Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_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: 4445546
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 18
Found at i:2582190 original size:3 final size:3
Alignment explanation
Indices: 2582182--2582226 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
2582172 TCAATACGAC
2582182 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2582227 GTTGTTGTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2582231 original size:3 final size:3
Alignment explanation
Indices: 2582225--2582304 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
2582215 ATTATTATTA
2582225 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
*
2582273 TTG TTG TTG TTG TTG TTG TTG TTG TTG CTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
2582305 ATTATTATTA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.00, C:0.01, G:0.33, T:0.66
Consensus pattern (3 bp):
TTG
Found at i:2593544 original size:19 final size:19
Alignment explanation
Indices: 2593493--2593564 Score: 81
Period size: 19 Copynumber: 3.7 Consensus size: 19
2593483 GCAGCTGGAA
*
2593493 AACCGGTTTGATCGGTTTTG
1 AACCGGTTTGACCGG-TTTG
* *
2593513 AACATGTTTTGACCGGTTTG
1 AAC-CGGTTTGACCGGTTTG
*
2593533 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTTTG
*
2593552 AACCGGTCTGACC
1 AACCGGTTTGACC
2593565 CAACCCGACC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 25 0.57
20 10 0.23
21 9 0.20
ACGTcount: A:0.18, C:0.22, G:0.28, T:0.32
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTTG
Found at i:2593546 original size:9 final size:9
Alignment explanation
Indices: 2593520--2593564 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 9
2593510 TTGAACATGT
2593520 TTTGACCGG
1 TTTGACCGG
2593529 TTTGAACCGG
1 TTTG-ACCGG
2593539 TTTGACCGG
1 TTTGACCGG
*
2593548 TCTGAACCGG
1 TTTG-ACCGG
*
2593558 TCTGACC
1 TTTGACC
2593565 CAACCCGACC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 15 0.45
10 18 0.55
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.29
Consensus pattern (9 bp):
TTTGACCGG
Found at i:2593578 original size:14 final size:15
Alignment explanation
Indices: 2593561--2593593 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2593551 GAACCGGTCT
2593561 GACCCAACCCGA-CC
1 GACCCAACCCGACCC
*
2593575 GACCCGACCCGACCC
1 GACCCAACCCGACCC
2593590 GACC
1 GACC
2593594 GTTGACTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.58, G:0.18, T:0.00
Consensus pattern (15 bp):
GACCCAACCCGACCC
Found at i:2593581 original size:5 final size:5
Alignment explanation
Indices: 2593561--2593593 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
2593551 GAACCGGTCT
*
2593561 GACCC AACCC GA-CC GACCC GACCC GACCC GACC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC
2593594 GTTGACTTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.24, C:0.58, G:0.18, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:2600841 original size:18 final size:18
Alignment explanation
Indices: 2600818--2600876 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
2600808 GAACCAGTTT
*
2600818 GACCGATCTGACCCGACC
1 GACCGACCTGACCCGACC
2600836 GACCGACCTGACCCGACC
1 GACCGACCTGACCCGACC
** *
2600854 G-TTGACCCGACCCGACCC
1 GACCGACCTGACCCGA-CC
2600872 GACCG
1 GACCG
2600877 TTGACTTCCT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 11 0.33
18 21 0.64
19 1 0.03
ACGTcount: A:0.20, C:0.47, G:0.24, T:0.08
Consensus pattern (18 bp):
GACCGACCTGACCCGACC
Found at i:2600861 original size:12 final size:12
Alignment explanation
Indices: 2600844--2600881 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
2600834 CCGACCGACC
2600844 TGACCCGACCGT
1 TGACCCGACCGT
2600856 TGACCCGACC--
1 TGACCCGACCGT
*
2600866 CGACCCGACCGT
1 TGACCCGACCGT
2600878 TGAC
1 TGAC
2600882 TTCCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.41
12 13 0.59
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (12 bp):
TGACCCGACCGT
Found at i:2600863 original size:22 final size:21
Alignment explanation
Indices: 2600816--2600881 Score: 84
Period size: 22 Copynumber: 3.2 Consensus size: 21
2600806 TCGAACCAGT
*
2600816 TTGACCGATCTGACCCGACC-
1 TTGACCGACCTGACCCGACCG
2600836 --GACCGACCTGACCCGACCG
1 TTGACCGACCTGACCCGACCG
*
2600855 TTGACCCGACCCGACCCGACCG
1 TTGA-CCGACCTGACCCGACCG
2600877 TTGAC
1 TTGAC
2600882 TTCCTTTGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 17 0.43
21 3 0.08
22 20 0.50
ACGTcount: A:0.20, C:0.44, G:0.23, T:0.14
Consensus pattern (21 bp):
TTGACCGACCTGACCCGACCG
Found at i:2602569 original size:55 final size:55
Alignment explanation
Indices: 2602522--2602981 Score: 591
Period size: 55 Copynumber: 8.4 Consensus size: 55
2602512 AAATCCATAA
* * * *
2602522 ACTTATTAAGAATTTCTT-AGTTTTGCACACAAAGCGCCCATACGGAAATTCATCC
1 ACTTATTATGAATTTCTTAAG-TTTACACATAAAGTGCCCATACGGAAATTCATCC
* * * **
2602577 ACTTAATATGAATTTCTTAAGTTTACACATAAAGTGCCTATACGAAAATTCATAA
1 ACTTATTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
** * **
2602632 ACAAATTATGAATTTCTTAAGTTTACACATAAAGTGTCCATATAGAAATTCATCC
1 ACTTATTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
* * *
2602687 ACTTAGTATAAAATTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
1 ACTTATTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
* * *
2602742 ACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCTCATACAGAAATTCATCC
1 ACTTATTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
* * *
2602797 ACTTAGTATGAATTTGTTAAGTTTACACATAAAGTGCCCATACGGAAATTCGTCC
1 ACTTATTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
* * **
2602852 ACTTAGTATGAATTTCTTAAGTTTATACATAAAGTGCCCATACAAAAATTCATCC
1 ACTTATTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
* * * *
2602907 ACTTAGTATGAATTTCTTAAGTTCACACATAAAGTGCCCATACGAAAATTCAT-A
1 ACTTATTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
* *
2602961 AATAAATTATGAATTTCTTAA
1 ACT-TATTATGAATTTCTTAA
2602982 CTTTTCTCAC
Statistics
Matches: 356, Mismatches: 47, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
54 2 0.01
55 352 0.99
56 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (55 bp):
ACTTATTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCC
Found at i:2605140 original size:4 final size:4
Alignment explanation
Indices: 2605131--2605155 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2605121 TTAATTATTA
2605131 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
2605156 CTTTTTTAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:2606346 original size:2 final size:2
Alignment explanation
Indices: 2606341--2606372 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2606331 TTGTATTTTA
2606341 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
2606373 TATTTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2614430 original size:13 final size:12
Alignment explanation
Indices: 2614409--2614477 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 12
2614399 TGAGGCAAGG
*
2614409 GAAAGAAATGAAA
1 GAAAAAAAT-AAA
2614422 GAAAAAAATAAAA
1 GAAAAAAAT-AAA
*
2614435 GAAAAACA-AAA
1 GAAAAAAATAAA
*
2614446 GAAAAAAACAACA
1 GAAAAAAATAA-A
* *
2614459 AAAAATAAATGAA
1 GAAAA-AAATAAA
2614472 GAAAAA
1 GAAAAA
2614478 TAGTTTAGGT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
11 10 0.22
12 3 0.07
13 28 0.62
14 4 0.09
ACGTcount: A:0.78, C:0.04, G:0.12, T:0.06
Consensus pattern (12 bp):
GAAAAAAATAAA
Found at i:2614449 original size:24 final size:23
Alignment explanation
Indices: 2614419--2614479 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
2614409 GAAAGAAATG
2614419 AAAGAAAAAAATAAAAGAAAAACA
1 AAAGAAAAAAATAAAA-AAAAACA
* * *
2614443 AAAGAAAAAAACAACAAAAAATA
1 AAAGAAAAAAATAAAAAAAAACA
*
2614466 AATGAAGAAAAATA
1 AAAGAA-AAAAATA
2614480 GTTTAGGTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 11 0.35
24 20 0.65
ACGTcount: A:0.80, C:0.05, G:0.08, T:0.07
Consensus pattern (23 bp):
AAAGAAAAAAATAAAAAAAAACA
Found at i:2614450 original size:16 final size:17
Alignment explanation
Indices: 2614410--2614461 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 17
2614400 GAGGCAAGGG
* * *
2614410 AAAGAAATGAAAGAAAA
1 AAAGAAAAGAAACAACA
*
2614427 AAATAAAAGAAA-AACA
1 AAAGAAAAGAAACAACA
2614443 AAAGAAAA-AAACAACA
1 AAAGAAAAGAAACAACA
2614459 AAA
1 AAA
2614462 AATAAATGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 3 0.10
16 17 0.57
17 10 0.33
ACGTcount: A:0.81, C:0.06, G:0.10, T:0.04
Consensus pattern (17 bp):
AAAGAAAAGAAACAACA
Found at i:2620006 original size:18 final size:18
Alignment explanation
Indices: 2619983--2620018 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2619973 TATTATTAAA
2619983 ACATCGAATTGATTTTAT
1 ACATCGAATTGATTTTAT
2620001 ACATCGAATTGATTTTAT
1 ACATCGAATTGATTTTAT
2620019 GCACCGATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (18 bp):
ACATCGAATTGATTTTAT
Found at i:2625911 original size:45 final size:44
Alignment explanation
Indices: 2625846--2625944 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 44
2625836 TTTGTGCATA
* *
2625846 ATGCATCGATACACTATGAAGCTACATCGATGCA-TCCATTTGAAT
1 ATGCATCGATACACTATGAAGATACACCGATGCATTCC--TTGAAT
* *
2625891 GTGCATCGATACA-TCATGAAGATGCACCGATGCATTCCTTGAAT
1 ATGCATCGATACACT-ATGAAGATACACCGATGCATTCCTTGAAT
2625935 ATGCATCGAT
1 ATGCATCGAT
2625945 GCATTCCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 16 0.34
45 28 0.60
46 3 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (44 bp):
ATGCATCGATACACTATGAAGATACACCGATGCATTCCTTGAAT
Found at i:2625938 original size:23 final size:23
Alignment explanation
Indices: 2625870--2625970 Score: 118
Period size: 23 Copynumber: 4.4 Consensus size: 23
2625860 TATGAAGCTA
*
2625870 CATCGATGCA-TCCATTTGAATGTG
1 CATCGATGCATTCC--TTGAATATG
* * *
2625894 CATCGATACA-T-CATGAAGATG
1 CATCGATGCATTCCTTGAATATG
*
2625915 CACCGATGCATTCCTTGAATATG
1 CATCGATGCATTCCTTGAATATG
2625938 CATCGATGCATTCCTTGAATATG
1 CATCGATGCATTCCTTGAATATG
2625961 CATCGATGCA
1 CATCGATGCA
2625971 CACTGCCATG
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
21 14 0.21
22 1 0.02
23 41 0.62
24 10 0.15
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (23 bp):
CATCGATGCATTCCTTGAATATG
Found at i:2628713 original size:46 final size:46
Alignment explanation
Indices: 2628623--2628727 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 46
2628613 TGCACATACC
* * * **
2628623 ATGCATCGATGCACTCCATGTATTATTAAAACATCAAATTGATTTT
1 ATGCACCGATGCACCCCATCTATTATTAAAACATCAAACAGATTTT
* *
2628669 ATGCACCGATGCACCCCGTCTATT-TTAAAACATCGAAGCAGATTTT
1 ATGCACCGATGCACCCCATCTATTATTAAAACATC-AAACAGATTTT
2628715 -TGCACCGATGCAC
1 ATGCACCGATGCAC
2628728 ACCCCAGTGC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
45 23 0.45
46 28 0.55
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (46 bp):
ATGCACCGATGCACCCCATCTATTATTAAAACATCAAACAGATTTT
Found at i:2628962 original size:10 final size:10
Alignment explanation
Indices: 2628947--2628971 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2628937 GCCATTAATC
2628947 AACAACAAGA
1 AACAACAAGA
2628957 AACAACAAGA
1 AACAACAAGA
2628967 AACAA
1 AACAA
2628972 GAATCAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.20, G:0.08, T:0.00
Consensus pattern (10 bp):
