
Alignment explanation
Indices: 6227526--6227735 Score: 259
Period size: 52 Copynumber: 4.1 Consensus size: 51
6227516 ATCAAGTGAT
* * * *
6227526 AAAGTGATAACTGGATAGATTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGT-GATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
6227579 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
6227630 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
6227677 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
6227729 ATAAGTG
1 A-AAGTG
6227736 GCTACACTTA
Statistics
Matches: 140, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
46 43 0.31
51 1 0.01
52 80 0.57
53 16 0.11
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:6227708 original size:46 final size:44
Alignment explanation
Indices: 6227631--6227846 Score: 199
Period size: 37 Copynumber: 5.3 Consensus size: 44
6227621 TGACAAGTGA
*
6227631 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
6227677 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
6227723 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
6227760 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
6227797 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
6227833 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
6227847 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:6227743 original size:37 final size:37
Alignment explanation
Indices: 6227699--6227844 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6227689 GATAGCTTTA
*
6227699 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6227736 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
6227773 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
6227810 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6227845 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:6229160 original size:49 final size:49
Alignment explanation
Indices: 6229099--6229291 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
6229089 ATGTGAACAT
6229099 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
6229149 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
6229198 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
6229247 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
6229292 AGAAAACGAA
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 133 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:6232501 original size:52 final size:51
Alignment explanation
Indices: 6232430--6232638 Score: 275
Period size: 52 Copynumber: 4.1 Consensus size: 51
6232420 ATCAAGTGAT
* * *
6232430 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
6232482 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
6232533 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
6232580 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
6232632 ATAAGTG
1 A-AAGTG
6232639 GCTACACTTA
Statistics
Matches: 141, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
46 43 0.30
51 1 0.01
52 92 0.65
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:6232552 original size:98 final size:97
Alignment explanation
Indices: 6232416--6232638 Score: 231
Period size: 98 Copynumber: 2.3 Consensus size: 97
6232406 TTTGAGTACT
* * *
6232416 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTAC-ACT-TATCTGATCAAGTGA-CAA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAGCTATAGCTACGACTATA-CTGATC---TGATCAA
* * *
6232478 GTG-GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
61 GAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * * *
6232514 TCTGATCAAGTGACAAGTGAAAAGTGATAAG-TGATAGCTTCGGCTATACTTATCTGATCAAGAG
1 TCTGATCAAGTGACAAGTGATAAGTGAT-AGCT-ATAGCTACGACTATACTGATCTGATCAAGAG
*
6232578 ACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
64 ACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
6232612 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGAC-AAGTGATAAGTG
6232639 GCTACACTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
96 3 0.03
97 18 0.17
98 64 0.61
99 18 0.17
100 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGTGACAAGTGATAAGTGATAGCTATAGCTACGACTATACTGATCTGATCAAGAGAC
AAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:6232611 original size:46 final size:44
Alignment explanation
Indices: 6232534--6232749 Score: 199
Period size: 37 Copynumber: 5.3 Consensus size: 44
6232524 TGACAAGTGA
*
6232534 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
6232580 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
6232626 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
6232663 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
6232700 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
6232736 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
6232750 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:6232646 original size:37 final size:37
Alignment explanation
Indices: 6232602--6232747 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6232592 GATAGCTTTA
*
6232602 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6232639 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
6232676 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
6232713 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6232748 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:6234063 original size:49 final size:49
Alignment explanation
Indices: 6234002--6234194 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
6233992 ATGTGAACAT
6234002 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
6234052 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
6234101 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
6234150 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
6234195 AGAAAACGAA
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 133 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:6237416 original size:52 final size:51
Alignment explanation
Indices: 6237345--6237553 Score: 275
Period size: 52 Copynumber: 4.1 Consensus size: 51
6237335 ATCAAGTGAT
* * *
6237345 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-G
* *
6237397 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
6237448 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
*
6237495 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGTG
6237547 ATAAGTG
1 A-AAGTG
6237554 GCTACACTTA
Statistics
Matches: 141, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
46 43 0.30
51 1 0.01
52 92 0.65
53 5 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
