Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, 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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 61 of 106
Found at i:10979499 original size:19 final size:18
Alignment explanation
Indices: 10979466--10979502 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
10979456 CTTTCTTCTT
10979466 TTTTTTTAAATTAATTAA
1 TTTTTTTAAATTAATTAA
*
10979484 TTTTTTTAATTATAATTAA
1 TTTTTTTAAAT-TAATTAA
10979503 ATCAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTTTAAATTAATTAA
Found at i:10979536 original size:19 final size:20
Alignment explanation
Indices: 10979512--10979551 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
10979502 AATCAATATT
10979512 ATTATTATTATT-TTAAAAA
1 ATTATTATTATTATTAAAAA
10979531 ATTATTATTATTATTAAAAA
1 ATTATTATTATTATTAAAAA
10979551 A
1 A
10979552 GTAGACCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTATTATTATTATTAAAAA
Found at i:10979551 original size:22 final size:22
Alignment explanation
Indices: 10979509--10979551 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10979499 TTAAATCAAT
**
10979509 ATTATTATTATTATTTTAAAAA
1 ATTATTATTATTATTAAAAAAA
10979531 ATTATTATTATTATTAAAAAA
1 ATTATTATTATTATTAAAAAA
10979552 GTAGACCCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATTATTATTATTAAAAAAA
Found at i:10983235 original size:15 final size:15
Alignment explanation
Indices: 10983212--10983267 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
10983202 AATATCATAA
10983212 AATATAATATTTTATT
1 AATA-AATATTTTATT
*
10983228 AATAAATA-TTTATC
1 AATAAATATTTTATT
*
10983242 AATTCAATATTTTGATT
1 AA-TAAATATTTT-ATT
10983259 AAT-AATATT
1 AATAAATATT
10983268 AATCAATGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 7 0.21
15 15 0.44
16 8 0.24
17 4 0.12
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (15 bp):
AATAAATATTTTATT
Found at i:10983251 original size:30 final size:30
Alignment explanation
Indices: 10983217--10983274 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
10983207 CATAAAATAT
*
10983217 AATATTTT-ATTAATAAATATTTATCAATTC
1 AATATTTTGATTAAT-AATATTAATCAATTC
10983247 AATATTTTGATTAATAATATTAATCAAT
1 AATATTTTGATTAATAATATTAATCAAT
10983275 GATTAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (30 bp):
AATATTTTGATTAATAATATTAATCAATTC
Found at i:10984902 original size:21 final size:23
Alignment explanation
Indices: 10984876--10984925 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
10984866 GGAGAAATTT
10984876 TTTTAAATATTG-AAAT-TAAAA
1 TTTTAAATATTGTAAATATAAAA
* *
10984897 TTTTAAATTTTGTAAATATAAAT
1 TTTTAAATATTGTAAATATAAAA
10984920 TTTTAA
1 TTTTAA
10984926 TAATATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 11 0.44
22 4 0.16
23 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTTTAAATATTGTAAATATAAAA
Found at i:10986141 original size:2 final size:2
Alignment explanation
Indices: 10986134--10986159 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10986124 TGCATCTCAT
10986134 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10986160 AACAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10987565 original size:22 final size:22
Alignment explanation
Indices: 10987531--10987585 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
10987521 TATTTTTATA
10987531 TTTTTATTATTTTACATTAAAAT
1 TTTTTATTATTTTACA-TAAAAT
* *
10987554 TTTTTA-TCTTTTATATAAAAT
1 TTTTTATTATTTTACATAAAAT
*
10987575 TTATTAGTTAT
1 TTTTTA-TTAT
10987586 ATTGTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 11 0.42
22 7 0.27
23 8 0.31
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTATTATTTTACATAAAAT
Found at i:10988615 original size:5 final size:5
Alignment explanation
Indices: 10988577--10988614 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
10988567 ACCAAAGACA
* *
10988577 AAAAG AAAAG AAACG AAAAG AAAAG AAAAG AAAGG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
10988615 GCAGCTAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:10988834 original size:2 final size:2
Alignment explanation
Indices: 10988827--10988865 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10988817 TCAATCCCTG
10988827 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10988866 ATTTTCCTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:10998523 original size:18 final size:18
Alignment explanation
Indices: 10998493--10998539 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
10998483 CAGGTAATTT
*
10998493 TTTTTATT-TAAATTATA
1 TTTTTATTAAAAATTATA
*
10998510 TTTTTATTAAAAATTTTA
1 TTTTTATTAAAAATTATA
*
10998528 -TTTAATTAAAAA
1 TTTTTATTAAAAA
10998540 AATAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTATTAAAAATTATA
Found at i:11000706 original size:190 final size:190
Alignment explanation
Indices: 11000383--11000756 Score: 642
Period size: 190 Copynumber: 2.0 Consensus size: 190
11000373 TGTATGTTGT
11000383 AATATAATTGTCATAATGTATCAATCTAGGAACTAAATTGCTAGAAGTTAAAAGTCAAGAGTTAC
1 AATATAATTGTCATAATGTATCAATCTAGGAACTAAATTGCTAGAAGTTAAAAGTCAAGAGTTAC
* *
11000448 CACCAATCTTTTTTGTTGAGGTGGGATTGACCACCAAGTTATCTTTAAGTCTAAGAATTCGAGAT
66 CACCAATCTTTTTTGTTGAGGTGCGATTGACCACCAAATTATCTTTAAGTCTAAGAATTCGAGAT
11000513 TGAGTTCAAGAGTACGATTACGT-GTGAAAAAAGTTATAGCACCCTCATAACGTCTATTCG
131 TGAGTTCAAGAGTACGATTAC-TCGTGAAAAAAGTTATAGCACCCTCATAACGTCTATTCG
* * *
11000573 AATATAATTGTTATAATGTATCGATCTAGGAACTCAATTGCTAGAAGTTAAAAGTCAAGAGTTAC
1 AATATAATTGTCATAATGTATCAATCTAGGAACTAAATTGCTAGAAGTTAAAAGTCAAGAGTTAC
* *
11000638 GATCAATCTTTTTTGTTGAGGTGCGATTGACCACCAAATTATCTTTAAGTCTAAGAATTCGAGAT
66 CACCAATCTTTTTTGTTGAGGTGCGATTGACCACCAAATTATCTTTAAGTCTAAGAATTCGAGAT
* * *
11000703 TGAGTTCGAGAGTACGGTTACTCGTGAAAAAAGTTATAGCATCCTCATAACGTC
131 TGAGTTCAAGAGTACGATTACTCGTGAAAAAAGTTATAGCACCCTCATAACGTC
11000757 GGTTTGAATA
Statistics
Matches: 173, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
189 1 0.01
190 172 0.99
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (190 bp):
AATATAATTGTCATAATGTATCAATCTAGGAACTAAATTGCTAGAAGTTAAAAGTCAAGAGTTAC
CACCAATCTTTTTTGTTGAGGTGCGATTGACCACCAAATTATCTTTAAGTCTAAGAATTCGAGAT
TGAGTTCAAGAGTACGATTACTCGTGAAAAAAGTTATAGCACCCTCATAACGTCTATTCG
Found at i:11001554 original size:120 final size:120
Alignment explanation
Indices: 11001430--11001666 Score: 291
Period size: 120 Copynumber: 2.0 Consensus size: 120
11001420 AATTCTTCCT
** * * *
11001430 ATTTATTCAAAATGAATATTATTGTTATTA-ATTTTT-TGTTTGAAAATTTTTAAAATATTTTCT
1 ATTTATT--AAATGAATATTATTAATAATATATTTTTATGCTTGAAAATTTTTAAAATA-TTGCT
* *
11001493 -TCATTTTTAGAATATTTTAAAAAATTTCTTTATATGAATATTTTCAATAAAATCACC
63 AACACTTTTAGAATATTTTAAAAAATTTCTTTATATGAATATTTTCAATAAAATCACC
** * * * *
11001550 ATTTATTACTTTATTTTTATTAATAATATTTTTTTATGCTTGAAAATTTTTAAAATATTGCTAAC
1 ATTTATTAAATGAATATTATTAATAATATATTTTTATGCTTGAAAATTTTTAAAATATTGCTAAC
* *
11001615 ACTTTTAGAATATTTTAAAAAATTTCTTTGTATGAATATTTTTAATAAAATC
66 ACTTTTAGAATATTTTAAAAAATTTCTTTATATGAATATTTTCAATAAAATC
11001667 TCTACTTGTG
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
118 13 0.13
119 9 0.09
120 77 0.78
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.51
Consensus pattern (120 bp):
ATTTATTAAATGAATATTATTAATAATATATTTTTATGCTTGAAAATTTTTAAAATATTGCTAAC
ACTTTTAGAATATTTTAAAAAATTTCTTTATATGAATATTTTCAATAAAATCACC
Found at i:11001682 original size:120 final size:119
Alignment explanation
Indices: 11001461--11001690 Score: 327
Period size: 120 Copynumber: 1.9 Consensus size: 119
11001451 TTGTTATTAA
* * * *
11001461 TTTTTTGTTTGAAAATTTTTAAAATATTTTCTTCATTTTTAGAATATTTTAAAAAATTTCTTTAT
1 TTTTTTGCTTGAAAATTTTTAAAATATTTGCTACACTTTTAGAATATTTTAAAAAATTTCTTTAT
* * *
11001526 ATGAATATTTTCAATAAAATCACCATTTATTACTTTATTTTTATTAATAATATT
66 ATGAATATTTTCAATAAAATCACCACTTATGACTTTATTGTTATTAATAATATT
11001580 TTTTTATGCTTGAAAATTTTTAAAATA-TTGCTAACACTTTTAGAATATTTTAAAAAATTTCTTT
1 TTTTT-TGCTTGAAAATTTTTAAAATATTTGCT-ACACTTTTAGAATATTTTAAAAAATTTCTTT
* * * * *
11001644 GTATGAATATTTTTAATAAAATCTCTACTTGTGACTTTATTGTTATT
64 ATATGAATATTTTCAATAAAATCACCACTTATGACTTTATTGTTATT
11001691 TTATTATTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
119 9 0.09
120 88 0.91
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (119 bp):
TTTTTTGCTTGAAAATTTTTAAAATATTTGCTACACTTTTAGAATATTTTAAAAAATTTCTTTAT
ATGAATATTTTCAATAAAATCACCACTTATGACTTTATTGTTATTAATAATATT
Found at i:11004161 original size:42 final size:42
Alignment explanation
Indices: 11004061--11004162 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 42
11004051 AAAATGTCTT
* *
11004061 GGATATCACCATC-AAGAAAATGAATTTCAAGCTTTAACATTT
1 GGATATCACCATCGAA-AAAATGAATTTCAAGCTTTAACACTC
* *
11004103 GGATGTCACCACCGAAAAAATGTAATTTC-A-CTTTTAACACTC
1 GGATATCACCATCGAAAAAATG-AATTTCAAGC-TTTAACACTC
*
11004145 GGATATCACTATCGAAAA
1 GGATATCACCATCGAAAA
11004163 GTTGAAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
41 1 0.02
42 41 0.82
43 8 0.16
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (42 bp):
GGATATCACCATCGAAAAAATGAATTTCAAGCTTTAACACTC
Found at i:11005833 original size:16 final size:15
Alignment explanation
Indices: 11005808--11005837 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11005798 TCTTCTTCTC
11005808 TTTTTTTTTGTTTTG
1 TTTTTTTTTGTTTTG
11005823 TTTTGTTTTTGTTTT
1 TTTT-TTTTTGTTTT
11005838 ATCATTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTGTTTTG
Found at i:11012136 original size:137 final size:137
Alignment explanation
