Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
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: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 20
Found at i:3794562 original size:16 final size:16
Alignment explanation
Indices: 3794543--3794574 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3794533 TTAATGCATA
3794543 GATGTAGTAATTGGGG
1 GATGTAGTAATTGGGG
3794559 GATGTAGTAATTGGGG
1 GATGTAGTAATTGGGG
3794575 TATTCAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.44, T:0.31
Consensus pattern (16 bp):
GATGTAGTAATTGGGG
Found at i:3797336 original size:22 final size:22
Alignment explanation
Indices: 3797311--3797429 Score: 68
Period size: 22 Copynumber: 5.2 Consensus size: 22
3797301 AAAAAAATAT
3797311 ATATAATATATAGTTTTGAAAA
1 ATATAATATATAGTTTTGAAAA
3797333 ATAT-ATAATATAGTTTTTG-AAA
1 ATATAAT-ATATAG-TTTTGAAAA
* * * *
3797355 GTATATTATATAATTTTTTAAAAA
1 ATATAATATAT-A-GTTTTGAAAA
3797379 TATATAATATATATAGATTTTGAAAA
1 -ATAT-A-ATATATAG-TTTTGAAAA
*
3797405 CATAT--TATA-AGTTTTAAAATA
1 -ATATAATATATAGTTTTGAAA-A
3797426 ATAT
1 ATAT
3797430 TTTTTTAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
20 11 0.14
21 5 0.07
22 24 0.32
23 11 0.14
24 3 0.04
25 3 0.04
26 14 0.18
27 5 0.07
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.45
Consensus pattern (22 bp):
ATATAATATATAGTTTTGAAAA
Found at i:3797341 original size:24 final size:25
Alignment explanation
Indices: 3797304--3797414 Score: 92
Period size: 22 Copynumber: 4.5 Consensus size: 25
3797294 GATTTTGAAA
3797304 AAAATATATATAATATATAG-TTTTG
1 AAAA-ATATATAATATATAGATTTTG
*
3797329 AAAAATATAT-A-ATATAGTTTTTG
1 AAAAATATATAATATATAGATTTTG
* *
3797352 -AAAGTATAT--TATATA-ATTTTTT
1 AAAAATATATAATATATAGA-TTTTG
3797374 AAAAATATATAATATATATAGATTTTG
1 AAAAATATAT-A-ATATATAGATTTTG
3797401 AAAACATATTATAA
1 AAAA-ATA-TATAA
3797415 GTTTTAAAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 20
0.74 0.05 0.21
Matches are distributed among these distances:
22 23 0.33
23 14 0.20
24 6 0.09
25 4 0.06
27 15 0.21
28 5 0.07
29 3 0.04
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (25 bp):
AAAAATATATAATATATAGATTTTG
Found at i:3797425 original size:45 final size:46
Alignment explanation
Indices: 3797311--3797423 Score: 115
Period size: 46 Copynumber: 2.4 Consensus size: 46
3797301 AAAAAAATAT
* * * **
3797311 ATATAATATATAGTTTTGAAAA-ATATATAATATAGTTTTTGAAAGT
1 ATATTATATA-AGTTTTAAAAATATATATAATATAGATTTTGAAAAC
*
3797357 ATATTATATAATTTTTTAAAAATATATAATATATATAGATTTTGAAAAC
1 ATATTATATAA-GTTTTAAAAATATAT-ATA-ATATAGATTTTGAAAAC
3797406 ATA-T-TATAAGTTTTAAAA
1 ATATTATATAAGTTTTAAAA
3797424 TAATATTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
45 1 0.02
46 25 0.45
47 9 0.16
48 4 0.07
49 17 0.30
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (46 bp):
ATATTATATAAGTTTTAAAAATATATATAATATAGATTTTGAAAAC
Found at i:3797513 original size:2 final size:2
Alignment explanation
Indices: 3797508--3797558 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
3797498 TAGTTTTTGA
3797508 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
3797550 AT AT AT AT A
1 AT AT AT AT A
3797559 ATACATTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3797609 original size:20 final size:21
Alignment explanation
Indices: 3797574--3797613 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3797564 TTATTACTAC
3797574 TTTTGATTTTGATTTTTATTA
1 TTTTGATTTTGATTTTTATTA
*
3797595 TTTTGA-TTTGTTTTTTATT
1 TTTTGATTTTGATTTTTATT
3797614 TTTATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.75
Consensus pattern (21 bp):
TTTTGATTTTGATTTTTATTA
Found at i:3798853 original size:21 final size:21
Alignment explanation
Indices: 3798829--3798887 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
3798819 TTTGTTTGTA
3798829 TATTTCTTATTTTATTTTCAT
1 TATTTCTTATTTTATTTTCAT
**
3798850 TATTTAAT-TTTTA-TTTCAT
1 TATTTCTTATTTTATTTTCAT
*
3798869 T-TTATCTTACTATTATTTT
1 TATT-TCTTA-TTTTATTTT
3798888 GATCTTTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.07
19 9 0.31
20 5 0.17
21 10 0.34
22 3 0.10
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (21 bp):
TATTTCTTATTTTATTTTCAT
Found at i:3806379 original size:16 final size:16
Alignment explanation
Indices: 3806355--3806386 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3806345 TTCATTCAAG
3806355 ATTTCCATGACATTTA
1 ATTTCCATGACATTTA
*
3806371 ATTTTCATGACATTTA
1 ATTTCCATGACATTTA
3806387 GATAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTTCCATGACATTTA
Found at i:3816057 original size:28 final size:26
Alignment explanation
Indices: 3816014--3816116 Score: 95
Period size: 26 Copynumber: 3.8 Consensus size: 26
3816004 ATGTAATATG
*
3816014 TAGTTTTG-AAACTATATAGATAATAAA
1 TAGTTTTGAAAAATATATA-AT-ATAAA
*
3816041 TAGTTTTGAAAAATATATATTATATAA
1 TAGTTTTGAAAAATATATAATATA-AA
*
3816068 T--TTTTGAAAAAATATATAATATATA
1 TAGTTTTG-AAAAATATATAATATAAA
3816093 TAGTTTTTGAAAACATATTATAAT
1 TAG-TTTTGAAAA-ATA-TATAAT
3816117 TTTGAAAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
25 7 0.11
26 18 0.28
27 16 0.25
28 17 0.27
29 6 0.09
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.43
Consensus pattern (26 bp):
TAGTTTTGAAAAATATATAATATAAA
Found at i:3816078 original size:26 final size:28
Alignment explanation
Indices: 3816044--3816116 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
3816034 TAATAAATAG
3816044 TTTTG-AAAAATATAT-AT-TATATAAT
1 TTTTGAAAAAATATATAATATATATAAT
*
3816069 TTTTGAAAAAATATATAATATATATAGT
1 TTTTGAAAAAATATATAATATATATAAT
*
3816097 TTTTGAAAACATATTATAAT
1 TTTTGAAAAAATA-TATAAT
3816117 TTTGAAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.12
26 10 0.24
27 2 0.05
28 19 0.45
29 6 0.14
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (28 bp):
TTTTGAAAAAATATATAATATATATAAT
Found at i:3816127 original size:17 final size:17
Alignment explanation
Indices: 3816088--3816159 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
3816078 AATATATAAT
*
3816088 ATATATAGTTTTTGAAAA
1 ATATATAATTTTTG-AAA
3816106 CATATTATAA-TTTTGAAA
1 -ATA-TATAATTTTTGAAA
3816124 ATATATAATTTTTGAAA
1 ATATATAATTTTTGAAA
* *
3816141 ACATAGT-TTTTTTGAAA
1 ATATA-TAATTTTTGAAA
3816158 AT
1 AT
3816160 GTAATATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.11
17 25 0.54
18 4 0.09
19 8 0.17
20 4 0.09
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (17 bp):
ATATATAATTTTTGAAA
Found at i:3816217 original size:44 final size:43
Alignment explanation
Indices: 3816124--3816218 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 43
3816114 AATTTTGAAA
* * * *
3816124 ATATATAATTTTTGAAAACATAGTTTTTTTGAAAATGTAATAT
1 ATATATAATTTTTGAAAACATAGTGTTATTAAAAATATAATAT
* *
3816167 ATTATATAGTTTTTGAAAACATA-TAGTTATTAAAAATATCTATAT
1 A-TATATAATTTTTGAAAACATAGT-GTTATTAAAAATAT-AATAT
3816212 ATATATA
1 ATATATA
3816219 TACAATACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.05
44 36 0.84
45 5 0.12
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (43 bp):
ATATATAATTTTTGAAAACATAGTGTTATTAAAAATATAATAT
Found at i:3817613 original size:13 final size:13
Alignment explanation
Indices: 3817595--3817625 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
3817585 TTTCATTTTA
3817595 TTTTACTATTATT
1 TTTTACTATTATT
3817608 TTTTACTATTATT
1 TTTTACTATTATT
*
3817621 GTTTA
1 TTTTA
3817626 AAGGGGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTACTATTATT
Found at i:3820630 original size:55 final size:56
Alignment explanation
Indices: 3820561--3820667 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 56
3820551 TTGTTCTTTG
** * * * *
3820561 TTGTAATTTGCAAAACGTTTTGTC-TTTATTTTAATTTACAATAAGATTTATTTTA
1 TTGTAATTCACAAAAAGGTTTGTCATTTATTATAATTTACAAAAAGATTTATTTTA
*
3820616 TTGTAATTCACAAAAAGGTTTGTCATTTATTATAATTTACAAAAAGGTTTAT
1 TTGTAATTCACAAAAAGGTTTGTCATTTATTATAATTTACAAAAAGATTTAT
3820668 CCTCTAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 20 0.45
56 24 0.55
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (56 bp):
TTGTAATTCACAAAAAGGTTTGTCATTTATTATAATTTACAAAAAGATTTATTTTA
Found at i:3820651 original size:29 final size:28
Alignment explanation
Indices: 3820528--3820665 Score: 116
Period size: 29 Copynumber: 4.9 Consensus size: 28
3820518 AGTTTTTATT
* * * *
3820528 TTTATTATGATTTATATAAATGTTTGTTC
1 TTTATTATAATTTACAAAAAGGTTTG-TC
* * * * *
3820557 TTTGTTGTAATTTGCAAAACGTTTTGTC
1 TTTATTATAATTTACAAAAAGGTTTGTC
* * * *
3820585 TTTATTTTAATTTACAATAAGATTTAT-
1 TTTATTATAATTTACAAAAAGGTTTGTC
* *
3820612 TTTATTGTAATTCACAAAAAGGTTTGTC
1 TTTATTATAATTTACAAAAAGGTTTGTC
3820640 ATTTATTATAATTTACAAAAAGGTTT
1 -TTTATTATAATTTACAAAAAGGTTT
3820666 ATCCTCTAAT
Statistics
Matches: 84, Mismatches: 23, Indels: 4
0.76 0.21 0.04
Matches are distributed among these distances:
27 22 0.26
28 22 0.26
29 40 0.48
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.51
Consensus pattern (28 bp):
TTTATTATAATTTACAAAAAGGTTTGTC
Found at i:3820682 original size:29 final size:28
Alignment explanation
Indices: 3820495--3820668 Score: 107
Period size: 29 Copynumber: 6.1 Consensus size: 28
3820485 AAAAATTATA
* * * * *
3820495 TATCATTATTGTAATTTATAAGAAGTTTT
1 TATCTTTATTATAATTTACAAAAAG-GTT
* * * * *
3820524 TATTTTTATTATGATTTATATAAATGTT
1 TATCTTTATTATAATTTACAAAAAGGTT
* * * * * *
3820552 TGTTCTTTGTTGTAATTTGCAAAACGTTT
1 T-ATCTTTATTATAATTTACAAAAAGGTT
* * * *
3820581 TGTCTTTATTTTAATTTACAATAAGATT
1 TATCTTTATTATAATTTACAAAAAGGTT
* *
3820609 TAT-TTTATTGTAATTCACAAAAAGGTT
