Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 18 of 204
Found at i:6762519 original size:41 final size:41
Alignment explanation
Indices: 6762450--6762682 Score: 340
Period size: 41 Copynumber: 5.7 Consensus size: 41
6762440 TTAATTTAAA
* * * *
6762450 CAGATTCACTGGCACTTAGCTTGTTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
6762492 TAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATC
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
* * *
6762533 CAGTTCACCAGCACTTAGTCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
6762574 CAGATCATCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
6762615 CAAATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
*
6762656 CAGTTCACCGGCACTTAGCCTGCTAGG
1 CAGATCACCGGCACTTAGCCTGCTAGG
6762683 TTTTAAAACC
Statistics
Matches: 170, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
41 167 0.98
42 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
Found at i:6763606 original size:2 final size:2
Alignment explanation
Indices: 6763601--6763634 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6763591 TTATATAAGC
6763601 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6763635 TCGAACACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6777279 original size:11 final size:11
Alignment explanation
Indices: 6777243--6777271 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6777233 ATTTATAATT
6777243 TTTTTAAAGTA
1 TTTTTAAAGTA
6777254 TTTTTAAAGTA
1 TTTTTAAAGTA
6777265 TTTTTAA
1 TTTTTAA
6777272 TTATTTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (11 bp):
TTTTTAAAGTA
Found at i:6778091 original size:14 final size:14
Alignment explanation
Indices: 6778053--6778103 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
6778043 AAATAAACCA
*
6778053 TATTTATTATAAAT
1 TATTTATTATACAT
*
6778067 AATTTAAATTATACAT
1 TATTT--ATTATACAT
6778083 TATTTATTATTAC-T
1 TATTTATTA-TACAT
6778097 TATTTAT
1 TATTTAT
6778104 ATTTGATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 16 0.52
15 3 0.10
16 12 0.39
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTATTATACAT
Found at i:6789381 original size:22 final size:23
Alignment explanation
Indices: 6789330--6789374 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
6789320 TAGCTATGCT
6789330 ACAA-AATGTTGATAAAAAACAAA
1 ACAATAATGTTGAT-AAAAACAAA
*
6789353 ACCATAATGTTGAT-AAAACAAA
1 ACAATAATGTTGATAAAAACAAA
6789375 TAAATAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 3 0.15
24 9 0.45
ACGTcount: A:0.60, C:0.11, G:0.09, T:0.20
Consensus pattern (23 bp):
ACAATAATGTTGATAAAAACAAA
Found at i:6793228 original size:20 final size:20
Alignment explanation
Indices: 6793195--6793232 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6793185 ACTAGTTTTA
6793195 AGTAAAAATATAATAAAAGT
1 AGTAAAAATATAATAAAAGT
6793215 AGTAGAAAAT-TAATAAAA
1 AGTA-AAAATATAATAAAA
6793233 TCACAGACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (20 bp):
AGTAAAAATATAATAAAAGT
Found at i:6800450 original size:28 final size:28
Alignment explanation
Indices: 6800360--6800458 Score: 93
Period size: 28 Copynumber: 3.8 Consensus size: 28
6800350 ATATTTTTAT
6800360 AATGTTATTAATTAGTTTAATGTATTTC
1 AATGTTATTAATTAGTTTAATGTATTTC
* * * **
6800388 AAAGTAATTAATTAG-TT-ACGTGGTT-
1 AATGTTATTAATTAGTTTAATGTATTTC
*
6800413 -ATG-TA-TAATTAGCTTAATGTATTTC
1 AATGTTATTAATTAGTTTAATGTATTTC
*
6800438 AATGTTACTAATTAGTTTAAT
1 AATGTTATTAATTAGTTTAAT
6800459 ATCATTAACT
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
22 7 0.13
23 3 0.06
24 7 0.13
26 8 0.15
27 4 0.07
28 25 0.46
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.47
Consensus pattern (28 bp):
AATGTTATTAATTAGTTTAATGTATTTC
Found at i:6813463 original size:12 final size:12
Alignment explanation
Indices: 6813446--6813471 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6813436 TACCGGTATC
6813446 GGTGCTGGAGTT
1 GGTGCTGGAGTT
6813458 GGTGCTGGAGTT
1 GGTGCTGGAGTT
6813470 GG
1 GG
6813472 GATTGTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.54, T:0.31
Consensus pattern (12 bp):
GGTGCTGGAGTT
Found at i:6814955 original size:5 final size:5
Alignment explanation
Indices: 6814945--6814975 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
6814935 GGGGGGTTAG
*
6814945 CAGCA CAGCA CAGCA CAGCA CAGCA CTGCA C
1 CAGCA CAGCA CAGCA CAGCA CAGCA CAGCA C
6814976 CCAGCCAGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.35, C:0.42, G:0.19, T:0.03
Consensus pattern (5 bp):
CAGCA
Found at i:6820574 original size:29 final size:29
Alignment explanation
Indices: 6820540--6820622 Score: 85
Period size: 33 Copynumber: 2.7 Consensus size: 29
6820530 CATAAATTTG
* *
6820540 GAATTTAGTCCTTATACTTTTATTTTTAA
1 GAATTTAGTCCCTATACTTTTATTTTCAA
*
6820569 GAATTTAGTTAGTCCCTGTACTTTTATTTTCAA
1 GAA--T--TTAGTCCCTATACTTTTATTTTCAA
* *
6820602 TAATTTAGTCCCTCTACTTTT
1 GAATTTAGTCCCTATACTTTT
6820623 CAAATTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
29 19 0.42
31 2 0.04
33 24 0.53
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.52
Consensus pattern (29 bp):
GAATTTAGTCCCTATACTTTTATTTTCAA
Found at i:6820591 original size:33 final size:33
Alignment explanation
Indices: 6820544--6820610 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6820534 AATTTGGAAT
* *
6820544 TTAGTCCTTATACTTTTATTTTTAAGAATTTAG
1 TTAGTCCCTATACTTTTATTTTCAAGAATTTAG
* *
6820577 TTAGTCCCTGTACTTTTATTTTCAATAATTTAG
1 TTAGTCCCTATACTTTTATTTTCAAGAATTTAG
6820610 T
1 T
6820611 CCCTCTACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.54
Consensus pattern (33 bp):
TTAGTCCCTATACTTTTATTTTCAAGAATTTAG
Found at i:6823883 original size:18 final size:17
Alignment explanation
Indices: 6823849--6823891 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
6823839 TTTTTTAAAA
6823849 TATAAATTTTAAGATTT
1 TATAAATTTTAAGATTT
6823866 TATAAATATTT-AGAATTT
1 TATAAAT-TTTAAG-ATTT
6823884 TA-AAATTT
1 TATAAATTT
6823892 ATTTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 2 0.08
17 13 0.54
18 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TATAAATTTTAAGATTT
Found at i:6836228 original size:23 final size:22
Alignment explanation
Indices: 6836202--6836251 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 22
6836192 GACAAACTTT
6836202 AGTTAGGTGAAGTGGAGAAACAA
1 AGTTAGGTGAAGTGGAGAAAC-A
6836225 AGTTAGGTGAAGTGGAGAAACA
1 AGTTAGGTGAAGTGGAGAAACA
6836247 AGTTA
1 AGTTA
6836252 AAATTGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.42, C:0.04, G:0.34, T:0.20
Consensus pattern (22 bp):
AGTTAGGTGAAGTGGAGAAACA
Found at i:6842414 original size:22 final size:22
Alignment explanation
Indices: 6842396--6842439 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6842386 ATCCAAAGAT
6842396 GTACTAATAACAAGACAAAAGG
1 GTACTAATAACAAGACAAAAGG
6842418 GTACTAATAACAAGACAAAAGG
1 GTACTAATAACAAGACAAAAGG
6842440 TGGTCAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.14
Consensus pattern (22 bp):
GTACTAATAACAAGACAAAAGG
Found at i:6844139 original size:31 final size:30
Alignment explanation
Indices: 6844071--6844139 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
6844061 AAATTTAATC
*
6844071 AAATCAAAATTTAATGTATAAAATCGCATA
1 AAATCAAAATTTAATGTATAAAATCACATA
* * *
6844101 AAATCAAAA-TTCATGTATAACATTACACATT
1 AAATCAAAATTTAATGTATAA-AAT-CACATA
6844132 AAATCAAA
1 AAATCAAA
6844140 GCTCGTGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 10 0.30
30 11 0.33
31 12 0.36
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (30 bp):
AAATCAAAATTTAATGTATAAAATCACATA
Found at i:6844682 original size:19 final size:20
Alignment explanation
Indices: 6844641--6844682 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
6844631 TTTTGAGAGT
** *
6844641 AAAGTGAATGAAATTTTTGA
1 AAAGTGAATGAAATTAATAA
6844661 AAAGTGAAT-AAATTAATAA
1 AAAGTGAATGAAATTAATAA
6844680 AAA
1 AAA
6844683 TTAATCCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (20 bp):
AAAGTGAATGAAATTAATAA
Found at i:6845652 original size:14 final size:14
Alignment explanation
Indices: 6845633--6845667 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6845623 TATTTATCTC
**
6845633 TTAATTAATTTAAA
1 TTAATTAATAAAAA
6845647 TTAATTAATAAAAA
1 TTAATTAATAAAAA
6845661 TTAATTA
1 TTAATTA
6845668 TGACACAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TTAATTAATAAAAA
Found at i:6848255 original size:21 final size:21
Alignment explanation