Indices: 11011993--11012245 Score: 380
Period size: 137 Copynumber: 1.8 Consensus size: 137
11011983 AAACTATATT
** * *
11011993 TTTTTAATATTTTCAACAAAAACAACATTTTTATCTTATAAACAATGTCTTTTAAATAAAAATTG
1 TTTTTAATATTTTCAACAAAAACAACATTTTTATCTTATAAACAACATCTTTTAAACAAAAACTG
* * * *
11012058 CATTTTCTATCTTAGAAATATCGTTTTTGTTGCATTTTAAAAATTATTTTTATTGCAATATGAAA
66 CATTTTCTATCTTAGAAACATCATTTTTGTTGAATTTTAAAAAATATTTTTATTGCAATATGAAA
11012123 ATACTTA
131 ATACTTA
* * * *
11012130 TTTTTAATATTTTGAACAAAAACAACGTTTTTATCTTATAAACGACATCTTTTAAACATAAACTG
1 TTTTTAATATTTTCAACAAAAACAACATTTTTATCTTATAAACAACATCTTTTAAACAAAAACTG
* *
11012195 TATTTTTTATCTTAGAAACATCATTTTTGTTGAATTTTAAAAAATATTTTT
66 CATTTTCTATCTTAGAAACATCATTTTTGTTGAATTTTAAAAAATATTTTT
11012246 TTTATAATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
137 102 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (137 bp):
TTTTTAATATTTTCAACAAAAACAACATTTTTATCTTATAAACAACATCTTTTAAACAAAAACTG
CATTTTCTATCTTAGAAACATCATTTTTGTTGAATTTTAAAAAATATTTTTATTGCAATATGAAA
ATACTTA
Found at i:11012389 original size:184 final size:185
Alignment explanation
Indices: 11012107--11012533 Score: 407
Period size: 184 Copynumber: 2.3 Consensus size: 185
11012097 AAAATTATTT
* * * *
11012107 TTATTGCAA-TATG-AAAATACTTATTTTTAATATTTTGAACAAAAACAACGTTTTTATCTTATA
1 TTATTG-AATTATGAAAAATA-TT-TTTTTCATATTTTTAACAAAAACTA-TTTTTTATCTTATA
* * *
11012170 AACGACATCTTTTAAACATAAACTGTATTTTTTATCTTAGAAACATCATTTTTGTTGAATT-TTA
62 AACGACATCTTTTAAACATAAACTGTATTTTTTATCTTAAAAACATCATTTTTGTTAAATTCTAA
* * * **
11012234 AAAAATATTTTTTTT-ATAATTTCAACAAATACTACATTTTCTATCTAAGAAATGTTATCT
127 AAAAAT-TTTTTTTTCAT-ATTTCAACAAAAACCACATTTTCTATCTAAGAAATATTATAA
* * **
11012294 TTGTTGAATTTTGAAAAATATTTTTTTCATATTTTTAACAAAAACTATTTTTTATCTTATAATTG
1 TTATTGAATTATGAAAAATATTTTTTTCATATTTTTAACAAAAACTATTTTTTATCTTATAAACG
*** * * * * ** **
11012359 TTGTTTTTTCAACA-AAATTGTCTTTTTTATCTTAAAAATGTTGTTTTTGTTAAATTCTAAAAAA
66 ACATCTTTTAAACATAAACTGTATTTTTTATCTTAAAAACATCATTTTTGTTAAATTCTAAAAAA
* ** * * * *
11012423 ATTTTTTTTTCATATTTTAACAAAAACCATGTTTTTTGTCTTAGAAATATTGTAA
131 ATTTTTTTTTCATATTTCAACAAAAACCACATTTTCTATCTAAGAAATATTATAA
* *
11012478 TTATTGAATTATGAAAAATAATTTTTTC-TATCTTTTAAACAAAAACTGTATTTTTA
1 TTATTGAATTATGAAAAATATTTTTTTCATAT-TTTT-AACAAAAACTAT-TTTTTA
11012534 ATCATAACTT
Statistics
Matches: 195, Mismatches: 38, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
183 3 0.02
184 101 0.52
185 45 0.23
186 30 0.15
187 10 0.05
188 6 0.03
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.48
Consensus pattern (185 bp):
TTATTGAATTATGAAAAATATTTTTTTCATATTTTTAACAAAAACTATTTTTTATCTTATAAACG
ACATCTTTTAAACATAAACTGTATTTTTTATCTTAAAAACATCATTTTTGTTAAATTCTAAAAAA
ATTTTTTTTTCATATTTCAACAAAAACCACATTTTCTATCTAAGAAATATTATAA
Found at i:11012395 original size:20 final size:19
Alignment explanation
Indices: 11012341--11012406 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 19
11012331 ACAAAAACTA
*
11012341 TTTTTTATCTTATAATTGT
1 TTTTTTATCTTAAAATTGT
**
11012360 TGTTTTT-TCAACAAAATTGT
1 T-TTTTTATC-TTAAAATTGT
*
11012380 CTTTTTTATCTTAAAAATGT
1 -TTTTTTATCTTAAAATTGT
11012400 TGTTTTT
1 T-TTTTT
11012407 GTTAAATTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
19 4 0.11
20 29 0.81
21 3 0.08
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTTTATCTTAAAATTGT
Found at i:11017041 original size:34 final size:36
Alignment explanation
Indices: 11016969--11017041 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 36
11016959 TTCGCTTACC
* *
11016969 AAATATATTTTTTAGAAAACAAAAAATAGAAAATAA
1 AAATATATTTTTTAGAAAAAAAAAAATAGAAAACAA
11017005 AAAT-TATTTTTTA-AAAAAATAAAAATA-AAAACAA
1 AAATATATTTTTTAGAAAAAA-AAAAATAGAAAACAA
11017039 AAA
1 AAA
11017042 AAAAGTTCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 14 0.41
35 16 0.47
36 4 0.12
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (36 bp):
AAATATATTTTTTAGAAAAAAAAAAATAGAAAACAA
Found at i:11032244 original size:14 final size:15
Alignment explanation
Indices: 11032227--11032256 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11032217 CCTCTTCTAA
11032227 ATCCCTT-CTTTTTT
1 ATCCCTTCCTTTTTT
11032241 ATCCCTTCCTTTTTT
1 ATCCCTTCCTTTTTT
11032256 A
1 A
11032257 GTCCATAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.10, C:0.30, G:0.00, T:0.60
Consensus pattern (15 bp):
ATCCCTTCCTTTTTT
Found at i:11039524 original size:22 final size:23
Alignment explanation
Indices: 11039488--11039533 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
11039478 CAAAATTTTT
* *
11039488 TAAAAATTATTTTTGTTAATTGA
1 TAAAAATTATATTTGATAATTGA
*
11039511 TAAAAATTA-ATTTGATGATTGA
1 TAAAAATTATATTTGATAATTGA
11039533 T
1 T
11039534 TGATCTGTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (23 bp):
TAAAAATTATATTTGATAATTGA
Found at i:11040106 original size:19 final size:20
Alignment explanation
Indices: 11040084--11040124 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
11040074 AAAAATAAAT
11040084 TTTTACTTC-AAATTTTCTA
1 TTTTACTTCAAAATTTTCTA
11040103 TTTTACTTCAAAATTTTCTA
1 TTTTACTTCAAAATTTTCTA
11040123 TT
1 TT
11040125 GAAACCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTACTTCAAAATTTTCTA
Found at i:11048141 original size:19 final size:18
Alignment explanation
Indices: 11048119--11048163 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
11048109 ATATAAATAG
*
11048119 ATTATTATTCATAAAAGTC
1 ATTATTATACA-AAAAGTC
*
11048138 ATTATTATACAGAAAGTC
1 ATTATTATACAAAAAGTC
*
11048156 ATAATTAT
1 ATTATTAT
11048164 CTGAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (18 bp):
ATTATTATACAAAAAGTC
Found at i:11055423 original size:57 final size:60
Alignment explanation
Indices: 11055362--11055478 Score: 161
Period size: 57 Copynumber: 2.0 Consensus size: 60
11055352 CTCTTTTTAA
* *
11055362 ATTTCTAAATTTT-TCACCA-TTGGGT-TATTTAGATATTC-TCTTTTTTTATTTTTTTTT
1 ATTTCTAAATTTTCT-ACCATTTGGGTCAATTTAGAAATTCTTCTTTTTTTATTTTTTTTT
* *
11055419 ATTTCTAAATTTTCTACCATTTGGGTCAATTTAGAAATTCTTTTTTTTTTCTTTTTTTTT
1 ATTTCTAAATTTTCTACCATTTGGGTCAATTTAGAAATTCTTCTTTTTTTATTTTTTTTT
11055479 GGAAAGAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
57 17 0.33
58 7 0.13
59 11 0.21
60 17 0.33
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.62
Consensus pattern (60 bp):
ATTTCTAAATTTTCTACCATTTGGGTCAATTTAGAAATTCTTCTTTTTTTATTTTTTTTT
Found at i:11055465 original size:59 final size:58
Alignment explanation
Indices: 11055362--11055478 Score: 157
Period size: 60 Copynumber: 2.0 Consensus size: 58
11055352 CTCTTTTTAA
* *
11055362 ATTTCTAAATTTTTCACCATTGGGTTATTTAGATATTC-TCTTTTTTTATTTTTTTTT
1 ATTTCTAAATTTTTCACCATTGGGTAATTTAGAAATTCTTCTTTTTTTATTTTTTTTT
* *
11055419 ATTTCTAAA-TTTTCTACCATTTGGGTCAATTTAGAAATTCTTTTTTTTTTCTTTTTTTTT
1 ATTTCTAAATTTTTC-ACCA-TTGGGT-AATTTAGAAATTCTTCTTTTTTTATTTTTTTTT
11055479 GGAAAGAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
56 5 0.10
57 13 0.25
58 6 0.12
59 11 0.21
60 17 0.33
ACGTcount: A:0.20, C:0.11, G:0.07, T:0.62
Consensus pattern (58 bp):
ATTTCTAAATTTTTCACCATTGGGTAATTTAGAAATTCTTCTTTTTTTATTTTTTTTT
Found at i:11055835 original size:23 final size:21
Alignment explanation
Indices: 11055805--11055855 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
11055795 TAATTTGTAT
11055805 TTTTTTTTTAATTTTATTAAATA
1 TTTTTTTTTAATTTT-TT-AATA
* *
11055828 TTTTTTTTTTATTTTTTATTA
1 TTTTTTTTTAATTTTTTAATA
11055849 TTTTTTT
1 TTTTTTT
11055856 AATAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.38
22 2 0.08
23 14 0.54
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTTTTAATTTTTTAATA
Found at i:11055844 original size:25 final size:24
Alignment explanation
Indices: 11055802--11055855 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
11055792 GGGTAATTTG
11055802 TATTTTTTTTTTAATTTTATTAAA
1 TATTTTTTTTTTAATTTTATTAAA
*
11055826 TATTTTTTTTTT-ATTTT-TT-AT
1 TATTTTTTTTTTAATTTTATTAAA
11055847 TATTTTTTT
1 TATTTTTTT
11055856 AATAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 10 0.34
22 2 0.07
23 5 0.17
24 12 0.41
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (24 bp):
TATTTTTTTTTTAATTTTATTAAA
Found at i:11055856 original size:11 final size:11
Alignment explanation
Indices: 11055802--11055870 Score: 50
Period size: 12 Copynumber: 6.1 Consensus size: 11
11055792 GGGTAATTTG
*
11055802 TATTTTTTTTT
1 TATTTTTTTAT
* *
11055813 TAATTTTATTAAA
1 T-ATTTT-TTTAT
*
11055826 TATTTTTTTTT
1 TATTTTTTTAT
11055837 TA-TTTTTTAT
1 TATTTTTTTAT
11055847 TATTTTTTTAAT
1 TATTTTTTT-AT
* *
11055859 AAATTTTTTAT
1 TATTTTTTTAT
11055870 T
1 T
11055871 TGAAAATAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
10 9 0.20
11 13 0.30
12 19 0.43
13 3 0.07
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TATTTTTTTAT
Found at i:11055989 original size:25 final size:25
Alignment explanation
Indices: 11055958--11056005 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
11055948 TCTCACCTAA
11055958 AAATTTTATAGAAATTT-ATCATTTG
1 AAATTTT-TAGAAATTTCATCATTTG
*
11055983 AAATTTTTATAAATTTCATCATT
1 AAATTTTTAGAAATTTCATCATT
11056006 GGATAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (25 bp):
AAATTTTTAGAAATTTCATCATTTG
Found at i:11056039 original size:5 final size:5
Alignment explanation
Indices: 11056029--11056071 Score: 59
Period size: 5 Copynumber: 8.0 Consensus size: 5
11056019 TCATTGCCAA
11056029 ATTTT ATTTT ATTTT ATTTT ATTTTTT ATTTT ATTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT A--TTTT ATTTT A-TTTT ATTTT