AACAACAAGA
Found at i:2635221 original size:17 final size:16
Alignment explanation
Indices: 2635148--2635236 Score: 54
Period size: 17 Copynumber: 5.2 Consensus size: 16
2635138 ATTCTAAATG
2635148 TTTACAATTATCAGATGA
1 TTTACAA-TATCAGAT-A
* * *
2635166 TTTTCAGTTATCAGTTA
1 TTTACA-ATATCAGATA
* *
2635183 TTTATATATATAAGATGA
1 TTTACA-ATATCAGAT-A
2635201 -TTACAACTATCAGATA
1 TTTACAA-TATCAGATA
*
2635217 TTTACAGATATCAAATA
1 TTTACA-ATATCAGATA
2635234 TTT
1 TTT
2635237 TAAAGTTATC
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
16 2 0.04
17 38 0.70
18 14 0.26
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (16 bp):
TTTACAATATCAGATA
Found at i:2635361 original size:7 final size:7
Alignment explanation
Indices: 2635349--2635375 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
2635339 TGAGTACTTT
2635349 TCAGTTA
1 TCAGTTA
2635356 TCAGTTA
1 TCAGTTA
2635363 TCAGTTA
1 TCAGTTA
2635370 TCAGTT
1 TCAGTT
2635376 CAGCTCTGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (7 bp):
TCAGTTA
Found at i:2637550 original size:59 final size:59
Alignment explanation
Indices: 2637373--2637716 Score: 534
Period size: 59 Copynumber: 5.9 Consensus size: 59
2637363 TTTCACACTA
* * *
2637373 TTAGTATGATTTCCTTATCATTTTAGCACACGAAGTGTCCTAACTGGAAATTCATACAC
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
*
2637432 TTAGTATGATTTCCTTACCATTTTAGCACA--AAGTGCCCTATCT-GAAAGTTCATAAAC
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAA-TTCATACAC
*
2637489 TTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACAC
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
* * * *
2637548 TTAGTATGATTTCCTTACCGTTTTAGCACATGAAGTGTCTTATCTGGAAATTCATACAC
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
*
2637607 TTAGTATGATTT-CTATACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAA
1 TTAGTATGATTTCCT-TACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
* *
2637666 TTAGTATGATTTCATTACTATTTTAGCACACGAAGTGCCCTATCTGGAAAT
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAAT
2637717 CACCATACAT
Statistics
Matches: 262, Mismatches: 17, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
56 4 0.02
57 49 0.19
58 2 0.01
59 202 0.77
60 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (59 bp):
TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
Found at i:2638074 original size:22 final size:20
Alignment explanation
Indices: 2638029--2638082 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 20
2638019 CGGCCCTTCA
2638029 GTATCGATACCCATACCATG
1 GTATCGATACCCATACCATG
* *
2638049 GTATCGATACTACCCTACTATG
1 GTATCGATAC--CCATACCATG
2638071 GTATCGATACCC
1 GTATCGATACCC
2638083 CCTTCTGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
GTATCGATACCCATACCATG
Found at i:2638174 original size:95 final size:94
Alignment explanation
Indices: 2638030--2638248 Score: 242
Period size: 95 Copynumber: 2.3 Consensus size: 94
2638020 GGCCCTTCAG
* * * * * *
2638030 TATCGATACCCATACCATGGTATCGATACTACCCTACTATGGTATCGATACCCCCTTCTGGTATC
1 TATCGATACCC-TACCATGATATCGATACGACCATACTAGGGTACCGATACCCCCTTCCGGTATC
* * *
2638095 GATACCAAAATTAGCTTCGATGAGGCTTGA
65 GATACAAAAATTAGCTTCGATGAGACCTGA
* * *
2638125 TATCGATACCCTCACCATGATATCGATACGACTATGCTAGGGTACCGATACCCCCTTCCGGTATT
1 TATCGATACCCT-ACCATGATATCGATACGACCATACTAGGGTACCGATACCCCCTTCCGGTATC
* * ** *
2638190 GATATAAAAATTAGGTTCGATGTTACCTGG
65 GATACAAAAATTAGCTTCGATGAGACCTGA
2638220 TATCGATACCCTTACCAT-AGTATCGATAC
1 TATCGATACCC-TACCATGA-TATCGATAC
2638249 TCCTTGTATA
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
94 2 0.02
95 101 0.97
96 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (94 bp):
TATCGATACCCTACCATGATATCGATACGACCATACTAGGGTACCGATACCCCCTTCCGGTATCG
ATACAAAAATTAGCTTCGATGAGACCTGA
Found at i:2638704 original size:18 final size:18
Alignment explanation
Indices: 2638681--2638719 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2638671 TTCCTTAAAA
2638681 TTCCATCATATACAAAGC
1 TTCCATCATATACAAAGC
*
2638699 TTCCATCATATATAAAGC
1 TTCCATCATATACAAAGC
2638717 TTC
1 TTC
2638720 AATAACCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (18 bp):
TTCCATCATATACAAAGC
Found at i:2644351 original size:59 final size:59
Alignment explanation
Indices: 2644259--2644663 Score: 720
Period size: 59 Copynumber: 6.9 Consensus size: 59
2644249 TTTCACATTA
* * *
2644259 TTAGTAAGATTTCCTTATCATTTTAGCACACGAAGTGCCCTATCTAGAAATTCATACAC
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
* *
2644318 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATAAAA
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
2644377 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
*
2644436 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGAAAATTCATACAC
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
*
2644495 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTAGAAATTCATACAC
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
*
2644554 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATTTGGAAATTCATACAC
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
* *
2644613 TTAGTATGATTTCCTTACCATTTTAGCACATGAAGTGCCATATCTGGAAAT
1 TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAAT
2644664 CACCATACAT
Statistics
Matches: 331, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 331 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (59 bp):
TTAGTATGATTTCCTTACCATTTTAGCACACGAAGTGCCCTATCTGGAAATTCATACAC
Found at i:2645025 original size:22 final size:20
Alignment explanation
Indices: 2644976--2645027 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
2644966 TGGCCCTTCA
2644976 GTATCGATACTCATACCATG
1 GTATCGATACTCATACCATG
* * *
2644996 GTACCGATACTACCCTACTATG
1 GTATCGATACT--CATACCATG
2645018 GTATCGATAC
1 GTATCGATAC
2645028 ATTCTTCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 10 0.38
22 16 0.62
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (20 bp):
GTATCGATACTCATACCATG
Found at i:2646389 original size:11 final size:12
Alignment explanation
Indices: 2646373--2646405 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
2646363 TTGTCTGAGT
2646373 TTATTTTTTAA-
1 TTATTTTTTAAC
2646384 TTATTTTTTAATC
1 TTATTTTTTAA-C
2646397 TTATTTTTT
1 TTATTTTTT
2646406 TACAGGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
13 9 0.45
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTTTTAAC
Found at i:2647575 original size:2 final size:2
Alignment explanation
Indices: 2647511--2647557 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
2647501 ATATTAGGCA
2647511 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2647552 AT AT AT
1 AT AT AT
2647558 TATTCTTTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2648661 original size:26 final size:28
Alignment explanation
Indices: 2648622--2648682 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
2648612 ACAATGATAA
*
2648622 AAGGAGGTCACCAT-C-TCCGGGTGACC
1 AAGGAGGTCACCATGCATCCGGGCGACC
*
2648648 AAGGAGGTCGCCATGCAATCCGGGCGACC
1 AAGGAGGTCACCATGC-ATCCGGGCGACC
2648677 AAGGAG
1 AAGGAG
2648683 TGATGCATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 13 0.43
27 1 0.03
29 16 0.53
ACGTcount: A:0.26, C:0.28, G:0.34, T:0.11
Consensus pattern (28 bp):
AAGGAGGTCACCATGCATCCGGGCGACC
Found at i:2648772 original size:52 final size:52
Alignment explanation
Indices: 2648715--2648817 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
2648705 AACAAGGAGT
*
2648715 GATGCATGTGGGAGCTGTGCATGGGCCATGCACGTTGAATGGTGTAGGTCGG
1 GATGCATGTGGGAGCTGTGCATGGGCCATGCACGTCGAATGGTGTAGGTCGG
*
2648767 GATGCATGTGGGAGCTGTGCATGGGTCATGCACGTCGAATGGTGTAGGTCG
1 GATGCATGTGGGAGCTGTGCATGGGCCATGCACGTCGAATGGTGTAGGTCG
2648818 CCATGGAGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.17, C:0.16, G:0.42, T:0.25
Consensus pattern (52 bp):
GATGCATGTGGGAGCTGTGCATGGGCCATGCACGTCGAATGGTGTAGGTCGG
Found at i:2648797 original size:26 final size:25
Alignment explanation
Indices: 2648716--2648798 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 25
2648706 ACAAGGAGTG
2648716 ATGCATGTGGGAGCTGTGCATGGGCC
1 ATGCATGTGGGAGCTGTGCATGGG-C
* * * * *
2648742 ATGCACGTTGAATGGTGTAG-GTCGGG-
1 ATGCATGTGGGA-GCTGT-GCAT-GGGC
2648768 ATGCATGTGGGAGCTGTGCATGGGTC
1 ATGCATGTGGGAGCTGTGCATGGG-C
2648794 ATGCA
1 ATGCA
2648799 CGTCGAATGG
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
24 4 0.10
25 5 0.12
26 23 0.56
27 5 0.12
28 4 0.10
ACGTcount: A:0.18, C:0.16, G:0.41, T:0.25
Consensus pattern (25 bp):
ATGCATGTGGGAGCTGTGCATGGGC
Found at i:2648911 original size:17 final size:17
Alignment explanation
Indices: 2648886--2648922 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
2648876 GATATTCTGC
2648886 ACCACGACCAAGCTTTA
1 ACCACGACCAAGCTTTA
*
2648903 ACCAGGACCAAGCTTTA
1 ACCACGACCAAGCTTTA
2648920 ACC
1 ACC
2648923 CTCTACATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.35, G:0.14, T:0.16
Consensus pattern (17 bp):
ACCACGACCAAGCTTTA
Found at i:2649008 original size:44 final size:44
Alignment explanation
Indices: 2648958--2649065 Score: 173
Period size: 44 Copynumber: 2.5 Consensus size: 44
2648948 CATAGCCTCA
* *
2648958 TGCATGCGTTTCATCCATAGCTGGGAGATTCCTGCATCCGTAGT
1 TGCATGCGTTTCATCCATAGATGGGAGATTCCTGCATCCGTAGC
2649002 TGCATGC-TTTGCATCCATAGATGGGAGATTCCTGCATCCGTAGC
1 TGCATGCGTTT-CATCCATAGATGGGAGATTCCTGCATCCGTAGC
*
2649046 TGCATGCGTTGCATCCATAG
1 TGCATGCGTTTCATCCATAG
2649066 TTGCATGCGT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 3 0.05
44 54 0.92
45 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (44 bp):
TGCATGCGTTTCATCCATAGATGGGAGATTCCTGCATCCGTAGC
Found at i:2649015 original size:21 final size:21
Alignment explanation
Indices: 2648990--2649092 Score: 91
Period size: 21 Copynumber: 4.8 Consensus size: 21
2648980 GGGAGATTCC
* *
2648990 TGCATCCGTAGTTGCATGCTT
1 TGCATCCATAGTTGCATGCGT
* * * *
2649011 TGCATCCATAGATGGGAGATTCCT
1 TGCATCCATAG-T-TG-CATGCGT
* *
2649035 -GCATCCGTAGCTGCATGCGT
1 TGCATCCATAGTTGCATGCGT
2649055 TGCATCCATAGTTGCATGCGT
1 TGCATCCATAGTTGCATGCGT
*
2649076 TGCATCCATAGCTGCAT
1 TGCATCCATAGTTGCAT
2649093 TATTGCAGCG
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
20 4 0.06
21 45 0.70
22 1 0.02
23 10 0.16
24 4 0.06
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.31
Consensus pattern (21 bp):
TGCATCCATAGTTGCATGCGT
Found at i:2649288 original size:18 final size:18
Alignment explanation
Indices: 2649265--2649299 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2649255 AGGGTAGAAG
*
2649265 CAGAAGTAGAAGCATAAC
1 CAGAAGCAGAAGCATAAC
*
2649283 CAGAAGCATAAGCATAA
1 CAGAAGCAGAAGCATAA
2649300 GCACATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.17, G:0.20, T:0.11
Consensus pattern (18 bp):
CAGAAGCAGAAGCATAAC
Found at i:2649488 original size:21 final size:21
Alignment explanation
Indices: 2649463--2649506 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2649453 AATCTAGTTA
2649463 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
2649484 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
2649505 AT
1 AT
2649507 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:2649516 original size:28 final size:30
Alignment explanation
Indices: 2649483--2649545 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