1 TATCTTTATTATAATTTACAAAAAGGTT
*
3820636 TGTCATTTATTATAATTTACAAAAAGGTT
1 TATC-TTTATTATAATTTACAAAAAGGTT
3820665 TATC
1 TATC
3820669 CTCTAATTTA
Statistics
Matches: 107, Mismatches: 35, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
27 22 0.21
28 25 0.23
29 60 0.56
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.51
Consensus pattern (28 bp):
TATCTTTATTATAATTTACAAAAAGGTT
Found at i:3823911 original size:13 final size:13
Alignment explanation
Indices: 3823893--3823917 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3823883 TATACATATT
3823893 TTTTTTAAACATA
1 TTTTTTAAACATA
3823906 TTTTTTAAACAT
1 TTTTTTAAACAT
3823918 TTATAAATCA
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:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTTAAACATA
Found at i:3837536 original size:61 final size:61
Alignment explanation
Indices: 3837429--3837543 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 61
3837419 ATAGTGCTAA
*
3837429 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACC
1 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
* * * * *
3837490 ACCTTCACTAAGCTTATGCTATAGTGCTAATCCGTACATGATACATAAGGTCGT
1 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGT
3837544 ATCCACCTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (61 bp):
ACCTGCACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTCGTGCCCACC
Found at i:3838532 original size:20 final size:20
Alignment explanation
Indices: 3838502--3838565 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
3838492 CAAGGTTTTG
* *
3838502 GTATTAATATTATTCTTGTA
1 GTATCAATATTATTCTTATA
** * *
3838522 GTATCGGTATTGTTCTTTTA
1 GTATCAATATTATTCTTATA
3838542 GTATCAATATTATTCTTATA
1 GTATCAATATTATTCTTATA
3838562 GTAT
1 GTAT
3838566 TGAAATTGTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.27, C:0.08, G:0.12, T:0.53
Consensus pattern (20 bp):
GTATCAATATTATTCTTATA
Found at i:3838574 original size:40 final size:40
Alignment explanation
Indices: 3838497--3838578 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
3838487 ATTTACAAGG
* * * **
3838497 TTTTGGTATTAATATTATTCTTGTAGTATCGGTATTGTTC
1 TTTTAGTATCAATATTATTCTTATAGTATCGAAATTGTTC
*
3838537 TTTTAGTATCAATATTATTCTTATAGTATTGAAATTGTTC
1 TTTTAGTATCAATATTATTCTTATAGTATCGAAATTGTTC
3838577 TT
1 TT
3838579 ATATATTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.24, C:0.07, G:0.13, T:0.55
Consensus pattern (40 bp):
TTTTAGTATCAATATTATTCTTATAGTATCGAAATTGTTC
Found at i:3838577 original size:20 final size:21
Alignment explanation
Indices: 3838502--3838585 Score: 70
Period size: 20 Copynumber: 4.2 Consensus size: 21
3838492 CAAGGTTTTG
* *
3838502 GTATT-AATATTATTCTTGTA
1 GTATTCAATATTGTTCTTATA
** *
3838522 GTA-TCGGTATTGTTCTTTTA
1 GTATTCAATATTGTTCTTATA
*
3838542 GTA-TCAATATTATTCTTATA
1 GTATTCAATATTGTTCTTATA
*
3838562 GTATTGAA-ATTGTTCTTATA
1 GTATTCAATATTGTTCTTATA
3838582 -TATT
1 GTATT
3838586 TTTACTATTC
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
19 5 0.10
20 44 0.85
21 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.12, T:0.54
Consensus pattern (21 bp):
GTATTCAATATTGTTCTTATA
Found at i:3841685 original size:16 final size:16
Alignment explanation
Indices: 3841656--3841688 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3841646 ATCTATATGA
3841656 ATATCATTTGCAAAAC
1 ATATCATTTGCAAAAC
3841672 ATATACATTT-CAAAAC
1 ATAT-CATTTGCAAAAC
3841688 A
1 A
3841689 ATTTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.30
Consensus pattern (16 bp):
ATATCATTTGCAAAAC
Found at i:3860989 original size:17 final size:17
Alignment explanation
Indices: 3860964--3861006 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
3860954 ACCTAGGGGC
* *
3860964 ATTTGGGACATTTTGTA
1 ATTTAGGACACTTTGTA
*
3860981 ATTTAGGACCCTTTGTA
1 ATTTAGGACACTTTGTA
3860998 ATTTAGGAC
1 ATTTAGGAC
3861007 CCCTTTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (17 bp):
ATTTAGGACACTTTGTA
Found at i:3861012 original size:18 final size:17
Alignment explanation
Indices: 3860975--3861008 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3860965 TTTGGGACAT
3860975 TTTGTAATTTAGGACCC
1 TTTGTAATTTAGGACCC
3860992 TTTGTAATTTAGGACCC
1 TTTGTAATTTAGGACCC
3861009 CTTTCTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTGTAATTTAGGACCC
Found at i:3862659 original size:59 final size:59
Alignment explanation
Indices: 3862588--3862923 Score: 464
Period size: 59 Copynumber: 5.7 Consensus size: 59
3862578 TATATTTCTC
* * *
3862588 ATACTGAAATTCATACGCTTAGTATGAATTTCTTAACAGTTTTGCACACAAAGAGCCCA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGAGCCCA
* * *
3862647 ATAC-GAAAATTCATACACTTAGCATGAACTTCTTAACATTTTTGCACACAAAGTA-ACCA
1 ATACAG-AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAG-AGCCCA
* *
3862706 A-ACAGAAATTCATACACTTAGTATGAATTTTTTAACATTTTTGCACACAAAGTGCCCA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGAGCCCA
* * *
3862764 ATACAGAAATTCATACACTTAATATGAATTTCTTAACACTTTTGCACACAAA-ATGCCTA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGA-GCCCA
* * *
3862823 ATACAAAAATTTATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGAGCCCA
* * *
3862882 ATACAGAAATTCATACACTTCGTATGACTTTGTTAACATTTT
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTT
3862924 GAACACTTAT
Statistics
Matches: 244, Mismatches: 26, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
58 51 0.21
59 192 0.79
60 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (59 bp):
ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGAGCCCA
Found at i:3862727 original size:117 final size:118
Alignment explanation
Indices: 3862588--3862923 Score: 482
Period size: 117 Copynumber: 2.9 Consensus size: 118
3862578 TATATTTCTC
* * * *
3862588 ATACTGAAATTCATACGCTTAGTATGAATTTCTTAACAGTTTTGCACACAAAGAGCCCAATAC-G
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAG
* *
3862652 AAAATTCATACACTTAGCATGAACTTCTTAACATTTTTGCACACAAAGTAACC-A
66 -AAATTCATACACTTAGTATGAACTTCTTAACATTTTTGCACACAAAAT-ACCTA
*
3862706 A-ACAGAAATTCATACACTTAGTATGAATTTTTTAACATTTTTGCACACAAAGTGCCCAATACAG
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAG
* * * *
3862770 AAATTCATACACTTAATATGAATTTCTTAACACTTTTGCACACAAAATGCCTA
66 AAATTCATACACTTAGTATGAACTTCTTAACATTTTTGCACACAAAATACCTA
* *
3862823 ATACAAAAATTTATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAG
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAG
* *
3862888 AAATTCATACACTTCGTATG-ACTTTGTTAACATTTT
66 AAATTCATACACTTAGTATGAAC-TTCTTAACATTTT
3862924 GAACACTTAT
Statistics
Matches: 195, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
116 2 0.01
117 102 0.52
118 91 0.47
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (118 bp):
ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAG
AAATTCATACACTTAGTATGAACTTCTTAACATTTTTGCACACAAAATACCTA
Found at i:3863286 original size:19 final size:19
Alignment explanation
Indices: 3863259--3863329 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
3863249 TAGCTCTTCA
*
3863259 GTATCGATACCCTACCATG
1 GTATCGATACCCTACTATG
*
3863278 GTATTGATACTACCATACTATG
1 GTATCGATAC--CC-TACTATG
* *
3863300 GTACCAATACCCTACTATG
1 GTATCGATACCCTACTATG
3863319 GTATCGATACC
1 GTATCGATACC
3863330 ATTTTTGCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
19 25 0.60
20 2 0.05
21 2 0.05
22 13 0.31
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACCCTACTATG
Found at i:3868869 original size:19 final size:20
Alignment explanation
Indices: 3868811--3868880 Score: 97
Period size: 19 Copynumber: 3.5 Consensus size: 20
3868801 GACTCTTCAA
* *
3868811 TATCGATACCCCTACCATGG
1 TATCGATACTCCTACTATGG
3868831 TATCGATACTACCATACTATGG
1 TATCGATACT-CC-TACTATGG
3868853 TATCGATA-TCCTACTATGG
1 TATCGATACTCCTACTATGG
3868872 TATCGATAC
1 TATCGATAC
3868881 CATTTTTGCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
19 16 0.36
20 11 0.24
21 3 0.07
22 15 0.33
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (20 bp):
TATCGATACTCCTACTATGG
Found at i:3875586 original size:16 final size:16
Alignment explanation
Indices: 3875557--3875589 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3875547 ATCTATACGA
3875557 ATATCATTTGCAAAAC
1 ATATCATTTGCAAAAC
3875573 ATATACATTT-CAAAAC
1 ATAT-CATTTGCAAAAC
3875589 A
1 A
3875590 ATTGTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.30
Consensus pattern (16 bp):
ATATCATTTGCAAAAC
Found at i:3878590 original size:21 final size:22
Alignment explanation
Indices: 3878537--3878591 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
3878527 AGGACTTTAT
* *
3878537 TTAAATTAATTAAATTATCAAAC
1 TTAAA-TATTTAAATTATCAAAA
*
3878560 CTAAAT-TTTAAATT-TCAAAA
1 TTAAATATTTAAATTATCAAAA
3878580 TTAAATATTTAA
1 TTAAATATTTAA
3878592 TAACTGAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 10 0.37
21 12 0.44
22 1 0.04
23 4 0.15
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAATATTTAAATTATCAAAA
Found at i:3902250 original size:37 final size:37
Alignment explanation
Indices: 3902197--3902301 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
3902187 CATTTTCGTC
*
3902197 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
3902234 TTGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * * *
3902271 CTACTATGATATAAACTCCGAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
3902302 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:3902747 original size:2 final size:2
Alignment explanation