Indices: 6848229--6848272 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6848219 GAAAATTCAG
*
6848229 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
6848250 TATTTAATTATCTTTTCTATT
1 TATTTAATTATCATTTCTATT
6848271 TA
1 TA
6848273 ATTAGATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:6855282 original size:3 final size:3
Alignment explanation
Indices: 6855276--6855321 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
6855266 AGTAGTAATA
6855276 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6855322 CCCCAGTAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6856282 original size:2 final size:2
Alignment explanation
Indices: 6856270--6856305 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
6856260 ACACAGCTAA
6856270 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6856306 TTTTCTGATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6857585 original size:2 final size:2
Alignment explanation
Indices: 6857578--6857609 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6857568 CAAGTGTGAG
6857578 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
6857610 GAGAACTCAC
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:6858565 original size:5 final size:5
Alignment explanation
Indices: 6858555--6858674 Score: 177
Period size: 5 Copynumber: 22.6 Consensus size: 5
6858545 TATTTAAGTA
6858555 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
6858605 TATAT TATAT TATAT TATAT TATAT TATTAT TATTAT TATTAT TATTAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TA-TAT TA-TAT TA-TAT
6858654 TATTAT TATTAT TATTAT TAT
1 TA-TAT TA-TAT TA-TAT TAT
6858675 TATAAGTAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
5 73 0.64
6 41 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:6858635 original size:3 final size:3
Alignment explanation
Indices: 6858557--6858677 Score: 144
Period size: 3 Copynumber: 45.0 Consensus size: 3
6858547 TTTAAGTATA
6858557 TAT TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6858597 TAT TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6858639 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
6858678 AAGTAAATGA
Statistics
Matches: 104, Mismatches: 0, Indels: 28
0.79 0.00 0.21
Matches are distributed among these distances:
2 28 0.27
3 76 0.73
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6859651 original size:41 final size:39
Alignment explanation
Indices: 6859606--6859730 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 39
6859596 AACTTCTAGT
*
6859606 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAA-TTATTACTTCGGATT-ATC
* * * *
6859647 CGATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAATTATTACTTCGGATTATC
* * * *
6859684 CGATGAGACACTGGGTTTCACCTTATTTCTTCGAATTATC
1 CGATGAGACACTGGGTGTCA-ATTATTACTTCGGATTATC
6859724 CGATGAG
1 CGATGAG
6859731 GTATTGGGTA
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
37 18 0.26
38 11 0.16
39 2 0.03
40 18 0.26
41 19 0.28
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAATTATTACTTCGGATTATC
Found at i:6860900 original size:3 final size:3
Alignment explanation
Indices: 6860874--6860922 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
6860864 TTTAAAATTT
* * *
6860874 TTA TTT TTA TCA TTA TTA TCA TTA TTA TTTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA
6860921 TT
1 TT
6860923 GATATTGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
3 32 0.84
4 6 0.16
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6860909 original size:10 final size:10
Alignment explanation
Indices: 6860870--6860922 Score: 65
Period size: 10 Copynumber: 5.3 Consensus size: 10
6860860 GTTTTTTAAA
6860870 ATTT-TTATT
1 ATTTATTATT
*
6860879 -TTTATCATT
1 ATTTATTATT
6860888 ATTATCATTATT
1 ATT-T-ATTATT
6860900 ATTTATTATT
1 ATTTATTATT
6860910 ATTTATTATT
1 ATTTATTATT
6860920 ATT
1 ATT
6860923 GATATTGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 21 0.55
11 2 0.05
12 8 0.21
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATTATT
Found at i:6861406 original size:12 final size:12
Alignment explanation
Indices: 6861389--6861423 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6861379 ACAATTTTCT
6861389 CATACATATATA
1 CATACATATATA
6861401 CATACATATATA
1 CATACATATATA
* *
6861413 TATATATATAT
1 CATACATATAT
6861424 TAGAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (12 bp):
CATACATATATA
Found at i:6864076 original size:38 final size:38
Alignment explanation
Indices: 6864034--6864107 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
6864024 ACATTGATTC
*
6864034 CATATCCCAGATATAGTCTTACACAGTAGCACATATGT
1 CATATCCCAGATATAGTCTTACACAATAGCACATATGT
*
6864072 CATATCCCAGATATGGTCTTACACAATAGCACATAT
1 CATATCCCAGATATAGTCTTACACAATAGCACATAT
6864108 CACACCATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.28
Consensus pattern (38 bp):
CATATCCCAGATATAGTCTTACACAATAGCACATATGT
Found at i:6866033 original size:18 final size:17
Alignment explanation
Indices: 6866007--6866048 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
6865997 CAATTTATTT
6866007 TATTTTTTATATATAAA
1 TATTTTTTATATATAAA
* *
6866024 TATTTGTTTATATTTATA
1 TATTT-TTTATATATAAA
6866042 TATTTTT
1 TATTTTT
6866049 GTTCGCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTTTTATATATAAA
Found at i:6869617 original size:284 final size:284
Alignment explanation
Indices: 6869102--6869799 Score: 1192
Period size: 284 Copynumber: 2.5 Consensus size: 284
6869092 AGATGATTTT
* * * *
6869102 GGATAAGTTCTGAAGTTTATTCTGAATTTCAACTTGAGGACAAGCTCAACTCTGAGAAGGGGAGT
1 GGATAAGTTTTGAAGTTTATTCTGAATTTGAGCTTGAGGACAAGCTCAACTCCGAGAAGGGGAGT
*
6869167 AATGATATGGACGCTTTTATTGCAATAGGAGTTTTTAG---T-TTTATTTATTTATTATATCAAG
66 AATGATATGGACGCTTTTATTGCAATAGGAGTTTTTAGTTTTATTTATTTATTTATTATATCAGG
*
6869228 TTTTATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTTGTTTCCTTCATAAA
131 TTTTATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTTGTTTCCTTAATAAA
6869293 CTCTAAGTTAGAAATTCTATTTTATGTCAATTAAGACTCTTTCCATTGTTATTAACAGTCTATAA
196 CTCTAAGTTAGAAATTCTATTTTATGTCAATTAAGACTCTTTCCATTGTTATTAACAGTCTATAA
*
6869358 AAGGCTGCCAATATGAATTAAAGA
261 AAGGCTACCAATATGAATTAAAGA
6869382 GGATAAGTTTTGAAGTTTATTCTGAATTTGAGCTTGAGGACAAGCTCAACTCCGAGAAGGGGAGT
1 GGATAAGTTTTGAAGTTTATTCTGAATTTGAGCTTGAGGACAAGCTCAACTCCGAGAAGGGGAGT
*
6869447 AATGATATGGACGCTTTTATTGCAATAGGTGTTTTTAGTTTTATTTATTTATTTATTATATCAGG
66 AATGATATGGACGCTTTTATTGCAATAGGAGTTTTTAGTTTTATTTATTTATTTATTATATCAGG
*
6869512 TTTTATTAAGAGTTTTAGTTTTACTTATTTTCTTTATTATATTAGGTTTTTGTTTCCTTAATAAA
131 TTTTATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTTGTTTCCTTAATAAA
* * * *
6869577 CTCTAAGTTA-AGAATTCTATTTTATGTTAATTAGGACTCTTTCCTTTGTTATTAACGGTCTATA
196 CTCTAAGTTAGA-AATTCTATTTTATGTCAATTAAGACTCTTTCCATTGTTATTAACAGTCTATA
6869641 AAAGGCTACCAATATGAATTAAAGA
260 AAAGGCTACCAATATGAATTAAAGA
*
6869666 GGATAAGTTCTT-AAGTTTATTCTGAATTTGAGCTTGAGGACAAGCTCAACTCGGAGAAGGGGAG
1 GGATAAGTT-TTGAAGTTTATTCTGAATTTGAGCTTGAGGACAAGCTCAACTCCGAGAAGGGGAG
* *
6869730 TAATGATATGAACGCTTTTATTGCAATAGGAGTTTTTAGTTTTATTTATTTATTTATTATATTAG
65 TAATGATATGGACGCTTTTATTGCAATAGGAGTTTTTAGTTTTATTTATTTATTTATTATATCAG
6869795 GTTTT
130 GTTTT
6869800 TGTTTCCTTC
Statistics
Matches: 395, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
280 98 0.25
283 2 0.01
284 293 0.74
285 2 0.01
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (284 bp):
GGATAAGTTTTGAAGTTTATTCTGAATTTGAGCTTGAGGACAAGCTCAACTCCGAGAAGGGGAGT
AATGATATGGACGCTTTTATTGCAATAGGAGTTTTTAGTTTTATTTATTTATTTATTATATCAGG
TTTTATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTTTGTTTCCTTAATAAA
CTCTAAGTTAGAAATTCTATTTTATGTCAATTAAGACTCTTTCCATTGTTATTAACAGTCTATAA
AAGGCTACCAATATGAATTAAAGA
Found at i:6874901 original size:11 final size:12
Alignment explanation
Indices: 6874871--6874902 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6874861 ACTTTTGTTT
6874871 ATTTTT-AATGA
1 ATTTTTAAATGA
6874882 ATTTTTAAAT-A
1 ATTTTTAAATGA
6874893 ATTTTTAAAT
1 ATTTTTAAAT
6874903 TTTAAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
ATTTTTAAATGA
Found at i:6882773 original size:3 final size:3
Alignment explanation
Indices: 6882765--6882804 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
6882755 GCACGTGTGA
6882765 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