11056072 TTTAAATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 25 0.71
6 5 0.14
7 5 0.14
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
ATTTT
Found at i:11056055 original size:17 final size:18
Alignment explanation
Indices: 11056035--11056073 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11056025 CCAAATTTTA
11056035 TTTTATTTTA-TTTTATT
1 TTTTATTTTATTTTTATT
11056052 TTTTATTTTATTTTTATT
1 TTTTATTTTATTTTTATT
11056070 TTTT
1 TTTT
11056074 TAAATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTATTTTATTTTTATT
Found at i:11056130 original size:13 final size:12
Alignment explanation
Indices: 11056089--11056144 Score: 60
Period size: 13 Copynumber: 4.6 Consensus size: 12
11056079 TAAATCATGC
11056089 AAAAATACT-AA
1 AAAAATACTAAA
*
11056100 AAAAACACATAAA
1 AAAAATAC-TAAA
*
11056113 TAAAATACTAAA
1 AAAAATACTAAA
*
11056125 TAAAAATACCAAA
1 -AAAAATACTAAA
11056138 AAAAATA
1 AAAAATA
11056145 GAAACAGCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
11 7 0.19
12 12 0.32
13 18 0.49
ACGTcount: A:0.73, C:0.11, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAATACTAAA
Found at i:11056421 original size:10 final size:10
Alignment explanation
Indices: 11056406--11056453 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
11056396 TCTGCTCAAA
*
11056406 TTTCTCTTTT
1 TTTCTCTTCT
11056416 TTTCTCTCTCT
1 TTTCTCT-TCT
* * *
11056427 TTCCCCTTTT
1 TTTCTCTTCT
11056437 TTTCTCTTCT
1 TTTCTCTTCT
11056447 TTTCTCT
1 TTTCTCT
11056454 CTAACCGTAT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
10 23 0.77
11 7 0.23
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTCTCTTCT
Found at i:11056978 original size:16 final size:15
Alignment explanation
Indices: 11056942--11056982 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
11056932 TTTTTTCAGC
*
11056942 TTTTTTCATTTTTTTA
1 TTTTTT-ATTTTTTAA
11056958 TTTTTTATTTTTTAA
1 TTTTTTATTTTTTAA
11056973 TCTTTTTATT
1 T-TTTTTATT
11056983 AACAGAATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTATTTTTTAA
Found at i:11057297 original size:42 final size:42
Alignment explanation
Indices: 11057223--11057412 Score: 156
Period size: 42 Copynumber: 4.5 Consensus size: 42
11057213 CTTAATGACT
* * *
11057223 TTTTGAAAAATAAATTAAGCTCATCTTAACAGAAGCACCACAAC
1 TTTTAAAAAATAAA--ATGCTCATCTAAACAGAAGCACCACAAC
* * ***
11057267 TTTTAAAAAGTAAAATGCTCCTCTAAACAG-AGACACTGTAAC
1 TTTTAAAAAATAAAATGCTCATCTAAACAGAAG-CACCACAAC
* * *
11057309 TTTTAAAAAATAAAATACTCATTTAAACA-AAGGCATCACAAC
1 TTTTAAAAAATAAAATGCTCATCTAAACAGAA-GCACCACAAC
* * * * * *
11057351 -TTTGAAAAATAAAATGCTCCTTTAAATAGAGGCACCATAAC
1 TTTTAAAAAATAAAATGCTCATCTAAACAGAAGCACCACAAC
11057392 -TTTAAAAAATAAAA-GCTCATC
1 TTTTAAAAAATAAAATGCTCATC
11057413 GACAATCATA
Statistics
Matches: 116, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
40 5 0.04
41 47 0.41
42 51 0.44
43 1 0.01
44 12 0.10
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (42 bp):
TTTTAAAAAATAAAATGCTCATCTAAACAGAAGCACCACAAC
Found at i:11057375 original size:41 final size:40
Alignment explanation
Indices: 11057250--11057409 Score: 151
Period size: 41 Copynumber: 3.9 Consensus size: 40
11057240 AGCTCATCTT
* * *
11057250 AACAGAAGCACCACAACTTTTAAAAAGTAAAATGCTCCTCTA
1 AACAGAGGCA-CACAAC-TTTAAAAAATAAAATGCTCCTTTA
* ** * *
11057292 AACAGAGACACTGTAACTTTTAAAAAATAAAATACTCATTTA
1 AACAGAGGCAC-ACAAC-TTTAAAAAATAAAATGCTCCTTTA
* *
11057334 AACAAAGGCATCACAACTTTGAAAAATAAAATGCTCCTTTA
1 AACAGAGGCA-CACAACTTTAAAAAATAAAATGCTCCTTTA
* *
11057375 AATAGAGGCACCATAACTTTAAAAAATAAAA-GCTC
1 AACAGAGGCA-CACAACTTTAAAAAATAAAATGCTC
11057410 ATCGACAATC
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
40 4 0.04
41 48 0.50
42 43 0.45
43 1 0.01
ACGTcount: A:0.48, C:0.19, G:0.09, T:0.24
Consensus pattern (40 bp):
AACAGAGGCACACAACTTTAAAAAATAAAATGCTCCTTTA
Found at i:11057564 original size:31 final size:31
Alignment explanation
Indices: 11057529--11057588 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
11057519 TTCACAAGAA
* *
11057529 TTCACTAA-AATTTGATTTTCAAAATTTCAGT
1 TTCAC-AAGAATTTGACTTGCAAAATTTCAGT
11057560 TTCACAAGAATTTGACTTGCAAAATTTCA
1 TTCACAAGAATTTGACTTGCAAAATTTCA
11057589 AATATGCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (31 bp):
TTCACAAGAATTTGACTTGCAAAATTTCAGT
Found at i:11059155 original size:9 final size:9
Alignment explanation
Indices: 11059141--11059168 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11059131 TTCATTTCTC
11059141 TTTTTTTCA
1 TTTTTTTCA
11059150 TTTTTTTCA
1 TTTTTTTCA
11059159 TTTTTTTCA
1 TTTTTTTCA
11059168 T
1 T
11059169 CTTTCATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:11064594 original size:7 final size:8
Alignment explanation
Indices: 11064575--11064606 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
11064565 TTTTCTAGCT
11064575 TTTTTTAA
1 TTTTTTAA
11064583 TTTTTTAA
1 TTTTTTAA
11064591 TTTTTTAA
1 TTTTTTAA
11064599 TCTTTTTA
1 T-TTTTTA
11064607 TTAATAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTAA
Found at i:11066438 original size:18 final size:18
Alignment explanation
Indices: 11066415--11066459 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
11066405 TCAGATAGTT
11066415 ATGACCTTTTGTATAATC
1 ATGACCTTTTGTATAATC
11066433 ATGACCTTTTGTATAATC
1 ATGACCTTTTGTATAATC
*
11066451 ACGACCTTT
1 ATGACCTTT
11066460 ATGAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (18 bp):
ATGACCTTTTGTATAATC
Found at i:11069511 original size:22 final size:23
Alignment explanation
Indices: 11069475--11069553 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 23
11069465 TGAAATTCAT
11069475 TTTTTAAAAAA--ATATTT-TAG
1 TTTTTAAAAAATCATATTTCTAG
*
11069495 TTTTTAAAAAATCATATTTCTTG
1 TTTTTAAAAAATCATATTTCTAG
* * * *
11069518 ATTTTTTAACAATCATATTTCAAT
1 -TTTTTAAAAAATCATATTTCTAG
11069542 TTTTTAAAAAAT
1 TTTTTAAAAAAT
11069554 AGAAAATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
20 11 0.23
22 6 0.13
23 12 0.26
24 18 0.38
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.51
Consensus pattern (23 bp):
TTTTTAAAAAATCATATTTCTAG
Found at i:11069621 original size:16 final size:16
Alignment explanation
Indices: 11069592--11069625 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
11069582 ATTTTAAAAA
11069592 TAATAATTTTATTTTT
1 TAATAATTTTATTTTT
*
11069608 TAAT-ATTTTAATTTT
1 TAATAATTTTATTTTT
11069623 TAA
1 TAA
11069626 AAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TAATAATTTTATTTTT
Found at i:11069630 original size:39 final size:40
Alignment explanation
Indices: 11069532--11069649 Score: 102
Period size: 39 Copynumber: 2.9 Consensus size: 40
11069522 TTTAACAATC
* *
11069532 ATATTTCAATTTTTTAAAAAATAGAAAATTTTAATTATTTAG
1 ATATTTTAA-TTTTTAAAAAATA-ATAATTTTAATTATTTAG
* *
11069574 AGT-TTTTTA-TTTT-AAAAATAATAATTTT-ATTTTTTA-
1 A-TATTTTAATTTTTAAAAAATAATAATTTTAATTATTTAG
*
11069610 ATATTTTAATTTTTAAAAAAATAATATTTCTTGAATTATT
1 ATATTTTAATTTTT-AAAAAATAATAATT-TT-AATTATT
11069650 ATAAAAAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
35 1 0.02
36 6 0.10
37 11 0.18
38 7 0.11
39 19 0.31
40 6 0.10
42 10 0.16
43 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (40 bp):
ATATTTTAATTTTTAAAAAATAATAATTTTAATTATTTAG
Found at i:11069826 original size:22 final size:22
Alignment explanation
Indices: 11069800--11069849 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
11069790 CAATAAATTC
*
11069800 TAAAAGTTGAAAACT-ATTTTT
1 TAAAAATTGAAAACTGATTTTT
*
11069821 ATAAAAATTGAAATCTGATTTTT
1 -TAAAAATTGAAAACTGATTTTT
11069844 TAAAAA
1 TAAAAA
11069850 ATAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (22 bp):
TAAAAATTGAAAACTGATTTTT
Found at i:11070137 original size:23 final size:22
Alignment explanation
Indices: 11070090--11070137 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11070080 TTTTATCATT
*
11070090 TTTAAAATTTCAAACATTTTCA
1 TTTAAAATTTCAAACATTTTAA
* *
11070112 TTTAAAATTTTAAGACTTTTTAA
1 TTTAAAATTTCAA-ACATTTTAA
11070135 TTT
1 TTT
11070138 TCAAACGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTAAAATTTCAAACATTTTAA
Found at i:11073506 original size:26 final size:26
Alignment explanation
Indices: 11073473--11073537 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
11073463 TGTGCTATAT
11073473 TATCCATCCCTATACCCACAATGTAA
1 TATCCATCCCTATACCCACAATGTAA
* *
11073499 TATCCATCCCCATACTCACAATGTAA
1 TATCCATCCCTATACCCACAATGTAA
*
11073525 TATCCATTCCTAT
1 TATCCATCCCTAT
11073538 TCTTATTCCC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.32, C:0.34, G:0.03, T:0.31
Consensus pattern (26 bp):
TATCCATCCCTATACCCACAATGTAA
Found at i:11076844 original size:24 final size:24
Alignment explanation
Indices: 11076817--11076866 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
11076807 AAAATAATTT
11076817 TATTAATATAATATAATAAATAAA
1 TATTAATATAATATAATAAATAAA
* * *
11076841 TATTATTATTATATAATAAATTAA
1 TATTAATATAATATAATAAATAAA
11076865 TA
1 TA
11076867 AATAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TATTAATATAATATAATAAATAAA
Found at i:11076871 original size:32 final size:32
Alignment explanation
Indices: 11076816--11076906 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
11076806 TAAAATAATT
11076816 TTAT-TAATATAATATAATAAATAAATATTATTA
1 TTATATAATA-AAT-TAATAAATAAATATTATTA
*
11076849 TTATATAATAAATTAATAAATAAATTTTATTA
1 TTATATAATAAATTAATAAATAAATATTATTA
* * **
11076881 TTATATGATAAACTAGCAAATAAATA