Indices: 3902740--3902772 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3902730 TAATTAGTTT
*
3902740 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3902773 TTGCTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3902895 original size:12 final size:12
Alignment explanation
Indices: 3902854--3902896 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
3902844 CTTTGCATTT
*
3902854 TTATTATTACTA
1 TTATTTTTACTA
* *
3902866 TTATATTTATTA
1 TTATTTTTACTA
3902878 TTATTTTTACTA
1 TTATTTTTACTA
3902890 TTATTTT
1 TTATTTT
3902897 CCTTTTATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTTTACTA
Found at i:3902954 original size:25 final size:26
Alignment explanation
Indices: 3902911--3902959 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
3902901 TTATTCTACT
3902911 TATTTATATTATATGTATATTTTTTA
1 TATTTATATTATATGTATATTTTTTA
3902937 TATTT-TATTATTAT-TATATTTTT
1 TATTTATATTA-TATGTATATTTTT
3902960 ACTTTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TATTTATATTATATGTATATTTTTTA
Found at i:3902999 original size:12 final size:11
Alignment explanation
Indices: 3902969--3903015 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
3902959 TACTTTCTCT
*
3902969 TTCTTTTATTA
1 TTCTTGTATTA
3902980 TTCTTGTATTA
1 TTCTTGTATTA
3902991 TTACTTGTATTA
1 TT-CTTGTATTA
* *
3903003 TTTTTATATTA
1 TTCTTGTATTA
3903014 TT
1 TT
3903016 ATTTTGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.21, C:0.06, G:0.04, T:0.68
Consensus pattern (11 bp):
TTCTTGTATTA
Found at i:3903000 original size:72 final size:74
Alignment explanation
Indices: 3902864--3903027 Score: 178
Period size: 72 Copynumber: 2.2 Consensus size: 74
3902854 TTATTATTAC
* *
3902864 TATTATATTTATTATTATTTTTACTATTATTTTCCTTTTATTCTACTTATTTATATTATATGTA-
1 TATTAT-TTTATTA-TATTTTTACTATTATTTTCCTTTTATTATACTTATATATATTATATGTAT
3902928 TATTTTTTATAT
64 TA-TTTTTATAT
* * *
3902940 T-TTATTATTATTATATTTTTACT-TTCTCTTT-CTTTTATTATTCTTGTAT-TATTACT-TGTA
1 TATTATT-TTATTATATTTTTACTATTAT-TTTCCTTTTATTATACTTATATATATTA-TATGTA
3903000 TTATTTTTATAT
63 TTATTTTTATAT
*
3903012 TATTATTTTGTTATAT
1 TATTATTTTATTATAT
3903028 ATATATATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 14
0.79 0.06 0.14
Matches are distributed among these distances:
72 27 0.35
73 25 0.32
74 14 0.18
75 10 0.13
76 1 0.01
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (74 bp):
TATTATTTTATTATATTTTTACTATTATTTTCCTTTTATTATACTTATATATATTATATGTATTA
TTTTTATAT
Found at i:3903242 original size:2 final size:2
Alignment explanation
Indices: 3903237--3903273 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
3903227 ATTTTACTAT
3903237 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3903274 CTACACAAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3904273 original size:2 final size:2
Alignment explanation
Indices: 3904266--3904296 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3904256 AAATGAGTAG
3904266 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3904297 TATTTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3908868 original size:27 final size:27
Alignment explanation
Indices: 3908838--3908904 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
3908828 GTAAACTGAG
3908838 GAAAGTTTA-AAATTTAATTGAAAA-TAA
1 GAAA-TTTATAAATTTAATT-AAAACTAA
**
3908865 GAAATTTATTTATTTAATTAAAACTAA
1 GAAATTTATAAATTTAATTAAAACTAA
*
3908892 GAAATATATAAAT
1 GAAATTTATAAAT
3908905 CAAGAGTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
26 8 0.24
27 25 0.76
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (27 bp):
GAAATTTATAAATTTAATTAAAACTAA
Found at i:3909925 original size:21 final size:21
Alignment explanation
Indices: 3909899--3909951 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
3909889 TATATAAAAT
*
3909899 CCGGTTCAACCGCGGTTGAAC
1 CCGGTTGAACCGCGGTTGAAC
3909920 CCGGTTGAACCGCGGTTGAAC
1 CCGGTTGAACCGCGGTTGAAC
3909941 CCGGTTGAACC
1 CCGGTTGAACC
3909952 AGTGAACCAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (21 bp):
CCGGTTGAACCGCGGTTGAAC
Found at i:3909926 original size:10 final size:10
Alignment explanation
Indices: 3909899--3909951 Score: 79
Period size: 10 Copynumber: 5.1 Consensus size: 10
3909889 TATATAAAAT
*
3909899 CCGGTTCAAC
1 CCGGTTGAAC
3909909 CGCGGTTGAAC
1 C-CGGTTGAAC
3909920 CCGGTTGAAC
1 CCGGTTGAAC
3909930 CGCGGTTGAAC
1 C-CGGTTGAAC
3909941 CCGGTTGAAC
1 CCGGTTGAAC
3909951 C
1 C
3909952 AGTGAACCAG
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
10 21 0.52
11 19 0.47
ACGTcount: A:0.19, C:0.32, G:0.30, T:0.19
Consensus pattern (10 bp):
CCGGTTGAAC
Found at i:3912810 original size:20 final size:20
Alignment explanation
Indices: 3912785--3912832 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
3912775 GCAAGTTACG
3912785 AGGGAGAAAGATGAAGATGT
1 AGGGAGAAAGATGAAGATGT
*
3912805 AGGGAGAAAGATGAAGGTGT
1 AGGGAGAAAGATGAAGATGT
3912825 AGGGAGAA
1 AGGGAGAA
3912833 GAAGAAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (20 bp):
AGGGAGAAAGATGAAGATGT
Found at i:3918024 original size:21 final size:21
Alignment explanation
Indices: 3917998--3918039 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3917988 ACATAAGGAC
3917998 TAAAATGAAT-AAGTAAAAAGT
1 TAAAATGAATGAA-TAAAAAGT
*
3918019 TAAAATGCATGAATAAAAAGT
1 TAAAATGAATGAATAAAAAGT
3918040 ATAGTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
TAAAATGAATGAATAAAAAGT
Found at i:3924087 original size:14 final size:14
Alignment explanation
Indices: 3924068--3924095 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3924058 GAAAAGAAGC
3924068 TATGTGATACGTGA
1 TATGTGATACGTGA
3924082 TATGTGATACGTGA
1 TATGTGATACGTGA
3924096 ATTACAAGTT
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:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:3924466 original size:149 final size:149
Alignment explanation
Indices: 3924196--3924510 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
3924186 GAGTCGAGGG
* *
3924196 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
3924261 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
*
3924326 TATGGCACTACGGTGTAAT
131 TATGGCACTACGGTGCAAT
*
3924345 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
**
3924410 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTTTTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
3924475 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
3924494 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
3924511 TGCAATTATA
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:3924511 original size:23 final size:23
Alignment explanation
Indices: 3924478--3924522 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3924468 ATTTTTATAT
*
3924478 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
3924501 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
3924523 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:3927831 original size:21 final size:21
Alignment explanation
Indices: 3927797--3927841 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3927787 GATTTCTGGG
* *
3927797 CAAGGGGAATCGGTACCCATT
1 CAAGGAGAACCGGTACCCATT
*
3927818 CAAGGAGAACCGGTACCCCTT
1 CAAGGAGAACCGGTACCCATT
3927839 CAA
1 CAA
3927842 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGAGAACCGGTACCCATT
Found at i:3929239 original size:14 final size:14
Alignment explanation
Indices: 3929220--3929247 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3929210 GAAAAGAAGC
3929220 TATGTGATACGTGA
1 TATGTGATACGTGA
3929234 TATGTGATACGTGA
1 TATGTGATACGTGA
3929248 ATTACAAGTT
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:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TATGTGATACGTGA
Found at i:3929618 original size:149 final size:149
Alignment explanation
Indices: 3929348--3929662 Score: 569
Period size: 149 Copynumber: 2.1 Consensus size: 149
3929338 GAGTCGAGGG
* *
3929348 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
3929413 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
3929478 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
3929497 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
**
3929562 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTTTTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
3929627 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
3929646 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
3929663 TGCAATTATA
Statistics
Matches: 160, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 1 0.01
149 159 0.99
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:3929663 original size:23 final size:23
Alignment explanation
Indices: 3929630--3929674 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
3929620 ATTTTTATAT
*
3929630 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
3929653 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
3929675 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:3932814 original size:11 final size:11
Alignment explanation
Indices: 3932798--3932825 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
3932788 AAGGTATGTT
3932798 AAAAAAAACAA
1 AAAAAAAACAA
3932809 AAAAAAAACAA
1 AAAAAAAACAA
3932820 AAAAAA
1 AAAAAA
3932826 GGAAATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:3935182 original size:17 final size:19
Alignment explanation
Indices: 3935152--3935192 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 19
3935142 AATTTTGACA
3935152 TTAATTTAATTTAATAAAT
1 TTAATTTAATTTAATAAAT
3935171 TTAATTT-A-TTAATAAAT