6882805 GCATTAGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:6886797 original size:42 final size:42
Alignment explanation
Indices: 6886659--6886885 Score: 275
Period size: 42 Copynumber: 5.5 Consensus size: 42
6886649 TTTAAACAGA
* * * *
6886659 TTCACTGGCACTT-AGCCTGCTAGACTTAAAGCCTGAT-TCAG-
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATAT-TGT
* * * *
6886700 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACGTAAAGTCTGATATTGT
6886741 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* *
6886783 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
* *
6886825 TTCACCGGCATTAAGTCTGCTAGACGTAAAGTCTGATATTAT
1 TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
*
6886867 TTCACTGGCATTAAGCCTG
1 TTCACCGGCATTAAGCCTG
6886886 ATAGGCACTG
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
40 3 0.02
41 61 0.37
42 101 0.61
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
Found at i:6887062 original size:2 final size:2
Alignment explanation
Indices: 6887055--6887086 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6887045 ACATCCGAAC
6887055 AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6887087 ACTTAATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6887267 original size:2 final size:2
Alignment explanation
Indices: 6887260--6887289 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6887250 ATTACAGAAC
*
6887260 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6887290 TTGCATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6891226 original size:24 final size:25
Alignment explanation
Indices: 6891178--6891230 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 25
6891168 TCGGGCTTAA
6891178 TAATGGGAAGCTCACAAAGAGCACT
1 TAATGGGAAGCTCACAAAGAGCACT
*
6891203 TAATGGGAAGCTC-CGAAGAGCACT
1 TAATGGGAAGCTCACAAAGAGCACT
6891227 TAAT
1 TAAT
6891231 CAGAAAGCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (25 bp):
TAATGGGAAGCTCACAAAGAGCACT
Found at i:6891238 original size:25 final size:25
Alignment explanation
Indices: 6891185--6891238 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
6891175 TAATAATGGG
* *
6891185 AAGCTCACAAAGAGCACTTAATGGG
1 AAGCTCACAAAGAGCACTTAATAGA
*
6891210 AAGCTC-CGAAGAGCACTTAATCAGA
1 AAGCTCACAAAGAGCACTTAAT-AGA
6891235 AAGC
1 AAGC
6891239 ACCGGATAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (25 bp):
AAGCTCACAAAGAGCACTTAATAGA
Found at i:6891903 original size:13 final size:13
Alignment explanation
Indices: 6891885--6891909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6891875 GGTACCACAA
6891885 TTATATCATCAAT
1 TTATATCATCAAT
6891898 TTATATCATCAA
1 TTATATCATCAA
6891910 AATATCATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTATATCATCAAT
Found at i:6896953 original size:16 final size:16
Alignment explanation
Indices: 6896934--6896966 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6896924 TTCATGTTAC
*
6896934 TTTGGTTATCCTTTGT
1 TTTGCTTATCCTTTGT
6896950 TTTGCTTATCCTTTGT
1 TTTGCTTATCCTTTGT
6896966 T
1 T
6896967 ATATTGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.15, T:0.64
Consensus pattern (16 bp):
TTTGCTTATCCTTTGT
Found at i:6899504 original size:23 final size:25
Alignment explanation
Indices: 6899488--6899546 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
6899478 AATTTTATTA
6899488 ATTT-ATATATTTTAATTATAATAT
1 ATTTAATATATTTTAATTATAATAT
*
6899512 ATTTAATATA-TTTAATAATAATTAT
1 ATTTAATATATTTTAATTATAA-TAT
*
6899537 GTTTAA-ATAT
1 ATTTAATATAT
6899547 GATTAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 17 0.57
25 13 0.43
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTAATATATTTTAATTATAATAT
Found at i:6899713 original size:39 final size:40
Alignment explanation
Indices: 6899670--6899774 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
6899660 TTCCATTATG
6899670 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
6899709 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
6899754 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
6899775 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:6899768 original size:45 final size:44
Alignment explanation
Indices: 6899668--6899777 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
6899658 TTTTCCATTA
6899668 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
6899707 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
6899752 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
6899778 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:6899777 original size:16 final size:16
Alignment explanation
Indices: 6899756--6899825 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
6899746 TTGATTTGCT
*
6899756 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
6899772 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
6899788 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
6899804 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
6899820 AATACA
1 ATTACA
6899826 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:6908828 original size:45 final size:42
Alignment explanation
Indices: 6908742--6908826 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
6908732 AATTAATCCG
* *
6908742 CAATCATCCTCTACTTATCAACAGCCTGCACAATATCCTCCT
1 CAATCATCATCTACTTATCAACAACCTGCACAATATCCTCCT
6908784 CAATCATCATCCT-CTTATCAACAACCTGCACAATATCCTCCT
1 CAATCATCAT-CTACTTATCAACAACCTGCACAATATCCTCCT
6908826 C
1 C
6908827 CTGAAAGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.29, C:0.39, G:0.04, T:0.28
Consensus pattern (42 bp):
CAATCATCATCTACTTATCAACAACCTGCACAATATCCTCCT
Found at i:6914618 original size:3 final size:3
Alignment explanation
Indices: 6914610--6914647 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6914600 AGTGTAAACA
6914610 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
6914648 AAAATTCCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6919703 original size:17 final size:17
Alignment explanation
Indices: 6919669--6919703 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6919659 CAATCTCAAA
* *
6919669 TTTTATTAATAAATTTC
1 TTTTATTAAAAAAATTC
6919686 TTTTATTAAAAAAATTC
1 TTTTATTAAAAAAATTC
6919703 T
1 T
6919704 AGTTAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTATTAAAAAAATTC
Found at i:6921313 original size:18 final size:18
Alignment explanation
Indices: 6921290--6921324 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6921280 TAAATGTGGT
6921290 CCCCTTATTGGATGGGGA
1 CCCCTTATTGGATGGGGA
*
6921308 CCCCTTATTGGGTGGGG
1 CCCCTTATTGGATGGGG
6921325 CTCCATTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.23, G:0.37, T:0.29
Consensus pattern (18 bp):
CCCCTTATTGGATGGGGA
Found at i:6927537 original size:42 final size:42
Alignment explanation
Indices: 6927478--6927562 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
6927468 AAGTAACCCG
* * * *
6927478 CAATCATCCTCCACTTATCAGCAGCCTTCACAATATCCTCCT
1 CAATCATCCTCCACTTATCAACAACCTGCACAATATACTCCT
*
6927520 CAATCATCCTCCTCTTATCAACAACCTGCACAATATACTCCT
1 CAATCATCCTCCACTTATCAACAACCTGCACAATATACTCCT
6927562 C
1 C
6927563 CTGAAAGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.28, C:0.40, G:0.04, T:0.28
Consensus pattern (42 bp):
CAATCATCCTCCACTTATCAACAACCTGCACAATATACTCCT
Found at i:6927799 original size:126 final size:126
Alignment explanation
Indices: 6927568--6927825 Score: 403
Period size: 126 Copynumber: 2.0 Consensus size: 126
6927558 TCCTCCTGAA
* * *
6927568 AGTAATTCTGAGCTCCTCTCCACACACATTAGCTTCTCTGGTCATAACCGGCAAGACAGTACAAG
1 AGTAATTCCGAGCTCCTCTCCACACACAATAGCTTCTCTGGTCATAACAGGCAAGACAGTACAAG
* * * *
6927633 TTCCTTAGCAGCAAATACGGGAAGTGCTTCACGTCTTTACCC-GCGTTTGGATCATCAGTTG
66 TTCCTTAGCAGCAAATACGGGAAGTGCCTCACCTCTTTACCCAG-GTTTAGATCATCAATTG
6927694 AGTAATTCCGAGCTCCTCTCCACACACAATAGCTTCTCTGGTCATAACAGGCAAGACAGTACAAG
1 AGTAATTCCGAGCTCCTCTCCACACACAATAGCTTCTCTGGTCATAACAGGCAAGACAGTACAAG
* *
6927759 TTCCTTAGCAGCAAATTCGGGAAGTGCCTCACCTGC-TTACCCAGTTTTAGATCATCAATTG
66 TTCCTTAGCAGCAAATACGGGAAGTGCCTCACCT-CTTTACCCAGGTTTAGATCATCAATTG
6927820 AGTAAT
1 AGTAAT
6927826 ATGCATTTGT
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
126 119 0.98
127 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (126 bp):
AGTAATTCCGAGCTCCTCTCCACACACAATAGCTTCTCTGGTCATAACAGGCAAGACAGTACAAG
TTCCTTAGCAGCAAATACGGGAAGTGCCTCACCTCTTTACCCAGGTTTAGATCATCAATTG
Found at i:6937120 original size:12 final size:12
Alignment explanation