1 TTATATAATAAATTAATAAATAAATA
11076907 AAATTTAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 39 0.76
33 7 0.14
34 5 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (32 bp):
TTATATAATAAATTAATAAATAAATATTATTA
Found at i:11076929 original size:21 final size:23
Alignment explanation
Indices: 11076903--11076958 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
11076893 CTAGCAAATA
11076903 AATAAAATTTAATTATTT-A-TT
1 AATAAAATTTAATTATTTAACTT
11076924 AATAAAA-TT-ATTATTTAACTT
1 AATAAAATTTAATTATTTAACTT
*
11076945 AAAAATAATTTAAT
1 AATAA-AATTTAAT
11076959 AAAATTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.24
20 3 0.10
21 13 0.45
22 2 0.07
23 2 0.07
24 2 0.07
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AATAAAATTTAATTATTTAACTT
Found at i:11081013 original size:19 final size:17
Alignment explanation
Indices: 11080981--11081025 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
11080971 ACTTAGAATG
11080981 TTTTTTTTTTTTTTATC
1 TTTTTTTTTTTTTTATC
*
11080998 TTTTTCTTTATTTTTTTTC
1 TTTTT-TTT-TTTTTTATC
11081017 TTTTGTTTT
1 TTTT-TTTT
11081026 GTTATATACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.21
18 3 0.12
19 15 0.62
20 1 0.04
ACGTcount: A:0.04, C:0.07, G:0.02, T:0.87
Consensus pattern (17 bp):
TTTTTTTTTTTTTTATC
Found at i:11082032 original size:2 final size:2
Alignment explanation
Indices: 11082025--11082055 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11082015 TGAACAGCTG
11082025 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11082056 CCATAGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11085794 original size:2 final size:2
Alignment explanation
Indices: 11085787--11085813 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11085777 AACCCCCAAA
11085787 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
11085814 AATCTCTAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:11091563 original size:98 final size:98
Alignment explanation
Indices: 11091394--11091589 Score: 374
Period size: 98 Copynumber: 2.0 Consensus size: 98
11091384 CATTCTTTGT
* *
11091394 ATTTGCAATGTTTTGCCATATATTTTTGAGGTACAGCTTCAGGTTGATTCATCTTTTAATGTTTC
1 ATTTGCAATGTTTTGCCATATATTTTTGACGTACAGCTTCAGGTTGATTCATCTTTGAATGTTTC
11091459 AACTATCTGTTTTTCCTGCCTCTGAATCGGTTA
66 AACTATCTGTTTTTCCTGCCTCTGAATCGGTTA
11091492 ATTTGCAATGTTTTGCCATATATTTTTGACGTACAGCTTCAGGTTGATTCATCTTTGAATGTTTC
1 ATTTGCAATGTTTTGCCATATATTTTTGACGTACAGCTTCAGGTTGATTCATCTTTGAATGTTTC
11091557 AACTATCTGTTTTTCCTGCCTCTGAATCGGTTA
66 AACTATCTGTTTTTCCTGCCTCTGAATCGGTTA
11091590 TCATATCTAA
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (98 bp):
ATTTGCAATGTTTTGCCATATATTTTTGACGTACAGCTTCAGGTTGATTCATCTTTGAATGTTTC
AACTATCTGTTTTTCCTGCCTCTGAATCGGTTA
Found at i:11092782 original size:34 final size:36
Alignment explanation
Indices: 11092736--11092809 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 36
11092726 AGAAGAGCTC
11092736 AGAAACAGGCTC-AA-GATAAGA-ATGAGAGAGTT-GA
1 AGAAACAGGCTCAAAGGA-AA-ATATGAGAGAGTTGGA
11092770 AGAAA-AGAGCTCAAAGGAAAATATGAGAGAGTTGGA
1 AGAAACAG-GCTCAAAGGAAAATATGAGAGAGTTGGA
11092806 AGAA
1 AGAA
11092810 GAATTGGCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
33 2 0.06
34 10 0.29
35 15 0.43
36 8 0.23
ACGTcount: A:0.50, C:0.07, G:0.30, T:0.14
Consensus pattern (36 bp):
AGAAACAGGCTCAAAGGAAAATATGAGAGAGTTGGA
Found at i:11093526 original size:30 final size:28
Alignment explanation
Indices: 11093439--11093527 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 28
11093429 AACTCTTGCA
11093439 AAGATAATTTTATTAAGTGAAGTTTTATTG
1 AAGATAATTTTATTAAGTG-AGTTTT-TTG
* * * * *
11093469 AAAAAAAATTTACTAGGGTGAGCTTTTTTG
1 AAGATAATTTTATTA-AGTGAG-TTTTTTG
11093499 AAGATAACTTTTATTATAGTGAGTTTTTT
1 AAGATAA-TTTTATTA-AGTGAGTTTTTT
11093528 TATCGAGCTA
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
30 27 0.60
31 18 0.40
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (28 bp):
AAGATAATTTTATTAAGTGAGTTTTTTG
Found at i:11093681 original size:17 final size:20
Alignment explanation
Indices: 11093644--11093682 Score: 57
Period size: 17 Copynumber: 2.1 Consensus size: 20
11093634 TGAAATTTGG
11093644 TTAGATCGAGCTGATTTTCT
1 TTAGATCGAGCTGATTTTCT
11093664 TTAG-TCGAGCT-A-TTTCT
1 TTAGATCGAGCTGATTTTCT
11093681 TT
1 TT
11093683 TGACTGAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 7 0.37
20 4 0.21
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (20 bp):
TTAGATCGAGCTGATTTTCT
Found at i:11094139 original size:19 final size:19
Alignment explanation
Indices: 11094095--11094139 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
11094085 TCGAAGTGAT
* *
11094095 TGAGGTAAGCTTTTTTGGC
1 TGAGGTGAGCTTTTTTAGC
*
11094114 TGAGGTGAGTTTTTTTAGC
1 TGAGGTGAGCTTTTTTAGC
11094133 TGAGGTG
1 TGAGGTG
11094140 GCCCTTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.07, G:0.36, T:0.42
Consensus pattern (19 bp):
TGAGGTGAGCTTTTTTAGC
Found at i:11094521 original size:140 final size:140
Alignment explanation
Indices: 11094194--11094521 Score: 365
Period size: 140 Copynumber: 2.3 Consensus size: 140
11094184 GTGATTGAGC
* * * * * * * *
11094194 TAAGCCTTTGTGAAAGTAATTTACTGAAATGAGTTTTTTGATCAAGGTGATCGAGATGAGCTCTT
1 TAAGCCTTTATGAAGGTAATTTACTGAAATGAGCTCTTTGACCGAGGTGATCGAAATGAACTCTT
* * * *
11094259 TTGACTAATATGAGCTCCTTCGATCGAGCTGAGCTCTTTTGGCCAAGCTGATCACTTTGATCGAG
66 CTAACTAAGATGAGCTCCTTCGATCGAGCTAAGCTCTTTTGGCCAAGCTGATCACTTTGATCGAG
*
11094324 GTGGCTTAGT
131 GTGGCTCAGT
* * *
11094334 TAAAG-TTTTATGAAGGTAATTTACTGATATGAGCTCTTTGACTGAGGTGATCGAAATGAACTCT
1 T-AAGCCTTTATGAAGGTAATTTACTGAAATGAGCTCTTTGACCGAGGTGATCGAAATGAACTCT
* * * * ** * *
11094398 TCTAACTGAGATGAGCTCTTTTGGTCTTGCTAAGCTCTTTT-GCCTAAGTTGATCA-TTTTAGTC
65 TCTAACTAAGATGAGCTCCTTCGATCGAGCTAAGCTCTTTTGGCC-AAGCTGATCACTTTGA-TC
11094461 GAGGTGGCTCAGT
128 GAGGTGGCTCAGT
* * *
11094474 TAAGCCTTTATGAAGGCAATTTACTAAAATGAGCTCTTTGGCCGAGGT
1 TAAGCCTTTATGAAGGTAATTTACTGAAATGAGCTCTTTGACCGAGGT
11094522 AGCTGAGCTA
Statistics
Matches: 154, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
139 10 0.06
140 141 0.92
141 3 0.02
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (140 bp):
TAAGCCTTTATGAAGGTAATTTACTGAAATGAGCTCTTTGACCGAGGTGATCGAAATGAACTCTT
CTAACTAAGATGAGCTCCTTCGATCGAGCTAAGCTCTTTTGGCCAAGCTGATCACTTTGATCGAG
GTGGCTCAGT
Found at i:11094883 original size:85 final size:85
Alignment explanation
Indices: 11094759--11095201 Score: 291
Period size: 85 Copynumber: 5.2 Consensus size: 85
11094749 TAAATTTGAA
* * **
11094759 CTCTTTTGATC-GAGCTGAGTCTA-AGCTATTTA-GTCGAGTTGTTTTATCAAATTAAACCTTTA
1 CTCTTTTG-TCAGAGCTGAGT-TAGAGCT-TTTAGGTTGAGTTATTTTATCAAATTAGGCCTTTA
*
11094821 TAAAGGTATTTTGTAAATCCGAG
63 TAAAGGTATTTTGTAGATCCGAG
* * * * * *
11094844 CTCTTTTGGCAGAGCTGAGTTAGAGCTCTTAGGTTGAGTTATTTTGTCGAGTTAGGCCTTTATGA
1 CTCTTTTGTCAGAGCTGAGTTAGAGCTTTTAGGTTGAGTTATTTTATCAAATTAGGCCTTTATAA
* **
11094909 AGATATTTTGTAGATCTAAG
66 AGGTATTTTGTAGATCCGAG
* * ** * * * *
11094929 CTCTTTTAATCA-AGTTGAGTCCGAGCTTTTTGGCCT-AGTTGTTTTATCGAATTAGGCCTTTAT
1 CTCTTTT-GTCAGAGCTGAGTTAGAGCTTTTAGG-TTGAGTTATTTTATCAAATTAGGCCTTTAT
* * *
11094992 GAAA-GCATTTTTTAGATCCAAG
64 -AAAGGTATTTTGTAGATCCGAG
* * * * * * * *
11095014 CTCTTTTGGCA-AACTTAGTTTGAG-TTCTTTGGCTGAGTTATTTTGTCAAATT-GACCCTTTAT
1 CTCTTTTGTCAGAGCTGAGTTAGAGCTT-TTAGGTTGAGTTATTTTATCAAATTAG-GCCTTTAT
* * *
11095076 TAA-GAAATTTGATAGATCCGAG
64 AAAGGTATTTTG-TAGATCCGAG
* * * * * * *
11095098 CTTTTTTATC-GAGTTGAATTCA-AACTTTTAAGTCGAGTTATTTTATCAAATTAGGCCTTTATA
1 CTCTTTTGTCAGAGCTGAGTT-AGAGCTTTTAGGTTGAGTTATTTTATCAAATTAGGCCTTTATA
*
11095161 AAGGTATTTTGTAGATCCGAA
65 AAGGTATTTTGTAGATCCGAG
*
11095182 CTCTTTTAGTTA-AGCTGAGT
1 CTCTTTT-GTCAGAGCTGAGT
11095202 CTAAGCTATT
Statistics
Matches: 271, Mismatches: 70, Indels: 34
0.72 0.19 0.09
Matches are distributed among these distances:
83 12 0.04
84 108 0.40
85 146 0.54
86 5 0.02
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (85 bp):
CTCTTTTGTCAGAGCTGAGTTAGAGCTTTTAGGTTGAGTTATTTTATCAAATTAGGCCTTTATAA
AGGTATTTTGTAGATCCGAG
Found at i:11095018 original size:170 final size:169
Alignment explanation
Indices: 11094720--11095188 Score: 403
Period size: 170 Copynumber: 2.8 Consensus size: 169
11094710 GCTGAAGTGA
* * * *
11094720 TCGAGTTAAGCCTTTATGAAAACATTTTGTAAATTTGAACTCTTTTGATCGAGCTGAGTCTAAGC
1 TCGAGTTAAGCCTTTATGAAAACATTTTGTAAATCTGAACTCTTTTAATCAAGCTGAGTCCAAGC
* * *
11094785 TATTTAGTCGAGTTGTTTTATCAAATTAAACCTTTATAAAGGTATTTTGTAAATCCGAGCTCTTT
66 TATTTAGCCGAGTTGTTTTATCAAATTAAACCTTTATAAAGGCATTTTGTAAATCCAAGCTCTTT
* *
11094850 TGGCAGAGCTGAGTTAGAGCTCTTAGGTTGAGTTATTTTG
131 TGGCA-AACTGAGTTAGAGCTCTTAGGCTGAGTTATTTTG
* * * * * *
11094890 TCGAGTTAGGCCTTTATGAAGATATTTTGTAGATCT-AAGCTCTTTTAATCAAGTTGAGTCCGAG
1 TCGAGTTAAGCCTTTATGAAAACATTTTGTAAATCTGAA-CTCTTTTAATCAAGCTGAGTCCAAG
* * * * ** * *
11094954 CTTTTTGGCCTAGTTGTTTTATCGAATTAGGCCTTTATGAAA-GCATTTTTTAGATCCAAGCTCT
65 CTATTTAGCCGAGTTGTTTTATCAAATTAAACCTTTAT-AAAGGCATTTTGTAAATCCAAGCTCT
* * * *
11095018 TTTGGCAAACTTAGTTTGAGTTCTTTGGCTGAGTTATTTTG
129 TTTGGCAAACTGAGTTAGAGCTCTTAGGCTGAGTTATTTTG
* * * * * * * * * * * * *
11095059 TCAAATTGACCCTTTATTAAGAA-A-TTTGATAGATCCGAGCT-TTTTTATCGAGTTGAATTCAA
1 TCGAGTTAAGCCTTTATGAA-AACATTTTG-TAAATCTGAACTCTTTTAATCAAGCTGAGTCCAA
* * * ** * *
11095121 ACT-TTTAAGTCGAGTTATTTTATCAAATTAGGCCTTTATAAAGGTATTTTGTAGATCCGAA-CT
64 GCTATTT-AGCCGAGTTGTTTTATCAAATTAAACCTTTATAAAGGCATTTTGTAAATCC-AAGCT
11095184 CTTTT
127 CTTTT