1 TTAATTTAATTTAATAAAT
3935188 TTAAT
1 TTAAT
3935193 CCTCCAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.64
18 1 0.05
19 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTAATTTAATTTAATAAAT
Found at i:3935487 original size:2 final size:2
Alignment explanation
Indices: 3935480--3935526 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3935470 GAAATACATA
3935480 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
3935522 AT AT A
1 AT AT A
3935527 CTTGAGTTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3938606 original size:54 final size:54
Alignment explanation
Indices: 3938548--3938800 Score: 328
Period size: 54 Copynumber: 4.7 Consensus size: 54
3938538 ACCGTATCTC
* *
3938548 CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAAATACCGTATCGG
1 CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATCGG
* *
3938602 CACTATGTGTGTAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATTGAG
1 CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATCG-G
* * **
3938657 -ACTATTTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACAATATCAA
1 CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATCGG
* * **
3938710 CACTATGTGTGTAACCCACGTAATTCATAATGAGTTTGTGAATTACTATATCAA
1 CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATCGG
* * * * *
3938764 CATTATGTGTACAAAGCCACGAAATTTATAATGAGTT
1 CACTATGTGTGC-AACCCACGTAATTCATAATGAGTT
3938801 AAAATATTCA
Statistics
Matches: 177, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
54 155 0.88
55 22 0.12
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (54 bp):
CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCATATCGG
Found at i:3938724 original size:108 final size:108
Alignment explanation
Indices: 3938549--3938760 Score: 361
Period size: 108 Copynumber: 2.0 Consensus size: 108
3938539 CCGTATCTCC
** **
3938549 ACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAAATACCGTATCGGCACTATGTGTGT
1 ACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAAATACAATATCAACACTATGTGTGT
3938614 AACCCACGTAATTCATAATGAGTTTGTGAATTACCATATTGAG
66 AACCCACGTAATTCATAATGAGTTTGTGAATTACCATATTGAG
* *
3938657 ACTATTTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACAATATCAACACTATGTGTGT
1 ACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAAATACAATATCAACACTATGTGTGT
*
3938722 AACCCACGTAATTCATAATGAGTTTGTGAATTACTATAT
66 AACCCACGTAATTCATAATGAGTTTGTGAATTACCATAT
3938761 CAACATTATG
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 97 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (108 bp):
ACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAAATACAATATCAACACTATGTGTGT
AACCCACGTAATTCATAATGAGTTTGTGAATTACCATATTGAG
Found at i:3944290 original size:20 final size:21
Alignment explanation
Indices: 3944239--3944290 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 21
3944229 ATACGAAGTG
* *
3944239 GGTATCGGTACCATAGGAAATA
1 GGTATCGATACCATAGG-AAGA
* *
3944261 AGTATGGATACCATAGG-AGA
1 GGTATCGATACCATAGGAAGA
3944281 GGTATCGATA
1 GGTATCGATA
3944291 TTATTCAGTC
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 10 0.42
22 14 0.58
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.23
Consensus pattern (21 bp):
GGTATCGATACCATAGGAAGA
Found at i:3944666 original size:54 final size:54
Alignment explanation
Indices: 3944595--3944863 Score: 322
Period size: 54 Copynumber: 5.0 Consensus size: 54
3944585 ATGTATATGT
* * * *
3944595 TGAATTACCATATCGACACTATGTGTGCGATCCACGTAATTCATAATGAGTTTA
1 TGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTG
* * * * *
3944649 TAAATTACCGTACCGACATTATGTGTGCAACCCATGTAATTAATAATGAGTTTG
1 TGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTG
*
3944703 TGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTG
1 TGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTG
* * * ** * * * *
3944757 TGAATTACTGTATTGGCGTTATGTGTACAACCCACGTAATTCATGATAAATTTG
1 TGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTG
* * * *
3944811 TGAATTACCGTATCGACACTGTGTGTGCAAAACCACGAAATTTATAATGAGTT
1 TGAATTACCGTATCGACACTATGTGTGC-AACCCACGTAATTCATAATGAGTT
3944864 GAAATATTCA
Statistics
Matches: 178, Mismatches: 36, Indels: 1
0.83 0.17 0.00
Matches are distributed among these distances:
54 160 0.90
55 18 0.10
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (54 bp):
TGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTG
Found at i:3970188 original size:16 final size:16
Alignment explanation
Indices: 3970169--3970229 Score: 52
Period size: 16 Copynumber: 3.5 Consensus size: 16
3970159 CAATAGTTAA
3970169 TATATGTAAATTATAG
1 TATATGTAAATTATAG
3970185 TATATGTATACATGTAAACTA-
1 TATATGTA-A-AT-T--A-TAG
*
3970206 TATATGTAACTTATAG
1 TATATGTAAATTATAG
3970222 TATATGTA
1 TATATGTA
3970230 TGTATAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
15 2 0.05
16 17 0.46
17 1 0.03
18 3 0.08
19 2 0.05
20 1 0.03
21 9 0.24
22 2 0.05
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (16 bp):
TATATGTAAATTATAG
Found at i:3970238 original size:35 final size:36
Alignment explanation
Indices: 3970168--3970241 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 36
3970158 ACAATAGTTA
*
3970168 ATATATGTAAATTATAGTATATGTATACATGTAAACT
1 ATATATGTAAATTATAGTATATGTATA-ATATAAACT
* *
3970205 ATATATGTAACTTATAGTATATGTAT-GTATAAACT
1 ATATATGTAAATTATAGTATATGTATAATATAAACT
3970240 AT
1 AT
3970242 GTATAGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 9 0.26
37 25 0.74
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (36 bp):
ATATATGTAAATTATAGTATATGTATAATATAAACT
Found at i:3970250 original size:20 final size:20
Alignment explanation
Indices: 3970180--3970326 Score: 97
Period size: 20 Copynumber: 7.2 Consensus size: 20
3970170 ATATGTAAAT
* *
3970180 TATAGTATATGTATAC-ATG
1 TATAGTATATATAAACTATG
* * *
3970199 TAAACTATATATGTAACTTATAG
1 TATAGTATATAT-AAAC-TAT-G
*
3970222 TATATGTATGTATAAACTATG
1 TATA-GTATATATAAACTATG
*
3970243 TATAGTATATATTAACTATG
1 TATAGTATATATAAACTATG
*
3970263 --TA-TATATATAACCTATAG
1 TATAGTATATATAAACTAT-G
*
3970281 TATAGTATATATACAATCTATT
1 TATAGTATATATA-AA-CTATG
*
3970303 TATATGT-TATATAAACTATA
1 TATA-GTATATATAAACTATG
3970323 TATA
1 TATA
3970327 TAACCTATAG
Statistics
Matches: 100, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
17 12 0.12
18 3 0.03
19 9 0.09
20 26 0.26
21 15 0.15
22 16 0.16
23 13 0.13
24 6 0.06
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (20 bp):
TATAGTATATATAAACTATG
Found at i:3970270 original size:17 final size:19
Alignment explanation
Indices: 3970248--3970290 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
3970238 CTATGTATAG
3970248 TATATATTAA-CTAT-GTA
1 TATATATTAACCTATAGTA
3970265 TATATA-TAACCTATAGTA
1 TATATATTAACCTATAGTA
3970283 TAGTATAT
1 TA-TATAT
3970291 ATACAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 5 0.23
19 4 0.18
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (19 bp):
TATATATTAACCTATAGTA
Found at i:3970307 original size:36 final size:37
Alignment explanation
Indices: 3970232--3970307 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
3970222 TATATGTATG
* *
3970232 TATAAACTATGTATAGTATATATTAACTATGTATATA
1 TATAAACTATGTATAGTATATATTAACAATCTATATA
* *
3970269 TATAACCTATAGTATAGTATATA-T-ACAATCTATTTA
1 TATAAACTAT-GTATAGTATATATTAACAATCTATATA
3970305 TAT
1 TAT
3970308 GTTATATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 12 0.35
37 10 0.29
38 12 0.35
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (37 bp):
TATAAACTATGTATAGTATATATTAACAATCTATATA
Found at i:3970307 original size:38 final size:37
Alignment explanation
Indices: 3970232--3970326 Score: 100
Period size: 38 Copynumber: 2.4 Consensus size: 37
3970222 TATATGTATG
*
3970232 TATAAACTATGTATAGTATATATTAACTATGTATATA
1 TATAAACTATGTATAGTATATATCAACTATGTATATA
* *
3970269 TATAACCTATAGTATAGTATATATACAATCTATTTATATGTTA
1 TATAAACTAT-GTATAGTATATAT-CAA-CTATGTATA---TA
*
3970312 TATAAACTATATATA
1 TATAAACTATGTATA
3970327 TAACCTATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
37 9 0.19
38 13 0.28
39 2 0.04
40 8 0.17
42 4 0.09
43 11 0.23
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (37 bp):
TATAAACTATGTATAGTATATATCAACTATGTATATA
Found at i:3970391 original size:21 final size:21
Alignment explanation
Indices: 3970365--3970417 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
3970355 TATTGTACTA
* *
3970365 TATAGTTTATACGTTATAACC
1 TATAGTTTATAAGTTATAAAC
* *
3970386 TATAGTATATAATTTATAAAC
1 TATAGTTTATAAGTTATAAAC
3970407 TATAGTTTATA
1 TATAGTTTATA
3970418 TTAATGTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (21 bp):
TATAGTTTATAAGTTATAAAC
Found at i:3970506 original size:34 final size:33
Alignment explanation
Indices: 3970457--3970615 Score: 129
Period size: 34 Copynumber: 4.9 Consensus size: 33
3970447 TAATTATCTT
* **
3970457 AACTATAATTTATATTAATATAGTATATAGTTTATA
1 AACTAT-A-TTATATTAATATAAT-TATAAATTATA
3970493 AACTATATTATATTAATATTAATTATAAATTATA
1 AACTATATTATATTAATA-TAATTATAAATTATA
*
3970527 AACTATATTATATTAATATAAGTTA-ATATTA-A
1 AACTATATTATATTAATATAA-TTATAAATTATA
* *
3970559 TATTA-ATTATATTAATATTAATTAT-AA-TATA
1 AACTATATTATATTAATA-TAATTATAAATTATA
*
3970590 TAA-T-TATTATAAT-AT-TAATTATAAAT
1 -AACTATATTATATTAATATAATTATAAAT
3970616 AGTTAATTAA
Statistics
Matches: 105, Mismatches: 9, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
28 7 0.07
29 2 0.02
30 4 0.04
31 25 0.24
32 8 0.08
33 8 0.08
34 41 0.39
35 4 0.04
36 6 0.06