Indices: 6937103--6937151 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
6937093 AGTTGTAAAG
6937103 TTTTATTTTTAT
1 TTTTATTTTTAT
6937115 TTTTATTTTTATT
1 TTTTATTTTTA-T
6937128 TATTTATTTATT-T
1 T-TTTATTT-TTAT
*
6937141 ATTTATTTTTA
1 TTTTATTTTTA
6937152 CTTAGTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
11 2 0.06
12 18 0.56
13 3 0.09
14 7 0.22
15 2 0.06
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTAT
Found at i:6937131 original size:4 final size:4
Alignment explanation
Indices: 6937122--6937148 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6937112 TATTTTTATT
6937122 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
6937149 TTACTTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6940847 original size:18 final size:19
Alignment explanation
Indices: 6940824--6940872 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
6940814 AAGTTTTGTT
*
6940824 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
6940842 TTTATTTGTT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
6940861 TTTAATTTTTAT
1 TTT-ATTTTTAT
6940873 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:6947693 original size:18 final size:19
Alignment explanation
Indices: 6947670--6947713 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
6947660 CACAATACTT
* *
6947670 TATATTATGTTATTT-TTA
1 TATATTATGTAATTTATAA
6947688 TATATTATGTAATTTATAA
1 TATATTATGTAATTTATAA
6947707 TATATTA
1 TATATTA
6947714 AAATATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TATATTATGTAATTTATAA
Found at i:6948490 original size:92 final size:92
Alignment explanation
Indices: 6948333--6948517 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
6948323 GAATGGGGTA
6948333 AGCTATATAGTTTAGTAAGTTGGTATGTAAATACTAAGCAATTTATTAACATGCTTTTATCAATC
1 AGCTATATAGTTTAGTAAGTTGGTATGTAAATACTAAGCAATTTATTAACATGCTTTTATCAATC
6948398 CTCACAATATGTTCTCAAGATAATCCG
66 CTCACAATATGTTCTCAAGATAATCCG
6948425 AGCTATATAGTTTAGTAAGTTGGTATGTAAATACTAAGCAATTTATTAACATGCTTTTATCAATC
1 AGCTATATAGTTTAGTAAGTTGGTATGTAAATACTAAGCAATTTATTAACATGCTTTTATCAATC
6948490 CTCACAATATGTTCTCAAGATAATCCG
66 CTCACAATATGTTCTCAAGATAATCCG
6948517 A
1 A
6948518 TCATAATTGC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (92 bp):
AGCTATATAGTTTAGTAAGTTGGTATGTAAATACTAAGCAATTTATTAACATGCTTTTATCAATC
CTCACAATATGTTCTCAAGATAATCCG
Found at i:6955456 original size:163 final size:163
Alignment explanation
Indices: 6955166--6955485 Score: 550
Period size: 163 Copynumber: 2.0 Consensus size: 163
6955156 CAAGCAGTCA
* * * * *
6955166 CATAAACATTTGCTTTCATTCACATAAAAAAATTATTATTGGCATCCCAAACTAATGAAACTGAC
1 CATAAAAATTTGCATTCATACACATAAAAAAATCATTATCGGCATCCCAAACTAATGAAACTGAC
*
6955231 ACGTAATAATTAAGTAGTAAAGACATAATCGAAAAATCTAATGGTTGAAACAATCAAAAGCTAAT
66 ACGTAATAATTAAGTACTAAAGACATAATCGAAAAATCTAATGGTTGAAACAATCAAAAGCTAAT
*
6955296 GTCTTGCATATATGTAGTTAAAATTATTATCGG
131 GTCTTGCATATATGCAGTTAAAATTATTATCGG
*
6955329 CATAAAAATTTGCATTCATACACATAAAAAAATCATTATCGGCATCCCATACTAATGAAACTGAC
1 CATAAAAATTTGCATTCATACACATAAAAAAATCATTATCGGCATCCCAAACTAATGAAACTGAC
* *
6955394 ACGTAATAATTAAGTACTAAAGACATAATTGATAAATCTAATGGTTGAAACAATCAAAAGCTAAT
66 ACGTAATAATTAAGTACTAAAGACATAATCGAAAAATCTAATGGTTGAAACAATCAAAAGCTAAT
6955459 GTCTTGCATATATGCAGTTAAAATTAT
131 GTCTTGCATATATGCAGTTAAAATTAT
6955486 AGGAAAACAA
Statistics
Matches: 147, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
163 147 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.30
Consensus pattern (163 bp):
CATAAAAATTTGCATTCATACACATAAAAAAATCATTATCGGCATCCCAAACTAATGAAACTGAC
ACGTAATAATTAAGTACTAAAGACATAATCGAAAAATCTAATGGTTGAAACAATCAAAAGCTAAT
GTCTTGCATATATGCAGTTAAAATTATTATCGG
Found at i:6965003 original size:42 final size:41
Alignment explanation
Indices: 6964942--6965078 Score: 146
Period size: 42 Copynumber: 3.5 Consensus size: 41
6964932 ACCCCTCGGG
6964942 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACAGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATAC-GT
* * * *
6964984 GGAATCAGCACTTAACAA-CCAC--CA-A--TGAG-T-CGG
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGT
* *
6965017 GGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATAC-GT
6965059 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
6965079 ACCAATGAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
33 17 0.23
34 3 0.04
35 1 0.01
36 5 0.07
37 1 0.01
38 1 0.01
39 5 0.07
40 1 0.01
41 4 0.05
42 37 0.49
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGT
Found at i:6965049 original size:75 final size:75
Alignment explanation
Indices: 6964837--6965116 Score: 421
Period size: 75 Copynumber: 3.8 Consensus size: 75
6964827 ATCTGTTATT
* *
6964837 GGTGGATTCAGCACTTAGCAATCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCACA
6964902 TTTAAGATAC
66 TTTAAGATAC
*
6964912 GGTGGAATCAGCACTTAGCAACC-CC--T-CG--GGGGAATCAGCACTTAGCAACCCCCTTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCACA
6964971 TTTAAGATAC
66 TTTAAGATAC
* * * *
6964981 AGTGGAATCAGCACTTAACAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCACA
6965046 TTTAAGATAC
66 TTTAAGATAC
* *
6965056 GGTGGAATCAGCACTTAGCAACCACCAATGAATC-GGGAAACTAGCACTTAGCAACCCCCTT
1 GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATC-AGCACTTAGCAACCCCCTT
6965117 TATATTCAAT
Statistics
Matches: 184, Mismatches: 14, Indels: 14
0.87 0.07 0.07
Matches are distributed among these distances:
69 62 0.34
70 2 0.01
71 1 0.01
72 2 0.01
73 1 0.01
74 8 0.04
75 108 0.59
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (75 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCCTTCACA
TTTAAGATAC
Found at i:6966745 original size:73 final size:73
Alignment explanation
Indices: 6966611--6966748 Score: 204
Period size: 73 Copynumber: 1.9 Consensus size: 73
6966601 GGAAACAACA
* * * * * *
6966611 AAATCTCACGAGAAAATATTATGACAATTAAAAAGGACAAAGATGACAAACTCCCATTAAAGCAC
1 AAATCCCACAAGAAAATATTATGACAATAAAAAAAGACAAAGATGACAAACTCCAAATAAAGCAC
6966676 GCAATGAT
66 GCAATGAT
* *
6966684 AAATCCCACAAGAAAATATTATGACAATAAAAAAAGACAAAGATGTCAATCTCCAAATAAAGCAC
1 AAATCCCACAAGAAAATATTATGACAATAAAAAAAGACAAAGATGACAAACTCCAAATAAAGCAC
6966749 ACTCCCTGTT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 57 1.00
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (73 bp):
AAATCCCACAAGAAAATATTATGACAATAAAAAAAGACAAAGATGACAAACTCCAAATAAAGCAC
GCAATGAT
Found at i:6974909 original size:91 final size:91
Alignment explanation
Indices: 6974754--6974940 Score: 340
Period size: 91 Copynumber: 2.1 Consensus size: 91
6974744 CTATTTTCAT
*
6974754 ACTTTTTTTTATAAAATTTATTAAAAAAAACAACTTTAAATTAAGAAAAATATCCAAGTAAGGTT
1 ACTTTTTTTTATAAAAATTATTAAAAAAAACAACTTTAAATTAAGAAAAATATCCAAGTAAGGTT
6974819 TGAATTCAAAACATGAAAAATCTTAA
66 TGAATTCAAAACATGAAAAATCTTAA
*
6974845 ACTTTTTTTTATAAAAATTATT-AAAAAAACAACTTTAAATTAAAGAAAAATATTCAAGTAAGGT
1 ACTTTTTTTTATAAAAATTATTAAAAAAAACAACTTTAAATT-AAGAAAAATATCCAAGTAAGGT
6974909 TTGAATTCAAAACATGAAAAATCTTAA
65 TTGAATTCAAAACATGAAAAATCTTAA
6974936 ACTTT
1 ACTTT
6974941 GCTATTCAAC
Statistics
Matches: 93, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
90 19 0.20
91 74 0.80
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (91 bp):
ACTTTTTTTTATAAAAATTATTAAAAAAAACAACTTTAAATTAAGAAAAATATCCAAGTAAGGTT
TGAATTCAAAACATGAAAAATCTTAA
Found at i:7001040 original size:15 final size:15
Alignment explanation
Indices: 7001020--7001055 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
7001010 AATCTGTTTA
7001020 TTCTTTTCTT-GTATT
1 TTCTTTT-TTCGTATT
7001035 TTCTTTTTTCGTATT
1 TTCTTTTTTCGTATT
7001050 TTCTTT
1 TTCTTT
7001056 AACTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (15 bp):
TTCTTTTTTCGTATT
Found at i:7002334 original size:265 final size:265
Alignment explanation
Indices: 7001878--7002436 Score: 895
Period size: 265 Copynumber: 2.1 Consensus size: 265
7001868 CAACTTCAAG
* **
7001878 GAGGTAAAATCTGCTATCTTTGACCTGCTCCACTACTGCTCGGGGAGACAAGATCTGAAATCTTC
1 GAGGTAAAATCTGCCATCTTTGACCTGCTCCACTACTGCTCAAGGAGACAAGATCTGAAATCTTC
* *
7001943 AATCTATTCCACTGCTATCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACG
66 AATCTATTCCACTACTATCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACG
* * * *
7002008 AAGAGGTAAAATCTGCCATCTTCGATCTGCTTCGTTGTCTATGCAGGAAGGCAATATCTAAAATC
131 AAGAGGTAAAATCCGCCATCCTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATC
7002073 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
