Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold187
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: 2169796
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 45208 characters in sequence are not A, C, G, or T
File 13 of 13
Found at i:2049471 original size:34 final size:34
Alignment explanation
Indices: 2049424--2049492 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
2049414 AAGCCACCTC
*
2049424 CTTTCCCTTTTTTTCTTCTTTCCTTTCTTTTTTT
1 CTTTCCCTTTTTTTCTTCTTTCCTTTCCTTTTTT
* *
2049458 CTTT-CCTTCTTTTTTTTCTTTCTTTTCCTTTTTT
1 CTTTCCCTT-TTTTTCTTCTTTCCTTTCCTTTTTT
2049492 C
1 C
2049493 CCTCTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 4 0.13
34 27 0.87
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (34 bp):
CTTTCCCTTTTTTTCTTCTTTCCTTTCCTTTTTT
Found at i:2049491 original size:21 final size:20
Alignment explanation
Indices: 2049431--2049491 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 20
2049421 CTCCTTTCCC
2049431 TTTTTTTC-TTCTTTCC--T
1 TTTTTTTCTTTCTTTCCTTT
*
2049448 TTCTTTT-TTTCTTTCCTTCT
1 TTTTTTTCTTTCTTTCCTT-T
2049468 TTTTTTTCTTTCTTTTCCTTT
1 TTTTTTTCTTTC-TTTCCTTT
2049489 TTT
1 TTT
2049492 CCCTCTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
17 14 0.39
20 7 0.19
21 8 0.22
22 7 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTCTTTCTTTCCTTT
Found at i:2049492 original size:13 final size:12
Alignment explanation
Indices: 2049430--2049515 Score: 52
Period size: 13 Copynumber: 7.0 Consensus size: 12
2049420 CCTCCTTTCC
*
2049430 CTTTT-TTTCTT
1 CTTTTCTTTTTT
*
2049441 CTTTCCTTTCTTT
1 CTTTTCTTT-TTT
*
2049454 -TTTTCTTTCCTT
1 CTTTTCTTT-TTT
*
2049466 CTTTTTTTTCTTT
1 CTTTTCTTT-TTT
2049479 CTTTTCCTTTTTT
1 CTTTT-CTTTTTT
**
2049492 C-CCTCTTTTTT
1 CTTTTCTTTTTT
2049503 CTTTTTCTTTTTT
1 C-TTTTCTTTTTT
2049516 GGTTCAAGAT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
11 12 0.21
12 14 0.24
13 29 0.50
14 3 0.05
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (12 bp):
CTTTTCTTTTTT
Found at i:2049492 original size:17 final size:16
Alignment explanation
Indices: 2049430--2049512 Score: 62
Period size: 17 Copynumber: 5.0 Consensus size: 16
2049420 CCTCCTTTCC
*
2049430 CTTTT-TTTCTTCTTT
1 CTTTTCTTTTTTCTTT
*
2049445 CCTTTCTTTTTTTCTTT
1 CTTTTC-TTTTTTCTTT
2049462 CCTTCTT-TTTTTTCTTT
1 -CTT-TTCTTTTTTCTTT
**
2049479 CTTTTCCTTTTTTCCCT
1 CTTTT-CTTTTTTCTTT
*
2049496 CTTTTTTCTTTTTCTTT
1 CTTTTCT-TTTTTCTTT
2049513 TTTGGTTCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
15 6 0.11
16 4 0.08
17 39 0.74
18 2 0.04
19 2 0.04
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
CTTTTCTTTTTTCTTT
Found at i:2049499 original size:30 final size:31
Alignment explanation
Indices: 2049425--2049513 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 31
2049415 AGCCACCTCC
* *
2049425 TTTCCCT-TTTTTTCTTCTTTCCTTTCTTTT
1 TTTCCCTCTTTTTTCTTCTTTCTTTTCCTTT
2049455 TTTCTTTCCTTCTTTTTT-TTCTTTCTTTTCCTTT
1 TTTC---CC-TCTTTTTTCTTCTTTCTTTTCCTTT
2049489 TTTCCCTCTTTTTTCTT-TTTCTTTT
1 TTTCCCTCTTTTTTCTTCTTTCTTTT
2049514 TTGGTTCAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
30 20 0.39
31 4 0.08
33 2 0.04
34 19 0.37
35 6 0.12
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTCCCTCTTTTTTCTTCTTTCTTTTCCTTT
Found at i:2049508 original size:34 final size:33
Alignment explanation
Indices: 2049424--2049512 Score: 91
Period size: 34 Copynumber: 2.8 Consensus size: 33
2049414 AAGCCACCTC
2049424 CTTTCCCT-TTTTTTCTTCTTTCCTTTCTTTTTTT
1 CTTTCCCTCTTTTTTCTT-TTT-CTTTCTTTTTTT
*
2049458 CTTT--C-CTTCTTT-TTTTTCTTTCTTTTCCTTT
1 CTTTCCCTCTTTTTTCTTTTTCTTTCTTTT--TTT
2049489 -TTTCCCTCTTTTTTCTTTTTCTTT
1 CTTTCCCTCTTTTTTCTTTTTCTTT
2049513 TTTGGTTCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
29 9 0.20
30 6 0.13
31 5 0.11
32 7 0.15
33 6 0.13
34 13 0.28
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (33 bp):
CTTTCCCTCTTTTTTCTTTTTCTTTCTTTTTTT
Found at i:2055019 original size:18 final size:18
Alignment explanation
Indices: 2054998--2055035 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2054988 AGAAAACACT
2054998 AAAATT-ATTCACCAAATA
1 AAAATTAATT-ACCAAATA
*
2055016 AAAATTAATTATCAAATA
1 AAAATTAATTACCAAATA
2055034 AA
1 AA
2055036 TTTTTAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTAATTACCAAATA
Found at i:2055051 original size:17 final size:17
Alignment explanation
Indices: 2055029--2055069 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
2055019 ATTAATTATC
*
2055029 AAATAAATTTTTAACCA
1 AAATAAATTTTTAAACA
2055046 AAAT-AA-TTTTAAACA
1 AAATAAATTTTTAAACA
2055061 AATATAAAT
1 AA-ATAAAT
2055070 GAAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 10 0.50
16 4 0.20
17 6 0.30
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATAAATTTTTAAACA
Found at i:2055394 original size:2 final size:2
Alignment explanation
Indices: 2055387--2055419 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2055377 TTTCAAGTTC
2055387 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2055420 AACTGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2062187 original size:17 final size:15
Alignment explanation
Indices: 2062165--2062212 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
2062155 TATTTTATTT
*
2062165 ATTTTTTAATTTTTA
1 ATTTTTTTATTTTTA
* *
2062180 ATTCTTTTAGTTTTA
1 ATTTTTTTATTTTTA
2062195 ATTTTTATTTATTTTTA
1 A-TTTT-TTTATTTTTA
2062212 A
1 A
2062213 ATGATCCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 13 0.50
16 3 0.12
17 10 0.38
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
ATTTTTTTATTTTTA
Found at i:2062188 original size:32 final size:32
Alignment explanation
Indices: 2062152--2062212 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
2062142 GCAGGTTTTA
*
2062152 TTTTA-TTTT-ATTTATTTTTTAATTTTTAATTC
1 TTTTAGTTTTAATTT-TTATTT-ATTTTTAATTC
2062184 TTTTAGTTTTAATTTTTATTTATTTTTAA
1 TTTTAGTTTTAATTTTTATTTATTTTTAA
2062213 ATGATCCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
32 13 0.50
33 9 0.35
34 4 0.15
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (32 bp):
TTTTAGTTTTAATTTTTATTTATTTTTAATTC
Found at i:2062209 original size:22 final size:22
Alignment explanation
Indices: 2062168--2062209 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2062158 TTTATTTATT
*
2062168 TTTTAATTTTTAATTCTTTTAG
1 TTTTAATTTTTAATTATTTTAG
*
2062190 TTTTAATTTTTATTTATTTT
1 TTTTAATTTTTAATTATTTT
2062210 TAAATGATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAATTTTTAATTATTTTAG
Found at i:2062210 original size:23 final size:22
Alignment explanation
Indices: 2062152--2062211 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
2062142 GCAGGTTTTA
2062152 TTTTATTTTATTTATT-TTTTAAT
1 TTTTA-TTTATTT-TTATTTTAAT
* *
2062175 TTTTAATT-CTTTTAGTTTTAAT