Found at i:6237467 original size:98 final size:97
Alignment explanation
Indices: 6237331--6237553 Score: 231
Period size: 98 Copynumber: 2.3 Consensus size: 97
6237321 TTTGAGTACT
* * *
6237331 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTAC-ACT-TATCTGATCAAGTGA-CAA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAGCTATAGCTACGACTATA-CTGATC---TGATCAA
* * *
6237393 GTG-GAAAGTGATAAGTGATAGCTTCGGCTACACTTA
61 GAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
* * * *
6237429 TCTGATCAAGTGACAAGTGAAAAGTGATAAG-TGATAGCTTCGGCTATACTTATCTGATCAAGAG
1 TCTGATCAAGTGACAAGTGATAAGTGAT-AGCT-ATAGCTACGACTATACTGATCTGATCAAGAG
*
6237493 ACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
64 ACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
6237527 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGAC-AAGTGATAAGTG
6237554 GCTACACTTA
Statistics
Matches: 105, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
96 3 0.03
97 18 0.17
98 64 0.61
99 18 0.17
100 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGTGACAAGTGATAAGTGATAGCTATAGCTACGACTATACTGATCTGATCAAGAGAC
AAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:6237526 original size:46 final size:44
Alignment explanation
Indices: 6237449--6237664 Score: 199
Period size: 37 Copynumber: 5.3 Consensus size: 44
6237439 TGACAAGTGA
*
6237449 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTT--GCTACACTTATCTGATCAAGAGAC
6237495 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
6237541 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
6237578 AAAGTGATAA--G-T-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
*
6237615 AAAGTGAT-AG-G-T-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
6237651 -AAGTGATAAGTGAT
1 AAAGTGATAAGTGAT
6237665 CATACGTAAG
Statistics
Matches: 160, Mismatches: 5, Indels: 18
0.87 0.03 0.10
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 89 0.56
38 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 51 0.32
47 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (44 bp):
AAAGTGATAAGTGATAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:6237561 original size:37 final size:37
Alignment explanation
Indices: 6237517--6237662 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
6237507 GATAGCTTTA
*
6237517 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6237554 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
6237591 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
6237628 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
6237663 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:6239760 original size:20 final size:20
Alignment explanation
Indices: 6239737--6239775 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6239727 TTTTTATATT
*
6239737 ACTATTATTGTTA-TATTATC
1 ACTATT-TTCTTACTATTATC
6239757 ACTATTTTCTTACTATTAT
1 ACTATTTTCTTACTATTAT
6239776 TATTACTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (20 bp):
ACTATTTTCTTACTATTATC
Found at i:6239779 original size:17 final size:17
Alignment explanation
Indices: 6239677--6239780 Score: 70
Period size: 17 Copynumber: 5.8 Consensus size: 17
6239667 TTTTTGTTGT
*
6239677 TTATATTATTCTTATT-
1 TTATATTATTATTATTC
*
6239693 AT-TATTATTATTATCTCC
1 TTATATTATTATTAT-T-C
*
6239711 GTTACTATTATTATTATTT
1 -TTA-TATTATTATTATTC
* *
6239730 TTATATTACTATTATTG
1 TTATATTATTATTATTC
6239747 TTATATTATCACTATT-TTC
1 TTATATTAT---TATTATTC
6239766 TTACTATTATTATTA
1 TTA-TATTATTATTA
6239781 CTACAACTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
15 11 0.16
16 2 0.03
17 24 0.35
18 3 0.04
19 6 0.09
20 11 0.16
21 12 0.17
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.61
Consensus pattern (17 bp):
TTATATTATTATTATTC
Found at i:6239795 original size:3 final size:3
Alignment explanation
Indices: 6239680--6239780 Score: 64
Period size: 3 Copynumber: 33.7 Consensus size: 3
6239670 TTGTTGTTTA
* * *
6239680 TAT TAT TCT TAT TAT TAT TAT TAT TAT CTCCGT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT TAT TAT TAT TAT TAT
* * * * * * *
6239728 TTT TA- TAT TAC TAT TAT TGT TA- TAT TAT CAC TAT T-T TCT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6239773 TAT TAT TA
1 TAT TAT TA
6239781 CTACAACTAT
Statistics
Matches: 73, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
2 6 0.08
3 64 0.88
4 1 0.01
5 1 0.01
6 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:6239965 original size:21 final size:21
Alignment explanation
Indices: 6239920--6240000 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
6239910 TTTCTCTGTT
** *
6239920 TTATTACTATTATTAATATCA
1 TTATTACTATTATTTTTATTA
*
6239941 TTATTACTATTATTTTTATTT
1 TTATTACTATTATTTTTATTA
6239962 TTATT--T-TTATTTTTATTA
1 TTATTACTATTATTTTTATTA
* * *
6239980 CTACTACTGTTATTTTTATTA
1 TTATTACTATTATTTTTATTA
6240001 ACATATTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 14 0.28
19 1 0.02
20 1 0.02
21 34 0.68
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (21 bp):
TTATTACTATTATTTTTATTA
Found at i:6239998 original size:6 final size:6
Alignment explanation
Indices: 6239950--6239978 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6239940 ATTATTACTA
6239950 TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATT
6239979 ACTACTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:6240102 original size:15 final size:15
Alignment explanation
Indices: 6240082--6240112 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6240072 TATTATTTTC
6240082 TATTTATTACTATTA
1 TATTTATTACTATTA
6240097 TATTTATTACTATTA
1 TATTTATTACTATTA
6240112 T
1 T
6240113 TAATATATAT
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:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:6240104 original size:9 final size:9
Alignment explanation
Indices: 6240052--6240114 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
6240042 TATCAACATA
6240052 TACTATTAT
1 TACTATTAT
6240061 TA-T-TTAT
1 TACTATTAT
6240068 GTACTATTATT
1 -TACTATTA-T
*
6240079 TTCTATTTAT
1 TACTA-TTAT
6240089 TACTATTA-
1 TACTATTAT
6240097 TA-T-TTAT
1 TACTATTAT
6240104 TACTATTAT
1 TACTATTAT
6240113 TA
1 TA
6240115 ATATATATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
6 3 0.07
7 7 0.16
8 6 0.14
9 12 0.27
10 12 0.27
11 4 0.09
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (9 bp):
TACTATTAT
Found at i:6240212 original size:3 final size:3
Alignment explanation
Indices: 6240204--6240260 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