2649473 TAGTATAAAT
2649483 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
2649511 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
2649541 TATTA
1 TATTA
2649546 TATAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.61
29 1 0.03
30 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGTTATATATTA
Found at i:2649702 original size:43 final size:41
Alignment explanation
Indices: 2649654--2649751 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 41
2649644 GTTGAAGTTG
*
2649654 AAGTTATATTATAAAAAAAATTAATTAGTTTATTATTTTAA-CT
1 AAGTTATATTATAAAAAAAA--AA-TAGTTTATTAGTTTAAGCT
* * *
2649697 AAGTTATATTATAATAAAGAAATAGTTTATTAGTTTAAGTT
1 AAGTTATATTATAAAAAAAAAATAGTTTATTAGTTTAAGCT
2649738 ATA-TTATATTATAA
1 A-AGTTATATTATAA
2649752 TATATTAGAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 15 0.31
41 15 0.31
42 1 0.02
43 18 0.37
ACGTcount: A:0.46, C:0.01, G:0.07, T:0.46
Consensus pattern (41 bp):
AAGTTATATTATAAAAAAAAAATAGTTTATTAGTTTAAGCT
Found at i:2653439 original size:49 final size:49
Alignment explanation
Indices: 2653370--2653505 Score: 256
Period size: 49 Copynumber: 2.8 Consensus size: 49
2653360 ACCCATCTAC
2653370 TATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTAT
1 TATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTAT
2653419 TATTAACT-TTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTAT
1 TATTAA-TATTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTAT
2653468 TATTAATATTTAATGATTTGATAGTAATGATTAGTAAT
1 TATTAATATTTAATGATTTGATAGTAATGATTAGTAAT
2653506 TATTAATAAT
Statistics
Matches: 85, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
48 1 0.01
49 83 0.98
50 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.46
Consensus pattern (49 bp):
TATTAATATTTAATGATTTGATAGTAATGATTAGTAATAATGAAATTAT
Found at i:2653737 original size:11 final size:11
Alignment explanation
Indices: 2653721--2653762 Score: 75
Period size: 11 Copynumber: 3.7 Consensus size: 11
2653711 CATAAAAATG
2653721 ATTTAATAATA
1 ATTTAATAATA
2653732 ATTTAATAATA
1 ATTTAATAATA
2653743 ATTTAATAATGA
1 ATTTAATAAT-A
2653755 ATTTAATA
1 ATTTAATA
2653763 TTTAATGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (11 bp):
ATTTAATAATA
Found at i:2653824 original size:25 final size:24
Alignment explanation
Indices: 2653783--2653863 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 24
2653773 TGATGATTTA
2653783 AATGA-TTGATATAATCATTATAT
1 AATGATTTGATATAATCATTATAT
2653806 AATGATTTGATAATAATCATTATAAT
1 AATGATTTGAT-ATAATCATTAT-AT
*
2653832 AATGATTT-AGTATAATCAATATA-
1 AATGATTTGA-TATAATCATTATAT
2653855 ATATGATTT
1 A-ATGATTT
2653864 TAATATTTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
23 6 0.12
24 13 0.25
25 22 0.42
26 11 0.21
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (24 bp):
AATGATTTGATATAATCATTATAT
Found at i:2653829 original size:23 final size:23
Alignment explanation
Indices: 2653783--2654090 Score: 140
Period size: 26 Copynumber: 13.1 Consensus size: 23
2653773 TGATGATTTA
2653783 AATGA-TTGAT-ATAATCATTATAT
1 AATGATTTGATAATAATCA-T-TAT
2653806 AATGATTTGATAATAATCATTATAAT
1 AATGATTTGATAATAATCA-T-T-AT
*
2653832 AATGATTT-AGT-ATAATCAATAT
1 AATGATTTGA-TAATAATCATTAT
**
2653854 AAT-A--TGATTTTAAT-ATT-T
1 AATGATTTGATAATAATCATTAT
* *
2653872 AATGATTTGATGAT--T--TAAT
1 AATGATTTGATAATAATCATTAT
*
2653891 AATGGTTTGATAATAATCATTAT
1 AATGATTTGATAATAATCATTAT
* *
2653914 AATAATGATTCAGTAATAATCATTAT
1 AATGAT--TTGA-TAATAATCATTAT
* * * *
2653940 AATAATAGTTTAATAATAATGATAAT
1 AAT--GA-TTTGATAATAATCATTAT
2653966 AATGATTTGATAATAATCATTATAAT
1 AATGATTTGATAATAATCA-T-T-AT
* * *
2653992 AATGATTTAATAATAATGATAAT
1 AATGATTTGATAATAATCATTAT
* *
2654015 AATGATTTAATAATAATTATTATAAT
1 AATGATTTGATAATAATCA-T-T-AT
* * *
2654041 AATGATTTAATAGTAATGATTTAAT
1 AATGATTTGATAATAATCA-TT-AT
* *
2654066 AATGATTTTATAATAATGATT-T
1 AATGATTTGATAATAATCATTAT
2654088 AAT
1 AAT
2654091 ACTAATGATT
Statistics
Matches: 230, Mismatches: 29, Indels: 53
0.74 0.09 0.17
Matches are distributed among these distances:
18 5 0.02
19 19 0.08
20 5 0.02
21 7 0.03
22 9 0.04
23 45 0.20
24 10 0.04
25 44 0.19
26 81 0.35
27 3 0.01
28 1 0.00
29 1 0.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.44
Consensus pattern (23 bp):
AATGATTTGATAATAATCATTAT
Found at i:2653916 original size:26 final size:25
Alignment explanation
Indices: 2653887--2654107 Score: 218
Period size: 26 Copynumber: 8.7 Consensus size: 25
2653877 TTTGATGATT
*
2653887 TAATAATGGTTTGATAATAATCATTA
1 TAATAATGATTT-ATAATAATCATTA
*
2653913 TAATAATGATTCAGTAATAATCATTA
1 TAATAATGATTTA-TAATAATCATTA
* * *
2653939 TAATAAT-AGTT-TAATAATAATGA
1 TAATAATGATTTATAATAATCATTA
2653962 TAATAATGATTTGATAATAATCATTA
1 TAATAATGATTT-ATAATAATCATTA
* *
2653988 TAATAATGA-TT-TAATAATAATGA
1 TAATAATGATTTATAATAATCATTA
*
2654011 TAATAATGATTTAATAATAATTATTA
1 TAATAATGATTT-ATAATAATCATTA
* *
2654037 TAATAATGATTTAATAGTAATGATT-
1 TAATAATGATTT-ATAATAATCATTA
*
2654062 TAATAATGATTTTATAATAATGATTTAA
1 TAATAATGA-TTTATAATAATCA-TT-A
*
2654090 TACTAATGATTTAATAAT
1 TAATAATGATTT-ATAAT
2654108 TATTATTAAT
Statistics
Matches: 166, Mismatches: 17, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
23 36 0.22
24 5 0.03
25 23 0.14
26 86 0.52
27 3 0.02
28 13 0.08
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (25 bp):
TAATAATGATTTATAATAATCATTA
Found at i:2653942 original size:49 final size:46
Alignment explanation
Indices: 2653896--2654072 Score: 138
Period size: 49 Copynumber: 3.6 Consensus size: 46
2653886 TTAATAATGG
* *
2653896 TTTGATAATAATCATTATAATAATGATTCAGTAATAATCATTATAAT
1 TTTGATAATAATAATGATAATAATGATT-AGTAATAATCATTATAAT
* * * *
2653943 AATAGTTTAATAATAATGATAATAATGATTTGATAATAATCATTATAAT
1 -TTTG-ATAATAATAATGATAATAATGATTAG-TAATAATCATTATAAT
** * *
2653992 AATGATTTAATAATAATGATAATAATGATTTAATAATAATTATTATAAT
1 TTTGA--TAATAATAATGATAATAATGA-TTAGTAATAATCATTATAAT
** *
2654041 AATGATTTAATAGTAATGATTTAATAATGATT
1 TTTGA--TAATAATAATGA--TAATAATGATT
2654073 TTATAATAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
48 5 0.05
49 91 0.83
50 4 0.04
51 9 0.08
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.42
Consensus pattern (46 bp):
TTTGATAATAATAATGATAATAATGATTAGTAATAATCATTATAAT
Found at i:2653964 original size:6 final size:6
Alignment explanation
Indices: 2653927--2654043 Score: 53
Period size: 6 Copynumber: 20.2 Consensus size: 6
2653917 AATGATTCAG
* * * * * * *
2653927 TAATAA TCATTA TAATAA TAGT-T TAATAA TAATGA TAATAA TGAT-T
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * * * * *
2653973 TGATAA TAATCA TTATAA TAATGA T-TTAA TAATAA TGATAA TAATGA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * *
2654020 T-TTAA TAATAA TTATTA TAATAA T
1 TAATAA TAATAA TAATAA TAATAA T
2654044 GATTTAATAG
Statistics
Matches: 75, Mismatches: 32, Indels: 8
0.65 0.28 0.07
Matches are distributed among these distances:
5 13 0.17
6 62 0.83
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (6 bp):
TAATAA
Found at i:2653976 original size:14 final size:12
Alignment explanation
Indices: 2653783--2654113 Score: 198
Period size: 12 Copynumber: 26.8 Consensus size: 12
2653773 TGATGATTTA
2653783 AATGATTGAT-AT
1 AATGATT-ATAAT
*
2653795 AATCATTAT-AT
1 AATGATTATAAT
2653806 AATGATTTGATAAT
1 AATGA-TT-ATAAT
*
2653820 AATCATTATAAT
1 AATGATTATAAT
2653832 AATGATT-TAGTAT
1 AATGATTATA--AT
* *
2653845 AATCAATATAAT
1 AATGATTATAAT
*
2653857 -ATGATTTTAAT
1 AATGATTATAAT
* * * *
2653868 ATTTAATGAT-TT
1 A-ATGATTATAAT
*
2653880 GATGATT-TAAT
1 AATGATTATAAT
*
2653891 AATGGTTTGATAAT
1 AAT-GATT-ATAAT
*
2653905 AATCATTATAAT
1 AATGATTATAAT
2653917 AATGATTCAGTAAT
1 AATGATT-A-TAAT
*
2653931 AATCATTATAAT
1 AATGATTATAAT
2653943 AAT-AGTT-TAAT
1 AATGA-TTATAAT
* *
2653954 AATAATGATAAT
1 AATGATTATAAT
2653966 AATGATTTGATAAT
1 AATGA-TT-ATAAT
*
2653980 AATCATTATAAT
1 AATGATTATAAT
2653992 AATGATT-TAAT
1 AATGATTATAAT
* *
2654003 AATAATGATAAT
1 AATGATTATAAT
2654015 AATGATTTAATAAT
1 AATGA-TT-ATAAT
*
2654029 AATTATTATAAT
1 AATGATTATAAT
*
2654041 AATGATTTAATAGT
1 AATGA-TT-ATAAT
2654055 AATGATT-TAAT
1 AATGATTATAAT
2654066 AATGATTTTATAAT
1 AATGA--TTATAAT
*
2654080 AATGATTTAATACT
1 AATGA-TT-ATAAT
2654094 AATGATT-TAAT
1 AATGATTATAAT
*
2654105 AATTATTAT
1 AATGATTAT
2654114 TAATTATTAT
Statistics
Matches: 249, Mismatches: 41, Indels: 58
0.72 0.12 0.17
Matches are distributed among these distances:
10 1 0.00
11 59 0.24
12 83 0.33
13 36 0.14
14 70 0.28
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.44
Consensus pattern (12 bp):
AATGATTATAAT
Found at i:2656458 original size:15 final size:16
Alignment explanation
Indices: 2656438--2656471 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
2656428 CAAAAAAATT
2656438 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
2656453 TAATATAATAAACTTA
1 TAATATAATAAACTTA
2656469 TAA
1 TAA
2656472 AGTAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:2656702 original size:45 final size:47
Alignment explanation
Indices: 2656626--2656715 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 47
2656616 TCAACAACTA
* *
2656626 ATATAACTTAACTAATTAACTAACACAAACTAATTAAATAATTTTTTT
1 ATATAACTTAACGAATTAACTAAAACAAACTAATT-AATAATTTTTTT
*
2656674 ATATAAC-TAACGAA-TAAC-AAAACAAACTAATTAATTATTTTT
1 ATATAACTTAACGAATTAACTAAAACAAACTAATTAATAATTTTT
2656716 AACTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 9 0.23
45 13 0.33
46 4 0.10
47 6 0.15
48 7 0.18
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (47 bp):
ATATAACTTAACGAATTAACTAAAACAAACTAATTAATAATTTTTTT
Found at i:2656957 original size:13 final size:13
Alignment explanation
Indices: 2656918--2656964 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
2656908 CTCACAAGAG
2656918 CCTTATCTCCCTTT
1 CCTT-TCTCCCTTT
* *
2656932 CTTCTTCTTCCTTT
1 CCT-TTCTCCCTTT
2656946 CCTTTCTCCCTTT
1 CCTTTCTCCCTTT
2656959 -CTTTCT
1 CCTTTCT
2656965 TTCTTTCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 6 0.21
13 9 0.32
14 12 0.43
15 1 0.04
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.57
Consensus pattern (13 bp):
CCTTTCTCCCTTT
Found at i:2657001 original size:26 final size:26
Alignment explanation
Indices: 2656967--2657024 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
2656957 TTCTTTCTTT
* *
2656967 CTTTC-TCGGTTGCACTATCTTCTCC
1 CTTTCTTCGGCTGCAATATCTTCTCC
*
2656992 CTTTCTTCGGCTGCAATCTCTTCTCC
1 CTTTCTTCGGCTGCAATATCTTCTCC
2657018 CTTTCTT
1 CTTTCTT
2657025 TCTTTTATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.07, C:0.36, G:0.10, T:0.47
Consensus pattern (26 bp):
CTTTCTTCGGCTGCAATATCTTCTCC
Found at i:2657301 original size:29 final size:29
Alignment explanation
Indices: 2657257--2657315 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
2657247 CGTAAAAAAG
**
2657257 ACAAGGTCGCTGGGAGTGCAAGGCGACCT
1 ACAAGGTCGCCCGGAGTGCAAGGCGACCT
*
2657286 ACAAGGTCGCCCGGAGTGCATGGCGACCT
1 ACAAGGTCGCCCGGAGTGCAAGGCGACCT
2657315 A
1 A
2657316 TGGGTTGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.36, T:0.14
Consensus pattern (29 bp):
ACAAGGTCGCCCGGAGTGCAAGGCGACCT
Found at i:2657483 original size:486 final size:486
Alignment explanation
Indices: 2656931--2657903 Score: 1946
Period size: 486 Copynumber: 2.0 Consensus size: 486