11095189 AGTTAAGCTG
Statistics
Matches: 242, Mismatches: 49, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
167 6 0.02
168 69 0.29
169 55 0.23
170 109 0.45
171 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (169 bp):
TCGAGTTAAGCCTTTATGAAAACATTTTGTAAATCTGAACTCTTTTAATCAAGCTGAGTCCAAGC
TATTTAGCCGAGTTGTTTTATCAAATTAAACCTTTATAAAGGCATTTTGTAAATCCAAGCTCTTT
TGGCAAACTGAGTTAGAGCTCTTAGGCTGAGTTATTTTG
Found at i:11095284 original size:72 final size:71
Alignment explanation
Indices: 11095128--11095284 Score: 163
Period size: 72 Copynumber: 2.2 Consensus size: 71
11095118 CAAACTTTTA
* ** * * * *
11095128 AGTCGAGTTATTTTATCAAATTAGGCCTTTATAAAGGTATTTTGTAGATCCGAACTCTTTTAGTT
1 AGTCGAGTTATTTTATCAAATTAGACCTTTATAAAGACATTTTATAAATCCAAACTCTTTTAGCT
11095193 AAGCTG
66 AAGCTG
* * * * *
11095199 AGTCTAAGCTATTTTATCAAGTTAGACCTTTATGAAGACATTTTATAAATCTAAACTCTTTT-GA
1 AGTC-GAGTTATTTTATCAAATTAGACCTTTATAAAGACATTTTATAAATCCAAACTCTTTTAG-
*
11095263 CTGAGCTG
64 CTAAGCTG
11095271 AGTTCGAGTTATTT
1 AG-TCGAGTTATTT
11095285 GGCTGAGCTA
Statistics
Matches: 68, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
71 5 0.07
72 61 0.90
73 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (71 bp):
AGTCGAGTTATTTTATCAAATTAGACCTTTATAAAGACATTTTATAAATCCAAACTCTTTTAGCT
AAGCTG
Found at i:11095793 original size:35 final size:34
Alignment explanation
Indices: 11095749--11095818 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
11095739 CTCATAGATA
*
11095749 AGCTCAAAGATAAGAATGAAAGAGATGAGAAGAAG
1 AGCTCAAAGAAAAGAATGAAAGAGATG-GAAGAAG
* * * *
11095784 AGCTTAAAGAAAAGTATGAGAGAGTTGGAAGAAG
1 AGCTCAAAGAAAAGAATGAAAGAGATGGAAGAAG
11095818 A
1 A
11095819 ATTAGCCCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 8 0.27
35 22 0.73
ACGTcount: A:0.51, C:0.04, G:0.30, T:0.14
Consensus pattern (34 bp):
AGCTCAAAGAAAAGAATGAAAGAGATGGAAGAAG
Found at i:11097886 original size:19 final size:20
Alignment explanation
Indices: 11097872--11097909 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
11097862 ATATTTTGGC
11097872 CAAATTTTTT-AATTTTCGA
1 CAAATTTTTTCAATTTTCGA
*
11097891 CATATTTTTTCAATTTTCG
1 CAAATTTTTTCAATTTTCG
11097910 CTTAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.13, G:0.05, T:0.55
Consensus pattern (20 bp):
CAAATTTTTTCAATTTTCGA
Found at i:11099753 original size:262 final size:263
Alignment explanation
Indices: 11099280--11099806 Score: 993
Period size: 262 Copynumber: 2.0 Consensus size: 263
11099270 TCAAGCTTAT
11099280 AAGTTCCTTAAAAGAATAGATTCATTAGATGGCCAATCACACCTAGATAAAAAAGATTGGTGGTG
1 AAGTTCCTTAAAAGAATAGATTCATTAGATGGCCAATCACACCTAGATAAAAAAGATTGGTGGTG
11099345 ACTCAATTTATTAAATCTAAGCTATAGAATTTCGGATATATATGTTATGACAATTTAGCGACTCC
66 ACTCAATTTATTAAATCTAAGCTATAGAATTTCGGATATATATGTTATGACAATTTAGCGACTCC
* *
11099410 GCTGGAGACGCTAAAGAGTCAAGCCATAATTTTTGAATTTATCCTATCCTTTGGTCTAATGGTCT
131 GCTGGAGACGCTAAAGAGTCAAGCCATAATTTTTGAATTTATCCTATCATTTGGACTAATGGTCT
*
11099475 TAAATTGTAATTATTTGTTTACTAATGTTTTTCCTTTTTGTTTCTTATTTGATTTATCTTGGGGC
196 TAAATTGTAATTATTTGTTTACTAACGTTTTTCCTTTTTGTTTCTTATTTGATTTATCTTGGGGC
11099540 ATG
261 ATG
*
11099543 AAGTTCTTTAAAAGAATAGATTCATTAGATGGCCAATCACACCTAGATAAAAAAGATTGGTGGTG
1 AAGTTCCTTAAAAGAATAGATTCATTAGATGGCCAATCACACCTAGATAAAAAAGATTGGTGGTG
*
11099608 ACTCAATTTATTAAATCT-AGCTATAGAATTTCGGATATATATGTTATGACAGTTTAGCGACTCC
66 ACTCAATTTATTAAATCTAAGCTATAGAATTTCGGATATATATGTTATGACAATTTAGCGACTCC
*
11099672 GCTGGAGACGCTAAAGAGTCAAGCCATAATTTTTGAATTTATCCTCTCATTTGGACTAATGGTCT
131 GCTGGAGACGCTAAAGAGTCAAGCCATAATTTTTGAATTTATCCTATCATTTGGACTAATGGTCT
11099737 TAAATTGTAATTATTTGTTTACTAACGTTTTTCCTTTTTGTTTCTTATTTGATTTATCTTGGGGC
196 TAAATTGTAATTATTTGTTTACTAACGTTTTTCCTTTTTGTTTCTTATTTGATTTATCTTGGGGC
11099802 ATG
261 ATG
11099805 AA
1 AA
11099807 ACCTATATGT
Statistics
Matches: 258, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
262 176 0.68
263 82 0.32
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (263 bp):
AAGTTCCTTAAAAGAATAGATTCATTAGATGGCCAATCACACCTAGATAAAAAAGATTGGTGGTG
ACTCAATTTATTAAATCTAAGCTATAGAATTTCGGATATATATGTTATGACAATTTAGCGACTCC
GCTGGAGACGCTAAAGAGTCAAGCCATAATTTTTGAATTTATCCTATCATTTGGACTAATGGTCT
TAAATTGTAATTATTTGTTTACTAACGTTTTTCCTTTTTGTTTCTTATTTGATTTATCTTGGGGC
ATG
Found at i:11100289 original size:23 final size:23
Alignment explanation
Indices: 11100250--11100299 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11100240 TATTATCTTA
* *
11100250 TCATTTCATTACGTGCATTATTG
1 TCATTTCATTACATGCATCATTG
*
11100273 TCATTTCATT-CTATGCATCATTT
1 TCATTTCATTAC-ATGCATCATTG
11100296 TCAT
1 TCAT
11100300 ACTCATGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.50
Consensus pattern (23 bp):
TCATTTCATTACATGCATCATTG
Found at i:11102306 original size:135 final size:135
Alignment explanation
Indices: 11102064--11102333 Score: 513
Period size: 135 Copynumber: 2.0 Consensus size: 135
11102054 GATGAAATGA
*
11102064 TAAGTTTTGATCAAGAAGGAGTAACAACACCTAATGTTAGTGGCAATCCATTACCTAATCGCAAT
1 TAAGTTTTGATCAAGAAGGAGTAACAACACCTAATGTTAGTGGCAATCCATTACCTAATCACAAT
* *
11102129 ATCAATGCTCTAAGTGAGAATCAAGAACATATTAATCCAAAAAGGCCTAAAGAGTTACAGTGAAT
66 ATCAATGCTCTAAGTGAGAATCAAGAAAATATTAATCCAAAAAAGCCTAAAGAGTTACAGTGAAT
11102194 CAGGG
131 CAGGG
11102199 TAAGTTTTGATCAAGAAGGAGTAACAACACCTAATGTTAGTGGCAATCCATTACCTAATCACAAT
1 TAAGTTTTGATCAAGAAGGAGTAACAACACCTAATGTTAGTGGCAATCCATTACCTAATCACAAT
11102264 ATCAATGCTCTAAGTGAGAATCAAGAAAATATTAATCCAAAAAAGCCTAAAGAGTTACAGTGAAT
66 ATCAATGCTCTAAGTGAGAATCAAGAAAATATTAATCCAAAAAAGCCTAAAGAGTTACAGTGAAT
11102329 CAGGG
131 CAGGG
11102334 GGCAAGATGT
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 132 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (135 bp):
TAAGTTTTGATCAAGAAGGAGTAACAACACCTAATGTTAGTGGCAATCCATTACCTAATCACAAT
ATCAATGCTCTAAGTGAGAATCAAGAAAATATTAATCCAAAAAAGCCTAAAGAGTTACAGTGAAT
CAGGG
Found at i:11104136 original size:63 final size:63
Alignment explanation
Indices: 11104000--11104137 Score: 172
Period size: 63 Copynumber: 2.2 Consensus size: 63
11103990 TAGGCGAAGT
* * * *
11104000 TTGTTTTGGAATGGTTAGAGCTGAGAAACCTATGAGTGGTGACCTAGTGATGGATGATAAAAT
1 TTGTTTTGGAATGGCTAGAGCTGAGAAACCTATGAGTAGTGACCCAGTGATGGATGATAAAAC
* * *
11104063 TTATTTTGGAATGGCTA-ATGCTGAGAGACCTATGAGTAGTGACCCAGTGATGG-TGGATGAAAC
1 TTGTTTTGGAATGGCTAGA-GCTGAGAAACCTATGAGTAGTGACCCAGTGATGGAT-GATAAAAC
*
11104126 TTGTTCTGGAAT
1 TTGTTTTGGAAT
11104138 TTATTAGTGC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
62 2 0.03
63 62 0.97
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.32
Consensus pattern (63 bp):
TTGTTTTGGAATGGCTAGAGCTGAGAAACCTATGAGTAGTGACCCAGTGATGGATGATAAAAC
Found at i:11104814 original size:31 final size:31
Alignment explanation
Indices: 11104754--11104814 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
11104744 TCTTGCACAT
*
11104754 CTAAAATTTTGTGAATCAAATTATGGTGAAA
1 CTAAAATTTTGTGAATCAAATTATAGTGAAA
11104785 CTAAAATTTTGAT-AATCAAATT-TCAGTGAA
1 CTAAAATTTTG-TGAATCAAATTAT-AGTGAA
11104815 TTCTTACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 1 0.04
31 25 0.93
32 1 0.04
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (31 bp):
CTAAAATTTTGTGAATCAAATTATAGTGAAA
Found at i:11105008 original size:43 final size:42
Alignment explanation
Indices: 11104945--11105283 Score: 369
Period size: 43 Copynumber: 8.0 Consensus size: 42
11104935 ATTGTCCAGA
* * * *
11104945 AGCAATTTATTTTTTTCAAAGTTCTATTGCCTCTATTTAGATG
1 AGCAATTTA-TTTTTTCAAAGTTGTGTTGCCTCTGTTTAGAGG
* * * * * *
11104988 AGCAATTTACTTTTTCCAAAGTTTTGTCGCCTTTGTTGAGAAG
1 AGCAATTTA-TTTTTTCAAAGTTGTGTTGCCTCTGTTTAGAGG
* *
11105031 AACAATTTATTTTTTCAAAGTTTTGTTGCCTCTGTTTAGAGG
1 AGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTGTTTAGAGG
* *
11105073 AGCAATTTATTTTTT-AAAGTTGTGGTGCCTTTGTTTAGAGG
1 AGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTGTTTAGAGG
* *
11105114 AGCATTTTA-CTTTTCAAAGTTGTAG-TGCCTCTGTTTAGAGG
1 AGCAATTTATTTTTTCAAAGTTGT-GTTGCCTCTGTTTAGAGG
* *
11105155 AACATTTTATTTTTTCAAAGTTGTGATTGCCTCTGTTTAGAGG
1 AGCAATTTATTTTTTCAAAGTTGTG-TTGCCTCTGTTTAGAGG
* ** *
11105198 AGCAATTTATTTTTTCTAAAGTTGTGGTGTTTCTATTTAGAGG
1 AGCAATTTATTTTTTC-AAAGTTGTGTTGCCTCTGTTTAGAGG
* *** *
11105241 ATCAATTTATTTTTTCAAAGTTGTAAAGCCTTTGTTTAGAGG
1 AGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTGTTTAGAGG
11105283 A
1 A
11105284 AATTTGCTTA
Statistics
Matches: 252, Mismatches: 38, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
40 4 0.02
41 63 0.25
42 76 0.30
43 100 0.40
44 9 0.04
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.46
Consensus pattern (42 bp):
AGCAATTTATTTTTTCAAAGTTGTGTTGCCTCTGTTTAGAGG
Found at i:11106287 original size:24 final size:25
Alignment explanation
Indices: 11106254--11106305 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
11106244 GTCGAGTCAT
* *
11106254 TTTTATTTTTTTTGA-TATTTTTAA
1 TTTTAATTTTTTTAATTATTTTTAA
*
11106278 TTTTAATTTTTTTAATTATTTTTTA
1 TTTTAATTTTTTTAATTATTTTTAA
11106303 TTT
1 TTT
11106306 ATGTGTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTAATTTTTTTAATTATTTTTAA
Found at i:11108672 original size:12 final size:12
Alignment explanation
Indices: 11108655--11108682 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11108645 GTATGCTAAA
11108655 TGCCGGTTTAAG
1 TGCCGGTTTAAG
11108667 TGCCGGTTTAAG
1 TGCCGGTTTAAG
11108679 TGCC
1 TGCC
11108683 ATTGAAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.21, G:0.32, T:0.32
Consensus pattern (12 bp):
TGCCGGTTTAAG