1 TTTTATTTATTTTTA-TTTTAAT
2062197 TTTTATTTATTTTTA
1 TTTTATTTATTTTTA
2062212 AATGATCCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 16 0.53
23 10 0.33
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTATTTATTTTTATTTTAAT
Found at i:2062350 original size:19 final size:19
Alignment explanation
Indices: 2062310--2062349 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2062300 ATTTTATTTA
* *
2062310 TTATTTTTAAATTTTTATT
1 TTATTTTTAAATATATATT
2062329 TTATTTTTAAATAATATATT
1 TTATTTTTAAAT-ATATATT
2062349 T
1 T
2062350 AAAAGGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTAAATATATATT
Found at i:2062473 original size:141 final size:138
Alignment explanation
Indices: 2062296--2062612 Score: 344
Period size: 141 Copynumber: 2.3 Consensus size: 138
2062286 AAAATAAAAA
* ** *
2062296 AATTA-TTTTATTTATTATTTTTAAATTTTTATTTTA-T-T-TTTAAATAATATATTTAAAAGGT
1 AATTATTTTTATTTTTTAGATTTAAATTTTTATTTTATTATCTTTAAATAATATATTTAAAAGAT
* * *
2062357 TAAAT-TACATAAT-AA-CTCGTAGATTAATTTAGAATCTACATTTGACTTA-CTCAAAAAAATA
66 TAAATCTACATAATAAATCACG-AG-TTAATTTAGAATCT--A--TAAC-CAGCTCAAAAAAAT-
2062418 AAAAAATTATTTTATT
123 AAAAAATTATTTTATT
2062434 AATTATTTTTAGTTTTTTAGATTTAATATTTTTATTTTATTTTATCTTTAAATAATATATTTAAA
1 AATTATTTTTA-TTTTTTAGATTTAA-ATTTTTATTTTA--TTATCTTTAAATAATATATTTAAA
* * * *
2062499 ATATTTAATCTGCATAATAAATCACGAGTTAATTTAGAATCTATAACCAGCTCAAAAGAATAAAA
62 AGATTAAATCTACATAATAAATCACGAGTTAATTTAGAATCTATAACCAGCTCAAAAAAATAAAA
*
2062564 ATTTATTTTATT
127 AATTATTTTATT
*
2062576 AATTGTTTTTATTTTTTAGATTTAAATTTTTTATTTT
1 AATTATTTTTATTTTTTAGATTTAAA-TTTTTATTTT
2062613 TACTGTAATT
Statistics
Matches: 153, Mismatches: 13, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
138 5 0.03
139 5 0.03
140 12 0.08
141 36 0.24
142 26 0.17
143 13 0.08
144 1 0.01
145 2 0.01
146 25 0.16
147 21 0.14
148 4 0.03
149 3 0.02
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.50
Consensus pattern (138 bp):
AATTATTTTTATTTTTTAGATTTAAATTTTTATTTTATTATCTTTAAATAATATATTTAAAAGAT
TAAATCTACATAATAAATCACGAGTTAATTTAGAATCTATAACCAGCTCAAAAAAATAAAAAATT
ATTTTATT
Found at i:2063426 original size:20 final size:20
Alignment explanation
Indices: 2063401--2063468 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
2063391 ATTATTTTTA
*
2063401 TATTATA-ATTATATTTAAAT
1 TATTATATATT-TATATAAAT
2063421 TATTATATATTTATATAAAT
1 TATTATATATTTATATAAAT
*
2063441 T-TTGATATA-TTA-ATAATT
1 TATT-ATATATTTATATAAAT
*
2063459 TATTTTATAT
1 TATTATATAT
2063469 ATTTTGATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 10 0.24
19 7 0.17
20 21 0.51
21 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (20 bp):
TATTATATATTTATATAAAT
Found at i:2063505 original size:33 final size:30
Alignment explanation
Indices: 2063420--2063523 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 30
2063410 TATATTTAAA
* *
2063420 TTATTATATAT-TTATATAAATTTTGATAT
1 TTATTATATTTATTATATATATTTTGATAT
* *
2063449 ATTAATA-ATTTATTTTATATATTTTGATAT
1 -TTATTATATTTATTATATATATTTTGATAT
* *
2063479 GTTATTATATTCGTATTATATTTATTTTTATAT
1 -TTATTATATT--TATTATATATATTTTGATAT
2063512 TATATTATATTT
1 T-TATTATATTT
2063524 TAATTATTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
29 3 0.05
30 26 0.43
31 4 0.07
32 1 0.02
33 26 0.43
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.62
Consensus pattern (30 bp):
TTATTATATTTATTATATATATTTTGATAT
Found at i:2063520 original size:22 final size:22
Alignment explanation
Indices: 2063387--2063523 Score: 80
Period size: 22 Copynumber: 6.4 Consensus size: 22
2063377 TATGTCATAT
2063387 TTATA-TTATTTTTATATTATAA
1 TTATATTTATTTTTATATTAT-A
*
2063409 TTATATTTAAATTATTATA-TAT-
1 TTATATTT--ATTTTTATATTATA
**
2063431 TTATATAAATTTTGATATATTA-A
1 TTATATTTATTTT--TATATTATA
2063454 -TA-ATTTATTTTATATATT-T-
1 TTATATTTATTTT-TATATTATA
* *
2063473 TGATATGTTA---TTATATTCGTA
1 TTATAT-TTATTTTTATATT-ATA
2063494 TTATATTTATTTTTATATTATA
1 TTATATTTATTTTTATATTATA
2063516 TTATATTT
1 TTATATTT
2063524 TAATTATTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 34
0.67 0.07 0.26
Matches are distributed among these distances:
18 6 0.07
19 1 0.01
20 16 0.18
21 14 0.16
22 30 0.34
23 11 0.12
24 3 0.03
25 8 0.09
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (22 bp):
TTATATTTATTTTTATATTATA
Found at i:2063530 original size:33 final size:33
Alignment explanation
Indices: 2063431--2063530 Score: 84
Period size: 33 Copynumber: 3.1 Consensus size: 33
2063421 TATTATATAT
* * *
2063431 TTATATAAATTTTGATA--TAT-TAATAATTTA
1 TTATATATATTTTGATATGTATATTATATTTTA
* *
2063461 TTTTATATATTTTGATATGT-TATTATATTCGTA
1 TTATATATATTTTGATATGTATATTATATT-TTA
* *
2063494 TTATATTTATTTTTATAT-TATATTATATTTTAA
1 TTATATATATTTTGATATGTATATTATATTTT-A
2063527 TTAT
1 TTAT
2063531 TTTTTATGTT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
30 15 0.27
31 1 0.02
32 8 0.15
33 31 0.56
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (33 bp):
TTATATATATTTTGATATGTATATTATATTTTA
Found at i:2063535 original size:28 final size:28
Alignment explanation
Indices: 2063481--2063554 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
2063471 TTTGATATGT
* *
2063481 TATTATATTCGTATTATATTTATTTTTA
1 TATTATATTCATATTATAATTATTTTTA
*
2063509 TATTATATT-ATATTTTAATTATTTTTTA
1 TATTATATTCATATTATAATTA-TTTTTA
* * *
2063537 TGTTGTATTCATGTTATA
1 TATTATATTCATATTATA
2063555 TGATCATGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 9 0.24
28 22 0.59
29 6 0.16
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (28 bp):
TATTATATTCATATTATAATTATTTTTA
Found at i:2063693 original size:20 final size:20
Alignment explanation
Indices: 2063668--2063707 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2063658 GCCATAATCA
2063668 TATTTAAAGTTTT-ATATATT
1 TATTTAAA-TTTTGATATATT
2063688 TATTTAAATTTTGATATATT
1 TATTTAAATTTTGATATATT
2063708 AATATTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TATTTAAATTTTGATATATT
Found at i:2063724 original size:20 final size:19
Alignment explanation
Indices: 2063669--2063725 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
2063659 CCATAATCAT
*
2063669 ATTTAAAGTTTTATATATTT
1 ATTTAAA-TTTTATATATTA
2063689 ATTTAAATTTTGATATATTA
1 ATTTAAATTTT-ATATATTA
**
2063709 ATATTGCATTTTATATA
1 AT-TTAAATTTTATATA
2063726 AATTTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 4 0.12
20 21 0.66
21 7 0.22
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTTAAATTTTATATATTA
Found at i:2063774 original size:24 final size:24
Alignment explanation
Indices: 2063742--2063790 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
2063732 AATACGTTTA
*
2063742 TATATTTATATCATATAGTCATAT
1 TATATTTATATCATATAATCATAT
*
2063766 TATATTTATATCGTATAATCATAT
1 TATATTTATATCATATAATCATAT
2063790 T
1 T