196 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
7002138 AC-AGA
261 ACGA-A
* * * *
7002143 GAGGTAAAATCTGCCATTTTTTATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGAAATCTTC
1 GAGGTAAAATCTGCCATCTTTGACCTGCTCCACTACTGCTCAAGGAGACAAGATCTGAAATCTTC
* * *
7002208 AATCTATTCCACTACTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCTACTATAACCACG
66 AATCTATTCCACTACTATCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACG
* *
7002273 AGGAGGTAAAATCCGCCATCCTCGATCTGCTTCGCTGTCTATGCAGGAAGGTAAGATCTAAAATC
131 AAGAGGTAAAATCCGCCATCCTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATC
*
7002338 TTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
196 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
7002403 ACGAA
261 ACGAA
* * * *
7002408 GAGGTAAAATCCGTCATCTTCGATCTGCT
1 GAGGTAAAATCTGCCATCTTTGACCTGCT
7002437 TCGCNNNNNN
Statistics
Matches: 269, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
265 268 1.00
266 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (265 bp):
GAGGTAAAATCTGCCATCTTTGACCTGCTCCACTACTGCTCAAGGAGACAAGATCTGAAATCTTC
AATCTATTCCACTACTATCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTATAACCACG
AAGAGGTAAAATCCGCCATCCTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTAAAATC
TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
ACGAA
Found at i:7002440 original size:133 final size:132
Alignment explanation
Indices: 7001926--7002440 Score: 732
Period size: 133 Copynumber: 3.9 Consensus size: 132
7001916 CTCGGGGAGA
* * *
7001926 CAAGATCTGAAATCTTCAATCTATTCCACTGCTATCCAGAGAAGTAGAATTACTGGCTTCAATGT
1 CAAGATCTAAAATCTTCAATCTATTCCACTGCT-GCCAGGGAAGTAGAATTACTGGCTTCAATGT
* *
7001991 ACTCCACTGTAACCACGAAGAGGTAAAATCTGCCATCTTCGATCTGCTTCGTTGTCTATGCAGGA
65 ACTCCACTGTAACCACGAAGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGA
7002056 AGG
130 AGG
*
7002059 CAATATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGT
1 CAAGATCTAAAATCTTCAATCTATTCCACTGCTG-CCAGGGAAGTAGAATTACTGGCTTCAATGT
* * ** * * * *
7002124 ACTCCACTGTAACCAC-AGAGAGGTAAAATCTGCCATTTTTTATCTGCTCCACTACTGCT-T-AA
65 ACTCCACTGTAACCACGA-AGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCT-GT-CTATGCA
*
7002186 GG-AGA
127 GGAAGG
* *
7002191 CAAGATCTGAAATCTTCAATCTATTCCACTACTGTCCAGGGAAGTAGAATTACTGGCTTCAATGT
1 CAAGATCTAAAATCTTCAATCTATTCCACTGCTG-CCAGGGAAGTAGAATTACTGGCTTCAATGT
* * * *
7002256 ACTCTACTATAACCACGAGGAGGTAAAATCCGCCATCCTCGATCTGCTTCGCTGTCTATGCAGGA
65 ACTCCACTGTAACCACGAAGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGA
7002321 AGG
130 AGG
*
7002324 TAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAATGT
1 CAAGATCTAAAATCTTCAATCTATTCCACTGCTGCC-AGGGAAGTAGAATTACTGGCTTCAATGT
*
7002389 ACTCCACTGTAACCACGAAGAGGTAAAATCCGTCATCTTCGATCTGCTTCGC
65 ACTCCACTGTAACCACGAAGAGGTAAAATCCGCCATCTTCGATCTGCTTCGC
7002441 NNNNNNNNNN
Statistics
Matches: 335, Mismatches: 38, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
130 2 0.01
131 2 0.01
132 110 0.33
133 217 0.65
134 2 0.01
135 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
CAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCAGGGAAGTAGAATTACTGGCTTCAATGTA
CTCCACTGTAACCACGAAGAGGTAAAATCCGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGAA
GG
Found at i:7004618 original size:132 final size:132
Alignment explanation
Indices: 7004355--7004596 Score: 396
Period size: 132 Copynumber: 1.8 Consensus size: 132
7004345 NNNNNNNNTA
* * * **
7004355 TAGAGTTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATTTTTTATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
* *
7004420 TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGTCCAGGGA
66 TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCAGTACAGGGA
7004485 AG
131 AG
*
7004487 TAGAATTACTGGTTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAATCCGCCATCTTCGAT
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATCCGCCATCTTCGAT
7004551 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCT
65 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCT
7004597 GCTTCTCTGT
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
131 1 0.01
132 102 0.99
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATC
TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCAGTACAGGGA
AG
Found at i:7004709 original size:88 final size:89
Alignment explanation
Indices: 7004535--7004714 Score: 238
Period size: 88 Copynumber: 2.0 Consensus size: 89
7004525 AGGAGGTAAA
* * ** *
7004535 ATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTGCT
1 ATCCGCCATCTTCGACCTACTCCACTACTGCCCAGGGAGACAAGAGCTGAAATCTTCAATCTGCT
*
7004600 TCTCTGTCAGTACAGGAAGGCAAG
66 TCTCTGTCAGTACAAGAAGGCAAG
* * ** *
7004624 ATCCGCCATTTTCGACCTACTCCACTGCTGCCCAGGGAGACAAG-GCTGGTATCTTCGATCTGCT
1 ATCCGCCATCTTCGACCTACTCCACTACTGCCCAGGGAGACAAGAGCTGAAATCTTCAATCTGCT
7004688 TCGT-TGTCAGTACAAGAAGGCAAG
66 TC-TCTGTCAGTACAAGAAGGCAAG
7004712 ATC
1 ATC
7004715 TGCTATATTC
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
88 40 0.51
89 39 0.49
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (89 bp):
ATCCGCCATCTTCGACCTACTCCACTACTGCCCAGGGAGACAAGAGCTGAAATCTTCAATCTGCT
TCTCTGTCAGTACAAGAAGGCAAG
Found at i:7006037 original size:15 final size:15
Alignment explanation
Indices: 7006017--7006060 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
7006007 TAGCCTCTCT
7006017 ATTTTTACTTTTTCC
1 ATTTTTACTTTTTCC
7006032 ATTTTT-CATTTTTCC
1 ATTTTTAC-TTTTTCC
*
7006047 ATTTTTATTTTTTC
1 ATTTTTACTTTTTC
7006061 ACATCTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTACTTTTTCC
Found at i:7011609 original size:15 final size:15
Alignment explanation
Indices: 7011589--7011624 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
7011579 AATCTGTTTA
7011589 TTCTTTTCTT-GTATT
1 TTCTTTT-TTCGTATT
7011604 TTCTTTTTTCGTATT
1 TTCTTTTTTCGTATT
7011619 TTCTTT
1 TTCTTT
7011625 AACTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (15 bp):
TTCTTTTTTCGTATT
Found at i:7012345 original size:63 final size:63
Alignment explanation
Indices: 7012246--7012365 Score: 213
Period size: 63 Copynumber: 1.9 Consensus size: 63
7012236 GATTTAAAAG
* *
7012246 TTAAATTTGGTAATTCAAACTCTATTAAGTTGCACCTCATTCTCGATGTGATAAGAATATAAC
1 TTAAATTTGGTAATTCAAACTCTATTAAGATACACCTCATTCTCGATGTGATAAGAATATAAC
*
7012309 TTAAATTTGGTAATTCAAACTCTATTAAGATACACCTCATTCTTGATGTGATAAGAA
1 TTAAATTTGGTAATTCAAACTCTATTAAGATACACCTCATTCTCGATGTGATAAGAA
7012366 AATATCCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (63 bp):
TTAAATTTGGTAATTCAAACTCTATTAAGATACACCTCATTCTCGATGTGATAAGAATATAAC
Found at i:7012802 original size:52 final size:53
Alignment explanation
Indices: 7012745--7012850 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
7012735 TTATCTCCTA
7012745 AACTTTAGCATCTAATCTCCTAATT-AAAAAGAAAGAGATATACACAAAAACT
1 AACTTTAGCATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
7012797 AACTTTAGCATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
1 AACTTTAGCATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
7012850 A
1 A
7012851 CCATACATAT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 25 0.47
53 28 0.53
ACGTcount: A:0.51, C:0.17, G:0.08, T:0.25
Consensus pattern (53 bp):
AACTTTAGCATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
Found at i:7017380 original size:52 final size:53
Alignment explanation
Indices: 7017323--7017428 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
7017313 TTATCTCCTA
*
7017323 AACTTTAACATCTAATCTCCTAATT-AAAAAGAAAGATATATACACAAAAACT
1 AACTTTAACATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
*
7017375 AACTTTAGCATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
1 AACTTTAACATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
7017428 A
1 A
7017429 CCATACATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 24 0.47
53 27 0.53
ACGTcount: A:0.52, C:0.17, G:0.06, T:0.25
Consensus pattern (53 bp):
AACTTTAACATCTAATCTCCTAATTAAAAAAGAAAGAGATATACACAAAAACT
Found at i:7018797 original size:16 final size:16
Alignment explanation
Indices: 7018771--7018810 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
7018761 AAACAATTGA
*
7018771 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
*
7018787 GTTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
7018803 ATTACAGC
1 ATTACAGC
7018811 GAACCAAACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:7021942 original size:7 final size:8