6240194 CCCACTTAGC
* * * * * *
6240204 TAT TAT TAT TAC TAT TAT TAT TTT TAC TAT TAT AAT TAT TAT TAA TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6240252 T-T TAT TAT T
1 TAT TAT TAT T
6240261 CTCTTACATT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6240222 original size:15 final size:15
Alignment explanation
Indices: 6240204--6240244 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
6240194 CCCACTTAGC
6240204 TATTATTATTACTAT
1 TATTATTATTACTAT
*
6240219 TATTATTTTTACTAT
1 TATTATTATTACTAT
*
6240234 TATAATTATTA
1 TATTATTATTA
6240245 TTAATCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTATTACTAT
Found at i:6262279 original size:13 final size:13
Alignment explanation
Indices: 6262263--6262288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6262253 ACTCTTAGTA
6262263 AAATATATTTTTT
1 AAATATATTTTTT
6262276 AAATATATTTTTT
1 AAATATATTTTTT
6262289 TGTAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AAATATATTTTTT
Found at i:6265850 original size:17 final size:17
Alignment explanation
Indices: 6265810--6265864 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
6265800 AATACTTTGA
6265810 AAAATATATAAA-ATAT
1 AAAATATATAAATATAT
* * * *
6265826 TACA-ATATACATTTAT
1 AAAATATATAAATATAT
6265842 AAAATATATAAATATAT
1 AAAATATATAAATATAT
6265859 AAAATA
1 AAAATA
6265865 ATTAAAACTT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
15 6 0.21
16 7 0.24
17 16 0.55
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATATATAAATATAT
Found at i:6270095 original size:16 final size:16
Alignment explanation
Indices: 6270074--6270109 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6270064 TGGTCATTAA
6270074 GAAATCTCCACTTGAT
1 GAAATCTCCACTTGAT
6270090 GAAATCTCCACTTGAT
1 GAAATCTCCACTTGAT
6270106 GAAA
1 GAAA
6270110 ATCAGGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (16 bp):
GAAATCTCCACTTGAT
Found at i:6271641 original size:24 final size:24
Alignment explanation
Indices: 6271568--6271626 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 24
6271558 ATCTTCACTC
*
6271568 TCTTCTTCTTCCTCCTCC-CC-CC
1 TCTTCTTCTTCCTCCTCCTCCTCT
* *
6271590 TC-ACCTCTTCCTCCTCCTCCTCT
1 TCTTCTTCTTCCTCCTCCTCCTCT
6271613 TCTTCTTCTTCCTC
1 TCTTCTTCTTCCTC
6271627 GTTCTCCTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 13 0.45
22 4 0.14
23 3 0.10
24 9 0.31
ACGTcount: A:0.02, C:0.54, G:0.00, T:0.44
Consensus pattern (24 bp):
TCTTCTTCTTCCTCCTCCTCCTCT
Found at i:6279519 original size:21 final size:23
Alignment explanation
Indices: 6279470--6279519 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
6279460 TGAAATTATT
6279470 GAAA-TAAAATATTATTACTAAG
1 GAAATTAAAATATTATTACTAAG
*
6279492 G-AATTAAAATA-T-TTATTAAG
1 GAAATTAAAATATTATTACTAAG
6279512 GAAATTAA
1 GAAATTAA
6279520 TTAGTGAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 8 0.32
21 9 0.36
22 8 0.32
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (23 bp):
GAAATTAAAATATTATTACTAAG
Found at i:6290957 original size:4 final size:5
Alignment explanation
Indices: 6290932--6290961 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
6290922 CTCTTTTGGG
6290932 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
6290962 AATTTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:6307509 original size:29 final size:30
Alignment explanation
Indices: 6307451--6307507 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
6307441 TCCGAGCCTT
*
6307451 GGGCAAAAATGTAATTATGTAAAAGTTTAG
1 GGGCAAAAATGTAATTATGAAAAAGTTTAG
* *
6307481 GGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGCAAAAATGTAATTATGAAAAAGTT
6307508 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGCAAAAATGTAATTATGAAAAAGTTTAG
Found at i:6307737 original size:13 final size:13
Alignment explanation
Indices: 6307719--6307750 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6307709 TTTCCAGCAA
6307719 TTATGAATTTATT
1 TTATGAATTTATT
6307732 TTATGAATTTATT
1 TTATGAATTTATT
*
6307745 TGATGA
1 TTATGA
6307751 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6307958 original size:50 final size:50
Alignment explanation
Indices: 6307845--6308086 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
6307835 ATTTGGGTAA
* * *
6307845 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
6307901 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6307951 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6308001 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
6308051 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6308087 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:6308034 original size:100 final size:103
Alignment explanation
Indices: 6307845--6308094 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
6307835 ATTTGGGTAA
6307845 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
6307910 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
6307951 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
6308013 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
6308051 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
6308095 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:6315087 original size:29 final size:30
Alignment explanation
Indices: 6315028--6315085 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6315018 CCGAGCCTTG
*
6315028 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
6315058 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
6315086 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:6315315 original size:13 final size:13
Alignment explanation
Indices: 6315297--6315328 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6315287 TTTCCAGCAA
6315297 TTATGAATTTATT
1 TTATGAATTTATT
6315310 TTATGAATTTATT
1 TTATGAATTTATT
*
6315323 TGATGA
1 TTATGA
6315329 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:6315536 original size:50 final size:50
Alignment explanation
Indices: 6315423--6315664 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
6315413 ATTTGGGTAA
* * *
6315423 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
6315479 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6315529 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
6315579 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
6315629 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
6315665 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:6315612 original size:100 final size:103
Alignment explanation