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (33 bp):
AACTATATTATATTAATATAATTATAAATTATA
Found at i:3970513 original size:6 final size:6
Alignment explanation
Indices: 3970497--3970622 Score: 59
Period size: 6 Copynumber: 20.3 Consensus size: 6
3970487 TTTATAAACT
* * *
3970497 ATATT- ATATTA ATATTA ATTATAA ATTATAA ACTATATT ATATTA ATA-TA
1 ATATTA ATATTA ATATTA A-TATTA A-TATTA A-TAT-TA ATATTA ATATTA
*
3970547 A-GTTA ATATTA ATATT- A-ATT- ATATTA ATATTA AT-TATA ATATATA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATAT-TA ATAT-TA
*
3970592 ATTATTATA ATATTA ATTATAA ATAGTTA AT
1 A-TA-T-TA ATATTA A-TATTA ATA-TTA AT
3970623 TAATAAAAAT
Statistics
Matches: 99, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.04
5 16 0.16
6 36 0.36
7 33 0.33
8 5 0.05
9 5 0.05
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:3970519 original size:27 final size:26
Alignment explanation
Indices: 3970488--3970569 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
3970478 AGTATATAGT
3970488 TTATAAACTATATTATATTAATATTAA
1 TTATAAACTATA-TATATTAATATTAA
*
3970515 TTATAAATTATAAACTATATT-ATATTAA
1 TTATAAACTAT--A-TATATTAATATTAA
*
3970543 -TAT-AAGT-TA-ATATTAATATTAA
1 TTATAAACTATATATATTAATATTAA
3970565 TTATA
1 TTATA
3970570 TTAATATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
21 5 0.11
22 7 0.15
23 4 0.09
25 1 0.02
26 3 0.06
27 13 0.28
28 7 0.15
29 7 0.15
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (26 bp):
TTATAAACTATATATATTAATATTAA
Found at i:3970557 original size:16 final size:14
Alignment explanation
Indices: 3970435--3970612 Score: 104
Period size: 15 Copynumber: 12.4 Consensus size: 14
3970425 ACTATATAGT
*
3970435 TTATATTAATGTTAA
1 TTATATTAAT-ATAA
*
3970450 TTATCTTAACTATAA
1 TTATATTAA-TATAA
*
3970465 TTTATATTAATATAG
1 -TTATATTAATATAA
*
3970480 TATATAGTTTATA-AA
1 T-TATA-TTAATATAA
*
3970495 CTATATT-ATAT--
1 TTATATTAATATAA
*
3970506 TAATATTAATTATAAA
1 TTATATTAA-TAT-AA
3970522 TTATA--AACTAT-A
1 TTATATTAA-TATAA
3970534 TTATATTAATATAA
1 TTATATTAATATAA
3970548 GTTAATATTAATATTAA
1 -TT-ATATTAATA-TAA
3970565 TTATATTAATATTAA
1 TTATATTAATA-TAA
*
3970580 TTATAAT-ATATAA
1 TTATATTAATATAA
3970593 TTAT-TATAATATTAA
1 TTATAT-TAATA-TAA
3970608 TTATA
1 TTATA
3970613 AATAGTTAAT
Statistics
Matches: 130, Mismatches: 13, Indels: 39
0.71 0.07 0.21
Matches are distributed among these distances:
11 5 0.04
12 10 0.08
13 16 0.12
14 19 0.15
15 48 0.37
16 29 0.22
17 3 0.02
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (14 bp):
TTATATTAATATAA
Found at i:3970557 original size:21 final size:20
Alignment explanation
Indices: 3970499--3970612 Score: 72
Period size: 21 Copynumber: 5.3 Consensus size: 20
3970489 TATAAACTAT
*
3970499 ATTATATTAATATTAATTATAA
1 ATTATATTAATATT-A-TATTA
*
3970521 ATTATA-AACTATATTATATTA
1 ATTATATTA--ATATTATATTA
3970542 A-TATAAGTTAATATTAATATTA
1 ATTAT-A-TTAATATT-ATATTA
3970564 ATTATATTAATATTA-ATTATA
1 ATTATATTAATATTATA-T-TA
* *
3970585 ATATATAATTATTATAATATTA
1 AT-TAT-ATTAATATTATATTA
3970607 ATTATA
1 ATTATA
3970613 AATAGTTAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 26
0.71 0.05 0.25
Matches are distributed among these distances:
19 1 0.01
20 6 0.08
21 27 0.36
22 22 0.29
23 18 0.24
24 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
ATTATATTAATATTATATTA
Found at i:3970587 original size:43 final size:42
Alignment explanation
Indices: 3970504--3970624 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 42
3970494 ACTATATTAT
* *
3970504 ATTAATATTAATTATAAATTATAAACTA--T-ATTATATTAATATA
1 ATTAATA-TAA-TATTAATTATAAA-TAGTTAATTATAAT-ATATA
3970547 AGTTAATATTAATATTAATTATATTAATA-TTAATTATAATATATA
1 A-TTAATA-TAATATTAATTATA--AATAGTTAATTATAATATATA
*
3970592 ATTATTATAATATTAATTATAAATAGTTAATTA
1 ATTAATATAATATTAATTATAAATAGTTAATTA
3970625 ATAAAAATTA
Statistics
Matches: 69, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
41 4 0.06
42 7 0.10
43 25 0.36
44 17 0.25
45 9 0.13
46 7 0.10
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (42 bp):
ATTAATATAATATTAATTATAAATAGTTAATTATAATATATA
Found at i:3970610 original size:15 final size:14
Alignment explanation
Indices: 3970499--3970628 Score: 93
Period size: 14 Copynumber: 9.6 Consensus size: 14
3970489 TATAAACTAT
3970499 ATTATATTAATATTA
1 ATTATA-TAATATTA
*
3970514 ATTATA-AATTATAA
1 ATTATATAA-TATTA
* *
3970528 ACTATATTATATT-
1 ATTATATAATATTA
*
3970541 A--ATATAA-GTTA
1 ATTATATAATATTA
3970552 A-TAT-TAATATTA
1 ATTATATAATATTA
3970564 ATTATATTAATATTA
1 ATTATA-TAATATTA
3970579 A-T-TATAATATATA
1 ATTATATAATAT-TA
3970592 ATTATTATAATATTA
1 ATTA-TATAATATTA
3970607 ATTATA-AATAGTTA
1 ATTATATAATA-TTA
3970621 ATTA-ATAA
1 ATTATATAA
3970629 AAATTATATA
Statistics
Matches: 94, Mismatches: 7, Indels: 29
0.72 0.05 0.22
Matches are distributed among these distances:
10 2 0.02
11 9 0.10
12 12 0.13
13 16 0.17
14 25 0.27
15 22 0.23
16 8 0.09
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (14 bp):
ATTATATAATATTA
Found at i:3970629 original size:15 final size:14
Alignment explanation
Indices: 3970557--3970634 Score: 72
Period size: 15 Copynumber: 5.5 Consensus size: 14
3970547 AGTTAATATT
*
3970557 AATATTAATTATATT
1 AATATTAATTA-ATA
3970572 AATATTAATT-AT-
1 AATATTAATTAATA
*
3970584 AATATATAATTATTA
1 AATAT-TAATTAATA
3970599 TAATATTAATT-ATA
1 -AATATTAATTAATA
3970613 AATAGTTAATTAATA
1 AATA-TTAATTAATA
*
3970628 AAAATTA
1 AATATTA
3970635 TATAGGGATG
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
12 5 0.09
13 11 0.20
14 12 0.22
15 21 0.39
16 5 0.09
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (14 bp):
AATATTAATTAATA
Found at i:3971334 original size:6 final size:6
Alignment explanation
Indices: 3971323--3971389 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
3971313 AACCCTAACT
* * * * *
3971323 TGAACC TGAACC TAGAACC CGAACC CGAACC CGAACC TGATCT TGAACC
1 TGAACC TGAACC T-GAACC TGAACC TGAACC TGAACC TGAACC TGAACC
* *
3971372 TAAACC CGAACC TGAACC
1 TGAACC TGAACC TGAACC
3971390 CAAATCCGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
6 45 0.90
7 5 0.10
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.13
Consensus pattern (6 bp):
TGAACC
Found at i:3971354 original size:12 final size:12
Alignment explanation
Indices: 3971337--3971414 Score: 57
Period size: 12 Copynumber: 6.5 Consensus size: 12
3971327 CCTGAACCTA
3971337 GAACCCGAACCC
1 GAACCCGAACCC
*
3971349 GAACCCGAACCT
1 GAACCCGAACCC
* ** *
3971361 GATCTTGAACCT
1 GAACCCGAACCC
* *
3971373 AAACCCGAACCT
1 GAACCCGAACCC
* *
3971385 GAACCCAAATCC
1 GAACCCGAACCC
*
3971397 GAACCCAAACCC
1 GAACCCGAACCC
*
3971409 AAACCC
1 GAACCC
3971415 AAAACTCAAA
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.37, C:0.42, G:0.12, T:0.09
Consensus pattern (12 bp):
GAACCCGAACCC
Found at i:3971387 original size:18 final size:18
Alignment explanation
Indices: 3971324--3971433 Score: 85
Period size: 18 Copynumber: 6.0 Consensus size: 18
3971314 ACCCTAACTT
*
3971324 GAACCTGAACCTAGAACCC
1 GAACCTGAACCCA-AACCC
* * *
3971343 GAACCCGAACCCGAACCT
1 GAACCTGAACCCAAACCC
* * *
3971361 GATCTTGAACCTAAACCC
1 GAACCTGAACCCAAACCC
*
3971379 GAACCTGAACCCAAATCC
1 GAACCTGAACCCAAACCC
**
3971397 GAACCCAAACCCAAACCC
1 GAACCTGAACCCAAACCC
* * *
3971415 AAAACTCAAACCCAAACCC
1 GAACCT-GAACCCAAACCC
3971434 TAACTTGAAT
Statistics
Matches: 70, Mismatches: 20, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
18 48 0.69
19 22 0.31
ACGTcount: A:0.40, C:0.41, G:0.10, T:0.09
Consensus pattern (18 bp):
GAACCTGAACCCAAACCC
Found at i:3971407 original size:6 final size:6
Alignment explanation
Indices: 3971386--3971433 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
3971376 CCCGAACCTG
* * *
3971386 AACCCA AATCCG AACCCA AACCCA AACCCAA AACTCA AACCCA AACCC
1 AACCCA AACCCA AACCCA AACCCA AACCC-A AACCCA AACCCA AACCC
3971434 TAACTTGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.48, C:0.46, G:0.02, T:0.04
Consensus pattern (6 bp):
AACCCA
Found at i:3971424 original size:13 final size:13
Alignment explanation
Indices: 3971398--3971430 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3971388 CCCAAATCCG
3971398 AACCC-AAACCCA
1 AACCCAAAACCCA
*
3971410 AACCCAAAACTCA
1 AACCCAAAACCCA
3971423 AACCCAAA
1 AACCCAAA
3971431 CCCTAACTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.55, C:0.42, G:0.00, T:0.03
Consensus pattern (13 bp):
AACCCAAAACCCA
Found at i:3971857 original size:102 final size:102
Alignment explanation
Indices: 3971692--3971923 Score: 410
Period size: 102 Copynumber: 2.3 Consensus size: 102
3971682 AAATAATTTG
* *
3971692 TTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTTGGTTGTTCATTCGGATTGCTTTTATAAG
1 TTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTAGATTGTTCATTCGGATTGCTTTTATAAG
3971757 GTTGTTAGCTACCTTTATTTATAGTTTAAATAAACTA
66 GTTGTTAGCTACCTTTATTTATAGTTTAAATAAACTA
3971794 TTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTAGATTGTTCATTCGGATTGCTTTTATAAG
1 TTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTAGATTGTTCATTCGGATTGCTTTTATAAG
* *
3971859 GTTGTTAGCTGCCTTTATTTATAGTTTAAATAAACTG
66 GTTGTTAGCTACCTTTATTTATAGTTTAAATAAACTA
* *
3971896 TTTAATGTGTAGTTACTGTTGATTTGTT
1 TTTAATTTGTAGCTACTGTTGATTTGTT
3971924 CATTCGGATT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 124 1.00
ACGTcount: A:0.21, C:0.08, G:0.19, T:0.51
Consensus pattern (102 bp):
TTTAATTTGTAGCTACTGTTGATTTGTTTGTGTTGTAGATTGTTCATTCGGATTGCTTTTATAAG
GTTGTTAGCTACCTTTATTTATAGTTTAAATAAACTA