Alignment explanation
Indices: 7021925--7021955 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
7021915 TTGAAAGATT
7021925 AAAATTAA
1 AAAATTAA
7021933 AAAATT-A
1 AAAATTAA
7021940 AAAATTAA
1 AAAATTAA
7021948 AAAATTAA
1 AAAATTAA
7021956 TATATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAATTAA
Found at i:7021943 original size:15 final size:15
Alignment explanation
Indices: 7021925--7021955 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7021915 TTGAAAGATT
7021925 AAAATTAAAAAATTA
1 AAAATTAAAAAATTA
7021940 AAAATTAAAAAATTA
1 AAAATTAAAAAATTA
7021955 A
1 A
7021956 TATATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTAAAAAATTA
Found at i:7023284 original size:6 final size:7
Alignment explanation
Indices: 7023265--7023295 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
7023255 TTGTGGTTAA
7023265 TATTTTT
1 TATTTTT
7023272 TATTTTT
1 TATTTTT
7023279 TATTTTT
1 TATTTTT
7023286 TATTTTT
1 TATTTTT
7023293 TAT
1 TAT
7023296 ATAAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:7023781 original size:22 final size:22
Alignment explanation
Indices: 7023753--7023796 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7023743 CCAAATATCT
7023753 ATTAACCCAAATAGCCCAATAC
1 ATTAACCCAAATAGCCCAATAC
7023775 ATTAACCCAAATAGCCCAATAC
1 ATTAACCCAAATAGCCCAATAC
7023797 CAGCCCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.18
Consensus pattern (22 bp):
ATTAACCCAAATAGCCCAATAC
Found at i:7024065 original size:19 final size:19
Alignment explanation
Indices: 7024006--7024066 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
7023996 TCGCAACAAT
*
7024006 AACAGAAAAGAAAAAAGAAGA
1 AACAGAAAA-AATAAAGAA-A
* *
7024027 AAC-GAAGAAATATAGAAA
1 AACAGAAAAAATAAAGAAA
7024045 AACAGAAAAAATAAAGGAAA
1 AACAGAAAAAATAAA-GAAA
7024065 AA
1 AA
7024067 TAAAAATCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 4 0.12
19 16 0.48
20 10 0.30
21 3 0.09
ACGTcount: A:0.74, C:0.05, G:0.16, T:0.05
Consensus pattern (19 bp):
AACAGAAAAAATAAAGAAA
Found at i:7024998 original size:24 final size:24
Alignment explanation
Indices: 7024940--7025073 Score: 107
Period size: 24 Copynumber: 5.5 Consensus size: 24
7024930 TTAAGCTTAA
7024940 TATTATTTTTAAATTTATCATGTAT
1 TATTA-TTTTAAATTTATCATGTAT
*
7024965 T-TGGTA-TTTAAATTCATCATGTAT
1 TAT--TATTTTAAATTTATCATGTAT
*
7024989 TATTATTTTAAGTTTTAT-ATGTAT
1 TATTATTTTAA-ATTTATCATGTAT
* *
7025013 TATTATTCTAAGTTT-TCATGTGTAAT
1 TATTATTTTAAATTTATCA--TGT-AT
* *
7025039 TACTT-TTTTTAATTTATCATATAT
1 TA-TTATTTTAAATTTATCATGTAT
7025063 TATTATTTTAA
1 TATTATTTTAA
7025074 TTTCCATCTA
Statistics
Matches: 87, Mismatches: 10, Indels: 25
0.71 0.08 0.20
Matches are distributed among these distances:
22 1 0.01
23 8 0.09
24 49 0.56
25 11 0.13
26 13 0.15
27 5 0.06
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (24 bp):
TATTATTTTAAATTTATCATGTAT
Found at i:7025088 original size:22 final size:23
Alignment explanation
Indices: 7025045--7025088 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
7025035 TAATTACTTT
*
7025045 TTTTAATTTATCATATATTATTA
1 TTTTAATTTACCATATATTATTA
*
7025068 TTTTAATTT-CCATCTATTATT
1 TTTTAATTTACCATATATTATT
7025089 TTATATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTTAATTTACCATATATTATTA
Found at i:7025262 original size:17 final size:18
Alignment explanation
Indices: 7025218--7025265 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
7025208 TTCTTATATA
*
7025218 ATACTATTTTTTTAATTT
1 ATACTATTTTTTTGATTT
*
7025236 ATACCA-TTTTTTGATTT
1 ATACTATTTTTTTGATTT
7025253 ATA-TATTTTTTTG
1 ATACTATTTTTTTG
7025266 TACATTATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 20 0.77
18 5 0.19
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
ATACTATTTTTTTGATTT
Found at i:7025743 original size:24 final size:24
Alignment explanation
Indices: 7025698--7025752 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
7025688 ATGTATTTTA
* * *
7025698 TAAAATTATAATAAAAATTTATAT
1 TAAAAATATAATAAAAAATTATAC
7025722 TAAAAATA-AATAAATAAATTATAC
1 TAAAAATATAATAAA-AAATTATAC
7025746 TAAAAAT
1 TAAAAAT
7025753 TATGGAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TAAAAATATAATAAAAAATTATAC
Found at i:7026236 original size:18 final size:18
Alignment explanation
Indices: 7026192--7026240 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
7026182 AAAATTAATT
*
7026192 GTAATTAATATTTTTAAA
1 GTAATTAATTTTTTTAAA
* * *
7026210 CT-ATGAATTTTTTTATA
1 GTAATTAATTTTTTTAAA
7026227 GTAATTAATTTTTT
1 GTAATTAATTTTTT
7026241 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (18 bp):
GTAATTAATTTTTTTAAA
Found at i:7026954 original size:125 final size:125
Alignment explanation
Indices: 7026727--7027014 Score: 443
Period size: 125 Copynumber: 2.3 Consensus size: 125
7026717 ATCTATTAAG
* * *
7026727 GAAATCGCTCCCACGTGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
* * * *
7026792 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGTTTTATCA-AAAGAATTTCT
66 ATTTCTGAGAAAATAGTATAAAAAACGCTCCAAGCAGGATGCTTTATCAGAAAGAATTT-T
* *
7026852 GAAATCGCTCTCACGTGGACGCGCTTTTGCTACAGTAGGTTCTGAAAAAATAATTTCAAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
* * * *
7026917 ATTTCTGAGAAAATAGTATAAAAAATGCTCCAGGCAGGATGCTTTATCAGAAATACTTTT
66 ATTTCTGAGAAAATAGTATAAAAAACGCTCCAAGCAGGATGCTTTATCAGAAAGAATTTT
7026977 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
7027015 CATGTTTGGG
Statistics
Matches: 148, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 141 0.95
126 7 0.05
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
ATTTCTGAGAAAATAGTATAAAAAACGCTCCAAGCAGGATGCTTTATCAGAAAGAATTTT
Found at i:7027043 original size:12 final size:12
Alignment explanation
Indices: 7027026--7027051 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7027016 ATGTTTGGGC
7027026 TGAGGCAAAAAA
1 TGAGGCAAAAAA
7027038 TGAGGCAAAAAA
1 TGAGGCAAAAAA
7027050 TG
1 TG
7027052 TTCTCAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.08, G:0.27, T:0.12
Consensus pattern (12 bp):
TGAGGCAAAAAA
Found at i:7030231 original size:49 final size:49
Alignment explanation
Indices: 7030113--7030233 Score: 224
Period size: 49 Copynumber: 2.5 Consensus size: 49
7030103 TAAGAATATT
* *
7030113 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
7030162 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
7030211 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
7030234 TAATACAAAC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 70 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:7030399 original size:21 final size:20
Alignment explanation
Indices: 7030353--7030419 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 20
7030343 TGTCTAGCTG
* *
7030353 TCGGTGGGGGTTGTGGTTGCT
1 TCGGTGGGGGTTCTGGTT-CA
7030374 TCGGTGGGGGTTCTGGTTCA
1 TCGGTGGGGGTTCTGGTTCA
* *
7030394 TCCGGTAGGGGATCTGGTT-A
1 T-CGGTGGGGGTTCTGGTTCA
7030414 TCGGTG
1 TCGGTG
7030420 TTGGGACGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 4 0.10
20 4 0.10
21 32 0.80
ACGTcount: A:0.06, C:0.13, G:0.46, T:0.34
Consensus pattern (20 bp):
TCGGTGGGGGTTCTGGTTCA
Found at i:7039829 original size:61 final size:61
Alignment explanation
Indices: 7039719--7039833 Score: 142
Period size: 61 Copynumber: 1.9 Consensus size: 61
7039709 TTTTTAAAAA
* * * ** *
7039719 TTTTTAGAGTTAGGACTAAATTGACAGATTTTATAAATGGTGAGAGCTAAATTTATAGAAC
1 TTTTTAGAATTAGGACTAAAATGACAAATTTTATAAACAGTAAGAGCTAAATTTATAGAAC
* *
7039780 TTTTTAGAATTAGGACTAAAATGATAAATTTTATAAACATTAA-AGGCTAAATTT
1 TTTTTAGAATTAGGACTAAAATGACAAATTTTATAAACAGTAAGA-GCTAAATTT
7039834 GTTGAAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
60 1 0.02
61 44 0.98
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (61 bp):
TTTTTAGAATTAGGACTAAAATGACAAATTTTATAAACAGTAAGAGCTAAATTTATAGAAC
Found at i:7040700 original size:83 final size:83
Alignment explanation
Indices: 7040561--7040726 Score: 314
Period size: 83 Copynumber: 2.0 Consensus size: 83
7040551 CCAAAGGAAA
* *
7040561 GATAAACTCGAGAGCGAACTCAATGCCTACAGGGTAATTCAGTTTTTGTTACTTCAAATTATTTT
1 GATAAACTCGAGAGCGAACTCAATGCCTACAGGGTAATTCAGGTTTTCTTACTTCAAATTATTTT
7040626 CTAGAAACTAGTTAGGGC
66 CTAGAAACTAGTTAGGGC
7040644 GATAAACTCGAGAGCGAACTCAATGCCTACAGGGTAATTCAGGTTTTCTTACTTCAAATTATTTT
1 GATAAACTCGAGAGCGAACTCAATGCCTACAGGGTAATTCAGGTTTTCTTACTTCAAATTATTTT
7040709 CTAGAAACTAGTTAGGGC
66 CTAGAAACTAGTTAGGGC