Indices: 6315423--6315672 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
6315413 ATTTGGGTAA
6315423 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
6315488 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
6315529 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
6315591 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
6315629 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
6315673 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:6317957 original size:15 final size:16
Alignment explanation
Indices: 6317927--6317959 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6317917 AAAATTTTAG
*
6317927 TTTTTAATGTTTATAT
1 TTTTTAATGTTGATAT
6317943 TTTTTAAT-TTGATAT
1 TTTTTAATGTTGATAT
6317958 TT
1 TT
6317960 ATTCTTCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (16 bp):
TTTTTAATGTTGATAT
Found at i:6319527 original size:11 final size:10
Alignment explanation
Indices: 6319514--6319555 Score: 54
Period size: 11 Copynumber: 4.4 Consensus size: 10
6319504 GAATAAATTA
6319514 ATAATAATAG
1 ATAATAATAG
6319524 AATAATAATAG
1 -ATAATAATAG
6319535 ATAA-AA-AG
1 ATAATAATAG
6319543 ATAATAATA-
1 ATAATAATAG
6319552 ATAA
1 ATAA
6319556 CAAAGGCGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.21
9 8 0.28
10 5 0.17
11 10 0.34
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (10 bp):
ATAATAATAG
Found at i:6319546 original size:18 final size:18
Alignment explanation
Indices: 6319512--6319560 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
6319502 ATGAATAAAT
* *
6319512 TAATAATAATAGA-ATAA
1 TAATAATAACAAAGATAA
6319529 TAATAGATAA-AAAGATAA
1 TAATA-ATAACAAAGATAA
6319547 TAATAATAACAAAG
1 TAATAATAACAAAG
6319561 GCGTAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (18 bp):
TAATAATAACAAAGATAA
Found at i:6319582 original size:2 final size:2
Alignment explanation
Indices: 6319575--6319603 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6319565 AAATAAAATA
6319575 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 A
6319604 GCAAACAAAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6322821 original size:12 final size:12
Alignment explanation
Indices: 6322804--6322828 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6322794 CACAACATGC
6322804 ATGGTATTAAAA
1 ATGGTATTAAAA
6322816 ATGGTATTAAAA
1 ATGGTATTAAAA
6322828 A
1 A
6322829 AACATAATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGGTATTAAAA
Found at i:6322999 original size:3 final size:3
Alignment explanation
Indices: 6322993--6323092 Score: 60
Period size: 3 Copynumber: 31.0 Consensus size: 3
6322983 ACACTACTAT
* * *
6322993 ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA TATA TATA CGT- GTA TGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA -ATA -ATA ATA -ATA
* *
6323042 CATA AAA AT- ATA CACTA ATA TATA ATA ATA ATA ATA GTA ATA ATA ATA
1 -ATA ATA ATA ATA -A-TA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
6323090 ATA
1 ATA
6323093 TTAAAATGCA
Statistics
Matches: 81, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.05
3 54 0.67
4 21 0.26
5 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6326241 original size:6 final size:6
Alignment explanation
Indices: 6326230--6326256 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6326220 ATATATGTTT
6326230 TCCACC TCCACC TCCACC TCCACC TCC
1 TCCACC TCCACC TCCACC TCCACC TCC
6326257 TTTCCATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.67, G:0.00, T:0.19
Consensus pattern (6 bp):
TCCACC
Found at i:6327124 original size:13 final size:11
Alignment explanation
Indices: 6327105--6327138 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
6327095 TAGCAATTTA
6327105 TAATAAAATAT
1 TAATAAAATAT
6327116 CTAATTAAAATAT
1 -TAA-TAAAATAT
6327129 TAATAAAATA
1 TAATAAAATA
6327139 ATATTTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.33
12 6 0.29
13 8 0.38
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:6327505 original size:3 final size:3
Alignment explanation
Indices: 6327497--6327526 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6327487 ATCTACTTCT
6327497 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6327527 ATTATTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6327545 original size:21 final size:21
Alignment explanation
Indices: 6327521--6327561 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6327511 ATAATAATAA
6327521 TAATAAAT-TATTAATTATTAT
1 TAATAAATATATT-ATTATTAT
*
6327542 TAATCAATATATTATTATTA
1 TAATAAATATATTATTATTA
6327562 ATCAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATAAATATATTATTATTAT
Found at i:6327557 original size:18 final size:18
Alignment explanation
Indices: 6327534--6327570 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6327524 TAAATTATTA
6327534 ATTATTATTAATCAATAT
1 ATTATTATTAATCAATAT
6327552 ATTATTATTAATCAATAT
1 ATTATTATTAATCAATAT
6327570 A
1 A
6327571 CTAAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATTATTAATCAATAT
Found at i:6329112 original size:18 final size:18
Alignment explanation
Indices: 6329089--6329124 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6329079 TTTTCAATAA
*
6329089 AAAAATCCTAAAAATTTT
1 AAAAATCATAAAAATTTT
*
6329107 AAAAATGATAAAAATTTT
1 AAAAATCATAAAAATTTT
6329125 GAAATTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAAATCATAAAAATTTT
Found at i:6329800 original size:22 final size:22
Alignment explanation
Indices: 6329775--6329817 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6329765 ATTTTAACCC
6329775 CTTAA-AGTTTATAAAATTATAA
1 CTTAATAG-TTATAAAATTATAA
*
6329797 CTTAATAGTTGTAAAATTATA
1 CTTAATAGTTATAAAATTATA
6329818 GTCTACCCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (22 bp):
CTTAATAGTTATAAAATTATAA
Found at i:6333212 original size:21 final size:22
Alignment explanation
Indices: 6333171--6333213 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6333161 TAAAAATAAA
*
6333171 AAAAAAATTTGATCATGTAATT
1 AAAAAAATTTGATAATGTAATT
6333193 AAAAAAATATT-ATAAT-TAATT
1 AAAAAAAT-TTGATAATGTAATT
6333214 TGACTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 12 0.63
23 2 0.11
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (22 bp):
AAAAAAATTTGATAATGTAATT
Found at i:6337463 original size:22 final size:22
Alignment explanation
Indices: 6337438--6337480 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6337428 CGAATCAGCT
* * *
6337438 ATTTTGTTATTGTTTTACTATC
1 ATTTTGCTATTATATTACTATC
6337460 ATTTTGCTATTATATTACTAT
1 ATTTTGCTATTATATTACTAT