2656921 TATCTCCCTT
2656931 TCTTCTTCTTCCTTTCCTTTCTCCCTTTCTTTCTTTCTTTCTCGGTTGCACTATCTTCTCCCTTT
1 TCTTCTTCTTCCTTTCCTTTCTCCCTTTCTTTCTTTCTTTCTCGGTTGCACTATCTTCTCCCTTT
2656996 CTTCGGCTGCAATCTCTTCTCCCTTTCTTTCTTTTATGGTCTCACGTTAACCACCTCCCATATAT
66 CTTCGGCTGCAATCTCTTCTCCCTTTCTTTCTTTTATGGTCTCACGTTAACCACCTCCCATATAT
2657061 AACACAAGCTGCATCAATTATTTCACCAATAATTGTACAATTCACGGGCTGAAATGGTTCACATG
131 AACACAAGCTGCATCAATTATTTCACCAATAATTGTACAATTCACGGGCTGAAATGGTTCACATG
2657126 CATGCATCAATAATTGCTGCATGAAGCAGTTGATTTCACGCAGCAATTGCAGCCCATATAGCTAC
196 CATGCATCAATAATTGCTGCATGAAGCAGTTGATTTCACGCAGCAATTGCAGCCCATATAGCTAC
2657191 AGTGACATGCAGTGGGGAGCAGGAGGGGACGGCATGCAGCGGGGAGCAGGTTATCACGTAAAAAA
261 AGTGACATGCAGTGGGGAGCAGGAGGGGACGGCATGCAGCGGGGAGCAGGTTATCACGTAAAAAA
2657256 GACAAGGTCGCTGGGAGTGCAAGGCGACCTACAAGGTCGCCCGGAGTGCATGGCGACCTATGGGT
326 GACAAGGTCGCTGGGAGTGCAAGGCGACCTACAAGGTCGCCCGGAGTGCATGGCGACCTATGGGT
2657321 TGGCTTGCATGGCTCATGCAACGTCGTCGTCGTTTATTCTCGGAAGCTGCCACGTCGTAGGTCGC
391 TGGCTTGCATGGCTCATGCAACGTCGTCGTCGTTTATTCTCGGAAGCTGCCACGTCGTAGGTCGC
2657386 CCGGAAGGCATGGCGACCTACGGCCAAACTG
456 CCGGAAGGCATGGCGACCTACGGCCAAACTG
2657417 TCTTCTTCTTCCTTTCCTTTCTCCCTTTCTTTCTTTCTTTCTCGGTTGCACTATCTTCTCCCTTT
1 TCTTCTTCTTCCTTTCCTTTCTCCCTTTCTTTCTTTCTTTCTCGGTTGCACTATCTTCTCCCTTT
2657482 CTTCGGCTGCAATCTCTTCTCCCTTTCTTTCTTTTATGGTCTCACGTTAACCACCTCCCATATAT
66 CTTCGGCTGCAATCTCTTCTCCCTTTCTTTCTTTTATGGTCTCACGTTAACCACCTCCCATATAT
2657547 AACACAAGCTGCATCAATTATTTCACCAATAATTGTACAATTCACGGGCTGAAATGGTTCACATG
131 AACACAAGCTGCATCAATTATTTCACCAATAATTGTACAATTCACGGGCTGAAATGGTTCACATG
2657612 CATGCATCAATAATTGCTGCATGAAGCAGTTGATTTCACGCAGCAATTGCAGCCCATATAGCTAC
196 CATGCATCAATAATTGCTGCATGAAGCAGTTGATTTCACGCAGCAATTGCAGCCCATATAGCTAC
2657677 AGTGACATGCAGTGGGGAGCAGGAGGGGACGGCATGCAGCGGGGAGCAGGTTATCACGTAAAAAA
261 AGTGACATGCAGTGGGGAGCAGGAGGGGACGGCATGCAGCGGGGAGCAGGTTATCACGTAAAAAA
2657742 GACAAGGTCGCTGGGAGTGCAAGGCGACCTACAAGGTCGCCCGGAGTGCATGGCGACCTATGGGT
326 GACAAGGTCGCTGGGAGTGCAAGGCGACCTACAAGGTCGCCCGGAGTGCATGGCGACCTATGGGT
2657807 TGGCTTGCATGGCTCATGCAACGTCGTCGTCGTTTATTCTCGGAAGCTGCCACGTCGTAGGTCGC
391 TGGCTTGCATGGCTCATGCAACGTCGTCGTCGTTTATTCTCGGAAGCTGCCACGTCGTAGGTCGC
2657872 CCGGAAGGCATGGCGACCTACGGCCAAACTG
456 CCGGAAGGCATGGCGACCTACGGCCAAACTG
2657903 T
1 T
2657904 GCATCACCCT
Statistics
Matches: 487, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
486 487 1.00
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.29
Consensus pattern (486 bp):
TCTTCTTCTTCCTTTCCTTTCTCCCTTTCTTTCTTTCTTTCTCGGTTGCACTATCTTCTCCCTTT
CTTCGGCTGCAATCTCTTCTCCCTTTCTTTCTTTTATGGTCTCACGTTAACCACCTCCCATATAT
AACACAAGCTGCATCAATTATTTCACCAATAATTGTACAATTCACGGGCTGAAATGGTTCACATG
CATGCATCAATAATTGCTGCATGAAGCAGTTGATTTCACGCAGCAATTGCAGCCCATATAGCTAC
AGTGACATGCAGTGGGGAGCAGGAGGGGACGGCATGCAGCGGGGAGCAGGTTATCACGTAAAAAA
GACAAGGTCGCTGGGAGTGCAAGGCGACCTACAAGGTCGCCCGGAGTGCATGGCGACCTATGGGT
TGGCTTGCATGGCTCATGCAACGTCGTCGTCGTTTATTCTCGGAAGCTGCCACGTCGTAGGTCGC
CCGGAAGGCATGGCGACCTACGGCCAAACTG
Found at i:2657487 original size:26 final size:26
Alignment explanation
Indices: 2657453--2657510 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
2657443 TTCTTTCTTT
* *
2657453 CTTTC-TCGGTTGCACTATCTTCTCC
1 CTTTCTTCGGCTGCAATATCTTCTCC
*
2657478 CTTTCTTCGGCTGCAATCTCTTCTCC
1 CTTTCTTCGGCTGCAATATCTTCTCC
2657504 CTTTCTT
1 CTTTCTT
2657511 TCTTTTATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.07, C:0.36, G:0.10, T:0.47
Consensus pattern (26 bp):
CTTTCTTCGGCTGCAATATCTTCTCC
Found at i:2657787 original size:29 final size:29
Alignment explanation
Indices: 2657743--2657801 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
2657733 CGTAAAAAAG
**
2657743 ACAAGGTCGCTGGGAGTGCAAGGCGACCT
1 ACAAGGTCGCCCGGAGTGCAAGGCGACCT
*
2657772 ACAAGGTCGCCCGGAGTGCATGGCGACCT
1 ACAAGGTCGCCCGGAGTGCAAGGCGACCT
2657801 A
1 A
2657802 TGGGTTGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.36, T:0.14
Consensus pattern (29 bp):
ACAAGGTCGCCCGGAGTGCAAGGCGACCT
Found at i:2662744 original size:12 final size:13
Alignment explanation
Indices: 2662713--2662744 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2662703 GTTGACAATC
2662713 TGTAAAT-TCTAA
1 TGTAAATCTCTAA
2662725 TGTAAATCT-TAA
1 TGTAAATCTCTAA
2662737 TGTAAATC
1 TGTAAATC
2662745 CCAATTGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 18 0.95
13 1 0.05
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (13 bp):
TGTAAATCTCTAA
Found at i:2663720 original size:16 final size:17
Alignment explanation
Indices: 2663699--2663731 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2663689 ATTTACGATG
2663699 GTGGCCA-CGATGGTTT
1 GTGGCCACCGATGGTTT
2663715 GTGGCCACCGATGGTTT
1 GTGGCCACCGATGGTTT
2663732 TCGATCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.12, C:0.21, G:0.36, T:0.30
Consensus pattern (17 bp):
GTGGCCACCGATGGTTT
Found at i:2664163 original size:18 final size:18
Alignment explanation
Indices: 2664140--2664178 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2664130 ATTTTAGTCC
2664140 TATATGTT-AAATGTTATA
1 TATATGTTCAAATGTT-TA
*
2664158 TATATGTTCAAGTGTTTA
1 TATATGTTCAAATGTTTA
2664176 TAT
1 TAT
2664179 TTCTGTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (18 bp):
TATATGTTCAAATGTTTA
Found at i:2664672 original size:29 final size:30
Alignment explanation
Indices: 2664636--2664708 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
2664626 TTTATGTATA
2664636 TTTA-TATTTTAGT-TCATAACTTTCTATT
1 TTTACTATTTTAGTCTCATAACTTTCTATT
** ** *
2664664 TTTGTTATTTTAGTCTTTTAACTTTCTGTT
1 TTTACTATTTTAGTCTCATAACTTTCTATT
2664694 TTTACTATTTTAGTC
1 TTTACTATTTTAGTC
2664709 ATTTAAGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
28 3 0.08
29 9 0.24
30 25 0.68
ACGTcount: A:0.19, C:0.11, G:0.07, T:0.63
Consensus pattern (30 bp):
TTTACTATTTTAGTCTCATAACTTTCTATT
Found at i:2664688 original size:30 final size:30
Alignment explanation
Indices: 2664652--2664771 Score: 134
Period size: 30 Copynumber: 4.0 Consensus size: 30
2664642 TTTTAGTTCA
* *
2664652 TAACTTTCTATTTTTGTTATTTTAGTCTTT
1 TAACTTTCTGTTTTTGCTATTTTAGTCTTT
* *
2664682 TAACTTTCTGTTTTTACTATTTTAGTCATT
1 TAACTTTCTGTTTTTGCTATTTTAGTCTTT
* * * *
2664712 TAAGTTTTTGTTTTTG-TTTTTTAGTCTTG
1 TAACTTTCTGTTTTTGCTATTTTAGTCTTT
* * *
2664741 TAAATTTATGTTTTTGCTATTTTGGTCTTT
1 TAACTTTCTGTTTTTGCTATTTTAGTCTTT
2664771 T
1 T
2664772 TAAATAGAGT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
29 24 0.32
30 50 0.68
ACGTcount: A:0.16, C:0.08, G:0.11, T:0.65
Consensus pattern (30 bp):
TAACTTTCTGTTTTTGCTATTTTAGTCTTT
Found at i:2664706 original size:59 final size:58
Alignment explanation
Indices: 2664626--2664763 Score: 154
Period size: 59 Copynumber: 2.3 Consensus size: 58
2664616 TTAGCTCTGG
* *
2664626 TTTATGTATATTTA-TATTTTAGTTCA-TAACTTTCTATTTTTGTTATTTTAGTCTTTTAAC
1 TTTATGT-T-TTTACTATTTTAG-TCATTAACTTTCTATTTTTGTT-TTTTAGTCTTGTAAA
* * * *
2664686 TTTCTGTTTTTACTATTTTAGTCATTTAAGTTTTTGTTTTTGTTTTTTAGTCTTGTAAA
1 TTTATGTTTTTACTATTTTAGTCA-TTAACTTTCTATTTTTGTTTTTTAGTCTTGTAAA
*
2664745 TTTATGTTTTTGCTATTTT
1 TTTATGTTTTTACTATTTT
2664764 GGTCTTTTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
58 7 0.10
59 39 0.58
60 21 0.31
ACGTcount: A:0.19, C:0.07, G:0.09, T:0.64
Consensus pattern (58 bp):
TTTATGTTTTTACTATTTTAGTCATTAACTTTCTATTTTTGTTTTTTAGTCTTGTAAA
Found at i:2674778 original size:17 final size:17
Alignment explanation
Indices: 2674754--2674798 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
2674744 AAAAAATGTT
*
2674754 GAAAAAAAATAGCAGTTC
1 GAAAAAAAA-AACAGTTC
*
2674772 GAAAAAAAAAACTGTTC
1 GAAAAAAAAAACAGTTC
2674789 GAAAAAAAAA
1 GAAAAAAAAA
2674799 GACATGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.64, C:0.09, G:0.13, T:0.13
Consensus pattern (17 bp):
GAAAAAAAAAACAGTTC
Found at i:2678481 original size:23 final size:24
Alignment explanation
Indices: 2678440--2678484 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
2678430 AGATCGAAGC
*
2678440 TGGGGCAAGAGAAGACAAATTTGA
1 TGGGGCAAGAGAAAACAAATTTGA
*
2678464 TGGGGTAAG-GAAAACAAATTT
1 TGGGGCAAGAGAAAACAAATTT
2678485 TATTAGGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.42, C:0.07, G:0.31, T:0.20
Consensus pattern (24 bp):
TGGGGCAAGAGAAAACAAATTTGA
Found at i:2678988 original size:36 final size:36
Alignment explanation
Indices: 2678940--2679010 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
2678930 ATTATTTTTT
2678940 TAAAATACAAAGTGTCGTCTCGCTTGAGACAATTTC
1 TAAAATACAAAGTGTCGTCTCGCTTGAGACAATTTC
* * * *
2678976 TAAAA-ACAAAAGTTTTGTCTCTCTTGAGATAATTT
1 TAAAATAC-AAAGTGTCGTCTCGCTTGAGACAATTT
2679011 TCTTGAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.07
36 28 0.93
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (36 bp):
TAAAATACAAAGTGTCGTCTCGCTTGAGACAATTTC
Found at i:2679140 original size:40 final size:40
Alignment explanation
Indices: 2679088--2679189 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
2679078 TAACTTGTCA
*
2679088 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCATATC
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATC
*
2679128 TCCTCATCACGTAGGAACCGTGTCATCTACCGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATC
* * *
2679168 TCCTCATTACATAGGAGCCGTG
1 TCCTCATCACGTAGGAACCGTG
2679190 CCACCTCTAG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.24
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATC
Found at i:2680347 original size:14 final size:14
Alignment explanation
Indices: 2680328--2680356 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2680318 AGTCTTTTAT
2680328 TTTTGTATTTAAGA
1 TTTTGTATTTAAGA
2680342 TTTTGTATTTAAGA
1 TTTTGTATTTAAGA
2680356 T
1 T
2680357 ATATCTAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTTTGTATTTAAGA
Found at i:2680379 original size:21 final size:21
Alignment explanation
Indices: 2680365--2680485 Score: 95
Period size: 21 Copynumber: 5.7 Consensus size: 21
2680355 ATATATCTAG
2680365 ATAAAATAATAATATATAATA
1 ATAAAATAATAATATATAATA
*
2680386 ATTAAATAATAATATATAATA
1 ATAAAATAATAATATATAATA
* *
2680407 AT-AATTAATATATAAATAATA
1 ATAAAATAATA-ATATATAATA
** *
2680428 TATATTATAAGAAT-TAT-ATA
1 -ATAAAATAATAATATATAATA
*
2680448 ATATAAATAATATATATTATAAGA
1 ATA-AAATAATA-ATA-TATAATA
* *
2680472 ATTATATAATAATA
1 ATAAAATAATAATA
2680486 AAATATATTA
Statistics
Matches: 78, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
19 3 0.04
20 15 0.19
21 35 0.45
22 7 0.09
23 14 0.18
24 4 0.05
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAAATAATAATATATAATA
Found at i:2680393 original size:18 final size:18
Alignment explanation
Indices: 2680373--2680486 Score: 102
Period size: 17 Copynumber: 6.6 Consensus size: 18
2680363 AGATAAAATA
2680373 ATAATATATAATAATTAAAT
1 ATAATATATAATAATT--AT
*
2680393 AATAATATATAATAATAAT
1 -ATAATATATAATAATTAT
2680412 -TAATATATAAATAA-TAT
1 ATAATATAT-AATAATTAT
*
2680429 AT-AT-TATAAGAATTAT
1 ATAATATATAATAATTAT
2680445 ATAATATA-AATAA-TAT
1 ATAATATATAATAATTAT
*
2680461 AT-AT-TATAAGAATTAT
1 ATAATATATAATAATTAT
2680477 ATAATA-ATAA
1 ATAATATATAA
2680487 AATATATTAT
Statistics
Matches: 79, Mismatches: 5, Indels: 22
0.75 0.05 0.21
Matches are distributed among these distances:
14 2 0.03
15 10 0.13
16 18 0.23