Found at i:3971933 original size:86 final size:86
Alignment explanation
Indices: 3971833--3972034 Score: 352
Period size: 86 Copynumber: 2.3 Consensus size: 86
3971823 GTGTTGTAGA
* *
3971833 TTGTTCATTCGGATTGCTTTTATAAGGTTGTTAGCTGCCTTTATTTATAGTTTAAATAAACTGTT
1 TTGTTCATTCGGATTACTTTTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAATAAACTGTT
3971898 TAATGTGTAGT-TACTGTTGAT
66 TAATGTGTA-TATACTGTTGAT
*
3971919 TTGTTCATTCGGATTTCTTTTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAATAAACTGTT
1 TTGTTCATTCGGATTACTTTTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAATAAACTGTT
*
3971984 TAATTTGTATATACTGTTGAT
66 TAATGTGTATATACTGTTGAT
3972005 TTGTTCATTCGGATTACTTTTATAAGGTTG
1 TTGTTCATTCGGATTACTTTTATAAGGTTG
3972035 GTTGCTAACC
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
85 1 0.01
86 110 0.99
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (86 bp):
TTGTTCATTCGGATTACTTTTATAAGGTTGTTAGCTGCCTTTATTTACAGTTTAAATAAACTGTT
TAATGTGTATATACTGTTGAT
Found at i:3974769 original size:12 final size:12
Alignment explanation
Indices: 3974748--3974778 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3974738 ATTTGAAAGC
3974748 TTAA-TTTTTTT
1 TTAATTTTTTTT
3974759 TTAATTTTTTTT
1 TTAATTTTTTTT
3974771 TTAATTTT
1 TTAATTTT
3974779 ATTGTATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTAATTTTTTTT
Found at i:3975120 original size:23 final size:24
Alignment explanation
Indices: 3975089--3975140 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
3975079 ATTATTAATT
*
3975089 ATTTATATAAATTAAACTATA-TA
1 ATTTTTATAAATTAAACTATATTA
3975112 ATTTTTATAAATTAAACTATATTA
1 ATTTTTATAAATTAAACTATATTA
3975136 ATTTT
1 ATTTT
3975141 CATTTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTTTATAAATTAAACTATATTA
Found at i:3975409 original size:16 final size:16
Alignment explanation
Indices: 3975386--3975460 Score: 78
Period size: 16 Copynumber: 4.7 Consensus size: 16
3975376 TGGATCATTT
3975386 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
3975402 AGAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
* * *
3975418 ACAGGCCAGGTTCATA
1 ACAGGTCAGGTTAAAA
* *
3975434 ACATGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
* *
3975450 AGAGGACAGGT
1 ACAGGTCAGGT
3975461 AATACTAGTT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.19
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:3976145 original size:13 final size:13
Alignment explanation
Indices: 3976127--3976154 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3976117 CAGTTAGTAT
3976127 TGATGAGCTGTCA
1 TGATGAGCTGTCA
3976140 TGATGAGCTGTCA
1 TGATGAGCTGTCA
3976153 TG
1 TG
3976155 CTTGCTAGAT
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:0.21, C:0.14, G:0.32, T:0.32
Consensus pattern (13 bp):
TGATGAGCTGTCA
Found at i:3980714 original size:13 final size:13
Alignment explanation
Indices: 3980696--3980723 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3980686 CAGTTAGTAT
3980696 TGATGAGCTGTCA
1 TGATGAGCTGTCA
3980709 TGATGAGCTGTCA
1 TGATGAGCTGTCA
3980722 TG
1 TG
3980724 CTTGCTAGAT
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:0.21, C:0.14, G:0.32, T:0.32
Consensus pattern (13 bp):
TGATGAGCTGTCA
Found at i:3983236 original size:2 final size:2
Alignment explanation
Indices: 3983231--3983277 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3983221 AAATAAGAAT
3983231 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3983273 TA TA T
1 TA TA T
3983278 TATCGGTCAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3984787 original size:81 final size:81
Alignment explanation
Indices: 3984690--3985266 Score: 843
Period size: 81 Copynumber: 7.1 Consensus size: 81
3984680 TGTTAATCAT
*
3984690 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACATCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
*
3984755 ATGCACAACTATGCAA
66 ATGCACAACTAGGCAA
* ** *
3984771 TTAATCTTTTACTCAAAGGCATTTAGTCTTTCATCTAACTTGCAATATTGGTACTTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
*
3984836 ATGCACACCTAGGCAA
66 ATGCACAACTAGGCAA
* * * *
3984852 TTAATCTTTTACTCAAAGGCATTTAGCATTTTATCTAACTTGCAATATTGGCACCTTTATGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
* *
3984917 ATGCACAGCTATGCAA
66 ATGCACAACTAGGCAA
* * *
3984933 TTAATCTTTTACTCAAAGGCATTTAGCC-TTCATCCAACTTGAAATATTGACACCTTTCTTCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
* *
3984997 ATGCACAGCTAGGTAA
66 ATGCACAACTAGGCAA
** * * ** *
3985013 TTAATCTTTTACTCAAAGAAATTTAGCCCTTCATCTGACTTGCAATATTGGTACCTTTTTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
*
3985078 ATGCACAACTAGGAAA
66 ATGCACAACTAGGCAA
* *
3985094 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAATTTGCAATATT-AGCACCTTTCTGTCA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGA-CACCTTTCTGCCA
3985158 AATGCACAACTAGGCAA
65 AATGCACAACTAGGCAA
* *
3985175 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGTAATATTGGCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
* *
3985240 ATGCACAGCTAGACAA
66 ATGCACAACTAGGCAA
3985256 TTAATCTTTTA
1 TTAATCTTTTA
3985267 TTTTAAGAAC
Statistics
Matches: 442, Mismatches: 51, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
80 70 0.16
81 372 0.84
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
ATGCACAACTAGGCAA
Found at i:3991900 original size:81 final size:81
Alignment explanation
Indices: 3991756--3992251 Score: 733
Period size: 81 Copynumber: 6.1 Consensus size: 81
3991746 TGTTAATCAT
*
3991756 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTGTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
** * *
3991821 ATTTACAACTAGGCAG
66 ATGCACAGCTAGGCAA
* *
3991837 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTTCAATATTGGCACATTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
3991902 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
* ** *
3991918 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACATATAATA-TGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
3991982 ATGCACAGCTAGGCAA
66 ATGCACAGCTAGGCAA
* * * * *
3991998 TTAATCTTTTACTTAAAGGCATCTATCCTTTCATTTAACTTGCAATATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* *
3992063 ATGCACAACTAGGAAA
66 ATGCACAGCTAGGCAA
* * *
3992079 TTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTGTAATATTGGCACCTTTCTTCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* *
3992144 ATGCATAGCTAGGGAA
66 ATGCACAGCTAGGCAA
* *
3992160 TTAATCTTTTACTCAAAGGAATTTAGCATTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
* *
3992225 ATGCACAGTTAGGAAA
66 ATGCACAGCTAGGCAA
*
3992241 TCAATCTTTTA
1 TTAATCTTTTA
3992252 TTTTAATAAC
Statistics
Matches: 374, Mismatches: 40, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
80 71 0.19
81 303 0.81
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (81 bp):
TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTCTGCCAA
ATGCACAGCTAGGCAA
Found at i:3992186 original size:242 final size:243
Alignment explanation
Indices: 3991756--3992251 Score: 753
Period size: 242 Copynumber: 2.0 Consensus size: 243
3991746 TGTTAATCAT
* * *
3991756 TTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCAATATTGGCACCTTTGTGCCAA
1 TTAATCTTTTACTCAAAGGCATCTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
** * * *
3991821 ATTTACAACTAGGCAGTTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTTCAATATT
66 ATGCACAACTAGGAAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTTCAATATT
* *
3991886 GGCACATTTCTGCCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGCATTTAGCCTTTCA
131 GGCACATTTCTGCCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGAATTTAGCATTTCA
* *
3991951 TCTAACATATAATA-TGACACCTTTCTGCCAAATGCACAGCTAGGCAA
196 TCTAACATACAATATTGACACCTTTCTGCCAAATGCACAGCTAGGAAA
* * *
3991998 TTAATCTTTTACTTAAAGGCATCTATCCTTTCATTTAACTTGCAATATTGACACCTTTCTGCCAA
1 TTAATCTTTTACTCAAAGGCATCTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
3992063 ATGCACAACTAGGAAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTGT-AATAT
66 ATGCACAACTAGGAAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTT-TCAATAT
* * * *
3992127 TGGCACCTTTCTTCCAAATGCATAGCTAGGGAATTAATCTTTTACTCAAAGGAATTTAGCATTTC
130 TGGCACATTTCTGCCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGAATTTAGCATTTC
* * * *
3992192 ATCTAACTTGCAATATTGGCACCTTTCTGCCAAATGCACAGTTAGGAAA
195 ATCTAACATACAATATTGACACCTTTCTGCCAAATGCACAGCTAGGAAA
*
3992241 TCAATCTTTTA
1 TTAATCTTTTA
3992252 TTTTAATAAC
Statistics
Matches: 228, Mismatches: 24, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
242 187 0.82
243 41 0.18
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (243 bp):
TTAATCTTTTACTCAAAGGCATCTAGCCTTTCATCTAACTTGCAATATTGACACCTTTCTGCCAA
ATGCACAACTAGGAAATTAATCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTTTCAATATT
GGCACATTTCTGCCAAATGCACAGCTAGGCAATTAATCTTTTACTCAAAGGAATTTAGCATTTCA
TCTAACATACAATATTGACACCTTTCTGCCAAATGCACAGCTAGGAAA
Found at i:3996416 original size:12 final size:12
Alignment explanation
Indices: 3996401--3996441 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
3996391 ATAAAATGTT
3996401 TTATAATTTATA
1 TTATAATTTATA
*
3996413 TTATAATTAATA
1 TTATAATTTATA
3996425 -TA-AATTTATAA
1 TTATAATTTAT-A
3996436 TTATAA
1 TTATAA
3996442 ATATGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 13 0.54
13 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TTATAATTTATA
Found at i:3998843 original size:23 final size:23
Alignment explanation