Found at i:11108879 original size:13 final size:13
Alignment explanation
Indices: 11108849--11108879 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11108839 TTTTAAGTTG
*
11108849 AAAAAGTATGATT
1 AAAAAGTATGATA
11108862 AAAAAGTATGATA
1 AAAAAGTATGATA
11108875 AAAAA
1 AAAAA
11108880 AATGTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.23
Consensus pattern (13 bp):
AAAAAGTATGATA
Found at i:11108922 original size:29 final size:28
Alignment explanation
Indices: 11108882--11108937 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
11108872 ATAAAAAAAA
* *
11108882 TGTTTGATTAAAAATTTTAAATGATTAT
1 TGTTTGAATAAAAATTGTAAATGATTAT
* *
11108910 TGTTGTGAATAAATATTGTAAATTATTA
1 TGTT-TGAATAAAAATTGTAAATGATTA
11108938 AAATATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (28 bp):
TGTTTGAATAAAAATTGTAAATGATTAT
Found at i:11108950 original size:10 final size:11
Alignment explanation
Indices: 11108929--11108977 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
11108919 TAAATATTGT
11108929 AAAT-TATT-A
1 AAATATATTAA
11108938 AAATAT-TTAA
1 AAATATATTAA
11108948 AAATATATAATAA
1 AAATATAT--TAA
11108961 AAATATATT-A
1 AAATATATTAA
11108971 AAATATA
1 AAATATA
11108978 AAATAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 6 0.17
10 16 0.46
11 2 0.06
13 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATATATTAA
Found at i:11108964 original size:23 final size:23
Alignment explanation
Indices: 11108937--11108983 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
11108927 GTAAATTATT
*
11108937 AAAATAT-TTAAAAATATATAATA
1 AAAATATATT-AAAATATAAAATA
11108960 AAAATATATTAAAATATAAAATA
1 AAAATATATTAAAATATAAAATA
11108983 A
1 A
11108984 TAAAATGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATATATTAAAATATAAAATA
Found at i:11110503 original size:3 final size:3
Alignment explanation
Indices: 11110495--11110553 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
11110485 AATATAAGTA
11110495 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
11110543 AAT AAT AAT AA
1 AAT AAT AAT AA
11110554 AACAGTGCAG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11113814 original size:3 final size:3
Alignment explanation
Indices: 11113806--11113843 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11113796 AAATCGTGAG
11113806 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
11113844 AATACTAAAA
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:11114874 original size:28 final size:27
Alignment explanation
Indices: 11114826--11114879 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
11114816 TCATCGAATA
* *
11114826 TAATATTAATTAATAAATTTATAATTT
1 TAATATCAATTAATAAATTTAAAATTT
11114853 TAATATCACATTAA-AAATTTTAAAATT
1 TAATATCA-ATTAATAAA-TTTAAAATT
11114880 CAAATAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (27 bp):
TAATATCAATTAATAAATTTAAAATTT
Found at i:11115686 original size:17 final size:18
Alignment explanation
Indices: 11115664--11115697 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11115654 CACTATTAGC
11115664 AAAAATATTAT-TTTAAA
1 AAAAATATTATATTTAAA
*
11115681 AAAAATTTTATATTTAA
1 AAAAATATTATATTTAA
11115698 TACATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATATTATATTTAAA
Found at i:11123016 original size:2 final size:2
Alignment explanation
Indices: 11123011--11123049 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11123001 AACACACAAA
11123011 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11123050 TAAGTACCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11123384 original size:13 final size:13
Alignment explanation
Indices: 11123366--11123421 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
11123356 TTCTATTTAA
*
11123366 ATTAAATTTGAAT
1 ATTAAATTTAAAT
*
11123379 ATTAAATATACATAT
1 ATTAAATTTA-A-AT
11123394 ATTAAATTTAAAT
1 ATTAAATTTAAAT
* *
11123407 TTTAAATTAAAAT
1 ATTAAATTTAAAT
11123420 AT
1 AT
11123422 GAAAAAAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
13 22 0.63
14 2 0.06
15 11 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:11123421 original size:28 final size:28
Alignment explanation
Indices: 11123366--11123421 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
11123356 TTCTATTTAA
* *
11123366 ATTAAATTTGAATATTAAATATACATAT
1 ATTAAATTTAAATATTAAATATAAATAT
*
11123394 ATTAAATTTAAATTTTAAAT-TAAA-AT
1 ATTAAATTTAAATATTAAATATAAATAT
11123420 AT
1 AT
11123422 GAAAAAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 3 0.12
28 18 0.72
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
ATTAAATTTAAATATTAAATATAAATAT
Found at i:11133784 original size:22 final size:20
Alignment explanation
Indices: 11133745--11133784 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
11133735 GATTTGTATA
*
11133745 TGAATAAGATAAACAGAATC
1 TGAATAAGATAAAAAGAATC
11133765 TGAATAATGAATAAAAAGAA
1 TGAATAA-G-ATAAAAAGAA
11133785 AAAAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 1 0.06
22 9 0.53
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (20 bp):
TGAATAAGATAAAAAGAATC
Found at i:11133828 original size:15 final size:15
Alignment explanation
Indices: 11133810--11133851 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11133800 ATAATAAAAA
11133810 AAATTATAAATTATT
1 AAATTATAAATTATT
11133825 AAATTA-ATAATTATT
1 AAATTATA-AATTATT
*
11133840 ATATT-TAAATTA
1 AAATTATAAATTA
11133852 AATTGTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATTATAAATTATT
Found at i:11133871 original size:21 final size:21
Alignment explanation
Indices: 11133823--11133865 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
11133813 TTATAAATTA
11133823 TTAAATTAATAATTATTATAT
1 TTAAATTAATAATTATTATAT
*
11133844 TTAAATT-A-AATTGTTATAT
1 TTAAATTAATAATTATTATAT
11133863 TTA
1 TTA
11133866 TAAATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 1 0.05
21 7 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTAAATTAATAATTATTATAT
Found at i:11135310 original size:21 final size:22
Alignment explanation
Indices: 11135273--11135324 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
11135263 ATCGAAATTA
11135273 ATAAAATATTAATTTTTAAAAT
1 ATAAAATATTAATTTTTAAAAT
**
11135295 ATAAAATATT-ATTTTTTTAAT
1 ATAAAATATTAATTTTTAAAAT
11135316 AT-AAATATT
1 ATAAAATATT
11135325 TAAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 7 0.25
21 11 0.39
22 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTAATTTTTAAAAT
Found at i:11135321 original size:20 final size:21
Alignment explanation
Indices: 11135270--11135324 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
11135260 CGAATCGAAA
11135270 TTAATA-AAATATTAATTTTT
1 TTAATATAAATATTAATTTTT
**
11135290 AAAATATAAAATATT-ATTTTT
1 TTAATAT-AAATATTAATTTTT
11135311 TTAATATAAATATT
1 TTAATATAAATATT
11135325 TAAAAATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.38
21 11 0.38
22 7 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTAATATAAATATTAATTTTT
Found at i:11135701 original size:22 final size:23
Alignment explanation
Indices: 11135645--11135701 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 23
11135635 TGAAATTCTT
* *
11135645 TAAAAATATCATTACATAAATATA
1 TAAAAA-ATAATTAAATAAATATA
* *
11135669 TATAAAA-AATTAAATAATTA-A
1 TAAAAAATAATTAAATAAATATA
11135690 TAAAAAATAATT
1 TAAAAAATAATT
11135702 TTTTATATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 7 0.26
22 14 0.52
23 1 0.04
24 5 0.19
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAAAATAATTAAATAAATATA
Found at i:11135905 original size:320 final size:320
Alignment explanation
Indices: 11135323--11135963 Score: 1138
Period size: 320 Copynumber: 2.0 Consensus size: 320
11135313 AATATAAATA
*
11135323 TTTAAAAATATAATTATATAAATATATATAAAAAATTAAACAATTAATAAAAAATAATTTTTTAT
1 TTTAAAAATATAATTACATAAATATATATAAAAAATTAAACAATTAATAAAAAATAATTTTTTAT
*
11135388 ATAATATCGGGTTGGATCGAATTTATCTAAAATCTGAACTTGAATCGACTTCGATTGTTTCATAA
66 ATAATATCGGGTTGGATCGAATTTATCTAAAATCTGAACCTGAATCGACTTCGATTGTTTCATAA
* *
11135453 TCTTATTTGACCTAACCTAAAACCCAAATTTCAAAAAAAAAAAAAAACAAACCCGTAGGATCAGA
131 TCTTATTCGACCCAACCTAAAACCCAAATTTCAAAAAAAAAAAAAAACAAACCCGTAGGATCAGA
* *
11135518 TCGGGTTGGATCGAGTCGAAATCCGTCAAGGATGAATTAAATTGTCAACCCTAAGAAATATATGG
196 TCGAGTTGGATCGAGTCGAAATCCGTCAAGGATGAATTAAATTATCAACCCTAAGAAATATATGG
*
11135583 AATAATCTTTTTCTACATCCCATTTTTGAACTTTGGAGGGCTTTAAAATGTGTGAAATTC
261 AATAATCCTTTTCTACATCCCATTTTTGAACTTTGGAGGGCTTTAAAATGTGTGAAATTC
* *
11135643 TTTAAAAATATCATTACATAAATATATATAAAAAATTAAATAATTAATAAAAAATAATTTTTTAT
1 TTTAAAAATATAATTACATAAATATATATAAAAAATTAAACAATTAATAAAAAATAATTTTTTAT
* *
11135708 ATAATATTGGGTTGGATCGAATTTATCTAAAATCTGAACCTGAATCGAGTTCGATTGTTTCATAA
66 ATAATATCGGGTTGGATCGAATTTATCTAAAATCTGAACCTGAATCGACTTCGATTGTTTCATAA
11135773 TCTTATTCGACCCAACCTAAAACCCAAATTTCAAAAAAAAAAAAAAACAAACCCGTAGGATCAGA
131 TCTTATTCGACCCAACCTAAAACCCAAATTTCAAAAAAAAAAAAAAACAAACCCGTAGGATCAGA
* * **
11135838 TCGAGTTGGGTCGAGTCGAAATCCTTTGAGGATGAATTAAATTATCAACCCTAAGAAATATATGG
196 TCGAGTTGGATCGAGTCGAAATCCGTCAAGGATGAATTAAATTATCAACCCTAAGAAATATATGG
*
11135903 AATAATCCTTTTCTACATCTCATTTTTGAACTTTGGAGGGCTTTAAAATGTGTGAAATTC
261 AATAATCCTTTTCTACATCCCATTTTTGAACTTTGGAGGGCTTTAAAATGTGTGAAATTC
11135963 T
1 T
11135964 CTTTTTTTTT
Statistics
Matches: 305, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
320 305 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.33
Consensus pattern (320 bp):