17 24 0.30
18 8 0.10
19 2 0.03
21 15 0.19
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
ATAATATATAATAATTAT
Found at i:2680477 original size:14 final size:14
Alignment explanation
Indices: 2680428--2680483 Score: 58
Period size: 14 Copynumber: 3.7 Consensus size: 14
2680418 ATAAATAATA
2680428 TATATTATAAGAAT
1 TATATTATAAGAAT
*
2680442 TATATAATATAAATAAT
1 TATAT--TAT-AAGAAT
2680459 ATATATTATAAGAAT
1 -TATATTATAAGAAT
*
2680474 TATATAATAA
1 TATATTATAA
2680484 TAAAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 14 0.40
15 5 0.14
16 6 0.17
17 5 0.14
18 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (14 bp):
TATATTATAAGAAT
Found at i:2680510 original size:32 final size:34
Alignment explanation
Indices: 2680370--2680517 Score: 163
Period size: 32 Copynumber: 4.5 Consensus size: 34
2680360 TCTAGATAAA
2680370 ATAATAATATATAATAAT-TAAATAATA-ATA-T
1 ATAATAATATATAATAATATAAATAATATATATT
2680401 ATAATAATA-ATTAAT-ATATAAATAATATATATT
1 ATAATAATATA-TAATAATATAAATAATATATATT
*
2680434 ATAAGAAT-TAT-ATAATATAAATAATATATATT
1 ATAATAATATATAATAATATAAATAATATATATT
*
2680466 ATAAGAATTATATAATAATA-AAAT-ATAT-TATT
1 ATAATAA-TATATAATAATATAAATAATATATATT
*
2680498 CTTAATAATATATTAATAAT
1 -ATAATAATATA-TAATAAT
2680518 CTTATCTATC
Statistics
Matches: 103, Mismatches: 3, Indels: 20
0.82 0.02 0.16
Matches are distributed among these distances:
30 3 0.03
31 24 0.23
32 37 0.36
33 26 0.25
34 7 0.07
35 6 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (34 bp):
ATAATAATATATAATAATATAAATAATATATATT
Found at i:2680515 original size:11 final size:11
Alignment explanation
Indices: 2680371--2680517 Score: 66
Period size: 11 Copynumber: 13.6 Consensus size: 11
2680361 CTAGATAAAA
2680371 TAATAATATA-
1 TAATAATATAT
*
2680381 TAATAAT-TAAA
1 TAATAATAT-AT
2680392 TAATAATATA-
1 TAATAATATAT
2680402 TAATAATA-AT
1 TAATAATATAT
2680412 TAAT-ATATA-
1 TAATAATATAT
2680421 -AATAATATAT
1 TAATAATATAT
* *
2680431 ATTATAAGA-AT
1 -TAATAATATAT
2680442 TATATAATATA-
1 TA-ATAATATAT
2680453 -AATAATATAT
1 TAATAATATAT
* *
2680463 ATTATAAGA-AT
1 -TAATAATATAT
2680474 TATATAATA-AT
1 TA-ATAATATAT
* *
2680485 AAAATATATTATTCT
1 -TAATA-A-TA-TAT
2680500 TAATAATATAT
1 TAATAATATAT
2680511 TAATAAT
1 TAATAAT
2680518 CTTATCTATC
Statistics
Matches: 105, Mismatches: 12, Indels: 39
0.67 0.08 0.25
Matches are distributed among these distances:
8 3 0.03
9 18 0.17
10 24 0.23
11 36 0.34
12 16 0.15
13 3 0.03
14 4 0.04
15 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
TAATAATATAT
Found at i:2680551 original size:19 final size:19
Alignment explanation
Indices: 2680527--2680564 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2680517 TCTTATCTAT
2680527 CTTAATAATACTATATAGA
1 CTTAATAATACTATATAGA
2680546 CTTAATAATACTATATAGA
1 CTTAATAATACTATATAGA
2680565 AATATAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (19 bp):
CTTAATAATACTATATAGA
Found at i:2680589 original size:22 final size:22
Alignment explanation
Indices: 2680557--2680599 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2680547 TTAATAATAC
*
2680557 TATATAGAAATATAGATTTATT
1 TATATACAAATATAGATTTATT
2680579 TATATACAAATATAGATTTAT
1 TATATACAAATATAGATTTAT
2680600 AAATCGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (22 bp):
TATATACAAATATAGATTTATT
Found at i:2681057 original size:17 final size:17
Alignment explanation
Indices: 2681037--2681096 Score: 52
Period size: 20 Copynumber: 3.4 Consensus size: 17
2681027 ATTTATTTAT
2681037 ATATTTTATTTAGAATAA
1 ATATTTTATTTAGAAT-A
2681055 TATAATTTTATTTAGAAT-
1 -AT-ATTTTATTTAGAATA
*
2681073 ATATTAATATTTA-AATTA
1 ATATT-TTATTTAGAA-TA
2681091 ATATTT
1 ATATTT
2681097 AATATTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
16 5 0.14
17 9 0.26
18 5 0.14
19 2 0.06
20 14 0.40
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATTTTATTTAGAATA
Found at i:2681064 original size:20 final size:21
Alignment explanation
Indices: 2681034--2681073 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
2681024 CTAATTTATT
2681034 TATATATTTTATTTAGAATAA
1 TATATATTTTATTTAGAATAA
2681055 TATA-ATTTTATTTAGAATA
1 TATATATTTTATTTAGAATA
2681074 TATTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (21 bp):
TATATATTTTATTTAGAATAA
Found at i:2681092 original size:12 final size:13
Alignment explanation
Indices: 2681073--2681103 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
2681063 TATTTAGAAT
2681073 ATATTAATATTTA
1 ATATTAATATTTA
2681086 A-ATTAATATTTA
1 ATATTAATATTTA
2681098 ATATTA
1 ATATTA
2681104 TTAATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTAATATTTA
Found at i:2681124 original size:10 final size:10
Alignment explanation
Indices: 2681101--2681158 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 10
2681091 ATATTTAATA
* *
2681101 TTATTAATTA
1 TTATTATTTT
2681111 TTATTATTTT
1 TTATTATTTT
*
2681121 TTATAATTTT
1 TTATTATTTT
*
2681131 TT-TTATATT
1 TTATTATTTT
*
2681140 AT-TTATTTT
1 TTATTATTTT
2681149 TTA-TATTTT
1 TTATTATTTT
2681158 T
1 T
2681159 ATATATTCTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
9 20 0.51
10 19 0.49
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTATTTT
Found at i:2681127 original size:28 final size:28
Alignment explanation
Indices: 2681096--2681201 Score: 78
Period size: 28 Copynumber: 3.9 Consensus size: 28
2681086 AATTAATATT
2681096 TAATATTATTAATTATTA-TTATTTTTTA
1 TAATATTATTAA-TATTATTTATTTTTTA
* * *
2681124 TAATTTTTTTTATATTATTTATTTTTTA
1 TAATATTATTAATATTATTTATTTTTTA
* * * * *
2681152 TATTTTTATATATTCTTATTTACTTATTTA
1 TAATATTAT-TAATATTATTTA-TTTTTTA
2681182 T-ATATT-TT-ATATT-TTTATTT
1 TAATATTATTAATATTATTTATTT
2681202 CATTTAGTTC
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
24 2 0.03
25 4 0.07
26 3 0.05
27 6 0.10
28 27 0.44
29 12 0.20
30 7 0.11
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (28 bp):
TAATATTATTAATATTATTTATTTTTTA
Found at i:2681156 original size:37 final size:39
Alignment explanation
Indices: 2681092--2681197 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 39
2681082 TTTAAATTAA
* *
2681092 TATTTAATATTA-TTAATTATTATTATTTTTTATA-ATT-T
1 TATTT-ATATTATTTATTTTTTA-TATTTTTTATATATTCT
*
2681130 TTTTTATATTATTTATTTTTTATA-TTTTTATATATTCT
1 TATTTATATTATTTATTTTTTATATTTTTTATATATTCT
*
2681168 TATTTA-CTTATTTATATATTTTATATTTTT
1 TATTTATATTATTTAT-T-TTTTATATTTTT
2681198 ATTTCATTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
36 8 0.14
37 19 0.33
38 19 0.33
39 7 0.12
40 4 0.07
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (39 bp):
TATTTATATTATTTATTTTTTATATTTTTTATATATTCT
Found at i:2681159 original size:8 final size:8
Alignment explanation
Indices: 2681130--2681199 Score: 61
Period size: 8 Copynumber: 7.9 Consensus size: 8
2681120 TTTATAATTT
2681130 TTTTTATA
1 TTTTTATA
2681138 TTATTTAT-
1 TT-TTTATA
2681146 TTTTTATA
1 TTTTTATA
2681154 TTTTTATA
1 TTTTTATA
2681162 TATTCTTATTTA
1 T-TT-TTA--TA
2681174 CTTATTTATA
1 -TT-TTTATA
2681184 TATTTTATA
1 T-TTTTATA
2681193 TTTTTAT
1 TTTTTAT
2681200 TTCATTTAGT
Statistics
Matches: 53, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
7 5 0.09
8 19 0.36
9 15 0.28
10 6 0.11
12 6 0.11
13 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTATA
Found at i:2681925 original size:13 final size:13
Alignment explanation
Indices: 2681893--2681941 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
2681883 TGAAAATTGA
*
2681893 TAATAATCAATAATT
1 TAATAATAAAT-A-T
2681908 TAATAATAAATAT
1 TAATAATAAATAT
2681921 TAATAATAAATAT
1 TAATAATAAATAT
2681934 TAAATAAT
1 T-AATAAT
2681942 TGATTATTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 15 0.47
14 7 0.22
15 10 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
TAATAATAAATAT
Found at i:2685224 original size:22 final size:22
Alignment explanation
Indices: 2685199--2685241 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2685189 ATTTCGATTT
*
2685199 ATAAATCTATATTTGTATATAA
1 ATAAATCTATATTTCTATATAA
2685221 ATAAATCTATATTTCTATATA
1 ATAAATCTATATTTCTATATA
2685242 GTATTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAAATCTATATTTCTATATAA
Found at i:2685258 original size:19 final size:19
Alignment explanation
Indices: 2685234--2685288 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2685224 AATCTATATT
2685234 TCTATATAGTATTATTAAG
1 TCTATATAGTATTATTAAG
2685253 TCTATATAGTATTATTAAG
1 TCTATATAGTATTATTAAG
*
2685272 -ATATATAAG-ATTATTAA
1 TCTATAT-AGTATTATTAA
2685289 TATACTATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 13 0.38
19 21 0.62
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (19 bp):
TCTATATAGTATTATTAAG
Found at i:2685334 original size:23 final size:23
Alignment explanation
Indices: 2685305--2685433 Score: 88
Period size: 23 Copynumber: 5.4 Consensus size: 23
2685295 ATTAAGAATA
*
2685305 ATATAATAATATATTTTATTATT
1 ATATAATTATATATTTTATTATT
* *
2685328 ATATAATTCTTATAATATATATTATT
1 ATATAATT-ATAT-AT-TTTATTATT
*
2685354 -TAT-ATTATATAATTCTTATAATAT
1 ATATAATTATAT-ATT-TTATTAT-T
*
2685378 ATATTATTTATATATTAATTATTATT
1 ATA-TAATTATATATT--TTATTATT
*
2685404 ATAT-ATTAT-TATTTAATTATT
1 ATATAATTATATATTTTATTATT
2685425 ATAT-ATTAT
1 ATATAATTAT
2685434 TAGCCTCTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
21 16 0.19
22 1 0.01
23 22 0.26
24 11 0.13
25 8 0.09
26 16 0.19
27 12 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATATAATTATATATTTTATTATT
Found at i:2685342 original size:32 final size:30
Alignment explanation
Indices: 2685306--2685423 Score: 130
Period size: 32 Copynumber: 3.7 Consensus size: 30
2685296 TTAAGAATAA
2685306 TATAATAATATATTTTATTATTATATAATTCT
1 TATAAT-ATATATTTT-TTATTATATAATTCT
2685338 TATAATATATATTATTTATATTATATAATTCT
1 TATAATATATATT-TTT-TATTATATAATTCT
* *
2685370 TATAATATATATTATTTA-TATATTAATTAT
1 TATAATATATATTTTTTATTATA-TAATTCT
* *
2685400 TATTATATATTATTATTTAATTAT
1 TATAATATA-TATT-TTTTATTAT
2685424 TATATATTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
29 4 0.05
30 16 0.21
31 14 0.19
32 38 0.51
33 3 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (30 bp):
TATAATATATATTTTTTATTATATAATTCT
Found at i:2685363 original size:18 final size:18
Alignment explanation
Indices: 2685316--2685434 Score: 86
Period size: 18 Copynumber: 7.2 Consensus size: 18
2685306 TATAATAATA
2685316 TATTT-TATTAT-TATAT
1 TATTTATATTATATATAT
* *
2685332 AATTCT-TATAATATATAT
1 TATT-TATATTATATATAT
2685350 TATTTATATTATATA-AT
1 TATTTATATTATATATAT
*
2685367 T-CTTATA--ATATATAT
1 TATTTATATTATATATAT
2685382 TATTTATA-TAT-TA-AT
1 TATTTATATTATATATAT
2685397 TA--T-TATTATATATTAT
1 TATTTATATTATATA-TAT
2685413 TATTTA-ATTATTATATAT
1 TATTTATATTA-TATATAT
2685431 TATT
1 TATT
2685435 AGCCTCTTTA
Statistics
Matches: 83, Mismatches: 6, Indels: 26
0.72 0.05 0.23
Matches are distributed among these distances:
12 2 0.02
13 4 0.05
14 7 0.08
15 7 0.08
16 19 0.23
17 12 0.14
18 28 0.34
19 4 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTATATTATATATAT
Found at i:2685364 original size:7 final size:7
Alignment explanation
Indices: 2685313--2685433 Score: 61
Period size: 7 Copynumber: 16.3 Consensus size: 7
2685303 TAATATAATA
2685313 ATATATT
1 ATATATT
*
2685320 TTATTATT
1 ATA-TATT
2685328 ATATAATT
1 ATAT-ATT
* *
2685336 CTTATAAT
1 -ATATATT