7040727 TTACTTCTTT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (83 bp):
GATAAACTCGAGAGCGAACTCAATGCCTACAGGGTAATTCAGGTTTTCTTACTTCAAATTATTTT
CTAGAAACTAGTTAGGGC
Found at i:7054956 original size:6 final size:6
Alignment explanation
Indices: 7054945--7054972 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7054935 TTGATTAAGA
7054945 AAATGG AAATGG AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAAT
7054973 TGTTGCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:7070176 original size:5 final size:5
Alignment explanation
Indices: 7070140--7070207 Score: 61
Period size: 5 Copynumber: 13.4 Consensus size: 5
7070130 TTATGTTATG
* *
7070140 TATAT TAT-T T-TAT TATAT AATATAA TAAAT TATAT TA-AT TATAT TATAT
1 TATAT TATAT TATAT TATAT --TATAT TATAT TATAT TATAT TATAT TATAT
7070189 TATAT TATTAT ATATAT TA
1 TATAT TA-TAT -TATAT TA
7070208 AATAAAGTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
3 1 0.02
4 8 0.15
5 31 0.60
6 6 0.12
7 6 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:7070205 original size:31 final size:30
Alignment explanation
Indices: 7070135--7070208 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
7070125 GATTTTTATG
* *
7070135 TTATGTATATT-ATTTTATTATATAATATA
1 TTATATATATTAATTATATTATATAATATA
* * *
7070164 ATAAATTATATTAATTATATTATATTATATTA
1 TTATA-TATATTAATTATATTATATAATA-TA
7070196 TTATATATATTAA
1 TTATATATATTAA
7070209 ATAAAGTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
29 2 0.06
30 6 0.17
31 22 0.63
32 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (30 bp):
TTATATATATTAATTATATTATATAATATA
Found at i:7074830 original size:7 final size:7
Alignment explanation
Indices: 7074818--7074842 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
7074808 AAAGTATTTT
7074818 AAAATTA
1 AAAATTA
7074825 AAAATTA
1 AAAATTA
7074832 AAAATTA
1 AAAATTA
7074839 AAAA
1 AAAA
7074843 AAAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTA
Found at i:7075671 original size:18 final size:20
Alignment explanation
Indices: 7075635--7075671 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
7075625 TAATTTTATC
7075635 TAAAACTATCTATAATAATG
1 TAAAACTATCTATAATAATG
*
7075655 TAAAA-TAT-TATATTAAT
1 TAAAACTATCTATAATAAT
7075672 AAAATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 3 0.19
20 5 0.31
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAACTATCTATAATAATG
Found at i:7076441 original size:3 final size:3
Alignment explanation
Indices: 7076433--7076493 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
7076423 CTAAACCCAC
7076433 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7076481 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
7076494 TAAAAAGGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7094803 original size:25 final size:25
Alignment explanation
Indices: 7094775--7094944 Score: 92
Period size: 26 Copynumber: 6.8 Consensus size: 25
7094765 AGCTCTTTCA
7094775 AGCCATATAAT-GGGAAGCTCCAATG
1 AGCCATATAATCGGGAAGCTCCAA-G
*
7094800 AGCCAT-TAAT-AGGAAGCT-CATACG
1 AGCCATATAATCGGGAAGCTCCA-A-G
* * * *
7094824 AGTCA-AT-ATTGGGAAGGTTCAAGCG
1 AGCCATATAATCGGGAAGCTCCAA--G
7094849 AGCCA-AT-ATCGGGAAGCTCCGAAG
1 AGCCATATAATCGGGAAGCTCC-AAG
*
7094873 AGCCAT-TAATCTGGAAGCTCACAAAG
1 AGCCATATAATCGGGAAGCTC-C-AAG
* *
7094899 AGCC-TTTACTCGGGAAGCTCACGAAG
1 AGCCATATAATCGGGAAGCTC-C-AAG
*
7094925 AGCCATAT-ATCGGGACGCTC
1 AGCCATATAATCGGGAAGCTC
7094945 ATAAGAGCTA
Statistics
Matches: 117, Mismatches: 17, Indels: 21
0.75 0.11 0.14
Matches are distributed among these distances:
23 4 0.03
24 32 0.27
25 38 0.32
26 41 0.35
27 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
AGCCATATAATCGGGAAGCTCCAAG
Found at i:7094914 original size:26 final size:25
Alignment explanation
Indices: 7094855--7094945 Score: 103
Period size: 26 Copynumber: 3.6 Consensus size: 25
7094845 AGCGAGCCAA
7094855 TATCGGGAAGCTC-CGAAGAGCCATT
1 TATCGGGAAGCTCACGAAGAGCC-TT
* * *
7094880 AATCTGGAAGCTCACAAAGAGCCTT
1 TATCGGGAAGCTCACGAAGAGCCTT
*
7094905 TACTCGGGAAGCTCACGAAGAGCCATA
1 TA-TCGGGAAGCTCACGAAGAGCC-TT
*
7094932 TATCGGGACGCTCA
1 TATCGGGAAGCTCA
7094946 TAAGAGCTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
25 14 0.25
26 38 0.69
27 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (25 bp):
TATCGGGAAGCTCACGAAGAGCCTT
Found at i:7097360 original size:46 final size:46
Alignment explanation
Indices: 7097293--7097432 Score: 244
Period size: 46 Copynumber: 3.0 Consensus size: 46
7097283 ACAATGCTAT
* *
7097293 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
7097339 AACTCAGTATGGTTTTCTTCACTGAAACACCATATCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
7097385 AACTCAATATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
7097431 AA
1 AA
7097433 TTTGCCATGG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:7111442 original size:3 final size:3
Alignment explanation
Indices: 7111434--7111465 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
7111424 TTAGTTTCAC
7111434 TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T
7111466 GTAATGTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:7111454 original size:13 final size:13
Alignment explanation
Indices: 7111436--7111462 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7111426 AGTTTCACTA
7111436 TTATTATTATTAT
1 TTATTATTATTAT
7111449 TTATTATTATTAT
1 TTATTATTATTAT
7111462 T
1 T
7111463 ATTGTAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:7111455 original size:16 final size:16
Alignment explanation
Indices: 7111434--7111465 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7111424 TTAGTTTCAC
7111434 TATTATTATTATTATT
1 TATTATTATTATTATT
7111450 TATTATTATTATTATT
1 TATTATTATTATTATT
7111466 GTAATGTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:7114793 original size:5 final size:5
Alignment explanation
Indices: 7114783--7114808 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7114773 TGAGCATTCG
7114783 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
7114809 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:7115865 original size:9 final size:9
Alignment explanation
Indices: 7115851--7115887 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7115841 TATAGTTTGA
7115851 TATTCGAAT
1 TATTCGAAT
7115860 TATTCGAAT
1 TATTCGAAT
*
7115869 TATTCGAGT
1 TATTCGAAT
7115878 TATTCGAAT
1 TATTCGAAT
7115887 T
1 T
7115888 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:7118147 original size:21 final size:22
Alignment explanation
Indices: 7118117--7118157 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7118107 AAATTAAATG
7118117 ATTTAATAATAATA-ATAATCA
1 ATTTAATAATAATATATAATCA
*
7118138 ATTTATTAATAATATATAAT
1 ATTTAATAATAATATATAAT
7118158 TTAGCTAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTAATAATAATATATAATCA
Found at i:7118149 original size:18 final size:18
Alignment explanation
Indices: 7118126--7118160 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7118116 GATTTAATAA
7118126 TAATAATA-ATCAATTTAT
1 TAATAATATAT-AATTTAT
7118144 TAATAATATATAATTTA
1 TAATAATATATAATTTA
7118161 GCTAAGCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATATATAATTTAT
Found at i:7118468 original size:2 final size:2
Alignment explanation
Indices: 7118461--7118488 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7118451 TGACAACCGA
7118461 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
7118489 TTCATGATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7118617 original size:16 final size:16
Alignment explanation
Indices: 7118596--7118639 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
7118586 ATATCACATC
7118596 GGCATAAAGCCTTCTA
1 GGCATAAAGCCTTCTA
7118612 GGCATAAAGCCTTCTA
1 GGCATAAAGCCTTCTA
7118628 GGCATAAAGCCT
1 GGCATAAAGCCT
7118640 GTAATAATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (16 bp):
GGCATAAAGCCTTCTA
Found at i:7126241 original size:25 final size:25
Alignment explanation
Indices: 7126208--7126258 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
7126198 GGCGGTTCTG
7126208 ATGTGTGAAAAAGCTTCAGCAACAT
1 ATGTGTGAAAAAGCTTCAGCAACAT
7126233 ATGTGTGAAAAAGCTTCAGCAACAT
1 ATGTGTGAAAAAGCTTCAGCAACAT
7126258 A
1 A
7126259 ATGATGATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (25 bp):
ATGTGTGAAAAAGCTTCAGCAACAT
Found at i:7128159 original size:15 final size:15
Alignment explanation