2063791 GAATTCGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (24 bp):
TATATTTATATCATATAATCATAT
Found at i:2064673 original size:2 final size:2
Alignment explanation
Indices: 2064666--2064709 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2064656 TCTCGTGTAC
2064666 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2064708 AT
1 AT
2064710 GTAATACTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2075359 original size:19 final size:19
Alignment explanation
Indices: 2075332--2075370 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2075322 AAGATTGCAC
2075332 CAATATTGCTAACATTTAG
1 CAATATTGCTAACATTTAG
*
2075351 CAATGTTGCTAACATTTAG
1 CAATATTGCTAACATTTAG
2075370 C
1 C
2075371 TAGGATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (19 bp):
CAATATTGCTAACATTTAG
Found at i:2081794 original size:19 final size:19
Alignment explanation
Indices: 2081770--2081839 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
2081760 GGATTTAGCT
* *
2081770 AGATCATCAACTAAATGTA
1 AGATCATGAACTAAATGCA
*
2081789 AGATCATGAACTATATGCA
1 AGATCATGAACTAAATGCA
* *
2081808 AGATTATTAACTAAATGCA
1 AGATCATGAACTAAATGCA
*
2081827 ATATCATGAACTA
1 AGATCATGAACTA
2081840 GACACAAGAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (19 bp):
AGATCATGAACTAAATGCA
Found at i:2081848 original size:38 final size:38
Alignment explanation
Indices: 2081778--2081850 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
2081768 CTAGATCATC
* * **
2081778 AACTAAATGTAAGATCATGAACTATATGCAAGATTATT
1 AACTAAATGCAAGATCATGAACTAGACACAAGATTATT
*
2081816 AACTAAATGCAATATCATGAACTAGACACAAGATT
1 AACTAAATGCAAGATCATGAACTAGACACAAGATT
2081851 CATCATCAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (38 bp):
AACTAAATGCAAGATCATGAACTAGACACAAGATTATT
Found at i:2085895 original size:2 final size:2
Alignment explanation
Indices: 2085888--2085926 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2085878 AGAATAGTGA
2085888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2085927 GGAACGACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2086827 original size:12 final size:12
Alignment explanation
Indices: 2086812--2086843 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
2086802 ATATTTATAT
2086812 ATAATATAAATC
1 ATAATATAAATC
2086824 ATAATATAAATC
1 ATAATATAAATC
2086836 ATAATATA
1 ATAATATA
2086844 TTTATATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAATATAAATC
Found at i:2087054 original size:3 final size:3
Alignment explanation
Indices: 2087046--2087072 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2087036 AACTTAATTA
2087046 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
2087073 TTAGGTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2088952 original size:15 final size:15
Alignment explanation
Indices: 2088934--2088966 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2088924 AATTAATTAA
2088934 TTTATTATTATTATT
1 TTTATTATTATTATT
*
2088949 TTTATTATTGTTATT
1 TTTATTATTATTATT
2088964 TTT
1 TTT
2088967 TATGAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTATTATTATTATT
Found at i:2091786 original size:26 final size:27
Alignment explanation
Indices: 2091757--2091807 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
2091747 ATTTTTGATT
* *
2091757 GAAA-AACGGGGTTGGAGTATCCCCTC
1 GAAAGAACAGGGTTGAAGTATCCCCTC
*
2091783 GAAAGAATAGGGTTGAAGTATCCCC
1 GAAAGAACAGGGTTGAAGTATCCCC
2091808 GATGGTGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (27 bp):
GAAAGAACAGGGTTGAAGTATCCCCTC
Found at i:2097977 original size:3 final size:3
Alignment explanation
Indices: 2097969--2098022 Score: 81
Period size: 3 Copynumber: 18.0 Consensus size: 3
2097959 TTATTTTTTA
* *
2097969 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
2098017 GTT ATT
1 ATT ATT
2098023 TTTTATGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2104552 original size:5 final size:5
Alignment explanation
Indices: 2104542--2104645 Score: 57
Period size: 5 Copynumber: 19.4 Consensus size: 5
2104532 GAAGTTGAAT
* * *
2104542 TTAAA TTAAA TTAAA TTAAA TTAAAA TTAGA TTAAA TCATAT TTAAA TATAATA
1 TTAAA TTAAA TTAAA TTAAA TT-AAA TTAAA TTAAA TTA-AA TTAAA T-TAA-A
* * * * *
2104596 TTAAT TTTAT TTATAC TT-AT TTAAA TTTAAA TTAAA TTTAAA TTTAAA
1 TTAAA TTAAA TTA-AA TTAAA TTAAA -TTAAA TTAAA -TTAAA -TTAAA
2104644 TT
1 TT
2104646 TTATTGTTTA
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
4 3 0.04
5 41 0.52
6 33 0.42
7 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (5 bp):
TTAAA
Found at i:2104568 original size:16 final size:15
Alignment explanation
Indices: 2104542--2104645 Score: 57
Period size: 16 Copynumber: 6.5 Consensus size: 15
2104532 GAAGTTGAAT
2104542 TTAAATTAAATTAAA
1 TTAAATTAAATTAAA
*
2104557 TTAAATTAAAATTAGA
1 TTAAATT-AAATTAAA
* *
2104573 TTAAATCATATTTAAA
1 TTAAATTA-AATTAAA
* * *
2104589 TATAATATTAATTTTAT
1 T-TAA-ATTAAATTAAA
* *
2104606 TTATACTT-ATTTAAA
1 TTA-AATTAAATTAAA
2104621 TTTAAATTAAATTTAAA
1 -TTAAATTAAA-TTAAA
2104638 TTTAAATT
1 -TTAAATT
2104646 TTATTGTTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
15 16 0.23
16 27 0.39
17 23 0.33
18 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (15 bp):
TTAAATTAAATTAAA
Found at i:2104623 original size:6 final size:6
Alignment explanation
Indices: 2104614--2104646 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
2104604 ATTTATACTT
2104614 ATTTAA ATTTAA A-TTAA ATTTAA ATTTAA ATTT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTT
2104647 TATTGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:2104632 original size:11 final size:12
Alignment explanation
Indices: 2104614--2104646 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
2104604 ATTTATACTT
2104614 ATTTAAATTTAA
1 ATTTAAATTTAA
2104626 A-TTAAATTTAA
1 ATTTAAATTTAA
2104637 ATTTAAATTT
1 ATTTAAATTT
2104647 TATTGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTAAATTTAA
Found at i:2104736 original size:24 final size:23
Alignment explanation
Indices: 2104692--2104739 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
2104682 ATTTATATTA
**
2104692 TAATTTTTATAATTTTTTAAATT
1 TAATTTTTATAATTTAATAAATT
2104715 TAATTTTTAATAATTTAATAAATT
1 TAATTTTT-ATAATTTAATAAATT
2104739 T
1 T
2104740 TTTTATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TAATTTTTATAATTTAATAAATT
Found at i:2105331 original size:24 final size:24
Alignment explanation
Indices: 2105304--2105349 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2105294 TAAAAAATTA
*
2105304 ATTATATATATATTTTTTAATTTT
1 ATTATATATAAATTTTTTAATTTT
* *
2105328 ATTATTTTTAAATTTTTTAATT
1 ATTATATATAAATTTTTTAATT
2105350 AAATTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTATATATAAATTTTTTAATTTT
Found at i:2110159 original size:18 final size:18
Alignment explanation