Indices: 3998817--3998864 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
3998807 ATAAAGTACA
*
3998817 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
3998840 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
3998863 AT
1 AT
3998865 TTACCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:3999309 original size:23 final size:23
Alignment explanation
Indices: 3999272--3999343 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
3999262 ACACTTTACA
*
3999272 ATAAACCACTACCTATTACATTAT
1 ATAAACGA-TACCTATTACATTAT
3999296 ATAAACGATACCTATTACATTAT
1 ATAAACGATACCTATTACATTAT
* * *
3999319 ATAAGCGCTACCTATTACATCAT
1 ATAAACGATACCTATTACATTAT
3999342 AT
1 AT
3999344 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
23 37 0.84
24 7 0.16
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.33
Consensus pattern (23 bp):
ATAAACGATACCTATTACATTAT
Found at i:3999699 original size:427 final size:430
Alignment explanation
Indices: 3998929--3999980 Score: 1907
Period size: 428 Copynumber: 2.5 Consensus size: 430
3998919 TATTACATTA
*
3998929 TATTATATTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
3998994 TTATGTTTCAATTTTTTGAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
3999059 TTTGCACAAAAAATTATTTGA-TTATTGATA-TTTATAAAATATTATTTAGAA-TTTTAATTTAA
131 TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
*
3999121 -TA-A-T-AATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAAT
196 CAACATTAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAAT
3999182 CTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTT
261 CTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTT
3999247 TTATAAAAAGGATAGACACTTTACAATA-AACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
3999311 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
3999351 TATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
3999416 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
3999481 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTAT-AAA-A-TATTTAGAATTTTTAATTTA
130 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
3999543 ACAACATTAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAA
195 ACAACATTAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAA
* *
3999608 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACAT
260 TCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC
3999673 TTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
324 TTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
3999737 ATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
389 ATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
3999779 TA-T-TATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
3999842 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
3999907 TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
131 TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
3999972 CAACATTAA
196 CAACATTAA
3999981 CCAAAGATAA
Statistics
Matches: 607, Mismatches: 10, Indels: 20
0.95 0.02 0.03
Matches are distributed among these distances:
422 83 0.14
423 86 0.14
424 12 0.02
425 96 0.16
426 73 0.12
427 96 0.16
428 161 0.27
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (430 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
CAACATTAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAAT
CTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACTT
TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:3999735 original size:23 final size:23
Alignment explanation
Indices: 3999709--3999771 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
3999699 ATATAACCAC
3999709 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
3999732 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
3999755 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3999772 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:4000244 original size:39 final size:39
Alignment explanation
Indices: 4000190--4000275 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
4000180 CAAGTTGTAG
*
4000190 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
4000229 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
4000268 ATTTTGAT
1 ATTTTGAT
4000276 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:4000553 original size:18 final size:18
Alignment explanation
Indices: 4000530--4000566 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4000520 CCGAATATAT
4000530 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
4000548 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
4000566 A
1 A
4000567 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:4001024 original size:22 final size:23
Alignment explanation
Indices: 4000995--4001047 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
4000985 TTTACAATAT
* *
4000995 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
4001018 A-TATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
4001040 ATTATATA
1 ATTATATA
4001048 CTTGTAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:4004255 original size:181 final size:183
Alignment explanation
Indices: 4003525--4004693 Score: 2102
Period size: 182 Copynumber: 6.4 Consensus size: 183
4003515 CGACACATTT
* * *
4003525 TAGGTTGTAGACATATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
4003590 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
4003655 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* *
4003708 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATA-TTATACCTATTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
4003772 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
4003837 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
*
4003890 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
4003955 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
*
4004020 TTTTCTTCCAATATGGACATAAAGTATCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
*
4004073 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATA-TTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
4004137 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACAC-TTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
*
4004201 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAATGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
*
4004254 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
4004319 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
4004384 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
*
4004436 TAGG-TGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
*
4004500 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACAC-TTTTCAAATCGTATCGACACA-
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
4004563 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * * * *
4004616 TAAGTTGTAGACCTATTCG-TGCATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACC
1 TAGGTTGTAGACCTATTCGCT-CATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATC
**
4004680 TATTTTATTATAAT
65 TATTACATTATAAT
4004694 ATGTTGAAAG
Statistics
Matches: 959, Mismatches: 21, Indels: 14
0.96 0.02 0.01
Matches are distributed among these distances:
179 39 0.04
180 36 0.04
181 274 0.29
182 336 0.35
183 274 0.29
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (183 bp):
TAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:4006166 original size:3 final size:3
Alignment explanation
Indices: 4006158--4006232 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
4006148 ACTTGTTTGG
* * * ** * *
4006158 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
4006206 ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
4006233 GTCAGCTTCA
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:4006175 original size:12 final size:12
Alignment explanation
Indices: 4006162--4006244 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
4006152 GTTTGGATCA
*
4006162 TCATCTTCATCA
1 TCATCTTCATCG
* * *
4006174 TCATCATCGTCA
1 TCATCTTCATCG
4006186 TCATCTTCATCG
1 TCATCTTCATCG
* *
4006198 CCAGCTTCATCG
1 TCATCTTCATCG
*
4006210 TCATCATCATCG
1 TCATCTTCATCG
4006222 TCATCTTCATCG
1 TCATCTTCATCG
*
4006234 TCAGCTTCATC
1 TCATCTTCATC
4006245 TTCTGCGATC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:4006206 original size:36 final size:36
Alignment explanation
Indices: 4006166--4006244 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
4006156 GGATCATCAT
*
4006166 CTTCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
4006202 CTTCATCGTCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
4006238 CTTCATC
1 CTTCATC
4006245 TTCTGCGATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
CTTCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:4006245 original size:18 final size:18
Alignment explanation
Indices: 4006186--4006247 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
4006176 ATCATCGTCA
*
4006186 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
4006204 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
4006222 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
4006240 TCATCTTC
1 TCATCTTC
4006248 TGCGATCGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:4006247 original size:6 final size:6
Alignment explanation
Indices: 4006162--4006247 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
4006152 GTTTGGATCA
* * * * * * * *
4006162 TCATCT TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