Indices: 7128139--7128169 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7128129 TTGAATTTTG
7128139 AGTTAATTAAATTAA
1 AGTTAATTAAATTAA
7128154 AGTTAATTAAATTAA
1 AGTTAATTAAATTAA
7128169 A
1 A
7128170 TTATTTGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (15 bp):
AGTTAATTAAATTAA
Found at i:7128381 original size:22 final size:20
Alignment explanation
Indices: 7128341--7128387 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 20
7128331 AAAGATTAAA
7128341 AAAAATTAAAATAATTTTC-
1 AAAAATTAAAATAATTTTCT
*
7128360 AAAAATTCAAAATTTATATTTCT
1 AAAAATT-AAAA-TAAT-TTTCT
7128383 AAAAA
1 AAAAA
7128388 AATTATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 4 0.17
21 3 0.13
22 4 0.17
23 5 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATTAAAATAATTTTCT
Found at i:7141065 original size:19 final size:19
Alignment explanation
Indices: 7141041--7141094 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
7141031 CATTTTTTTT
7141041 TAATTTTATAAACTATTTA
1 TAATTTTATAAACTATTTA
* *
7141060 TAATTTTA-AAAGTTTTTA
1 TAATTTTATAAACTATTTA
*
7141078 TAATATT-TAAACTATTT
1 TAATTTTATAAACTATTT
7141095 GTTAACATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTTTATAAACTATTTA
Found at i:7141079 original size:18 final size:18
Alignment explanation
Indices: 7141035--7141088 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
7141025 GTAATTCATT
*
7141035 TTTTTTTAATTTTATAAAC
1 TTTTTATAATTTTA-AAAC
* *
7141054 TATTTATAATTTTAAAAG
1 TTTTTATAATTTTAAAAC
7141072 TTTTTATAATATTTAAA
1 TTTTTATAAT-TTTAAA
7141089 CTATTTGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 12 0.40
19 18 0.60
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTATAATTTTAAAAC
Found at i:7142181 original size:23 final size:23
Alignment explanation
Indices: 7142151--7142201 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
7142141 ACAAGCAATA
7142151 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
7142174 TGTAATATCCCGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
*
7142197 AGTAA
1 TGTAA
7142202 GAAAGTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:7145163 original size:14 final size:14
Alignment explanation
Indices: 7145144--7145175 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
7145134 CTTTGCTTAA
7145144 CCACTACCAAGCAT
1 CCACTACCAAGCAT
7145158 CCACTACCAAGCAT
1 CCACTACCAAGCAT
7145172 CCAC
1 CCAC
7145176 AACCTTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.47, G:0.06, T:0.12
Consensus pattern (14 bp):
CCACTACCAAGCAT
Found at i:7149732 original size:91 final size:86
Alignment explanation
Indices: 7149625--7149851 Score: 208
Period size: 91 Copynumber: 2.6 Consensus size: 86
7149615 AATAATTAAG
* * * * * * * *
7149625 TTTTTTTTTCATTTAATTGGGTACATGAATTTTTAAAATATATAAAAATACCCTAAAAATCTTTT
1 TTTTTTTTTCACTTAATTGAGTACATAAACTTTCAAAATACATAAAAAGACCAT-AAAA-C-TTT
*
7149690 TAGAAAAAGCAATTAAGCCCCTTCT
63 TAAAAAAAGCAATTAAGCCCCTT-T
** * *
7149715 TTTTTTGTTTCACTTAATTGAGTATTTAAACTTTCAAAATACATCAAAAGACCATTAAACTTTTA
1 TTTTTT-TTTCACTTAATTGAGTACATAAACTTTCAAAATACATAAAAAGACCATAAAACTTTTA
7149780 AAAAAAGCAATTAAGCCCC--T
65 AAAAAAGCAATTAAGCCCCTTT
* * ** * *
7149800 TTTTTTTGT-ACTAAATTGAGTATTTGAACTGTCAAAATACATAAAAATGACC
1 TTTTTTTTTCACTTAATTGAGTACATAAACTTTCAAAATACATAAAAA-GACC
7149852 CTTTGACCAT
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
83 34 0.29
84 6 0.05
85 7 0.06
88 23 0.20
89 1 0.01
90 9 0.08
91 37 0.32
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (86 bp):
TTTTTTTTTCACTTAATTGAGTACATAAACTTTCAAAATACATAAAAAGACCATAAAACTTTTAA
AAAAAGCAATTAAGCCCCTTT
Found at i:7149791 original size:88 final size:84
Alignment explanation
Indices: 7149687--7149851 Score: 233
Period size: 83 Copynumber: 1.9 Consensus size: 84
7149677 CTAAAAATCT
* * *
7149687 TTTTAGAAAAAGCAATTAAGCCCCTTCTTTTTTTGTTTCACTTAATTGAGTATTTAAACTTTCAA
1 TTTTAAAAAAAGCAATTAAGCCCC-T-TTTTTTTG--T-ACTAAATTGAGTATTTAAACTGTCAA
*
7149752 AATACATCAAAA-GACCATTAAAC
61 AATACATAAAAATGACCATTAAAC
*
7149775 TTTTAAAAAAAGCAATTAAGCCCCTTTTTTTTGTACTAAATTGAGTATTTGAACTGTCAAAATAC
1 TTTTAAAAAAAGCAATTAAGCCCCTTTTTTTTGTACTAAATTGAGTATTTAAACTGTCAAAATAC
7149840 ATAAAAATGACC
66 ATAAAAATGACC
7149852 CTTTGACCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
83 34 0.48
84 5 0.07
86 8 0.11
87 1 0.01
88 23 0.32
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (84 bp):
TTTTAAAAAAAGCAATTAAGCCCCTTTTTTTTGTACTAAATTGAGTATTTAAACTGTCAAAATAC
ATAAAAATGACCATTAAAC
Found at i:7150019 original size:28 final size:28
Alignment explanation
Indices: 7149953--7150041 Score: 78
Period size: 28 Copynumber: 3.2 Consensus size: 28
7149943 CATGCGATAA
*
7149953 AAAAATT-AT-AAAAAT-AAAAATTATT
1 AAAAATTAATAAAAAATAAAAAAATATT
**
7149978 AAAGTTTAATAAAAAATAAAAAAATATT
1 AAAAATTAATAAAAAATAAAAAAATATT
*
7150006 AAAAATTAGA-AAAAAATTTATAAAAAACATT
1 AAAAATTA-ATAAAAAA--TA-AAAAAATATT
7150037 AAAAA
1 AAAAA
7150042 GACCCTTTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 5 0.10
26 2 0.04
27 6 0.12
28 21 0.41
29 1 0.02
30 2 0.04
31 14 0.27
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAAATTAATAAAAAATAAAAAAATATT
Found at i:7150220 original size:9 final size:9
Alignment explanation
Indices: 7150206--7150259 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
7150196 ATACGATAAC
7150206 TTTTATATT
1 TTTTATATT
**
7150215 TTTTATAAA
1 TTTTATATT
7150224 TTTTATATT
1 TTTTATATT
7150233 TCTTTATATT
1 T-TTTATATT
7150243 TTTTATAATT
1 TTTTAT-ATT
7150253 TTCTTAT
1 TT-TTAT
7150260 GACTATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
9 20 0.53
10 14 0.37
11 4 0.11
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:7150246 original size:19 final size:18
Alignment explanation
Indices: 7150201--7150324 Score: 68
Period size: 19 Copynumber: 6.6 Consensus size: 18
7150191 TTTTGATACG
*
7150201 ATAACTTTTATATTTTTT
1 ATAAATTTTATATTTTTT
7150219 ATAAATTTTATATTTCTTT
1 ATAAATTTTATATTT-TTT
**
7150238 ATATTTTTTATAATTTTCTT
1 ATAAATTTTAT-ATTTT-TT
* * * * * *
7150258 ATGACTATAAAAATTTTT
1 ATAAATTTTATATTTTTT
* * *
7150276 CTATATTTCTATATATTTT
1 ATAAATTT-TATATTTTTT
* *
7150295 ATAAATTTTTACAATTTTT
1 ATAAA-TTTTATATTTTTT
7150314 ATAAAATTTTA
1 AT-AAATTTTA
7150325 AAATTTTTTT
Statistics
Matches: 76, Mismatches: 24, Indels: 11
0.68 0.22 0.10
Matches are distributed among these distances:
18 19 0.25
19 40 0.53
20 17 0.22
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.60
Consensus pattern (18 bp):
ATAAATTTTATATTTTTT
Found at i:7150329 original size:19 final size:19
Alignment explanation
Indices: 7150291--7150332 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
7150281 TTTCTATATA
* *
7150291 TTTTATAAATTTTTACAAT
1 TTTTATAAAATTTTAAAAT
7150310 TTTTATAAAATTTTAAAAT
1 TTTTATAAAATTTTAAAAT
7150329 TTTT
1 TTTT
7150333 TTTACGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATTTTAAAAT
Found at i:7150332 original size:9 final size:10
Alignment explanation
Indices: 7150268--7150354 Score: 63
Period size: 10 Copynumber: 8.8 Consensus size: 10
7150258 ATGACTATAA
*
7150268 AAATTTTTCT
1 AAATTTTTAT
* *
7150278 ATATTTCTAT
1 AAATTTTTAT
*
7150288 ATA-TTTTAT
1 AAATTTTTAT
7150297 AAATTTTTA-
1 AAATTTTTAT
*
7150306 CAATTTTTAT
1 AAATTTTTAT
*
7150316 AAAATTTTA-
1 AAATTTTTAT
*
7150325 AAATTTTTTTT
1 AAA-TTTTTAT
*
7150336 ACGATTTTTAT
1 A-AATTTTTAT
7150347 AAATTTTT
1 AAATTTTT
7150355 GTTTCTAATT
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
9 18 0.31
10 32 0.54
11 8 0.14
12 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (10 bp):
AAATTTTTAT
Found at i:7150420 original size:28 final size:30
Alignment explanation
Indices: 7150372--7150429 Score: 102
Period size: 28 Copynumber: 2.0 Consensus size: 30
7150362 ATTTATAATA
7150372 AAATTTAAGTAATTTTTTATATTTTTATTT
1 AAATTTAAGTAATTTTTTATATTTTTATTT
7150402 AAATTTAA-TAA-TTTTTATATTTTTATTT
1 AAATTTAAGTAATTTTTTATATTTTTATTT
7150430 TTTACCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 17 0.61
29 3 0.11
30 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (30 bp):
AAATTTAAGTAATTTTTTATATTTTTATTT
Found at i:7157012 original size:19 final size:18
Alignment explanation
Indices: 7156988--7157022 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
7156978 AAATACAAAT
7156988 TTAAAAACTAAAAAAAAA
1 TTAAAAACTAAAAAAAAA
7157006 TTAAAAACTAAAAAAAA
1 TTAAAAACTAAAAAAAA
7157023 TAAAAGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
TTAAAAACTAAAAAAAAA
Done.