Indices: 2110110--2110159 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
2110100 GAGAAAGAAA
* *
2110110 ATCTAGTTTGAATAAGAT
1 ATCTAATTTGAATTAGAT
*
2110128 ATTCT-ATTTGAATTAGTT
1 A-TCTAATTTGAATTAGAT
2110146 ATCTAATTTGAATT
1 ATCTAATTTGAATT
2110160 TTAAAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.11
18 21 0.78
19 3 0.11
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (18 bp):
ATCTAATTTGAATTAGAT
Found at i:2111351 original size:20 final size:19
Alignment explanation
Indices: 2111326--2111402 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
2111316 TTTTACCCAG
2111326 ATGTATCGATACAGTTTTCA
1 ATGTATCGATACA-TTTTCA
* * *
2111346 ATGTATCAATACATGTATGA
1 ATGTATCGATACAT-TTTCA
*
2111366 ATGTATCGATATATTTTTCA
1 ATGTATCGATACA-TTTTCA
2111386 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
2111403 ACTTTTTTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
19 5 0.11
20 41 0.87
21 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:2111446 original size:26 final size:26
Alignment explanation
Indices: 2111378--2111456 Score: 95
Period size: 26 Copynumber: 2.8 Consensus size: 26
2111368 GTATCGATAT
2111378 ATTTTTCAATGTATCGATACATTTTAC
1 ATTTTTCAATGTATCGATACA-TTTAC
*
2111405 TTTTTTACCCAGATGTATCGATACATTTAC
1 ATTTTT---CA-ATGTATCGATACATTTAC
*
2111435 ATTTTTCAATGTATTGATACAT
1 ATTTTTCAATGTATCGATACAT
2111457 CTAGTTAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
26 13 0.29
27 7 0.16
30 12 0.27
31 13 0.29
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (26 bp):
ATTTTTCAATGTATCGATACATTTAC
Found at i:2114314 original size:15 final size:13
Alignment explanation
Indices: 2114282--2114307 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2114272 AATTTGGTCA
2114282 TGTATCGATACAT
1 TGTATCGATACAT
2114295 TGTATCGATACAT
1 TGTATCGATACAT
2114308 CTTGTATATA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2114411 original size:20 final size:21
Alignment explanation
Indices: 2114364--2114414 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2114354 GCCAATCACC
*
2114364 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
2114385 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
2114405 TGTATCGATA
1 TGTATCGATA
2114415 TAATGTATCG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 13 0.50
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:2116898 original size:13 final size:13
Alignment explanation
Indices: 2116880--2116917 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
2116870 CTATTCATAG
2116880 TGTATCGATACAA
1 TGTATCGATACAA
2116893 TGTATCGATACAA
1 TGTATCGATACAA
2116906 TGTATCGATACA
1 TGTATCGATACA
2116918 GAGAATGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2123089 original size:21 final size:20
Alignment explanation
Indices: 2123064--2123117 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
2123054 TTACAAGCCA
2123064 ATGTATCGATACAAT-TTGGT
1 ATGTATCGATACAATCTT-GT
2123084 CATGTATCGATAC-ATCTTGT
1 -ATGTATCGATACAATCTTGT
*
2123104 ATGTATTGATACAA
1 ATGTATCGATACAA
2123118 ACAATAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.37
20 5 0.17
21 14 0.47
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACAATCTTGT
Found at i:2123205 original size:20 final size:21
Alignment explanation
Indices: 2123158--2123210 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2123148 GCCAATCACC
*
2123158 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
2123179 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
2123199 TGTATCGATACA
1 TGTATCGATACA
2123211 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:2123216 original size:13 final size:13
Alignment explanation
Indices: 2123198--2123222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2123188 ACATTTGGTC
2123198 ATGTATCGATACA
1 ATGTATCGATACA
2123211 ATGTATCGATAC
1 ATGTATCGATAC
2123223 TGTGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2125876 original size:13 final size:13
Alignment explanation
Indices: 2125858--2125885 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2125848 ATACAAAGAT
2125858 CAATGTATCGATA
1 CAATGTATCGATA
2125871 CAATGTATCGATA
1 CAATGTATCGATA
2125884 CA
1 CA
2125886 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:2125971 original size:32 final size:32
Alignment explanation
Indices: 2125930--2126000 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
2125920 AGCTTCGTAG
* *
2125930 CGATACATTGTATCGTTATAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
2125962 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
2125994 CGATACA
1 CGATACA
2126001 GTTACTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:2125975 original size:13 final size:13
Alignment explanation
Indices: 2125957--2125981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2125947 ATAACACTTA
2125957 TGTATCGATACAT
1 TGTATCGATACAT
2125970 TGTATCGATACA
1 TGTATCGATACA
2125982 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2125996 original size:19 final size:19
Alignment explanation
Indices: 2125938--2126000 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
2125928 AGCGATACAT
* *
2125938 TGTATCGTTATAACACTTA
1 TGTATCGATACAACACTTA
2125957 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
2125970 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
2125989 TGTATCGATACA
1 TGTATCGATACA
2126001 GTTACTTGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 20 0.54
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2131816 original size:36 final size:37
Alignment explanation
Indices: 2131764--2131843 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
2131754 CATAGGTAAT
* **
2131764 TTACATCCTGAAAGTTATTGC-ATGCCTATGTGGAGGG
1 TTAC-TCCTGAAAGTTATTACTATGCCTATGTGGAAAG
* *
2131801 TTACTCCTGGAAGTTATTACTATGCTTATGTGGAAAG
1 TTACTCCTGAAAGTTATTACTATGCCTATGTGGAAAG
2131838 TTACTC
1 TTACTC
2131844 ACGAAGGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 14 0.38
37 23 0.62
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (37 bp):
TTACTCCTGAAAGTTATTACTATGCCTATGTGGAAAG
Found at i:2133208 original size:97 final size:96
Alignment explanation
Indices: 2133078--2133317 Score: 363
Period size: 97 Copynumber: 2.5 Consensus size: 96
2133068 TTGAAAAATA
2133078 AGGTTGGAGTATCTCCTCAGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAATGAGA
1 AGGTTGGAGTATCTCCTC-GAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAATGAGA
*
2133143 ATAAGATTTAAACTTTGATGTGTTTAAAAGTG
65 ATAAGATTTAAACTTTGATGTGTTTAAAAGCG
* * * * * * *
2133175 GGGTTAGAGTATCCCCTCTGAGGAATGGGGTTGGAGTGCCCCCAATGATGATAATTTAAGTGAGA
1 AGGTTGGAGTATCTCCTC-GAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAATGAGA
2133240 ATAAGATTTAAACTTTGATGTGTTTAAAAGCG
65 ATAAGATTTAAACTTTGATGTGTTTAAAAGCG
* *