2685344 ATATATT
1 ATATATT
2685351 ATTTATATT
1 A--TATATT
2685360 ATATAATT
1 ATAT-ATT
* *
2685368 CTTATAAT
1 -ATATATT
2685376 ATATATT
1 ATATATT
*
2685383 ATTTA-T
1 ATATATT
2685389 ATATTAATT
1 ATA-T-ATT
2685398 AT-TATT
1 ATATATT
2685404 ATATATT
1 ATATATT
2685411 AT-TATT
1 ATATATT
2685417 -TAATTATT
1 AT-A-TATT
2685425 ATATATT
1 ATATATT
2685432 AT
1 AT
2685434 TAGCCTCTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 30
0.67 0.09 0.23
Matches are distributed among these distances:
5 1 0.01
6 12 0.14
7 35 0.40
8 22 0.25
9 17 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (7 bp):
ATATATT
Found at i:2685396 original size:21 final size:19
Alignment explanation
Indices: 2685340--2685432 Score: 67
Period size: 17 Copynumber: 5.1 Consensus size: 19
2685330 ATAATTCTTA
2685340 TAATATATATTATT-TATAT
1 TAATAT-TATTATTATATAT
* *
2685359 T-ATATAATTCTTATA-A-
1 TAATATTATTATTATATAT
2685375 T-ATA-TATTATTTATATAT
1 TAATATTATTA-TTATATAT
2685393 T-A-ATTATTATTATATAT
1 TAATATTATTATTATATAT
*
2685410 TATTATTTAATTATTATATAT
1 TAATA-TT-ATTATTATATAT
2685431 TA
1 TA
2685433 TTAGCCTCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
15 3 0.05
16 9 0.15
17 17 0.28
18 13 0.22
19 2 0.03
20 2 0.03
21 14 0.23
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (19 bp):
TAATATTATTATTATATAT
Found at i:2685433 original size:21 final size:21
Alignment explanation
Indices: 2685321--2685435 Score: 96
Period size: 21 Copynumber: 5.4 Consensus size: 21
2685311 TAATATATTT
* *
2685321 TATTATTATATAATTCTTATAA
1 TATTATTATTTAATTATTAT-A
2685343 TATATATTATTT-A-TATTATA
1 TAT-TATTATTTAATTATTATA
*
2685363 TAATTCTTATAATATATATTATT-TA
1 T-ATTATTAT--T-TA-ATTATTATA
*
2685388 TA-TATTAATT-ATTATTATA
1 TATTATTATTTAATTATTATA
2685407 TATTATTATTTAATTATTATA
1 TATTATTATTTAATTATTATA
2685428 TATTATTA
1 TATTATTA
2685436 GCCTCTTTAG
Statistics
Matches: 76, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
18 6 0.08
19 4 0.05
20 15 0.20
21 25 0.33
22 5 0.07
23 12 0.16
24 1 0.01
25 4 0.05
26 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTATTATTTAATTATTATA
Found at i:2686221 original size:75 final size:75
Alignment explanation
Indices: 2686098--2686247 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
2686088 TGGGGTTTGC
2686098 GTGTGTTTTGTGAGGGGTTATTAGCAATATTAGTCCTCATTGCTTTATAAACTCACCCGCGTGTG
1 GTGTGTTTTGTGAGGGGTTATTAGCAATATTAGTCCTCATTGCTTTATAAACTCACCCGCGTGTG
2686163 TAATACCCTA
66 TAATACCCTA
2686173 GTGTGTTTTGTGAGGGGTTATTAGCAATATTAGTCCTCATTGCTTTATAAACTCACCCGCGTGTG
1 GTGTGTTTTGTGAGGGGTTATTAGCAATATTAGTCCTCATTGCTTTATAAACTCACCCGCGTGTG
2686238 TAATACCCTA
66 TAATACCCTA
2686248 ATTTTGTCCG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (75 bp):
GTGTGTTTTGTGAGGGGTTATTAGCAATATTAGTCCTCATTGCTTTATAAACTCACCCGCGTGTG
TAATACCCTA
Found at i:2690302 original size:6 final size:6
Alignment explanation
Indices: 2690256--2690285 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
2690246 TAACACCTCG
*
2690256 TGCATT TGCATT TGCATC TGCATT TGCATT
1 TGCATT TGCATT TGCATT TGCATT TGCATT
2690286 CTTATTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (6 bp):
TGCATT
Found at i:2692152 original size:6 final size:6
Alignment explanation
Indices: 2692132--2692167 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
2692122 CCTTTTGTAA
2692132 TTGCAT TTAGCAT TTGCAT TTGCAT TTGCA- TTGCAT
1 TTGCAT TT-GCAT TTGCAT TTGCAT TTGCAT TTGCAT
2692168 ATATTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.18
6 17 0.61
7 6 0.21
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (6 bp):
TTGCAT
Found at i:2694881 original size:126 final size:125
Alignment explanation
Indices: 2694548--2694855 Score: 424
Period size: 126 Copynumber: 2.4 Consensus size: 125
2694538 GGGGCATGGT
* * * *
2694548 TGAAGCCACATCATGTTGAGATGACCAGATTCAGAA-CAAGTAGGCATTGAGAATGAGCCTTACA
1 TGAACCCACATCATGTTGAGATGACAAGATTCA-AACCAAG-AAGTATTGAGAATGAGCCTTACA
* * *
2694612 ATTTGAGGTGATGGGGCATTTTGATGGCCCGTACCGGTATAAAATAATGTTGGGGGCACGAT
64 ATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAAATAATGTTGGGGGCACGAC
* * * * *
2694674 TGAACCCATATCATATTGAGATGAAAAGATTCAGACCACAGATGTA-TGAAGAATGAGCCTTACA
1 TGAACCCACATCATGTTGAGATGACAAGATTCAAACCA-AGAAGTATTG-AGAATGAGCCTTACA
* *
2694738 ATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACTAGTATAAGATAATGTT-GGGGCACGAC
64 ATTTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAAATAATGTTGGGGGCACGAC
2694799 TGAACCCACATCATGTTGAGATGACAAGATTCAAACCAAGAAGTTATTGAGAATGAG
1 TGAACCCACATCATGTTGAGATGACAAGATTCAAACCAAGAAG-TATTGAGAATGAG
2694856 TCTTGCAACT
Statistics
Matches: 159, Mismatches: 18, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
124 4 0.03
125 56 0.35
126 97 0.61
127 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (125 bp):
TGAACCCACATCATGTTGAGATGACAAGATTCAAACCAAGAAGTATTGAGAATGAGCCTTACAAT
TTGAGGTGATGGGGCATTTTGAAGGCCCGTACCAGTATAAAATAATGTTGGGGGCACGAC
Found at i:2695866 original size:42 final size:41
Alignment explanation
Indices: 2695800--2695901 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
2695790 TTCACAATTT
* * * *
2695800 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
* * *
2695841 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
*
2695883 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGCCATC
2695902 CATAAAACCT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG
Found at i:2696046 original size:216 final size:213
Alignment explanation
Indices: 2695642--2696143 Score: 797
Period size: 216 Copynumber: 2.3 Consensus size: 213
2695632 TGAAGCAAAC
* * * *
2695642 TCATCTGTAAGCCTTTAGGGCAAGATGATAAGTCCTTTGGGCCATCCATAGGACCTTCGGATAAG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGG-TAGG
*
2695707 ATGTTTTCACATGAATTTGAAAATGAAAAATGATGTTTTAAGAAGATGGAATTTTTAAAAACAAA
65 ATGTTTTCACATGAATTTGAAAATAAAAAATGATGTTTTAAGAAGATGGAATTTTTAAAAACAAA
**
2695772 GAATGTGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
130 GAATACGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
2695837 GATGCTTAAATCCTTCGGG
195 GATGCTTAAATCCTTCGGG
*
2695856 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCAGGTAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTC-GGTAGG
* * *
2695921 ATGTTTTCACATGAATTTGAAAATAAAAAAAATGATGTTTTAAGAAGATGGATTTTTTGAAAACG
65 ATGTTTTCACATGAATTTGAAAAT--AAAAAATGATGTTTTAAGAAGATGGAATTTTTAAAAACA
* *
2695986 AAGAATACGATTTTCAAAATTTCACAATTTATAAGTTCTTTGGGCCATCAGTAAGTCTTTCGAGC
128 AAGAATACGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
2696051 ATGATGCTTAAATCCTTCGGG
193 ATGATGCTTAAATCCTTCGGG
* * * * *
2696072 TCATCTGTAAGCCTTTTGAGCAAGATGACAAGTCCTTCAGGTCATCCATAAGACCTTCGGGCAGG
1 TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTC-GGTAGG
2696137 ATGTTTT
65 ATGTTTT
2696144 TCACCAAGTT
Statistics
Matches: 265, Mismatches: 20, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
214 81 0.31
215 2 0.01
216 182 0.69
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (213 bp):
TCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGTAGGA
TGTTTTCACATGAATTTGAAAATAAAAAATGATGTTTTAAGAAGATGGAATTTTTAAAAACAAAG
AATACGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATG
ATGCTTAAATCCTTCGGG
Found at i:2699984 original size:30 final size:29
Alignment explanation
Indices: 2699912--2699985 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
2699902 TAACTTCTTG
* * *
2699912 TTTTTGTTATTTAGTCTTTTAACTTTCTA
1 TTTTTGTTTTTTAGCCATTTAACTTTCTA
* * *
2699941 TTTTTACTATTTTAGCCATTTAAGTTTCTA
1 TTTTT-GTTTTTTAGCCATTTAACTTTCTA
2699971 TTTTTGTTGTTTTAG
1 TTTTTGTT-TTTTAG
2699986 TCCTGCAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 6 0.17
30 29 0.83
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.64
Consensus pattern (29 bp):
TTTTTGTTTTTTAGCCATTTAACTTTCTA
Found at i:2703859 original size:12 final size:12
Alignment explanation
Indices: 2703809--2703889 Score: 72
Period size: 12 Copynumber: 6.8 Consensus size: 12
2703799 TATGAACAAA
2703809 CTCGTTTATGAG
1 CTCGTTTATGAG
* * *
2703821 CTAGTTTATAAT
1 CTCGTTTATGAG
*
2703833 CTTGTTTATGAG
1 CTCGTTTATGAG
2703845 CTCGTTTATGAG
1 CTCGTTTATGAG
** **
2703857 CTCACTTAAAAG
1 CTCGTTTATGAG
*
2703869 CTCGTGTATGAG
1 CTCGTTTATGAG
*
2703881 CTTGTTTAT
1 CTCGTTTAT
2703890 CAACTCATTC
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 51 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (12 bp):
CTCGTTTATGAG
Found at i:2705446 original size:99 final size:99
Alignment explanation
Indices: 2705275--2705458 Score: 323
Period size: 99 Copynumber: 1.9 Consensus size: 99
2705265 TTGACATTCA
* * *
2705275 TTTCCCCTAAGGTGTGAGCATGACTCCTCGGTTGCCTTGGATGAATGTATGGTTGAATGTATGGA
1 TTTCCCCTAAGGTGTGAACATGACTCCTCAGTTGCCTTGGATGAATGTATGGTTGAATGCATGGA
2705340 TTCTTTGTATGGATGAATGGTGTTTTTCAATTGG
66 TTCTTTGTATGGATGAATGGTGTTTTTCAATTGG
*
2705374 TTTCCCCTAAGGTGTGAACATGACTCCTCAGTTTCCTTGGATGAATGTATGGTTGAATGCATGGA
1 TTTCCCCTAAGGTGTGAACATGACTCCTCAGTTGCCTTGGATGAATGTATGGTTGAATGCATGGA
*
2705439 TTCTTTGTATGGTTGAATGG
66 TTCTTTGTATGGATGAATGG
2705459 ATTCTTGAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 80 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (99 bp):
TTTCCCCTAAGGTGTGAACATGACTCCTCAGTTGCCTTGGATGAATGTATGGTTGAATGCATGGA
TTCTTTGTATGGATGAATGGTGTTTTTCAATTGG
Found at i:2706320 original size:30 final size:30
Alignment explanation
Indices: 2706251--2706322 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
2706241 AAGTATAAAG
*
2706251 TTAAGAAAAGTTTAAGGACCAAAAGGGTTAT
1 TTAA-AAAAGTTTAAGGACCAAAAGGGTAAT
** * * *
2706282 TTTCAAAAGTTTAGGGATCAAAAGTGTAAT
1 TTAAAAAAGTTTAAGGACCAAAAGGGTAAT
2706312 TTAAAAAAGTT
1 TTAAAAAAGTT
2706323 AGGTTTTTGA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (30 bp):
TTAAAAAAGTTTAAGGACCAAAAGGGTAAT
Found at i:2706637 original size:3 final size:3
Alignment explanation
Indices: 2706631--2706710 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
2706621 ATATTATAAA
2706631 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2706679 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2706711 CATGTTTTGC
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2709426 original size:21 final size:21
Alignment explanation
Indices: 2709402--2709456 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
2709392 CTCAGAGGGA
* *
2709402 ACCGATTCCCCCTAAGGGGGT
1 ACCGATTCCCCCCAAGGGAGT
*
2709423 ACCGATTCCCCCCCAGGGAGT
1 ACCGATTCCCCCCAAGGGAGT
2709444 ACCGATTCCCCCC
1 ACCGATTCCCCCC
2709457 TTGTATAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.44, G:0.22, T:0.16
Consensus pattern (21 bp):
ACCGATTCCCCCCAAGGGAGT
Found at i:2711002 original size:23 final size:21
Alignment explanation
Indices: 2710950--2711011 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
2710940 TTTTGGTGCA
*
2710950 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
2710970 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
2710991 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
2711012 ACAGGCGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:2714581 original size:55 final size:55
Alignment explanation
Indices: 2714497--2714637 Score: 228
Period size: 55 Copynumber: 2.6 Consensus size: 55
2714487 AACTCAAGTT
* * *