4006210 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
4006248 TGCGATCGCT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:4008560 original size:198 final size:197
Alignment explanation
Indices: 4007705--4008784 Score: 1961
Period size: 196 Copynumber: 5.5 Consensus size: 197
4007695 TTTAAATTAG
4007705 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
4007770 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
4007835 CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAT
* *
4007898 TAG
195 AAA
4007901 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
4007966 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
4008031 TGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAT
* *
4008094 TAG
195 AAA
4008097 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
4008162 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
4008227 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
4008292 AA
196 AA
*
4008294 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGCATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
4008359 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
4008424 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAT
4008489 AAA
195 AAA
*
4008492 TATTGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
4008557 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
4008622 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG--AAA
*
4008687 AAAA
194 TAAA
4008691 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
4008756 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
4008785 CCTTTTGGCC
Statistics
Matches: 863, Mismatches: 16, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
195 1 0.00
196 375 0.43
197 193 0.22
198 195 0.23
199 99 0.11
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AA
Found at i:4008935 original size:18 final size:18
Alignment explanation
Indices: 4008909--4008954 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
4008899 TTATATTCAC
*
4008909 ATACGAAATATAAATCGT
1 ATACAAAATATAAATCGT
*
4008927 ATACAAAATTATAAATCTT
1 ATACAAAA-TATAAATCGT
4008946 ATACAAAAT
1 ATACAAAAT
4008955 TAACCCTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.30
Consensus pattern (18 bp):
ATACAAAATATAAATCGT
Found at i:4008941 original size:19 final size:19
Alignment explanation
Indices: 4008917--4008956 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
4008907 ACATACGAAA
4008917 TATAAATCGTATACAAAAT
1 TATAAATCGTATACAAAAT
*
4008936 TATAAATCTTATACAAAAT
1 TATAAATCGTATACAAAAT
4008955 TA
1 TA
4008957 ACCCTACATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (19 bp):
TATAAATCGTATACAAAAT
Found at i:4010782 original size:33 final size:33
Alignment explanation
Indices: 4010745--4010810 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
4010735 CATCTTAATA
*
4010745 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
4010778 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
4010811 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:4010883 original size:21 final size:21
Alignment explanation
Indices: 4010843--4010907 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
4010833 CCCCTTATGC
* *
4010843 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
4010864 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
4010885 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
4010906 CT
1 CT
4010908 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:4013195 original size:20 final size:19
Alignment explanation
Indices: 4013140--4013186 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4013130 TCCGGTATCA
*
4013140 TTTTACCGGTTTTATCATT
1 TTTTACCAGTTTTATCATT
*
4013159 TTGATACCAGTTTTATCATAT
1 TT-TTACCAGTTTTATCAT-T
4013180 TTTTACC
1 TTTTACC
4013187 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCAGTTTTATCATT
Found at i:4013333 original size:20 final size:20
Alignment explanation
Indices: 4013307--4013352 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
4013297 CACTTTTAAA
4013307 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
4013326 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
4013347 TTTACC
1 TTTACC
4013353 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:4016059 original size:16 final size:16
Alignment explanation
Indices: 4016038--4016071 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4016028 TTACTATTCA
*
4016038 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
4016054 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
4016070 CG
1 CG
4016072 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:4022571 original size:27 final size:26
Alignment explanation
Indices: 4022517--4022595 Score: 131
Period size: 26 Copynumber: 3.0 Consensus size: 26
4022507 ATTATTACCC
4022517 AAAATCGAATATATATAAAAAATAGG
1 AAAATCGAATATATATAAAAAATAGG
*
4022543 AAAATTGAATATATATAAAAAAATAGG
1 AAAATCGAATATATAT-AAAAAATAGG
*
4022570 AAAATCGAATATATCTAAAAAATAGG
1 AAAATCGAATATATATAAAAAATAGG
4022596 GGCCCCTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
26 25 0.51
27 24 0.49
ACGTcount: A:0.61, C:0.04, G:0.11, T:0.24
Consensus pattern (26 bp):
AAAATCGAATATATATAAAAAATAGG
Found at i:4023188 original size:31 final size:30
Alignment explanation
Indices: 4023114--4023193 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 30
4023104 GTTAGTGACT
* * *
4023114 AAAATGTAAGTTTTG-AAAGTTTAGTGGTT
1 AAAATATAATTTTTGAAAAGTTTAGTGGTA
*
4023143 AAAGTATAATTTTTTGAAAAGTTTAG-GGATCA
1 AAAATATAA-TTTTTGAAAAGTTTAGTGG-T-A
*
4023175 AAAATATAATTTTTAAAAA
1 AAAATATAATTTTTGAAAA
4023194 TTATATATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 7 0.17
30 7 0.17
31 19 0.46
32 8 0.20
ACGTcount: A:0.44, C:0.01, G:0.16, T:0.39
Consensus pattern (30 bp):
AAAATATAATTTTTGAAAAGTTTAGTGGTA
Found at i:4030583 original size:17 final size:17
Alignment explanation
Indices: 4030563--4030597 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4030553 AAGAGAAAAG
4030563 AGATGATTCCACTTATA
1 AGATGATTCCACTTATA
*
4030580 AGATGATTCTACTTATA
1 AGATGATTCCACTTATA
4030597 A
1 A
4030598 AGTTCATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (17 bp):
AGATGATTCCACTTATA
Found at i:4033369 original size:23 final size:23
Alignment explanation
Indices: 4033339--4033389 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
4033329 TTAGCTCCTT
4033339 ACTAAGGATTTTCTAACAAATTC
1 ACTAAGGATTTTCTAACAAATTC
4033362 ACTAAGGATTTTCTAACAAATTC
1 ACTAAGGATTTTCTAACAAATTC
4033385 ACTAA
1 ACTAA
4033390 TTTGTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (23 bp):
ACTAAGGATTTTCTAACAAATTC
Found at i:4033701 original size:19 final size:21
Alignment explanation
Indices: 4033679--4033719 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
4033669 GTTGTGGCCG
4033679 TTTCTAGCCG-TT-GGAATGA
1 TTTCTAGCCGTTTGGGAATGA
4033698 TTTCTAGCCGTTTGGGAATGA
1 TTTCTAGCCGTTTGGGAATGA
4033719 T
1 T
4033720 AATGCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.20, C:0.15, G:0.27, T:0.39
Consensus pattern (21 bp):
TTTCTAGCCGTTTGGGAATGA
Found at i:4034475 original size:21 final size:21
Alignment explanation
Indices: 4034449--4034499 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
4034439 TAACATAAAG
*
4034449 CTTATAGATAATG-ATTTTGAA
1 CTTATAAATAATGCATTTT-AA
*
4034470 CTTATAAATCATGCATTTTAA
1 CTTATAAATAATGCATTTTAA
4034491 CTTATAAAT
1 CTTATAAAT
4034500 TGGGTTCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (21 bp):
CTTATAAATAATGCATTTTAA
Found at i:4035291 original size:43 final size:43
Alignment explanation
Indices: 4035230--4035321 Score: 184
Period size: 43 Copynumber: 2.1 Consensus size: 43
4035220 TTAATAAATA
4035230 AAGCAGGAACCCAGCCTTCCTGGAAAAAAGAAAGCCCACAAAG
1 AAGCAGGAACCCAGCCTTCCTGGAAAAAAGAAAGCCCACAAAG
4035273 AAGCAGGAACCCAGCCTTCCTGGAAAAAAGAAAGCCCACAAAG
1 AAGCAGGAACCCAGCCTTCCTGGAAAAAAGAAAGCCCACAAAG
4035316 AAGCAG
1 AAGCAG
4035322 AAACAGTTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.45, C:0.27, G:0.22, T:0.07
Consensus pattern (43 bp):
AAGCAGGAACCCAGCCTTCCTGGAAAAAAGAAAGCCCACAAAG
Found at i:4037278 original size:17 final size:17
Alignment explanation
Indices: 4037256--4037299 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
4037246 TGAATGGATG
4037256 GATTATCTATGATGATC
1 GATTATCTATGATGATC
4037273 GATTATCTATGATGATC
1 GATTATCTATGATGATC
*
4037290 AATTATCTAT
1 GATTATCTAT
4037300 AAGATATGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (17 bp):
GATTATCTATGATGATC
Found at i:4039998 original size:28 final size:26
Alignment explanation
Indices: 4039951--4040008 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 26
4039941 AATATAAAGT
** *
4039951 TATAAAAATATTCAAAAAAATTTAAA
1 TATAAAAATATAAAAAAAAAATTAAA
*
4039977 TATAAAAATAATAAAAATAAAAATTGAA
1 TATAAAAAT-ATAAAAA-AAAAATTAAA
4040005 TATA
1 TATA
4040009 CATATTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 9 0.35
27 5 0.19
28 12 0.46
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (26 bp):
TATAAAAATATAAAAAAAAAATTAAA
Found at i:4040854 original size:21 final size:20
Alignment explanation
Indices: 4040811--4040857 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
4040801 GGTTGGGGCC
*
4040811 ATTTCTAGCTATTGAGTATG
1 ATTTCTAGCTATTGAGGATG
* *
4040831 ATTTCTAGCTGTTTGGGGATG
1 ATTTCTAGCT-ATTGAGGATG
4040852 ATTTCT
1 ATTTCT
4040858 TTACAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.47
Consensus pattern (20 bp):
ATTTCTAGCTATTGAGGATG
Done.