2133272 AGGTTGGAGTATCTCCTCGAAGGAATAGGGTTGGAGTATCCCCGAT
1 AGGTTGGAGTATCTCCTCG-AGGAATGGGGTTGGAGTGTCCCCGAT
2133318 AAATAAAATT
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 1 0.01
97 125 0.99
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (96 bp):
AGGTTGGAGTATCTCCTCGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAATGAGAA
TAAGATTTAAACTTTGATGTGTTTAAAAGCG
Found at i:2135781 original size:13 final size:13
Alignment explanation
Indices: 2135763--2135787 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2135753 CATTTTATGG
2135763 TGTATCGATACAA
1 TGTATCGATACAA
2135776 TGTATCGATACA
1 TGTATCGATACA
2135788 TACTGTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2135803 original size:32 final size:33
Alignment explanation
Indices: 2135740--2135807 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2135730 CGTTACAAGC
**
2135740 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
2135773 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
2135805 CAA
1 CAA
2135808 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:2135886 original size:20 final size:21
Alignment explanation
Indices: 2135839--2135891 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2135829 GCCAATGACC
**
2135839 TGTATCGATACATCTTTTTCA
1 TGTATCGATACATCTTGGTCA
*
2135860 AGTATCGATACAT-TTGGTCA
1 TGTATCGATACATCTTGGTCA
2135880 TGTATCGATACA
1 TGTATCGATACA
2135892 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATCTTGGTCA
Found at i:2135897 original size:13 final size:13
Alignment explanation
Indices: 2135879--2135903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2135869 ACATTTGGTC
2135879 ATGTATCGATACA
1 ATGTATCGATACA
2135892 ATGTATCGATAC
1 ATGTATCGATAC
2135904 TGTGCAACAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2137881 original size:21 final size:21
Alignment explanation
Indices: 2137850--2137901 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
2137840 GCTGTTAGTG
* *
2137850 TGGGGGCTGCCCGGTTGTGACC
1 TGGGGG-TGCCCGGTCGCGACC
2137872 TGGGGGTG-CCGGTCGCGACC
1 TGGGGGTGCCCGGTCGCGACC
2137892 TGGTGGGTGC
1 TGG-GGGTGC
2137902 TGCCTAGGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 7 0.27
22 6 0.23
ACGTcount: A:0.04, C:0.25, G:0.50, T:0.21
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:2138355 original size:13 final size:13
Alignment explanation
Indices: 2138337--2138375 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
2138327 ATAATCCCCT
2138337 TGTATCGATACAG
1 TGTATCGATACAG
* *
2138350 TGTATCAATACAA
1 TGTATCGATACAG
*
2138363 TGTGTCGATACAG
1 TGTATCGATACAG
2138376 AGAATGTTGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2146546 original size:32 final size:32
Alignment explanation
Indices: 2146505--2146574 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
2146495 TCAAAATCAG
2146505 CACAATAATCCTAAAACTACCACATCCAAAGC
1 CACAATAATCCTAAAACTACCACATCCAAAGC
2146537 CACAATAATCCTAAAACTACCACATCCAAAGC
1 CACAATAATCCTAAAACTACCACATCCAAAGC
2146569 CACAAT
1 CACAAT
2146575 CATGCATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.47, C:0.34, G:0.03, T:0.16
Consensus pattern (32 bp):
CACAATAATCCTAAAACTACCACATCCAAAGC
Found at i:2147452 original size:19 final size:18
Alignment explanation
Indices: 2147428--2147495 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2147418 CAGTAGCTAA
2147428 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2147447 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2147462 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAA-AC
2147479 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2147496 GCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 2 0.05
19 27 0.63
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2147468 original size:13 final size:13
Alignment explanation
Indices: 2147450--2147474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2147440 ACAATACTTA
2147450 TGTATCGATACAT
1 TGTATCGATACAT
2147463 TGTATCGATACA
1 TGTATCGATACA
2147475 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2147472 original size:32 final size:32
Alignment explanation
Indices: 2147431--2147493 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2147421 TAGCTAATTA
*
2147431 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
2147463 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
2147494 AAGCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:2148414 original size:49 final size:49
Alignment explanation
Indices: 2148345--2148755 Score: 644
Period size: 49 Copynumber: 8.4 Consensus size: 49
2148335 TTAAAAAAAT
* * * * * *
2148345 GATGAAGGCGCCAATATGCTGGGTCAAGGCCAACGATATTGGACTTAAA
1 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
2148394 GATGAAGGTGCCAATGTGCTGAATCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
2148443 GATGATGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * *
2148492 GGTG-AGATGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* *
2148540 GGTGAAGGTGCCAATGTGCTGAGTCAAGGTCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
**
2148589 GATGAAGGTGCCAATGTAATGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
* * *
2148638 GGTAAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
2148687 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
1 GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
*
2148736 GGTGAAGGTGCCAATGTGCT
1 GATGAAGGTGCCAATGTGCT
2148756 AAAGATGAAG
Statistics
Matches: 332, Mismatches: 29, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
48 45 0.14
49 287 0.86
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (49 bp):
GATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAA
Found at i:2148758 original size:23 final size:23
Alignment explanation
Indices: 2148732--2148778 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
2148722 ACATTGGACT
*
2148732 TAAAGGTGAAGGTGCCAATGTGC
1 TAAAGATGAAGGTGCCAATGTGC
2148755 TAAAGATGAAGGTGCCAATGTGC
1 TAAAGATGAAGGTGCCAATGTGC
2148778 T
1 T
2148779 GAGTCAAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.23
Consensus pattern (23 bp):
TAAAGATGAAGGTGCCAATGTGC
Found at i:2148800 original size:72 final size:72
Alignment explanation
Indices: 2148683--2148827 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 72
2148673 ACATTGGACT
*
2148683 TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGGTGAAGGTGCC
1 TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
*
2148748 AATGTGC
66 AATATGC
2148755 TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
1 TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
2148820 AATATGC
66 AATATGC
2148827 T
1 T
2148828 GATTCAAGGC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (72 bp):
TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
AATATGC