6337481 TTTGTTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.60
Consensus pattern (22 bp):
ATTTTGCTATTATATTACTATC
Found at i:6337682 original size:13 final size:13
Alignment explanation
Indices: 6337666--6337718 Score: 70
Period size: 13 Copynumber: 3.8 Consensus size: 13
6337656 TAGTATATTA
6337666 ATTTTTTAAAATT
1 ATTTTTTAAAATT
*
6337679 ATTTTTTTATATATT
1 A-TTTTTTA-AAATT
6337694 AATTTTTTAAAATT
1 -ATTTTTTAAAATT
6337708 ATTTTTTAAAA
1 ATTTTTTAAAA
6337719 AATAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 12 0.34
14 11 0.31
15 11 0.31
16 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTTTAAAATT
Found at i:6337684 original size:14 final size:14
Alignment explanation
Indices: 6337662--6337738 Score: 84
Period size: 14 Copynumber: 5.4 Consensus size: 14
6337652 TATTTAGTAT
6337662 ATTAATTTTTTAAA
1 ATTAATTTTTTAAA
* *
6337676 ATTATTTTTTTATAT
1 ATTAATTTTTTA-AA
6337691 ATTAATTTTTTAAA
1 ATTAATTTTTTAAA
6337705 ATT-ATTTTTTAAAA
1 ATTAATTTTTT-AAA
* **
6337719 AATAATTTTAAAAA
1 ATTAATTTTTTAAA
6337733 ATTAAT
1 ATTAAT
6337739 ATATACGAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
13 7 0.13
14 28 0.54
15 17 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTAATTTTTTAAA
Found at i:6337696 original size:29 final size:30
Alignment explanation
Indices: 6337654--6337714 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 30
6337644 TTTTAGTATA
6337654 TTTAGTATATTAATTTTTTAAAATTATTTT
1 TTTAGTATATTAATTTTTTAAAATTATTTT
6337684 TTTA-TATATTAATTTTTTAAAATTATTTT
1 TTTAGTATATTAATTTTTTAAAATTATTTT
6337713 TT
1 TT
6337715 AAAAAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (30 bp):
TTTAGTATATTAATTTTTTAAAATTATTTT
Found at i:6338797 original size:14 final size:14
Alignment explanation
Indices: 6338778--6338828 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
6338768 AAGTAAAAAT
6338778 TAATGTTGTTAATG
1 TAATGTTGTTAATG
6338792 TAATGTTTGTT-A-G
1 TAATG-TTGTTAATG
* *
6338805 T-ATGTTTTTAATT
1 TAATGTTGTTAATG
6338818 TAATGTTGTTA
1 TAATGTTGTTA
6338829 TTGTTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 4 0.13
12 4 0.13
13 3 0.10
14 14 0.47
15 5 0.17
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.57
Consensus pattern (14 bp):
TAATGTTGTTAATG
Found at i:6338824 original size:22 final size:24
Alignment explanation
Indices: 6338786--6338843 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 24
6338776 ATTAATGTTG
*
6338786 TTAATGTAATGTTTGTTAGTATG-TTT
1 TTAATTTAATG-TTGTTA-T-TGTTTT
6338812 TTAATTTAATGTTGTTATTGTTTT
1 TTAATTTAATGTTGTTATTGTTTT
6338836 TTAATTTA
1 TTAATTTA
6338844 TTTTACACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 2 0.07
24 12 0.40
25 6 0.20
26 10 0.33
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (24 bp):
TTAATTTAATGTTGTTATTGTTTT
Found at i:6338841 original size:24 final size:26
Alignment explanation
Indices: 6338780--6338843 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
6338770 GTAAAAATTA
* *
6338780 ATGTTGTTAATGTAATGTTTGTTAGT
1 ATGTTTTTAATTTAATGTTTGTTAGT
6338806 ATGTTTTTAATTTAATG-TTGTTA-T
1 ATGTTTTTAATTTAATGTTTGTTAGT
6338830 -TGTTTTTTAATTTA
1 ATG-TTTTTAATTTA
6338844 TTTTACACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 2 0.06
24 12 0.34
25 6 0.17
26 15 0.43
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.61
Consensus pattern (26 bp):
ATGTTTTTAATTTAATGTTTGTTAGT
Found at i:6339780 original size:133 final size:133
Alignment explanation
Indices: 6339542--6339782 Score: 392
Period size: 133 Copynumber: 1.8 Consensus size: 133
6339532 TCTCGCTTTG
* * * *
6339542 GAAAACATGAATGAAATTCCAAAGGGATATTCGATTATTTTGCACAAACAAGAAATTGTAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGTAACCCA
* *
6339607 GCACGATAGGGCACGATTCCCCGAATTGCCGAACGTCGAACATTTCCTTCGTTTTTAAAAAGTTT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTTAAAAAGTTT
6339672 TTA
131 TTA
* **
6339675 GAAAACATGAACGAAATTCTAAAGAGACATCCGATTATTTTGGGCAAACAAGAAATTGTAACCCA
1 GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGTAACCCA
*
6339740 GCACGATAGGGCACGATTCCCCGAATTGCTAAACATCGAACAT
66 GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACAT
6339783 CGTCTCCGTT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 98 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (133 bp):
GAAAACATGAACGAAATTCCAAAGAGACATCCGATTATTTTGCACAAACAAGAAATTGTAACCCA
GCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTTAAAAAGTTT
TTA
Found at i:6340094 original size:3 final size:3
Alignment explanation
Indices: 6340081--6340119 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
6340071 ACAAACAATG
* *
6340081 ATA AAA ATA ATA ATA ATA ACA ATA ATA ATTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA AT
6340120 GCAACGTAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6340340 original size:35 final size:37
Alignment explanation
Indices: 6340279--6340390 Score: 106
Period size: 35 Copynumber: 3.0 Consensus size: 37
6340269 TTTACATGGG
* * *
6340279 ATAATATATAAAAAAACATATGAATAATGTGATATTAA-
1 ATAATATATACATAAACATATGAATAATAT-ATA-TAAT
6340317 A-AATATATACATAAA-ATAT-AATAATATATATAAT
1 ATAATATATACATAAACATATGAATAATATATATAAT
* * *
6340351 ATAATATATACATAATATAGTATTAAAAATATATATAAT
1 ATAATATATACATAA-ACA-TATGAATAATATATATAAT
6340390 A
1 A
6340391 CATACACATT
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
33 3 0.05
34 4 0.06
35 20 0.31
36 5 0.08
37 13 0.20
38 4 0.06
39 15 0.23
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (37 bp):
ATAATATATACATAAACATATGAATAATATATATAAT
Found at i:6341375 original size:13 final size:13
Alignment explanation
Indices: 6341359--6341383 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6341349 CATCCGCCGC
6341359 CGCCGGCCACCGT
1 CGCCGGCCACCGT
6341372 CGCCGGCCACCG
1 CGCCGGCCACCG
6341384 CGCACGGTGG
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:0.08, C:0.56, G:0.32, T:0.04
Consensus pattern (13 bp):
CGCCGGCCACCGT
Found at i:6342244 original size:44 final size:44
Alignment explanation
Indices: 6342181--6342973 Score: 1074
Period size: 44 Copynumber: 18.2 Consensus size: 44
6342171 AAGAACACCG
* * ** *
6342181 ATCTGTCATTTTCGATCTGCTCTCTACCGCTTCAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
6342225 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
6342269 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
6342313 ATCTATTATCTTCGATCTGCTCTCCGCTGCTACAAAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
6342357 A--TG--ATCTTCGATCTGCTCTCCGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