2714497 ATTCATGAAGAAGGACGTCCGATGAATGAAGAAATTTGAACCTGATTGAAGAACG
1 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAACG
* *
2714552 ATTCATGAAGATGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGACCG
1 ATTCATGAAGAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAACG
*
2714607 ATTCATGAAGAAAGACATCCGATGAATGAAG
1 ATTCATGAAGAAGGACATCCGATGAATGAAG
2714638 TTTGAAGTTG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 79 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.21
Consensus pattern (55 bp):
ATTCATGAAGAAGGACATCCGATGAATGAAGAAATCTGAAACTGATTGAAGAACG
Found at i:2715011 original size:13 final size:13
Alignment explanation
Indices: 2714993--2715030 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
2714983 AACACCTTTT
*
2714993 GCATTTTCATTTA
1 GCATTTACATTTA
2715006 GCATTTACATTTA
1 GCATTTACATTTA
*
2715019 GCATTTGCATTT
1 GCATTTACATTT
2715031 GCAATGCATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.11, T:0.50
Consensus pattern (13 bp):
GCATTTACATTTA
Found at i:2715028 original size:19 final size:19
Alignment explanation
Indices: 2714990--2715033 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
2714980 ATTAACACCT
*
2714990 TTTGCATTTTCATTTAGCA
1 TTTGCATTTGCATTTAGCA
*
2715009 TTTACATTTAGCATTT-GCA
1 TTTGCATTT-GCATTTAGCA
2715028 TTTGCA
1 TTTGCA
2715034 ATGCATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (19 bp):
TTTGCATTTGCATTTAGCA
Found at i:2715031 original size:6 final size:6
Alignment explanation
Indices: 2714990--2715033 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
2714980 ATTAACACCT
* *
2714990 TTTGCA TTTTCA TTTAGCA TTTACA TTTAGCA TTTGCA TTTGCA
1 TTTGCA TTTGCA TTT-GCA TTTGCA TTT-GCA TTTGCA TTTGCA
2715034 ATGCATGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 22 0.69
7 10 0.31
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (6 bp):
TTTGCA
Found at i:2719010 original size:125 final size:125
Alignment explanation
Indices: 2718783--2719169 Score: 558
Period size: 125 Copynumber: 3.1 Consensus size: 125
2718773 AAGTTATGAT
* * *
2718783 ATGTTGGGGCACGATTGAACCCACATCAGGTTGAGATGACAAGATTCATACCAATGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAATGAGGCATGAA
*** * *
2718848 GAATGAGCCTTACAATTTGAGGTGATGGGGTACTTTGAAGGCCTGTACCAGTATAAGACA
66 GAATGAGCCTTACAATTTGAGGTGATGGAACATTTTGAAGGCCTGTACCAGTATAAGATA
* * *
2718908 ATGTTAGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGATCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAATGAGGCATGAA
** * *
2718973 GAATGAGCCTTACAATTTGAGGTGATGGAACATTTTGAAGGCCCATACCATTATAAAATA
66 GAATGAGCCTTACAATTTGAGGTGATGGAACATTTTGAAGGCCTGTACCAGTATAAGATA
* ** * * *
2719033 ATATTGAAGCACGAGTGAACCCTCATCATGTTGAGATAACAAGATTCAGACCAATGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAATGAGGCATGAA
* * *
2719098 GAATGAGCCTTACAATTTGAGGTGTTGGATCATTTTGAAGGCATGTACCAGTATAAGATA
66 GAATGAGCCTTACAATTTGAGGTGATGGAACATTTTGAAGGCCTGTACCAGTATAAGATA
2719158 ATGTTGGGGCAC
1 ATGTTGGGGCAC
2719170 TAGTGAAGGC
Statistics
Matches: 228, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
125 228 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (125 bp):
ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAATGAGGCATGAA
GAATGAGCCTTACAATTTGAGGTGATGGAACATTTTGAAGGCCTGTACCAGTATAAGATA
Found at i:2720346 original size:37 final size:37
Alignment explanation
Indices: 2720296--2720464 Score: 232
Period size: 37 Copynumber: 4.6 Consensus size: 37
2720286 GAAGATTGGG
*
2720296 GCAAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAA
1 GCAAA-TCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* *
2720334 GCAAATCCATCTTAAACCTTCACTGAAGAGTAGTGAA
1 GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* * *
2720371 GC-GATCTATCTTAAGCCTTCACCAAAGAGTAGTGAA
1 GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
* **
2720407 GCAAATCCATCATAAGCCTTCATTGAAGAGTAGTGAA
1 GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
*
2720444 GCAAATCCATATTAAGCCTTC
1 GCAAATCCATCTTAAGCCTTC
2720465 TTGGAAGAGT
Statistics
Matches: 114, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
36 31 0.27
37 78 0.68
38 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (37 bp):
GCAAATCCATCTTAAGCCTTCACCGAAGAGTAGTGAA
Found at i:2720391 original size:73 final size:74
Alignment explanation
Indices: 2720296--2720464 Score: 250
Period size: 73 Copynumber: 2.3 Consensus size: 74
2720286 GAAGATTGGG
* * *
2720296 GCAAAGTCAATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAACCTTCACTGAA
1 GCAAA-TCCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCATAAACCTTCACTGAA
2720361 GAGTAGTGAA
65 GAGTAGTGAA
* * * *
2720371 GC-GATCTATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCATAAGCCTTCATTGAAG
1 GCAAATCCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCATAAACCTTCACTGAAG
2720435 AGTAGTGAA
66 AGTAGTGAA
*
2720444 GCAAATCCATATTAAGCCTTC
1 GCAAATCCATCTTAAGCCTTC
2720465 TTGGAAGAGT
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
73 66 0.79
74 16 0.19
75 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (74 bp):
GCAAATCCATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCATAAACCTTCACTGAAG
AGTAGTGAA
Found at i:2720756 original size:55 final size:55
Alignment explanation
Indices: 2720673--2721262 Score: 485
Period size: 55 Copynumber: 10.8 Consensus size: 55
2720663 GTGAAACAAA
*
2720673 TGAAGA-TGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAAACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAAACACGATTGT
* * * *
2720727 TGAAGATTGTTTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAAACACGATTGT
* * *
2720782 TGAAGATTGTTCGAGTCTTATACTTTCTAAAGGAATAAGGAGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAAACACGATTGT
* * * * *
2720837 TAAAGATTGTTTGAGTCTTATACTCTCTCAAGGAATAGGGAGC-AACATGATTAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAAACACGATTGT
* * *
2720891 TGAAGATTGTTCGAGTCTCATACTCTCTAAAGGAATAGAGAGCAGACACGATTGT
1 TGAAGATTGTTCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAAACACGATTGT
* *
2720946 TGAAGATTGTTCGAGCCTTATACTCTCTAAAGGAATAGGGAG-AAGACACGATTAT
1 TGAAGATTGTTCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAA-ACACGATTGT
* * * * * * * * *
2721001 TGAAGATT-TTTGAGT-TCTATACTCCCTAAAGAAAGAGGGGGCGAACCCG-TGGGA
1 TGAAGATTGTTCGAGTCT-TATACTCTCTAAAGGAATAGGGAGCAAACACGAT-TGT
* * ** * * * * *
2721055 AGAAGA-TGTTCGAGT-TCCATACTCTCTAAACAAAGAGGGAGCGAAC-CCATAAGA
1 TGAAGATTGTTCGAGTCT-TATACTCTCTAAAGGAATAGGGAGCAAACACGAT-TGT
* * * * *
2721109 AGAAGA-TGTTCGAGT-TCTATACTCCCTAAAAGAA-AGAGTGAGCAAAC-CCATTTGC
1 TGAAGATTGTTCGAGTCT-TATACTCTCTAAAGGAATAG-G-GAGCAAACACGA-TTGT
* * * * * *
2721164 AGATGATTGTTTGAGT-TCTATACTCCCTGAAGTG-ATAGGGAGCAAACTCG-TTGT
1 TGAAGATTGTTCGAGTCT-TATACTCTCTAAAG-GAATAGGGAGCAAACACGATTGT
* **
2721218 TCAGAAGATTGTTCGAGT-TCTATACTCCCTAAAAAAATAGGGAGC
1 T--GAAGATTGTTCGAGTCT-TATACTCTCTAAAGGAATAGGGAGC
2721263 GAACCTGTAG
Statistics
Matches: 450, Mismatches: 68, Indels: 34
0.82 0.12 0.06
Matches are distributed among these distances:
53 6 0.01
54 157 0.35
55 222 0.49
56 62 0.14
57 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (55 bp):
TGAAGATTGTTCGAGTCTTATACTCTCTAAAGGAATAGGGAGCAAACACGATTGT
Found at i:2720941 original size:109 final size:110
Alignment explanation
Indices: 2720673--2721031 Score: 512
Period size: 109 Copynumber: 3.3 Consensus size: 110
2720663 GTGAAACAAA
* * * *
2720673 TGAAGA-TGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTTGAAGATTGT
1 TGAAGATTGTTCGAGTCTCATACTCTCTAAAGGAATAGAGAGCAGACACGATTGTTGAAGATTGT
* * *
2720737 TTGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGT
66 TTGAGTCTTATACTCTCTAAAGGAATAGGGAGCAGACACGATTAT
* * *
2720782 TGAAGATTGTTCGAGTCTTATACTTTCTAAAGGAATA-AGGAGCAGACACGATTGTTAAAGATTG
1 TGAAGATTGTTCGAGTCTCATACTCTCTAAAGGAATAGA-GAGCAGACACGATTGTTGAAGATTG
* *
2720846 TTTGAGTCTTATACTCTCTCAAGGAATAGGGAGCA-ACATGATTAT
65 TTTGAGTCTTATACTCTCTAAAGGAATAGGGAGCAGACACGATTAT
2720891 TGAAGATTGTTCGAGTCTCATACTCTCTAAAGGAATAGAGAGCAGACACGATTGTTGAAGATTGT
1 TGAAGATTGTTCGAGTCTCATACTCTCTAAAGGAATAGAGAGCAGACACGATTGTTGAAGATTGT
* * *
2720956 TCGAGCCTTATACTCTCTAAAGGAATAGGGAGAAGACACGATTAT
66 TTGAGTCTTATACTCTCTAAAGGAATAGGGAGCAGACACGATTAT
* *
2721001 TGAAGATT-TTTGAGT-TCTATACTCCCTAAAG
1 TGAAGATTGTTCGAGTCTC-ATACTCTCTAAAG
2721032 AAAGAGGGGG
Statistics
Matches: 226, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
108 2 0.01
109 122 0.54
110 102 0.45
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (110 bp):
TGAAGATTGTTCGAGTCTCATACTCTCTAAAGGAATAGAGAGCAGACACGATTGTTGAAGATTGT
TTGAGTCTTATACTCTCTAAAGGAATAGGGAGCAGACACGATTAT
Found at i:2720956 original size:164 final size:165
Alignment explanation
Indices: 2720675--2721024 Score: 528
Period size: 164 Copynumber: 2.1 Consensus size: 165
2720665 GAAACAAATG
* * * *
2720675 AAGA-TGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAAACACGATTGTTGAAGATTGTTT
1 AAGATTGTTTGAGTCTTATACTCTCTCAAGGAATAGGGAGCAAACACGATTATTGAAGATTGTTC
* * * *
2720739 GAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTGTTCGAGTCTTATA
66 GAGTCTCATACTCTCTAAAGAAATAGAGAGCAGACACGATTGTTGAAGATTGTTCGAGCCTTATA
* * *
2720804 CTTTCTAAAGGAATAAGGAGCAGACACGATTGTTA
131 CTCTCTAAAGGAATAAGGAGAAGACACGATTATTA
*
2720839 AAGATTGTTTGAGTCTTATACTCTCTCAAGGAATAGGGAGC-AACATGATTATTGAAGATTGTTC
1 AAGATTGTTTGAGTCTTATACTCTCTCAAGGAATAGGGAGCAAACACGATTATTGAAGATTGTTC
*
2720903 GAGTCTCATACTCTCTAAAGGAATAGAGAGCAGACACGATTGTTGAAGATTGTTCGAGCCTTATA
66 GAGTCTCATACTCTCTAAAGAAATAGAGAGCAGACACGATTGTTGAAGATTGTTCGAGCCTTATA
* *
2720968 CTCTCTAAAGGAATAGGGAGAAGACACGATTATTG
131 CTCTCTAAAGGAATAAGGAGAAGACACGATTATTA
2721003 AAGATT-TTTGAGT-TCTATACTC
1 AAGATTGTTTGAGTCT-TATACTC
2721025 CCTAAAGAAA
Statistics
Matches: 169, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
162 1 0.01
163 14 0.08
164 120 0.71
165 34 0.20
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (165 bp):
AAGATTGTTTGAGTCTTATACTCTCTCAAGGAATAGGGAGCAAACACGATTATTGAAGATTGTTC
GAGTCTCATACTCTCTAAAGAAATAGAGAGCAGACACGATTGTTGAAGATTGTTCGAGCCTTATA
CTCTCTAAAGGAATAAGGAGAAGACACGATTATTA
Found at i:2721060 original size:54 final size:54
Alignment explanation
Indices: 2721002--2721310 Score: 246
Period size: 54 Copynumber: 5.6 Consensus size: 54
2720992 CACGATTATT
* * * *
2721002 GAAGATTTTTGAGTTCTATACTCCCTAAAGAAAGAGGGGGCGAACCCGTGGGAA
1 GAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATGTGAA
* * * * **
2721056 GAAGATGTTCGAGTTCCATACTCTCTAAACAAAGAGGGAGCGAACCCATAAGAA
1 GAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATGTGAA
* * * * *
2721110 GAAGATGTTCGAGTTCTATACTCCCTAAAAGAAAGAGTGAGCAAACCCATTTGCA
1 GAAGATTTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCATGTGAA
* * * ** * * ** **
2721165 GATGATTGTTTGAGTTCTATACTCCCTGAAGTGATAGGGAGCAAACTCGTTGTTCA
1 GAAGATT-TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAAC-CCATGTGAA
* *
2721221 GAAGATTGTTCGAGTTCTATACTCCCTAAAAAAATAGGGAGCGAA-CC-TGTAGACA
1 GAAGATT-TTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATGT-GA-A
* * * *
2721276 TAAGATTATTCGAGTTC-CTACTCCCTGAAGCAAGA
1 GAAGATT-TTCGAGTTCTATACTCCCTAAAGAAAGA
2721311 AGAAGCAAAC
Statistics
Matches: 204, Mismatches: 46, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
53 3 0.01
54 83 0.41
55 57 0.28