Found at i:2148828 original size:49 final size:49
Alignment explanation
Indices: 2148755--2148856 Score: 177
Period size: 49 Copynumber: 2.1 Consensus size: 49
2148745 GCCAATGTGC
*
2148755 TAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACT
1 TAAAGATGAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACT
* *
2148804 TAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACT
1 TAAAGATGAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACT
2148853 TAAA
1 TAAA
2148857 AGGGTTACCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
TAAAGATGAAGGTGCCAATATGCTGAGTCAAGGCCAGCTACATTGGACT
Found at i:2148907 original size:33 final size:33
Alignment explanation
Indices: 2148864--2148936 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
2148854 AAAAGGGTTA
* *
2148864 CCACCAACTTGTGTGGGCTTTTGAAGAA-AGTTG
1 CCACCGACTTGTGTGGGCTTTAG-AGAATAGTTG
*
2148897 CCACCGACTTGTGTGGGCTTTAGAGAATGGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAATAGTTG
2148930 CCACCGA
1 CCACCGA
2148937 ATCGTGGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 4 0.11
33 32 0.89
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (33 bp):
CCACCGACTTGTGTGGGCTTTAGAGAATAGTTG
Found at i:2149006 original size:31 final size:31
Alignment explanation
Indices: 2148927--2149207 Score: 280
Period size: 31 Copynumber: 8.9 Consensus size: 31
2148917 TAGAGAATGG
*
2148927 TTGCCACCGAATCGTGGACTTTGAAGAAAAGA
1 TTGCCACTGAATCGTGGACTTTG-AGAAAAGA
*
2148959 GATGCCACT-AAGTCGTGGACTTTGAGAAAAGA
1 -TTGCCACTGAA-TCGTGGACTTTGAGAAAAGA
**
2148991 TTGCCACTGAATCGTGGACTTAAAGATAAAGA
1 TTGCCACTGAATCGTGGACTTTGAGA-AAAGA
* * * *
2149023 GATGCCACTGAGTCATGGACTTTGAAGGAAAGA
1 -TTGCCACTGAATCGTGGACTTTG-AGAAAAGA
* * *
2149056 -TGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1 TTGCCACTGAATCGTGGACTTTGAGAAAAGA
**
2149086 TTGCCACTGAATCGTGGACTTAAAGATAAAGA
1 TTGCCACTGAATCGTGGACTTTGAGA-AAAGA
* * *
2149118 GATGCCACTGAGTCGTGGACTTTGAAGGAAAGA
1 -TTGCCACTGAATCGTGGACTTTG-AGAAAAGA
* * *
2149151 -TGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1 TTGCCACTGAATCGTGGACTTTGAGAAAAGA
*
2149181 TTGCCACTGAATCGTGGACTTTAAGAA
1 TTGCCACTGAATCGTGGACTTTGAGAA
2149208 GATATTTGAA
Statistics
Matches: 207, Mismatches: 31, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
30 12 0.06
31 105 0.51
32 21 0.10
33 65 0.31
34 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.23
Consensus pattern (31 bp):
TTGCCACTGAATCGTGGACTTTGAGAAAAGA
Found at i:2149006 original size:64 final size:64
Alignment explanation
Indices: 2148927--2149207 Score: 310
Period size: 64 Copynumber: 4.4 Consensus size: 64
2148917 TAGAGAATGG
*
2148927 TTGCCACCGAATCGTGGACTTTGAAGAAAAGAGATGCCACTAAGTCGTGGACTTTGAGAAAAGA
1 TTGCCACTGAATCGTGGACTTTGAAGAAAAGAGATGCCACTAAGTCGTGGACTTTGAGAAAAGA
* * * *
2148991 TTGCCACTGAATCGTGGAC-TTAAAGATAAAGAGATGCCACTGAGTCATGGACTTTGAAGGAAAG
1 TTGCCACTGAATCGTGGACTTTGAAGA-AAAGAGATGCCACTAAGTCGTGGACTTTG-AGAAAAG
2149055 A
64 A
* * **
2149056 -TGCCACTGAGTCGTGGGCTTTG-AG--AAGAGATTGCCACTGAA-TCGTGGACTTAAAGATAAA
1 TTGCCACTGAATCGTGGACTTTGAAGAAAAGAGA-TGCCACT-AAGTCGTGGACTTTGAGA-AAA
2149116 GA
63 GA
* * * * * *
2149118 GATGCCACTGAGTCGTGGACTTTGAAG-GAA-AGATGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1 -TTGCCACTGAATCGTGGACTTTGAAGAAAAGAGATGCCACTAAGTCGTGGACTTTGAGAAAAGA
2149181 TTGCCACTGAATCGTGGACTTT-AAGAA
1 TTGCCACTGAATCGTGGACTTTGAAGAA
2149208 GATATTTGAA
Statistics
Matches: 183, Mismatches: 22, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
61 11 0.06
62 41 0.22
63 12 0.07
64 103 0.56
65 14 0.08
66 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.23
Consensus pattern (64 bp):
TTGCCACTGAATCGTGGACTTTGAAGAAAAGAGATGCCACTAAGTCGTGGACTTTGAGAAAAGA
Found at i:2149079 original size:95 final size:95
Alignment explanation
Indices: 2148941--2149206 Score: 460
Period size: 95 Copynumber: 2.8 Consensus size: 95
2148931 CACCGAATCG
* * * *
2148941 TGGACTTTGAAGAAAAGAGATGCCACTAAGTCGTGGACTTTGAGAAAAGATTGCCACTGAATCGT
1 TGGACTTTGAAG-GAA-AGATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAATCGT
2149006 GGACTTAAAGATAAAGAGATGCCACTGAGTCA
64 GGACTTAAAGATAAAGAGATGCCACTGAGTCA
2149038 TGGACTTTGAAGGAAAGATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAATCGTGG
1 TGGACTTTGAAGGAAAGATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAATCGTGG
*
2149103 ACTTAAAGATAAAGAGATGCCACTGAGTCG
66 ACTTAAAGATAAAGAGATGCCACTGAGTCA
2149133 TGGACTTTGAAGGAAAGATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAATCGTGG
1 TGGACTTTGAAGGAAAGATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAATCGTGG
*
2149198 ACTTTAAGA
66 ACTTAAAGA
2149207 AGATATTTGA
Statistics
Matches: 163, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
95 149 0.91
96 2 0.01
97 12 0.07
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (95 bp):
TGGACTTTGAAGGAAAGATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAATCGTGG
ACTTAAAGATAAAGAGATGCCACTGAGTCA
Found at i:2152218 original size:32 final size:32
Alignment explanation
Indices: 2152098--2152755 Score: 797
Period size: 32 Copynumber: 20.8 Consensus size: 32
2152088 AAAATGGTGA
* * * *
2152098 TTTGAAAAGGGTTGCCACTGATTTGCGTGGGT
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * ** *
2152130 TTTTAAAAGGGTTTCCACCGA-AAGTGTGGAC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * * *
2152161 TTTTG-AAAGAGGTTCCCATCAACTTGTGTAGGC
1 -TTTGAAAAG-GGTTGCCACCGACTTGTGTGGGC
2152194 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * *
2152226 TTTGAAATGGATTGCCACTGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
2152258 TTTGAAATGGGTTACCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
2152290 TTTGAAAAGGGTTGCCATCGACTTGCGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
2152322 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
2152354 TTTGAAATGGGTTGCCACCGACTTGTGTGCGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
2152386 TTTGAAATGGGTTGCCACCGACTTGTATGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
** *
2152418 TTT-AAAATAG-TGCCATCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
2152448 TTTGAAAAGGGTTGTCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
2152480 TTTGAAATA-GGTTGCCACTGACTTGTGTGGGC
1 TTTGAAA-AGGGTTGCCACCGACTTGTGTGGGC
*
2152512 TTTTAAATA--G-TGCCACCGACTTGTGTGGGC
1 TTTGAAA-AGGGTTGCCACCGACTTGTGTGGGC
2152542 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
2152574 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
2152606 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
2152638 TTTGAAATA--G-TGCCACCGACTTGTGTGGGC
1 TTTGAAA-AGGGTTGCCACCGACTTGTGTGGGC
* * * *
2152668 TTTGAAAAGGATTGCTATCAACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* **
2152700 TTTGAAAAAGG-TGCCACTAAC-T-TGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * *
2152729 TTT-AGAAGGGAATGCCACCGCCTTGTG
1 TTTGAAAAGGG-TTGCCACCGACTTGTG
2152756 GACCTAAAAA
Statistics
Matches: 544, Mismatches: 64, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.01
29 12 0.02
30 81 0.15
31 29 0.05
32 405 0.74
33 12 0.02
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (32 bp):
TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
Found at i:2152493 original size:126 final size:126
Alignment explanation
Indices: 2152153--2152725 Score: 800
Period size: 126 Copynumber: 4.5 Consensus size: 126
2152143 TCCACCGAAA
* * * *
2152153 GTGTGGACTTTTG-AAAGAGGTTCCCATCAACTTGTGTAGGCTTTGAAAAGGGTTGCCACCGACT
1 GTGTGGGC-TTTGAAAAGA-GTTGCCATCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACT
* * *
2152217 TGTGTGGGCTTTGAAAT-GGATTGCCACTGACTTGTGTGGGCTTTGAAATGGGTTACCACCGACT
64 TGTGTGGGCTTTGAAATAGG-TTGCCACCGACTTGTGTGGGCTTTGAAAT-AG-TGCCACCGACT
2152281 T
126 T
* *
2152282 GTGTGGGCTTTGAAAAGGGTTGCCATCGACTTGCGTGGGCTTTGAAAAGGGTTGCCACCGACTTG
1 GTGTGGGCTTTGAAAAGAGTTGCCATCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTG
* * *
2152347 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGCGCTTTGAAATGGGTTGCCACCGACTT
66 TGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-AG-TGCCACCGACTT
* * *
2152410 GTATGGGCTTT-AAAATAG-TGCCATCGACTTGTGTGGGCTTTGAAAAGGGTTGTCACCGACTTG
1 GTGTGGGCTTTGAAAAGAGTTGCCATCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTG
* *
2152473 TGTGGGCTTTGAAATAGGTTGCCACTGACTTGTGTGGGCTTTTAAATAGTGCCACCGACTT
66 TGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGTGCCACCGACTT
* *
2152534 GTGTGGGCTTTGAAAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTG
1 GTGTGGGCTTTGAAAAGAGTTGCCATCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTG
2152599 TGTGGGCTTTGAAA-AGGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGTGCCACCGACTT
66 TGTGGGCTTTGAAATA-GGTTGCCACCGACTTGTGTGGGCTTTGAAATAGTGCCACCGACTT
* * * **
2152660 GTGTGGGCTTTGAAAAG-GATTGCTATCAACTTGTGTGGGCTTTGAAAAAGG-TGCCACTAACTT
1 GTGTGGGCTTTGAAAAGAG-TTGCCATCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTT
2152723 GTG
65 GTG
2152726 GGCTTTAGAA
Statistics
Matches: 406, Mismatches: 32, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
124 22 0.05
125 21 0.05
126 231 0.57
127 5 0.01
128 114 0.28
129 13 0.03
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (126 bp):
GTGTGGGCTTTGAAAAGAGTTGCCATCGACTTGTGTGGGCTTTGAAAAGGGTTGCCACCGACTTG
TGTGGGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGTGCCACCGACTT
Found at i:2152800 original size:27 final size:27
Alignment explanation
Indices: 2152751--2153616 Score: 1354
Period size: 27 Copynumber: 31.6 Consensus size: 27
2152741 TGCCACCGCC
* * *
2152751 TTGTGGACCTAAAAAGGGTGCCATGAAG
1 TTGTGGA-CTTAAAAGGGTGCCACGGAG
*
2152779 TTGTGGACTTAAAATGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2152806 TTGTGGACTTAAAATGGTGCCACGAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2152833 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2152860 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2152887 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2152914 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2152942 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2152970 TTGTGGACTTCAAAAGGGTGCCACAGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
*
2152998 TTGTGGACTTCAAAAGGGTGCCATGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
2153026 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2153054 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2153082 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2153109 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2153136 TTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2153163 TTGTGGACTTAAAATGGATGCCACGGAG
1 TTGTGGACTTAAAA-GGGTGCCACGGAG
*
2153191 TTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2153218 TTGTGGACTTAAAAAGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * *
2153245 TTGTGAAATTTAAAAGGGTGCCACGAAG
1 TTGTG-GACTTAAAAGGGTGCCACGGAG
*
2153273 TTGTGGACTTCAAAAGGGTGCCATGGAG
1 TTGTGGACTT-AAAAGGGTGCCACGGAG
*
2153301 TTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2153328 TTATGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2153355 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2153383 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * *
2153410 TTGTGGGCTTAAAAAGGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
2153437 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
2153465 TTGTGGACTTAAAAGGGTGCCATGAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2153492 TTGTGGACTTAAAAGGGTGCCACCGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
2153519 TTGTGGACTTTAAAAGGGTACCACAGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
2153547 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
2153575 TTGTGGACTTAAAAGGGTGCCACGGAC
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
2153602 TTGTGGACTTTAAAG
1 TTGTGGACTTAAAAG
2153617 AGGTCACGAT
Statistics
Matches: 781, Mismatches: 48, Indels: 19
0.92 0.06 0.02
Matches are distributed among these distances:
27 439 0.56
28 340 0.44
29 2 0.00
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.24
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:2152840 original size:82 final size:81
Alignment explanation
Indices: 2152751--2153616 Score: 1306
Period size: 82 Copynumber: 10.5 Consensus size: 81
2152741 TGCCACCGCC
* * * *
2152751 TTGTGGACCTAAAAAGGGTGCCATGAAGTTGTGGACTTAAAATGGTGCCACGGAGTTGTGGACTT
1 TTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
*
2152816 AAAATGGTGCCACGAAG
65 AAAAGGGTGCCACGAAG
2152833 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
*
2152898 AAAGGGTGCCACGGAG
66 AAAGGGTGCCACGAAG
2152914 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACT
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACT
2152979 TCAAAAGGGTGCCAC-AGAG
64 T-AAAAGGGTGCCACGA-AG
*
2152998 TTGTGGACTTCAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACT
1 TTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-
*
2153063 TTAAAAGGGTGCCACGGAG
63 TTAAAAGGGTGCCACGAAG
2153082 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
2153147 AAAGGGTGCCAC-AGAG
66 AAAGGGTGCCACGA-AG
* *
2153163 TTGTGGACTTAAAATGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
1 TTGTGGACTTAAAA-GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
* *
2153228 AAAAAGGTGCCACGGAG
65 AAAAGGGTGCCACGAAG
* * * *
2153245 TTGTGAAATTTAAAAGGGTGCCACGAAGTTGTGGACTTCAAAAGGGTGCCATGGAGTTGTGGACT
1 TTGTG-GACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGACT
2153310 TAAAAGGGTGCCAC-AGAG
64 TAAAAGGGTGCCACGA-AG
*
2153328 TTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT
*
2153393 AAAAGGGTGCCACGGAG
65 AAAAGGGTGCCACGAAG
* * *
2153410 TTGTGGGCTTAAAAAGGTGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT
*
2153475 AAAAGGGTGCCATGAAG
65 AAAAGGGTGCCACGAAG
* * *
2153492 TTGTGGACTTAAAAGGGTGCCACCGAGTTGTGGACTTTAAAAGGGTACCACAGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-T
*
2153557 TAAAAGGGTGCCACGGAG
64 TAAAAGGGTGCCACGAAG
* *
2153575 TTGTGGACTTAAAAGGGTGCCACGGACTTGTGGACTTTAAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
2153617 AGGTCACGAT
Statistics
Matches: 722, Mismatches: 46, Indels: 32
0.90 0.06 0.04
Matches are distributed among these distances:
81 107 0.15
82 356 0.49
83 157 0.22
84 100 0.14
85 2 0.00
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.24
Consensus pattern (81 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
AAAGGGTGCCACGAAG
Found at i:2154943 original size:36 final size:35
Alignment explanation
Indices: 2154917--2154988 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
2154907 TGTTGTTCCC
2154917 TTTTTT-T-ATTTTGCTTTTGCACTTTTTCTTTTCA
1 TTTTTTGTGATTTTGCTTTTG-ACTTTTTCTTTTCA
* *
2154951 TTTTTTGTGCTTTTGCTTTTGACTTTTT-TTATCA
1 TTTTTTGTGATTTTGCTTTTGACTTTTTCTTTTCA
2154985 TTTT
1 TTTT
2154989 GAAGGGAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 15 0.44
35 8 0.24
36 11 0.32
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.71
Consensus pattern (35 bp):
TTTTTTGTGATTTTGCTTTTGACTTTTTCTTTTCA
Found at i:2161413 original size:10 final size:10
Alignment explanation
Indices: 2161398--2161428 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2161388 CCATTTCGTA
2161398 TTTTTTTCTT
1 TTTTTTTCTT
2161408 TTTTTTTCTT
1 TTTTTTTCTT
*
2161418 TTTCTTTCTT
1 TTTTTTTCTT
2161428 T
1 T
2161429 CTTCTTCATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:2161427 original size:20 final size:21
Alignment explanation
Indices: 2161398--2161455 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 21
2161388 CCATTTCGTA
*
2161398 TTTT-TTTCTTTTTTT-TTCT
1 TTTTCTTTCTTTTTTTCATCT
2161417 TTTTCTTTCTTTCTTCTTCATCT
1 TTTTCTTTCTTT-TT-TTCATCT
2161440 TCTTTCTTTCTTTTTT
1 T-TTTCTTTCTTTTTT
2161456 ACCTAACCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 4 0.12
20 7 0.21
21 2 0.06
22 3 0.09
23 6 0.18
24 11 0.33
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCTTTTTTTCATCT
Found at i:2162328 original size:16 final size:14
Alignment explanation
Indices: 2162293--2162320 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2162283 TTACTTTTTA
2162293 AAAAAACAAGTGTC
1 AAAAAACAAGTGTC
2162307 AAAAAACAAGTGTC
1 AAAAAACAAGTGTC
2162321 TTAAAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAAACAAGTGTC
Found at i:2163987 original size:13 final size:13
Alignment explanation
Indices: 2163969--2163993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2163959 CATTTTATGG
2163969 TGTATCGATACAA
1 TGTATCGATACAA
2163982 TGTATCGATACA
1 TGTATCGATACA
2163994 TACTGTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2164009 original size:32 final size:33
Alignment explanation
Indices: 2163946--2164013 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
2163936 CGTTACAAGC
**
2163946 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
2163979 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
2164011 CAA
1 CAA
2164014 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:2164103 original size:13 final size:12
Alignment explanation
Indices: 2164084--2164164 Score: 70
Period size: 13 Copynumber: 7.2 Consensus size: 12
2164074 TACATTTGGC
2164084 CATGTATCGATA
1 CATGTATCGATA
2164096 CAATGTATCGATA
1 C-ATGTATCGATA
*
2164109 C-TGT-GC-A-A
1 CATGTATCGATA
2164117 CATGTATCGATA
1 CATGTATCGATA
2164129 CAATGTATCGATA
1 C-ATGTATCGATA
*
2164142 C-TGT-GC-A-A
1 CATGTATCGATA
2164150 CATGTATCGATA
1 CATGTATCGATA
2164162 CAT
1 CAT
2164165 TTAAATGTGT
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
8 4 0.07
9 8 0.15
10 4 0.07
11 8 0.15
12 7 0.13
13 24 0.44
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:2164109 original size:33 final size:32
Alignment explanation
Indices: 2164067--2164163 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 32
2164057 TCTTTTTCAA
*
2164067 GTATCGATACATTTGGC-CATGTATCGATACAAT
1 GTATCGATAC-TGT-GCACATGTATCGATACAAT
2164100 GTATCGATACTGTGCAACATGTATCGATACAAT
1 GTATCGATACTGTGC-ACATGTATCGATACAAT
2164133 GTATCGATACTGTGCAACATGTATCGATACA
1 GTATCGATACTGTGC-ACATGTATCGATACA
2164164 TTTAAATGTG
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
31 2 0.03
32 2 0.03
33 57 0.93
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (32 bp):
GTATCGATACTGTGCACATGTATCGATACAAT
Found at i:2164123 original size:20 final size:20
Alignment explanation
Indices: 2164098--2164162 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
2164088 TATCGATACA
2164098 ATGTATCGATACTGTGCAAC
1 ATGTATCGATACTGTGCAAC
2164118 ATGTATCGATA-----C-A-
1 ATGTATCGATACTGTGCAAC
2164131 ATGTATCGATACTGTGCAAC
1 ATGTATCGATACTGTGCAAC
2164151 ATGTATCGATAC
1 ATGTATCGATAC
2164163 ATTTAAATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 1 0.03
20 23 0.61
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACTGTGCAAC
Found at i:2164797 original size:13 final size:13
Alignment explanation
Indices: 2164772--2164807 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2164762 ATGACCGCTA
2164772 TATCGATACATTG
1 TATCGATACATTG
* *
2164785 TATTGATAGATTG
1 TATCGATACATTG
2164798 TATCGATACA
1 TATCGATACA
2164808 GGTGATTGGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:2164875 original size:13 final size:13
Alignment explanation
Indices: 2164857--2164895 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
2164847 ACATACAAGA
2164857 TGTATCGATACAT
1 TGTATCGATACAT
2164870 TGTATCGATACAT
1 TGTATCGATACAT
2164883 TGTATCGATACAT
1 TGTATCGATACAT
2164896 GACCAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2165696 original size:12 final size:12
Alignment explanation
Indices: 2165656--2165697 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
2165646 TGAGCTTTCA
*
2165656 TTTTCTTTCTCCC
1 TTTT-TTTCTCTC
2165669 TTTTTTTCTCTC
1 TTTTTTTCTCTC
2165681 TTTTTTT-T-TC
1 TTTTTTTCTCTC
2165691 TTTTTTT
1 TTTTTTT
2165698 AGTTGAACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 14 0.50
13 4 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTCTCTC
Found at i:2166047 original size:16 final size:16
Alignment explanation
Indices: 2166008--2166050 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
2165998 CAAAATGAAC
*
2166008 AAATAAAAATAAAATA
1 AAATAAAATTAAAATA
2166024 AAAT-AAATTCAAAA-A
1 AAATAAAATT-AAAATA
2166039 AAATAAAATTAA
1 AAATAAAATTAA
2166051 TATTTGTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (16 bp):
AAATAAAATTAAAATA
Done.