6342397 ATCTTGTTATCTTCAATCTGCTCTCCGCCGCTACAGAGACACCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
6342442 ATCTTGTTATCTTCAATCTGCTCTTCGCCGCTACAGAGATGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
6342487 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTAC--AGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
6342529 ATTTGTTATCTTTGATCTGTTCTCCGTCGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* ** * * *
6342573 ATCTGTTATTTTTTATTTGCTCTCCGTCGCTATAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
6342617 ATCTTGTTATCTTCGACCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
6342662 ATCTGTTATCTTTGATCTGCTCTCTGCCACTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * * *
6342706 ATTTGTTATCTTTGATCTGCTCTCTGCCGCTACAGATACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
6342750 ATCTGTTATTTTCGATCTGCTCTCCGCTGCTACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
6342794 ATCTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
1 ATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* * *
6342839 ATTTGTTATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
* *
6342883 ATC----ATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
*
6342923 ATC----ATCTTCGATCTGCTCTCCGCCGCTACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
6342963 ATCTGTTATCT
1 ATCTGTTATCT
6342974 GTTTCAAGGA
Statistics
Matches: 672, Mismatches: 64, Indels: 26
0.88 0.08 0.03
Matches are distributed among these distances:
40 111 0.17
42 38 0.06
43 2 0.00
44 364 0.54
45 157 0.23
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAA
Found at i:6342656 original size:89 final size:89
Alignment explanation
Indices: 6342191--6342973 Score: 1075
Period size: 89 Copynumber: 9.0 Consensus size: 89
6342181 ATCTGTCATT
** *
6342191 TTCGATCTGCTCTCTACCGCTTCAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
6342256 ACAGAGATGCCAAATC-TGTTATC
66 ACAGAGACGCCAAATCTTGTTATC
* *
6342279 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTCCGCTGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
* *
6342344 ACAAAGATGCCAAA---TG--ATC
66 ACAGAGACGCCAAATCTTGTTATC
* *
6342363 TTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTTGTTATCTTCAATCTGCTCTCCGCCGC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC-TGTTATCTTCGATCTGCTCTCCGCCGC
*
6342428 TACAGAGACACCAAATCTTGTTATC
65 TACAGAGACGCCAAATCTTGTTATC
* * *
6342453 TTCAATCTGCTCTTCGCCGCTACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
6342518 AC--AGACGCCAAAT-TTGTTATC
66 ACAGAGACGCCAAATCTTGTTATC
* * * * ** * *
6342539 TTTGATCTGTTCTCCGTCGCTACAGAGACGCCAAATCTGTTATTTTTTATTTGCTCTCCGTCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
6342604 ATAGAGACGCCAAATCTTGTTATC
66 ACAGAGACGCCAAATCTTGTTATC
* * * *
6342628 TTCGACCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTTGATCTGCTCTCTGCCACT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
6342693 ACAGAGACGCCAAAT-TTGTTATC
66 ACAGAGACGCCAAATCTTGTTATC
* * * * *
6342716 TTTGATCTGCTCTCTGCCGCTACAGATACGCCAAATCTGTTATTTTCGATCTGCTCTCCGCTGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
6342781 ACAGAGACGCCAAATCTTGTTATC
66 ACAGAGACGCCAAATCTTGTTATC
* *
6342805 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATTTGTTATCTTCGATCTGCTCTCTGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
6342870 ACAGAGATGCCAAATC-----ATC
66 ACAGAGACGCCAAATCTTGTTATC
* *
6342889 TTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
6342950 ACAGAGACACCAAATC-TGTTATC
66 ACAGAGACGCCAAATCTTGTTATC
6342973 T
1 T
6342974 GTTTCAAGGA
Statistics
Matches: 618, Mismatches: 63, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
80 37 0.06
84 80 0.13
85 36 0.06
86 65 0.11
87 10 0.02
88 165 0.27
89 187 0.30
90 38 0.06
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.31
Consensus pattern (89 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
ACAGAGACGCCAAATCTTGTTATC
Found at i:6342791 original size:177 final size:175
Alignment explanation
Indices: 6342191--6342973 Score: 1086
Period size: 177 Copynumber: 4.5 Consensus size: 175
6342181 ATCTGTCATT
** *
6342191 TTCGATCTGCTCTCTACCGCTTCAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
* *
6342256 ACAGAGATGCCAAATC-TGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTATT
66 ACAGAGACGCCAAATCTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* * *
6342320 ATCTTCGATCTGCTCTCCGCTGCTACAAAGATGCCAAATG--ATC
131 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATGTTATC
* *
6342363 TTCGATCTGCTCTCCGCCGCTACAGAGATGCCAAATCTTGTTATCTTCAATCTGCTCTCCGCCGC
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATC-TGTTATCTTCGATCTGCTCTCCGCCGC
* * * *
6342428 TACAGAGACACCAAATCTTGTTATCTTCAATCTGCTCTTCGCCGCTACAGAGATGCCAAATCTGT
65 TACAGAGACGCCAAATCTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGT
6342493 TATCTTCGATCTGCTCTCCGCCGCTAC--AGACGCCAAATTTGTTATC
130 TATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA--TGTTATC
* * * * ** * *
6342539 TTTGATCTGTTCTCCGTCGCTACAGAGACGCCAAATCTGTTATTTTTTATTTGCTCTCCGTCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
* *
6342604 ATAGAGACGCCAAATCTTGTTATCTTCGACCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
66 ACAGAGACGCCAAATCTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* * *
6342669 ATCTTTGATCTGCTCTCTGCCACTACAGAGACGCCAAATTTGTTATC
131 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAA--TGTTATC
* * * * *
6342716 TTTGATCTGCTCTCTGCCGCTACAGATACGCCAAATCTGTTATTTTCGATCTGCTCTCCGCTGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
6342781 ACAGAGACGCCAAATCTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATTTGTT
66 ACAGAGACGCCAAATCTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
* * *
6342846 ATCTTCGATCTGCTCTCTGCCGCTACAGAGATGCCAAA--TCATC
131 ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATGTTATC
* *
6342889 TTCGATCTGCTCTCCGCCACTACAGAGATGCCAAATC----ATCTTCGATCTGCTCTCCGCCGCT
1 TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
*
6342950 ACAGAGACACCAAATC-TGTTATCT
66 ACAGAGACGCCAAATCTTGTTATCT
6342974 GTTTCAAGGA
Statistics
Matches: 548, Mismatches: 55, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
168 8 0.01
169 37 0.07
172 42 0.08
173 77 0.14
174 71 0.13
175 105 0.19
176 36 0.07
177 172 0.31
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.31
Consensus pattern (175 bp):
TTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGCCGCT
ACAGAGACGCCAAATCTTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATCTGTT
ATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCAAATGTTATC
Found at i:6352451 original size:45 final size:45
Alignment explanation
Indices: 6352361--6352452 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
6352351 AGCGCTATTG
* *
6352361 GTGCAATCTATTTATAAAGAGAGAGGGTAGAACCCGTATTGAATT
1 GTGCAATCTATTTATAAAGAGAGAAGGTAGAACCCGTATTAAATT
* * * *
6352406 GTGCCATCTATTTATAAAGAGAGAAGGTAGAACTCTTGTTAAATT
1 GTGCAATCTATTTATAAAGAGAGAAGGTAGAACCCGTATTAAATT
6352451 GT
1 GT
6352453 AGAAGTTTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (45 bp):
GTGCAATCTATTTATAAAGAGAGAAGGTAGAACCCGTATTAAATT
Found at i:6364622 original size:23 final size:22
Alignment explanation
Indices: 6364596--6364649 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
6364586 TTATTTGTTT
6364596 TTATATTTTTTAAAAATTTATTA
1 TTATATTTTTTAAAAATTT-TTA
*
6364619 TTATATTTTTTGAAAATTTTTA
1 TTATATTTTTTAAAAATTTTTA
6364641 TATATATTT
1 T-TATATTT
6364650 ATATATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTATATTTTTTAAAAATTTTTA
Found at i:6365355 original size:18 final size:18
Alignment explanation
Indices: 6365332--6365377 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
6365322 TTAGTTAACT
6365332 TATAAATATATAAAA-ATG
1 TATAAATATA-AAAATATG
*
6365350 TATAAAT-TAAAAATATT
1 TATAAATATAAAAATATG
6365367 TGATAAATATA
1 T-ATAAATATA
6365378 CATACAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 4 0.17
17 5 0.21
18 13 0.54
19 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (18 bp):
TATAAATATAAAAATATG
Found at i:6367564 original size:27 final size:27
Alignment explanation
Indices: 6367534--6367589 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
6367524 AAAATACGAG
6367534 TTTCAAACTAGCATGAAAAGCAACAAT
1 TTTCAAACTAGCATGAAAAGCAACAAT
*
6367561 TTTCAAACTAGCATGAAATGCAACAAT
1 TTTCAAACTAGCATGAAAAGCAACAAT
6367588 TT
1 TT
6367590 ACTTAATCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.27
Consensus pattern (27 bp):
TTTCAAACTAGCATGAAAAGCAACAAT
Found at i:6372185 original size:22 final size:22
Alignment explanation
Indices: 6372142--6372185 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6372132 AATTTTATAA
*
6372142 TTTATATTTTAAAAATTATTTT
1 TTTATATTTTAAAAAATATTTT
*
6372164 TTTATATTTTAAATAA-ATTTT
1 TTTATATTTTAAAAAATATTTT
6372185 T
1 T
6372186 ACTTAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTATATTTTAAAAAATATTTT
Found at i:6380842 original size:31 final size:31
Alignment explanation
Indices: 6380804--6380873 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
6380794 AAAATTGATG
*
6380804 ATTGAATTATTTGAAACTTTTTATTT-GAGTC
1 ATTGAATTATTTAAAACTTTTTATTTAG-GTC
*
6380835 ATTGAATTATTTAAAAGTTTTTATTTAGGTC
1 ATTGAATTATTTAAAACTTTTTATTTAGGTC
*
6380866 ATTAAATT
1 ATTGAATT
6380874 GTTAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (31 bp):
ATTGAATTATTTAAAACTTTTTATTTAGGTC
Found at i:6386850 original size:15 final size:17
Alignment explanation
Indices: 6386830--6386874 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
6386820 ATTTTCAACC
6386830 TTTTTCTCTTCCA-T-T
1 TTTTTCTCTTCCACTGT
*
6386845 TTTTTCTCTTCAACTGGT
1 TTTTTCTCTTCCACT-GT
6386863 TTTTTCTCTTCC
1 TTTTTCTCTTCC
6386875 TATATGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.48
16 1 0.04
18 12 0.48
ACGTcount: A:0.07, C:0.27, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTTCTCTTCCACTGT
Found at i:6387189 original size:14 final size:14
Alignment explanation
Indices: 6387170--6387196 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6387160 CTGTAAAGGT
6387170 CTAATGGAGAAATG
1 CTAATGGAGAAATG
6387184 CTAATGGAGAAAT
1 CTAATGGAGAAAT
6387197 CTTAAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.22
Consensus pattern (14 bp):
CTAATGGAGAAATG
Found at i:6387921 original size:15 final size:14
Alignment explanation
Indices: 6387874--6387921 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
6387864 AGTCACACTC
*
6387874 TAAAATTATTTAAA
1 TAAAATTATCTAAA
* *
6387888 TAAAAAATATCCAAA
1 T-AAAATTATCTAAA
6387903 TAAAATTATCTAAA
1 TAAAATTATCTAAA
6387917 CTAAA
1 -TAAA
6387922 TGACAAACTC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAAATTATCTAAA
Found at i:6398793 original size:21 final size:20
Alignment explanation
Indices: 6398769--6398815 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
6398759 TGTAATAATA
*
6398769 TTTTATTATTTTAAAATTAAC
1 TTTTAATATTTTAAAATT-AC
* *
6398790 TTTTAATGTTTTATAATTAC
1 TTTTAATATTTTAAAATTAC
6398810 TTTTAA
1 TTTTAA
6398816 AATTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAATATTTTAAAATTAC
Found at i:6398813 original size:20 final size:21
Alignment explanation
Indices: 6398777--6398815 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6398767 TATTTTATTA
6398777 TTTTAAAATTAACTTTTAATG
1 TTTTAAAATTAACTTTTAATG
*
6398798 TTTTATAATT-ACTTTTAA
1 TTTTAAAATTAACTTTTAA
6398816 AATTAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTTAAAATTAACTTTTAATG
Found at i:6402776 original size:26 final size:26
Alignment explanation
Indices: 6402747--6402807 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
6402737 AAATACATTT
6402747 AAAATAAATAATT-TGTATAAGAGT-TG
1 AAAATAAATAATTATGTA-AA-AGTATG
*
6402773 AAAATAGAT-ATTATGTAAAAGTATG
1 AAAATAAATAATTATGTAAAAGTATG
6402798 -AAATAAATAA
1 AAAATAAATAA
6402808 ATAAAATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
24 10 0.33
25 8 0.27
26 12 0.40
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (26 bp):
AAAATAAATAATTATGTAAAAGTATG
Found at i:6403050 original size:17 final size:17
Alignment explanation
Indices: 6403025--6403065 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
6403015 TAATATTAGT
6403025 ATATAAATAGAAA-TAGAA
1 ATAT-AATA-AAAGTAGAA
6403043 ATATAATAAAAGTAGAA
1 ATATAATAAAAGTAGAA
6403060 ATATAA
1 ATATAA
6403066 ATTGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (17 bp):
ATATAATAAAAGTAGAA
Found at i:6403090 original size:29 final size:24
Alignment explanation
Indices: 6403058--6403122 Score: 58
Period size: 29 Copynumber: 2.4 Consensus size: 24
6403048 ATAAAAGTAG
6403058 AAATATAAATTGATAAATAAAAATTAGAT
1 AAATATAAATT-A-AAATAAAAA--A-AT
*
6403087 AAATAATAATATTAGAATAAAAAAAT
1 AAAT-ATAA-ATTAAAATAAAAAAAT
6403113 AAATATAAAT
1 AAATATAAAT
6403123 AGCAACATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
24 2 0.06
25 4 0.12
26 6 0.18
27 1 0.03
29 12 0.36
30 5 0.15
31 3 0.09
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (24 bp):