56 61 0.30
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (54 bp):
GAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATGTGAA
Found at i:2728028 original size:24 final size:24
Alignment explanation
Indices: 2727991--2728039 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2727981 GCAAATGTAA
2727991 AATAAAATAATTAATAATAATAAT
1 AATAAAATAATTAATAATAATAAT
* * * *
2728015 AATAATATATTTAATATTTATAAT
1 AATAAAATAATTAATAATAATAAT
2728039 A
1 A
2728040 TTTTGTAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AATAAAATAATTAATAATAATAAT
Found at i:2728376 original size:79 final size:76
Alignment explanation
Indices: 2728245--2728446 Score: 296
Period size: 79 Copynumber: 2.6 Consensus size: 76
2728235 ACTATTCGCT
* * *
2728245 GAAGGCTTAAGATTGATTTTGCTCTACTACTCTTTGGTGAAGGCTTAAGATGGACCGGAGGACTT
1 GAAGGCTTATGA-TGAATTTGCTC-ACTACTCTTCGGTGAAGGCTTAAGATGGACCGGAGGACTT
2728310 AATCATCATGCTC
64 AATCATCATGCTC
* *
2728323 AGAAGGCTTACTGATGAATTTGCTGCACTACTCTTCGGTGAAGGTTTAAGATGGCCCGGAGGACT
1 -GAAGGCTTA-TGATGAATTTGCT-CACTACTCTTCGGTGAAGGCTTAAGATGGACCGGAGGACT
2728388 TAATCATCATGCTC
63 TAATCATCATGCTC
2728402 GTAAGGCTTATGATGAATTTGCTTCACTACTCTTCGGTGAAGGCT
1 G-AAGGCTTATGATGAATTTGC-TCACTACTCTTCGGTGAAGGCT
2728447 ATAGATTGAT
Statistics
Matches: 113, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
78 33 0.29
79 77 0.68
80 3 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (76 bp):
GAAGGCTTATGATGAATTTGCTCACTACTCTTCGGTGAAGGCTTAAGATGGACCGGAGGACTTAA
TCATCATGCTC
Found at i:2728591 original size:153 final size:151
Alignment explanation
Indices: 2728404--2729091 Score: 896
Period size: 153 Copynumber: 4.6 Consensus size: 151
2728394 TCATGCTCGT
*
2728404 AAGGCTTATGATGAATTTGCTTCACTACTCTTCGGTGAAGGCTATAGATTGATTTGCTTCACTAC
1 AAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGGCT-TAGATTGATTTGCTTCACTAC
*
2728469 TTTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTAATGG
65 TCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTC-GAAGGCTTACTAATGG
2728534 ATTTGCTTCACTACTCTTCCGTG
129 ATTTGCTTCACTACTCTTCCGTG
* *
2728557 AAGGCTTATGATGGATTTGCTTTACTACTCTTCGGTGAAGGCTTTAGATTGATTTGCTTCACTTC
1 AAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGGC-TTAGATTGATTTGCTTCACTAC
* *
2728622 TCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATACTCCGAAGGCTTACTGATGG
65 TCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCT-CGAAGGCTTACTAATGG
*
2728687 ATTTGCTTCACT-CATCTTCCATG
129 ATTTGCTTCACTAC-TCTTCCGTG
* **
2728710 AAGGCTTATGATGGATTTGCTTCACTACTCTTTGGTGATTGCTTTAGATTGATTTGCTTCACTAC
1 AAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGGC-TTAGATTGATTTGCTTCACTAC
* *
2728775 TCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCAGAAGGCTTACTGATTG
65 TCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTC-GAAGGCTTACTAATGG
* *
2728840 ATTCGCTTCACTACTCTTCCGTT
129 ATTTGCTTCACTACTCTTCCGTG
*
2728863 AAGGCTTATGATGGATTTGCTTCACTACTCTTCGATGAAGGCTTAGGATT-ATTTGCTTCACTAC
1 AAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA-GATTGATTTGCTTCACTAC
* *** **** ** *
2728927 TCTTCGGTGAAGGCTTAAGATGGATTGCTTCAC-TCCTCTTCA-G-T-GAAGGCTTA--AGATGG
65 TCTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGAAGGCTTACTA-ATGG
**
2728986 -TTTGCTTCACTACTCTTTGGTG
129 ATTTGCTTCACTACTCTTCCGTG
* * *
2729008 AAGGCTTCA-GATGG-TTTGCTTCACTATTCTCCGGTGAAGACTTAGGA-TGATTTGCTTCACTA
1 AAGGCTT-ATGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA-GATTGATTTGCTTCACTA
* *
2729070 CTCTCTGGTGAAGGCTTCAGAT
64 CTCTTTGGTGAAGGCTTAAGAT
2729092 AGTTTGCTTC
Statistics
Matches: 481, Mismatches: 45, Indels: 27
0.87 0.08 0.05
Matches are distributed among these distances:
143 1 0.00
144 61 0.13
145 30 0.06
146 4 0.01
147 9 0.02
149 1 0.00
150 1 0.00
151 6 0.01
152 44 0.09
153 321 0.67
154 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (151 bp):
AAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAGATTGATTTGCTTCACTACT
CTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGAAGGCTTACTAATGGAT
TTGCTTCACTACTCTTCCGTG
Found at i:2728596 original size:116 final size:115
Alignment explanation
Indices: 2728324--2728605 Score: 422
Period size: 115 Copynumber: 2.4 Consensus size: 115
2728314 ATCATGCTCA
* * *
2728324 GAAGGCTTACTGATGAATTTGCTGCACTACTCTTCGGTGAAGGTTTAAGATGGCCCGGAGGACTT
1 GAAGGCTTA-TGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTT
* * *
2728389 AATCATCATGCTCGTAAGGCTTATGATGAATTTGCTTCACTACTCTTCGGT
65 AATCATCATGCTCGGAAGGCTTATAATGAATTTGCTTCACTACTCTTCCGT
* * *
2728440 GAAGGC-TATAGATTGATTTGCTTCACTACTTTTTGGTGAAGGCTTAAGATGGCCCGGAGGACTT
1 GAAGGCTTAT-GATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTT
*
2728504 AATCATCATGCTCGGAAGGCTTACTAATGGATTTGCTTCACTACTCTTCCGT
65 AATCATCATGCTCGGAAGGCTTA-TAATGAATTTGCTTCACTACTCTTCCGT
* *
2728556 GAAGGCTTATGATGGATTTGCTTTACTACTCTTCGGTGAAGGCTTTAGAT
1 GAAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
2728606 TGATTTGCTT
Statistics
Matches: 148, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
114 1 0.01
115 72 0.49
116 72 0.49
117 3 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (115 bp):
GAAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGCCCGGAGGACTTA
ATCATCATGCTCGGAAGGCTTATAATGAATTTGCTTCACTACTCTTCCGT
Found at i:2728919 original size:36 final size:36
Alignment explanation
Indices: 2728533--2729294 Score: 375
Period size: 36 Copynumber: 20.9 Consensus size: 36
2728523 CTTACTAATG
*
2728533 GATTTGCTTCACTACTCTTCCG-TGAAGGCTTATGAT
1 GATTTGCTTCACTACTCTT-CGATGAAGGCTTAGGAT
* *
2728569 GGATTTGCTTTACTACTCTTCGGTGAAGGCTTTA-GATT
1 -GATTTGCTTCACTACTCTTCGATGAAGGC-TTAGGA-T
* * * *
2728607 GATTTGCTTCACTTCTCTTTGGTGAAGGCTTAAGAT
1 GATTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
**** **** * * * *
2728643 GGCCCGGAGGACTTAATCATCATACTCCGAAGGCTTACTGAT
1 GATTTGCTTCAC-TACTCTTC-GA-T--GAAGGCTTA-GGAT
* *
2728685 GGATTTGCTTCACT-CATCTTCCATGAAGGCTTATGAT
1 -GATTTGCTTCACTAC-TCTTCGATGAAGGCTTAGGAT
* * **
2728722 GGATTTGCTTCACTACTCTTTGGTGATTGCTTTA-GATT
1 -GATTTGCTTCACTACTCTTCGATGAAGGC-TTAGGA-T
* * *
2728760 GATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGAT
1 GATTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
**** **** * * * *
2728796 GGCCCGGAGGACTTAATCATCATGCTCAGAAGGCTTACTGATT
1 GATTTGCTTCAC-TACTCTTC--GAT--GAAGGCTTA-GGA-T
* * *
2728839 GATTCGCTTCACTACTCTTCCG-TTAAGGCTTATGAT
1 GATTTGCTTCACTACTCTT-CGATGAAGGCTTAGGAT
2728875 GGATTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
1 -GATTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
* * *
2728912 TATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
1 GATTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
* *
2728948 GGA-TTGCTTCACTCCTCTTC-AGTGAAGGCTTAAGAT
1 -GATTTGCTTCACTACTCTTCGA-TGAAGGCTTAGGAT
* * *
2728984 GGTTTGCTTCACTACTCTTTGGTGAAGGCTTCA-GAT
1 GATTTGCTTCACTACTCTTCGATGAAGGCTT-AGGAT
* * * * *
2729020 GGTTTGCTTCACTATTCTCCGGTGAAGACTTAGGAT
1 GATTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
*
2729056 GATTTGCTTCACTACTC-TCTGGTGAAGGCTTCA-GAT
1 GATTTGCTTCACTACTCTTC-GATGAAGGCTT-AGGAT
* *
2729092 -AGTTTGCTT--C-A--C--CGGTGAAGGATTAGGAT
1 GA-TTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
* * * *
2729121 GGTTTTCTTCACTACTTTTCGATGAAGGCCTAGGAT
1 GATTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
* * *
2729157 GGTTTGCTTCACTACTC-TCCAGTGAAGGCATCA-GAT
1 GATTTGCTTCACTACTCTTCGA-TGAAGGC-TTAGGAT
* * *
2729193 GGTTTGCTTCACTATTCTCCGATGAAGGCTTAGGAT
1 GATTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
* * * * *
2729229 G--GTGCTTCACTCCTCTTTGGTGAAGGCTTAAGATT
1 GATTTGCTTCACTACTCTTCGATGAAGGCTTAGGA-T
*
2729264 GA-TTACTTCACTACTCTTC-AGTGAAGGCTTA
1 GATTTGCTTCACTACTCTTCGA-TGAAGGCTTA
2729295 AGATTGACTT
Statistics
Matches: 565, Mismatches: 109, Indels: 103
0.73 0.14 0.13
Matches are distributed among these distances:
28 1 0.00
29 19 0.03
30 1 0.00
31 2 0.00
32 1 0.00
33 1 0.00
34 26 0.05
35 11 0.02
36 265 0.47
37 161 0.28
38 26 0.05
39 3 0.01
40 2 0.00
41 20 0.04
42 15 0.03
43 11 0.02
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (36 bp):
GATTTGCTTCACTACTCTTCGATGAAGGCTTAGGAT
Found at i:2728990 original size:72 final size:72
Alignment explanation
Indices: 2728404--2729298 Score: 529
Period size: 72 Copynumber: 12.2 Consensus size: 72
2728394 TCATGCTCGT
* * *
2728404 AAGGCTTATGATGAATTTGCTTCACTACTCTTCGGTGAAGGC-TATAGATTGATTTGCTTCACTA
1 AAGGCTTAAGATGGA-TTGCTTCACTACTCTTCGGTGAAGGCTTA-AGA-TGGTTTGCTTCACTA
* *
2728468 CTTTTTGGTG
63 CTCTTCGGTG
*** **** * * *
2728478 AAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTA-ATGGATTTGCTT
1 AAGGCTTAAGATGGATTGCTTCAC-TACTCTTC--GGT--GAAGGCTTA--AGATGG-TTTGCTT
*
2728542 CACTACTCTTCCGTG
58 CACTACTCTTCGGTG
* * * * *
2728557 AAGGCTTATGATGGATTTGCTTTACTACTCTTCGGTGAAGGCTTTAGATTGATTTGCTTCACTTC
1 AAGGCTTAAGATGGA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TGGTTTGCTTCACTAC
*
2728622 TCTTTGGTG
64 TCTTCGGTG
*** **** * *** *
2728631 AAGGCTTAAGATGGCCCGGAGGACTTAATCATCATACTCCGAAGGCTTACTGATGGATTTGCTTC
1 AAGGCTTAAGATGGATTGCTTCAC-T-A-C-TC-TTCGGTGAAGGCTTA-AGATGG-TTTGCTTC
**
2728696 ACT-CATCTTCCATG
59 ACTAC-TCTTCGGTG
* * ** * *
2728710 AAGGCTTATGATGGATTTGCTTCACTACTCTTTGGTGATTGCTTTAGATTGATTTGCTTCACTAC
1 AAGGCTTAAGATGGA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TGGTTTGCTTCACTAC
*
2728775 TCTTTGGTG
64 TCTTCGGTG
*** **** * * * * * *
2728784 AAGGCTTAAGATGGCCCGGAGGACTTAATCATCATGCTCAGAAGGCTTACTGATTGATTCGCTTC
1 AAGGCTTAAGATGGATTGCTTCAC-TACTCTTC--GGT--GAAGGCTTA-AGA-TGGTTTGCTTC
* *
2728849 ACTACTCTTCCGTT
59 ACTACTCTTCGGTG
* * * **
2728863 AAGGCTTATGATGGATTTGCTTCACTACTCTTCGATGAAGGCTTAGGATTATTTGCTTCACTACT
1 AAGGCTTAAGATGGA-TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACT
2728928 CTTCGGTG
65 CTTCGGTG
* *
2728936 AAGGCTTAAGATGGATTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATGGTTTGCTTCACTACTC
1 AAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTC
*
2729001 TTTGGTG
66 TTCGGTG
* * * * * * *
2729008 AAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGTGAAGACTTAGGATGATTTGCTTCACTACTC
1 AAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTC
2729073 -TCTGGTG
66 TTC-GGTG
* * * * * * *
2729080 AAGGCTTCAGATAGTTTGCTT--C-A--C--CGGTGAAGGATTAGGATGGTTTTCTTCACTACTT
1 AAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTC
*
2729138 TTCGATG
66 TTCGGTG
* * * * * * * *
2729145 AAGGCCTAGGATGGTTTGCTTCACTACTCTCCAGTGAAGGCATCAGATGGTTTGCTTCACTATTC
1 AAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTC
* *
2729210 TCCGATG
66 TTCGGTG
* * * * * *
2729217 AAGGCTTAGGATGG--TGCTTCACTCCTCTTTGGTGAAGGCTTAAGATTGATTACTTCACTACTC
1 AAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTC
*
2729280 TTCAGTG
66 TTCGGTG
2729287 AAGGCTTAAGAT
1 AAGGCTTAAGAT
2729299 TGACTTGCCC
Statistics
Matches: 623, Mismatches: 160, Indels: 80
0.72 0.19 0.09
Matches are distributed among these distances:
65 49 0.08
66 2 0.00
67 2 0.00
68 1 0.00
69 1 0.00
70 56 0.09
71 1 0.00
72 175 0.28
73 45 0.07
74 91 0.15
75 30 0.05
76 7 0.01
77 7 0.01
78 28 0.04
79 117 0.19
80 11 0.02
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (72 bp):
AAGGCTTAAGATGGATTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGTTTGCTTCACTACTC
TTCGGTG
Done.