TTTAAAAATATAATTACATAAATATATATAAAAAATTAAACAATTAATAAAAAATAATTTTTTAT
ATAATATCGGGTTGGATCGAATTTATCTAAAATCTGAACCTGAATCGACTTCGATTGTTTCATAA
TCTTATTCGACCCAACCTAAAACCCAAATTTCAAAAAAAAAAAAAAACAAACCCGTAGGATCAGA
TCGAGTTGGATCGAGTCGAAATCCGTCAAGGATGAATTAAATTATCAACCCTAAGAAATATATGG
AATAATCCTTTTCTACATCCCATTTTTGAACTTTGGAGGGCTTTAAAATGTGTGAAATTC
Found at i:11145677 original size:37 final size:37
Alignment explanation
Indices: 11145633--11145704 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
11145623 TTTTCGAAAT
11145633 AAGATTTCCTTCCCCTTCCTATTCTTATACAAAATAA
1 AAGATTTCCTTCCCCTTCCTATTCTTATACAAAATAA
*
11145670 AAGATTTCCTTCCCCTTCCTATTCTTATGCAAAAT
1 AAGATTTCCTTCCCCTTCCTATTCTTATACAAAAT
11145705 GAAATCATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.29, C:0.28, G:0.04, T:0.39
Consensus pattern (37 bp):
AAGATTTCCTTCCCCTTCCTATTCTTATACAAAATAA
Found at i:11155734 original size:2 final size:2
Alignment explanation
Indices: 11155727--11155759 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11155717 AGCAACATAC
*
11155727 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11155760 AATAGGAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11155738 original size:12 final size:12
Alignment explanation
Indices: 11155723--11155759 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
11155713 ACATAGCAAC
11155723 ATACATATATAT
1 ATACATATATAT
11155735 ATACATATATAT
1 ATACATATATAT
*
11155747 ATATATATATAT
1 ATACATATATAT
11155759 A
1 A
11155760 AATAGGAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (12 bp):
ATACATATATAT
Found at i:11159597 original size:2 final size:2
Alignment explanation
Indices: 11159590--11159617 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11159580 CTCTTACCCC
11159590 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11159618 AAATACAAAA
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):
TA
Found at i:11165022 original size:252 final size:242
Alignment explanation
Indices: 11164580--11165065 Score: 731
Period size: 252 Copynumber: 2.0 Consensus size: 242
11164570 AATGACATGA
* * *
11164580 AAACTCTTATTAGATCTGTTTCTATAATTAGAGATGCCCAGCTGAAAAGTTGAAGGGAACCACTT
1 AAACTCTTATTAGATCTATTTCTATAAGTAGAGATGCCAAGCTGAAAAGTTGAAGGGAACCACTT
** *
11164645 GTTAAAGACATTGTTGGAGGAACATGGTCCTCTAGCCCTTTCTGATGTTTTTCTTTGTTTCTTCT
66 GTTAAAGACATTGTTGGAGGAACACAGTCCTCTAGCCCTTTCTGATGTTTTTCTTGGTTTCTTCT
*
11164710 TATGTTTTCCTTTGACTGCTCTCCATGAATATATTTTCCTTTCATAGAGGAATATTGCTATTAAA
131 TATGTTTTCCTTTGACTGCTCTCCATGAACATATTTTCCTTTCATAGAGGAATATTGCTA-T---
*
11164775 TACAATCTCAG-ATCTCAGACAATCTATGGAATGACTTTTGAAGAATGTACCACG
192 TAC-A---CAGAATCTCAGACAATCTATGAAATGACTTTTGAAGAATGTACCACG
* * *
11164829 AAACTCTTATTATATCTATTTCTATGAGTAGAGATGCCAAGCTTAAAAGTTGAAGGGAAACCACT
1 AAACTCTTATTAGATCTATTTCTATAAGTAGAGATGCCAAGCTGAAAAGTTGAAGGG-AACCACT
* *
11164894 TGTTGAAGGATATTGTTGGAGGAACACAGTCCTCTAGCCCTTTCTGATGTTTTTCTTGGGTTTCT
65 TGTT-AAAGACATTGTTGGAGGAACACAGTCCTCTAGCCCTTTCTGATGTTTTTCTT-GGTTTCT
* *
11164959 TTTTATGTTTTCCTTTGACTTCTCTCCATGAACATATTTTCCTTTCATAGAGGAATATTGCTATT
128 TCTTATGTTTTCCTTTGACTGCTCTCCATGAACATATTTTCCTTTCATAGAGGAATATTGCTATT
11165024 ACACAGAATCTCAGACAATCTATGAAATGACTTTTGAAGAAT
193 ACACAGAATCTCAGACAATCTATGAAATGACTTTTGAAGAAT
11165066 TAATAACAAA
Statistics
Matches: 218, Mismatches: 15, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
244 3 0.01
245 34 0.16
247 1 0.00
248 3 0.01
249 51 0.23
250 11 0.05
251 49 0.22
252 66 0.30
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (242 bp):
AAACTCTTATTAGATCTATTTCTATAAGTAGAGATGCCAAGCTGAAAAGTTGAAGGGAACCACTT
GTTAAAGACATTGTTGGAGGAACACAGTCCTCTAGCCCTTTCTGATGTTTTTCTTGGTTTCTTCT
TATGTTTTCCTTTGACTGCTCTCCATGAACATATTTTCCTTTCATAGAGGAATATTGCTATTACA
CAGAATCTCAGACAATCTATGAAATGACTTTTGAAGAATGTACCACG
Found at i:11167243 original size:34 final size:34
Alignment explanation
Indices: 11167204--11167305 Score: 145
Period size: 34 Copynumber: 3.1 Consensus size: 34
11167194 ATCTTCTATC
11167204 TTCTTTTCTCCATTTTTCTTTCCCATCCACCTAA
1 TTCTTTTCTCCATTTTTCTTTCCCATCCACCTAA
11167238 TTCTTTTCTCCATTTTTC-TT-CCATCCACCTAA
1 TTCTTTTCTCCATTTTTCTTTCCCATCCACCTAA
* * * * *
11167270 TTCTTTTCTCTATTTCTCTTTCGCATTCGCCTAA
1 TTCTTTTCTCCATTTTTCTTTCCCATCCACCTAA
11167304 TT
1 TT
11167306 TGCTTGGATA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
32 28 0.46
33 4 0.07
34 29 0.48
ACGTcount: A:0.14, C:0.32, G:0.02, T:0.52
Consensus pattern (34 bp):
TTCTTTTCTCCATTTTTCTTTCCCATCCACCTAA
Found at i:11167267 original size:32 final size:33
Alignment explanation
Indices: 11167204--11167289 Score: 138
Period size: 32 Copynumber: 2.6 Consensus size: 33
11167194 ATCTTCTATC
11167204 TTCTTTTCTCCATTTTTCTTTCCCATCCACCTAA
1 TTCTTTTCTCCATTTTTC-TTCCCATCCACCTAA
11167238 TTCTTTTCTCCATTTTTCTT-CCATCCACCTAA
1 TTCTTTTCTCCATTTTTCTTCCCATCCACCTAA
* *
11167270 TTCTTTTCTCTATTTCTCTT
1 TTCTTTTCTCCATTTTTCTT
11167290 TCGCATTCGC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
32 30 0.60
33 2 0.04
34 18 0.36
ACGTcount: A:0.13, C:0.33, G:0.00, T:0.55
Consensus pattern (33 bp):
TTCTTTTCTCCATTTTTCTTCCCATCCACCTAA
Found at i:11184244 original size:81 final size:81
Alignment explanation
Indices: 11184139--11184355 Score: 283
Period size: 81 Copynumber: 2.7 Consensus size: 81
11184129 TTTCACCTAT
* * *
11184139 ATTAAATCCCTCAATAGACCCTAAACCTTCAACATTAACATT-ATTAGCATCATTAACTTCATTC
1 ATTAAATCCCTCAACAGACCCTAAACCTTCAACAGTAAC-TTAATTAACATCATTAACTTCATTC
11184203 ACATTCACTTCACTTGC
65 ACATTCACTTCACTTGC
* * * * *
11184220 ATTAAATCCCTTAACAGACACTAAACCCTCAACAGTAACTTAATTAACGTCATTAACTTGATTCA
1 ATTAAATCCCTCAACAGACCCTAAACCTTCAACAGTAACTTAATTAACATCATTAACTTCATTCA
* *
11184285 CATTGACTTCCCTTGC
66 CATTCACTTCACTTGC
* * * * *
11184301 ATTACATCCCTCAACAGACCCTACACCTTCAATAGTAACTTCATTATCATCATTA
1 ATTAAATCCCTCAACAGACCCTAAACCTTCAACAGTAACTTAATTAACATCATTA
11184356 GCATCATTAA
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 2 0.02
81 114 0.98
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.32
Consensus pattern (81 bp):
ATTAAATCCCTCAACAGACCCTAAACCTTCAACAGTAACTTAATTAACATCATTAACTTCATTCA
CATTCACTTCACTTGC
Found at i:11186090 original size:23 final size:23
Alignment explanation
Indices: 11186054--11186103 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
11186044 ATTTTGGGTT
**
11186054 GAAAATATGGGATTCAAATCCCA
1 GAAAATATAAGATTCAAATCCCA
**
11186077 GAAAATATAAGATTTGAATCCCA
1 GAAAATATAAGATTCAAATCCCA
11186100 -AAAA
1 GAAAA
11186104 GCTCTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (23 bp):
GAAAATATAAGATTCAAATCCCA
Found at i:11186178 original size:14 final size:14
Alignment explanation
Indices: 11186152--11186200 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 14
11186142 AGAGGGGTAG
11186152 AAAAATTTACAAAAA
1 AAAAATTT-CAAAAA
11186167 AAAAATTTCAAAAA
1 AAAAATTTCAAAAA
11186181 AAAAACTTTCTATAAAA
1 AAAAA-TTTC-A-AAAA
11186198 AAA
1 AAA
11186201 GATACCCTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.35
15 12 0.39
16 1 0.03
17 7 0.23
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATTTCAAAAA
Found at i:11186979 original size:24 final size:23
Alignment explanation
Indices: 11186928--11186980 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
11186918 TTATTCTTAA
* *
11186928 TATTTATGCATGTTAATTATTAC
1 TATTTATGCATATTAAATATTAC
11186951 TATTTATGCATATTAAAATATTTAC
1 TATTTATGCATATT-AAATA-TTAC
11186976 -ATTTA
1 TATTTA
11186981 CTAGAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 13 0.50
24 9 0.35
25 4 0.15
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.51
Consensus pattern (23 bp):
TATTTATGCATATTAAATATTAC
Found at i:11188095 original size:23 final size:22
Alignment explanation
Indices: 11188056--11188102 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
11188046 TTTCACTTTT
* *
11188056 AACAAAAAAAAGTAAAAGAAAA
1 AACAAAAAAAAGCAAAAAAAAA
11188078 AACAAATAAAAAGCAAAAAAAAA
1 AACAAA-AAAAAGCAAAAAAAAA
11188101 AA
1 AA
11188103 ATTTCCCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.83, C:0.06, G:0.06, T:0.04
Consensus pattern (22 bp):
AACAAAAAAAAGCAAAAAAAAA
Found at i:11199216 original size:97 final size:98
Alignment explanation
Indices: 11199097--11199814 Score: 479
Period size: 97 Copynumber: 7.3 Consensus size: 98
11199087 TTTCAAGAAT
*
11199097 AGAT-AAA-TTTTAAAGTTGTTGAACATCTGTTGAGAGGAGCTTTTTTCAAGAT-AAATTTTAAA
1 AGATGAAATTTTTAAAGTTGTTGAACATCTGTTGAAAGGAGCTTTTTTCAAGATGAAATTTTAAA
* * * * *
11199159 GTTGTTAAATCTCTGCTCAAAGAAATTTTTTTA
66 GTTGTTGAATCTCTGCTGAGAGAAACTTTTTCA
* * ** * *
11199192 AGATGAAATTTTTAAAGTTATTGAACCTCTGTTGAAAAAAGC-TTTTTCAAAATGAGATTTTTAA
1 AGATGAAATTTTTAAAGTTGTTGAACATCTGTTGAAAGGAGCTTTTTTCAAGATGA-AATTTTAA
* * ** *
11199256 AATTATTGAGCCTCTGCTTAGAGAAACTTTTTCA
65 AGTTGTTGAATCTCTGCTGAGAGAAACTTTTTCA
* * * * * * * ** *
11199290 ATAT-AATATTTTTAAAGTTATTGAGCTTTTGCTGAGA-GAAATTTTTTCAAGATGAGATTTTAA
1 AGATGAA-ATTTTTAAAGTTGTTGAACATCTGTTGAAAGGAGCTTTTTTCAAGATGAAATTTTAA
* * * *
11199353 AGTTGTTTAGTCTCTGTTGAGAGGAACTTTTTCA
65 AGTTGTTGAATCTCTGCTGAGAGAAACTTTTTCA
* * * **
11199387 AGATGAGATTTTTAAAGTTGTTGAACCTCTGTTTAAAGGAGCTTTTTAT-AA-AAAAAATTTTAA
1 AGATGAAATTTTTAAAGTTGTTGAACATCTGTTGAAAGGAGCTTTTT-TCAAGATGAAATTTTAA
** *
11199450 AGTTGTTGACCCTCTACTGAGA-AAAGCTTTTTCA
65 AGTTGTTGAATCTCTGCTGAGAGAAA-CTTTTTCA
* * *
11199484 AGATGAAAATTTCTTTAAAGTTGTTGAACTTCTACTT-AAAGGAGC--TTTTCGAAGATGATGAT
1 AGATG-AAA-TT-TTTAAAGTTGTTGAACATCT-GTTGAAAGGAGCTTTTTTC-AAGATGA--AA
* * * *