AAATATAAATTAAAATAAAAAAAT
Found at i:6403106 original size:18 final size:15
Alignment explanation
Indices: 6403058--6403111 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 15
6403048 ATAAAAGTAG
*
6403058 AAATATAAATT-GAT
1 AAATAAAAATTAGAT
6403072 AAATAAAAATTAGAT
1 AAATAAAAATTAGAT
6403087 AAATAATAATATTAGAAT
1 AAATAA-AA-ATTAG-AT
6403105 AAA-AAAA
1 AAATAAAA
6403112 TAAATATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 10 0.29
15 9 0.26
16 4 0.11
17 7 0.20
18 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAATAAAAATTAGAT
Found at i:6403690 original size:6 final size:5
Alignment explanation
Indices: 6403655--6403686 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
6403645 CTAATTTAAT
*
6403655 AATAA AATAA AGTAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
6403687 ATAATATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:6404353 original size:44 final size:44
Alignment explanation
Indices: 6404304--6404529 Score: 122
Period size: 44 Copynumber: 5.3 Consensus size: 44
6404294 GCCTGTTACC
6404304 CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
* * * * *
6404348 CTACTGTTTA-GGGG---A-GATCTGTAT-TC-TCCAGCCTGTTACC-
1 CTACTGCTTAGGGGGTTAAGGCT-TGT-TGTCTTCGA-TCTGCT-CCA
* *
6404388 CTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTTCA
1 CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
** * * * * *
6404432 CTACTATTTA--GGG--AA-GATCTGTAT-TCTCCAACCTGTTACC-
1 CTACTGCTTAGGGGGTTAAGGCT-TGT-TGTCTTCGATCTGCT-CCA
* *
6404472 CTACTGCTTAGGGGGTTAAGGCTTGCTGTCCTCGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
* *
6404516 CTATTGTTTAGGGG
1 CTACTGCTTAGGGG
6404530 AGATCTGTAT
Statistics
Matches: 128, Mismatches: 32, Indels: 44
0.63 0.16 0.22
Matches are distributed among these distances:
39 7 0.05
40 40 0.31
41 9 0.07
42 6 0.05
43 9 0.07
44 50 0.39
45 7 0.05
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.35
Consensus pattern (44 bp):
CTACTGCTTAGGGGGTTAAGGCTTGTTGTCTTCGATCTGCTCCA
Found at i:6404399 original size:84 final size:84
Alignment explanation
Indices: 6404072--6404664 Score: 702
Period size: 84 Copynumber: 6.9 Consensus size: 84
6404062 GAATTTTCGT
* * * * * *
6404072 TTCGATCTGCTCCACCACTGCTTAGGGAGATATGATCTGTAATCTTCAGCCTGCT-CCACTGCTG
1 TTCGATCTGCTCCACTACTGTTTAGGG-G--A-GATCTGTATTCTCCAGCCTGTTACC-CTACTG
* * * * *
6404136 CTTAGGGAGATAAGGCTTACCGAC
61 CTTAGGGGGTTAAGGCTTGCTGTC
* * * * * ** * * *
6404160 TTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATTTGCAATCTTTAGTCTATTTCCCTACTGC
1 TTCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGTATTCTCCAGCCTGTTACCCTACTGC
* *
6404225 TTAAGGGGATAAGGCTTGCTGTC
62 TTAGGGGGTTAAGGCTTGCTGTC
* * * * *
6404248 TTCAATCTGCTCTACTATTGTTTAGGGATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTT
1 TTCGATCTGCTCCACTACTGTTTAGGG--GAGATCTGTATTCTCCAGCCTGTTACCCTACTGCTT
*
6404313 AGGGGGTTAAGGCTTGTTGTC
64 AGGGGGTTAAGGCTTGCTGTC
6404334 TTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTCTCCAGCCTGTTACCCTACTGCTTAG
1 TTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTCTCCAGCCTGTTACCCTACTGCTTAG
6404399 GGGGTTAAGGCTTGCTGTC
66 GGGGTTAAGGCTTGCTGTC
* * * *
6404418 TTCGATCTGCTTCACTACTATTTAGGGAAGATCTGTATTCTCCAACCTGTTACCCTACTGCTTAG
1 TTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTCTCCAGCCTGTTACCCTACTGCTTAG
6404483 GGGGTTAAGGCTTGCTGTC
66 GGGGTTAAGGCTTGCTGTC
* * *
6404502 CTCGATCTGCTCCACTATTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAG
1 TTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTCTCCAGCCTGTTACCCTACTGCTTAG
*
6404567 GGGGTTAAGGCTTGCTGTT
66 GGGGTTAAGGCTTGCTGTC
* * * **
6404586 TTCGATCTGCTCTACTACTATTTAGGGGAGATCTGTATTTTCTTGCCTGTTACCCTACTGCTTAG
1 TTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTCTCCAGCCTGTTACCCTACTGCTTAG
6404651 GGGGTTAAGGCTTG
66 GGGGTTAAGGCTTG
6404665 GGAATTCACT
Statistics
Matches: 447, Mismatches: 55, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
84 283 0.63
86 70 0.16
88 91 0.20
89 3 0.01
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (84 bp):
TTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTCTCCAGCCTGTTACCCTACTGCTTAG
GGGGTTAAGGCTTGCTGTC
Found at i:6404834 original size:64 final size:64
Alignment explanation
Indices: 6404733--6404901 Score: 302
Period size: 64 Copynumber: 2.6 Consensus size: 64
6404723 CATGTATCTA
*
6404733 GCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGATGCTTATGTCAAATAATTAGGAT
1 GCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGATGCTTATGTCAAATAATTAGAAT
6404797 GCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGATGCTTATGTCAAATAATTAGAAT
1 GCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGATGCTTATGTCAAATAATTAGAAT
* *
6404861 GCTATGATCGAAATGAAATCAAATGCTCCTAACTAGATGTG
1 GCTATGATCGAGATG-AATCAAATGCTCCTAACTGGATGTG
6404902 TTATTATATA
Statistics
Matches: 101, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 77 0.76
65 24 0.24
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (64 bp):
GCTATGATCGAGATGAATCAAATGCTCCTAACTGGATGTGATGCTTATGTCAAATAATTAGAAT
Found at i:6406011 original size:21 final size:21
Alignment explanation
Indices: 6405978--6406021 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6405968 CCTTGGCCTC
* *
6405978 TTTTGTTTCTTTTTCTTTTCTT
1 TTTTGTGTCTTTTCCTTTT-TT
6406000 TTTTGTGT-TTTTCCTTTTTT
1 TTTTGTGTCTTTTCCTTTTTT
6406020 TT
1 TT
6406022 GAAACTGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (21 bp):
TTTTGTGTCTTTTCCTTTTTT
Found at i:6411294 original size:37 final size:39
Alignment explanation
Indices: 6411230--6411308 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 39
6411220 ACAAGAGTTG
* **
6411230 AAAATAGATATTATGTAAAAATCTG-AAAT-AAATAAAT
1 AAAATAGAAATTATGTAAAAAAATGAAAATAAAATAAAT
*
6411267 AAAATAGAAATT-TGTAAAAAAAATGAAAATAAAATGAAT
1 AAAATAGAAATTATGT-AAAAAAATGAAAATAAAATAAAT
6411306 AAA
1 AAA
6411309 TAAATACGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 3 0.09
37 18 0.51
38 4 0.11
39 10 0.29
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.25
Consensus pattern (39 bp):
AAAATAGAAATTATGTAAAAAAATGAAAATAAAATAAAT
Found at i:6411510 original size:17 final size:17
Alignment explanation
Indices: 6411485--6411525 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
6411475 TAATATTAGT
6411485 ATATAAATAGAAA-TAGAA
1 ATAT-AATA-AAAGTAGAA
6411503 ATATAATAAAAGTAGAA
1 ATATAATAAAAGTAGAA
6411520 ATATAA
1 ATATAA
6411526 ATTGATAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (17 bp):
ATATAATAAAAGTAGAA
Done.