11199546 TTTTAAAATTGTTGAATCTCTGCTTAGAGGAGC-TTTTCTA
59 TTTTAAAGTTGTTGAATCTCTGCTGAGAGAAACTTTTTC-A
* ** * * *
11199586 ATATGATGAA-TTTTAAAGTTGTTGAACATCTACTGAGATGAGCTTTTTTAGAATGAT-AAATTT
1 AGATGA--AATTTTTAAAGTTGTTGAACATCTGTTGAAAGGAGCTTTTTT-CAA-GATGAAATTT
* * * * *
11199649 TAAAGTT-ATCAAGCCTCTGCTTAGAGGAAC-TTTTCTA
62 TAAAGTTGTTGAA-TCTCTGCTGAGAGAAACTTTTTC-A
* * * * * * * * *
11199686 AAATGAGATTTTTTAAGTTGTTGAACCTTTATTTAAAAGAGC-TTTTTCAAGATGAGATTTTTTA
1 AGATGAAATTTTTAAAGTTGTTGAACATCTGTTGAAAGGAGCTTTTTTCAAGATGA-A-ATTTTA
* *
11199750 AA-TTGTTGAA-CTTCTGCTGAGAGAAGCTTTTCCA
64 AAGTTGTTGAATC-TCTGCTGAGAGAAACTTTTTCA
11199784 AGAT-AAGATTTTTAAAGTTGTTGAACATCTG
1 AGATGAA-ATTTTTAAAGTTGTTGAACATCTG
11199815 CTTAGAAGAG
Statistics
Matches: 482, Mismatches: 104, Indels: 71
0.73 0.16 0.11
Matches are distributed among these distances:
95 4 0.01
96 18 0.04
97 136 0.28
98 132 0.27
99 49 0.10
100 91 0.19
101 9 0.02
102 37 0.08
103 6 0.01
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (98 bp):
AGATGAAATTTTTAAAGTTGTTGAACATCTGTTGAAAGGAGCTTTTTTCAAGATGAAATTTTAAA
GTTGTTGAATCTCTGCTGAGAGAAACTTTTTCA
Found at i:11199577 original size:50 final size:47
Alignment explanation
Indices: 11199104--11199829 Score: 372
Period size: 49 Copynumber: 14.8 Consensus size: 47
11199094 AATAGATAAA
*
11199104 TTTTAAAGTTGTTGAACATCTG-TTGAGAGGAGCTTTTTTCAAGAT-A-AA
1 TTTTAAAGTTGTTGAAC-TCTGCTT-AGAGGAGC--TTTTCAAGATGAGAT
* * * * ** * *
11199152 TTTTAAAGTTGTTAAATCTCTGCTCAAAGAAATTTTTTTAAGATGAAAT
1 TTTTAAAGTTGTTGAA-CTCTGCTTAGAG-GAGCTTTTCAAGATGAGAT
* * ** *
11199201 TTTTAAAGTTATTGAACCTCTG-TTGAAAAAAGCTTTTTCAAAATGAGAT
1 TTTTAAAGTTGTTGAA-CTCTGCTT-AGAGGAGC-TTTTCAAGATGAGAT
* * * * * * * *
11199250 TTTTAAAATTATTGAGCCTCTGCTTAGAGAAACTTTTTCAATATAATAT
1 TTTTAAAGTTGTTGA-ACTCTGCTTAGAGGAGC-TTTTCAAGATGAGAT
* * * * * **
11199299 TTTTAAAGTTATTGAGCTTTTGCTGAGAGAAATTTTTTCAAGATGAGA-
1 TTTTAAAGTTGTTGAAC-TCTGCTTAGAG-GAGCTTTTCAAGATGAGAT
* * *
11199347 TTTTAAAGTTGTTTAGTCTCTG-TTGAGAGGAACTTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGA-ACTCTGCTT-AGAGGAGC-TTTTCAAGATGAGAT
* * * ** * *
11199396 TTTTAAAGTTGTTGAACCTCTGTTTAAAGGAGCTTTTTATA-AAAAAAA
1 TTTTAAAGTTGTTGAA-CTCTGCTTAGAGGAGCTTTTCA-AGATGAGAT
* * * ** *
11199444 TTTTAAAGTTGTTGACCCTCTACTGAGAAAAGCTTTTTCAAGATGAAAATT
1 TTTTAAAGTTGTTGA-ACTCTGCTTAGAGGAGC-TTTTCAAGATG-AGA-T
* *
11199495 TCTTTAAAGTTGTTGAACTTCTACTTAAAGGAGCTTTTCGAAGATGATGAT
1 T-TTTAAAGTTGTTGAAC-TCTGCTTAGAGGAGCTTTTC-AAGATGA-GAT
* * *
11199546 TTTTAAAATTGTTGAATCTCTGCTTAGAGGAGCTTTTCTAATATGATGAA
1 TTTTAAAGTTGTTGAA-CTCTGCTTAGAGGAGCTTTTC-AAGATGA-GAT
* * * ** * *
11199596 TTTTAAAGTTGTTGAACATCTACTGAGATGAGCTTTTTTAGAATGATAAA
1 TTTTAAAGTTGTTGAAC-TCTGCTTAGAGGAGCTTTTCAAG-ATGA-GAT
* * * *
11199646 TTTTAAAGTT-ATCAAGCCTCTGCTTAGAGGAACTTTTCTAAAATGAGAT
1 TTTTAAAGTTGTTGAA--CTCTGCTTAGAGGAGCTTTTC-AAGATGAGAT
* * ** * *
11199695 TTTTTAAGTTGTTGAACCTTTATTTAAAAGAGCTTTTTCAAGATGAGATT
1 TTTTAAAGTTGTTGAA-CTCTGCTTAGAGGAGC-TTTTCAAGATGAGA-T
* * *
11199745 TTTTAAA-TTGTTGAACTTCTGCTGAGAGAAGCTTTTCCAAGATAAGAT
1 TTTTAAAGTTGTTGAAC-TCTGCTTAGAGGAGCTTTT-CAAGATGAGAT
* *
11199793 TTTTAAAGTTGTTGAACATCTGCTTAGAAGAGTTTTT
1 TTTTAAAGTTGTTGAAC-TCTGCTTAGAGGAGCTTTT
11199830 TTAAAAATTT
Statistics
Matches: 521, Mismatches: 118, Indels: 77
0.73 0.16 0.11
Matches are distributed among these distances:
47 11 0.02
48 108 0.21
49 225 0.43
50 132 0.25
51 13 0.02
52 32 0.06
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (47 bp):
TTTTAAAGTTGTTGAACTCTGCTTAGAGGAGCTTTTCAAGATGAGAT
Found at i:11199601 original size:100 final size:97
Alignment explanation
Indices: 11199185--11199829 Score: 335
Period size: 100 Copynumber: 6.5 Consensus size: 97
11199175 TCAAAGAAAT
* * * * * * * *
11199185 TTTTTTAAGATGAAATTTTTAAAGTTATTGAACCTCT-GTTGAAAAAAGCTTTTTCAAAATGA-G
1 TTTTCTAAAATGAGATTTTTAAAGTTGTTGAACATCTACTT-AAAAGAGC-TTTTCAAGATGATG
* * * *
11199248 ATTTTTAAAATTATTGAGCCTCTGCTTAGAGAAAC
64 ATTTTTAAAATTGTTGA-ACTCTGCTTAGAGGAGC
* * * * * * * * * **
11199283 TTTT-TCAATATAATATTTTTAAAGTTATTGAGCTTTTGCTGAGAGAA-ATTTTTTCAAGATGA-
1 TTTTCT-AAAATGAGATTTTTAAAGTTGTTGAACATCTACTTA-A-AAGAGCTTTTCAAGATGAT
* * * *
11199345 GA-TTTTAAAGTTGTTTAGTCTCTG-TTGAGAGGAAC
63 GATTTTTAAAATTGTTGA-ACTCTGCTT-AGAGGAGC
* * ** * * * **
11199380 TTTT-TCAAGATGAGATTTTTAAAGTTGTTGAACCTCTGTTTAAAGGAGCTTTTTATA-A-AAAA
1 TTTTCT-AAAATGAGATTTTTAAAGTTGTTGAACATCTACTTAAAAGAGCTTTTCA-AGATGATG
* * * * * **
11199442 AATTTTAAAGTTGTTGACCCTCTACTGAGAAAAGC
64 ATTTTTAAAATTGTTGA-ACTCTGCTTAGAGGAGC
* * * *
11199477 TTTT-TCAAGATGAAAATTTCTTTAAAGTTGTTGAACTTCTACTTAAAGGAGCTTTTCGAAGATG
1 TTTTCT-AAAATG-AGA-TT-TTTAAAGTTGTTGAACATCTACTTAAAAGAGCTTTTC-AAGATG
11199541 ATGATTTTTAAAATTGTTGAATCTCTGCTTAGAGGAGC
61 ATGATTTTTAAAATTGTTGAA-CTCTGCTTAGAGGAGC
* * * * * ** *
11199579 TTTTCTAATATGATGAATTTTAAAGTTGTTGAACATCTACTGAGATGAGCTTTTTTAGAATGATA
1 TTTTCTAAAATGA-GATTTTTAAAGTTGTTGAACATCTACTTAAAAGAGCTTTTCAAG-ATGATG
* * * * *
11199644 AATTTTAAAGTT-ATCAAGCCTCTGCTTAGAGGAAC
64 ATTTTTAAAATTGTTGAA--CTCTGCTTAGAGGAGC
* * * *
11199679 TTTTCTAAAATGAGATTTTTTAAGTTGTTGAACCTTTATTTAAAAGAGCTTTTTCAAGATGA-GA
1 TTTTCTAAAATGAGATTTTTAAAGTTGTTGAACATCTACTTAAAAGAGC-TTTTCAAGATGATGA
* * *
11199743 TTTTTTAAATTGTTGAACTTCTGCTGAGAGAAGC
65 TTTTTAAAATTGTTGAAC-TCTGCTTAGAGGAGC
* * * * * *
11199777 TTTTCCAAGATAAGATTTTTAAAGTTGTTGAACATCTGCTTAGAAGAGTTTTT
1 TTTTCTAAAATGAGATTTTTAAAGTTGTTGAACATCTACTTAAAAGAGCTTTT
11199830 TTAAAAATTT
Statistics
Matches: 423, Mismatches: 100, Indels: 49
0.74 0.17 0.09
Matches are distributed among these distances:
95 2 0.00
96 11 0.03
97 100 0.24
98 106 0.25
99 45 0.11
100 116 0.27
101 4 0.01
102 38 0.09
103 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (97 bp):
TTTTCTAAAATGAGATTTTTAAAGTTGTTGAACATCTACTTAAAAGAGCTTTTCAAGATGATGAT
TTTTAAAATTGTTGAACTCTGCTTAGAGGAGC
Found at i:11200304 original size:23 final size:23
Alignment explanation
Indices: 11200257--11200306 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
11200247 TTTTAGGTTG
* *
11200257 AAAATATGATATTTAAATCTCAA
1 AAAATATGAGATTTAAATCTAAA
* *
11200280 AAAATATGAGATTTGAATTTAAA
1 AAAATATGAGATTTAAATCTAAA
11200303 AAAA
1 AAAA
11200307 CTCTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (23 bp):
AAAATATGAGATTTAAATCTAAA
Found at i:11201147 original size:29 final size:29
Alignment explanation
Indices: 11201114--11201175 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
11201104 TTTTGTTATT
*
11201114 TTAATTATTATTCTTAATATTTATGCATG
1 TTAATTATTATTCTTAATATTTATACATG
11201143 TTAATTATTATTCTTAATATTTATACATG
1 TTAATTATTATTCTTAATATTTATACATG
11201172 TTAA
1 TTAA
11201176 AATGTTTACA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (29 bp):
TTAATTATTATTCTTAATATTTATACATG
Found at i:11208650 original size:13 final size:13
Alignment explanation
Indices: 11208632--11208656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11208622 TCTGTTTCCT
11208632 TAAAAATAAAAAA
1 TAAAAATAAAAAA
11208645 TAAAAATAAAAA
1 TAAAAATAAAAA
11208657 TACAGTAACT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:11218024 original size:2 final size:2
Alignment explanation
Indices: 11218017--11218047 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11218007 TTGAAATAGC
11218017 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11218048 AATAGGTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11219160 original size:24 final size:24
Alignment explanation
Indices: 11219128--11219177 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
11219118 AAACAGGAAA
11219128 ACTGCTGATATCCCTGTCAGCTGT
1 ACTGCTGATATCCCTGTCAGCTGT
11219152 ACTGCTGATATCCCTGTCAGCTGT
1 ACTGCTGATATCCCTGTCAGCTGT
11219176 AC
1 AC
11219178 GTCCGCGCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (24 bp):
ACTGCTGATATCCCTGTCAGCTGT
Found at i:11219770 original size:103 final size:103
Alignment explanation
Indices: 11219591--11219798 Score: 416
Period size: 103 Copynumber: 2.0 Consensus size: 103
11219581 CTTTCAATTT
11219591 GAAACCATCTTTGCACAATCATCCTCACAAAAAGAATATCAAGGAACAGATGTATCTTAAGTTCT
1 GAAACCATCTTTGCACAATCATCCTCACAAAAAGAATATCAAGGAACAGATGTATCTTAAGTTCT
11219656 ATAGATGCCAGATGGATCAGCATTCTGAACAATCCATG
66 ATAGATGCCAGATGGATCAGCATTCTGAACAATCCATG
11219694 GAAACCATCTTTGCACAATCATCCTCACAAAAAGAATATCAAGGAACAGATGTATCTTAAGTTCT
1 GAAACCATCTTTGCACAATCATCCTCACAAAAAGAATATCAAGGAACAGATGTATCTTAAGTTCT
11219759 ATAGATGCCAGATGGATCAGCATTCTGAACAATCCATG
66 ATAGATGCCAGATGGATCAGCATTCTGAACAATCCATG
11219797 GA
1 GA
11219799 TGCTCAAGAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (103 bp):
GAAACCATCTTTGCACAATCATCCTCACAAAAAGAATATCAAGGAACAGATGTATCTTAAGTTCT
ATAGATGCCAGATGGATCAGCATTCTGAACAATCCATG
Found at i:11223618 original size:23 final size:23
Alignment explanation
Indices: 11223592--11223646 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
11223582 TTAGGGTAGT
11223592 TTGTGATAATACATCATTTATCA
1 TTGTGATAATACATCATTTATCA
*
11223615 TTGTGATAATACATCATTTATTA
1 TTGTGATAATACATCATTTATCA
*
11223638 TTATGATAA
1 TTGTGATAA
11223647 ACCATATCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (23 bp):
TTGTGATAATACATCATTTATCA
Found at i:11227636 original size:40 final size:39
Alignment explanation
Indices: 11227590--11227685 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 39
11227580 TCTTTTTGCC
*
11227590 TTTTGGATATAATCAAGAAAATGATAGCTTTTTGTTGACA
1 TTTTGGATGTAATCAAGAAAATGATAGC-TTTTGTTGACA
* * *
11227630 TTTTGGATGTAAATTAAGAATATGATAGCTTTTGTTGCCA
1 TTTTGGATGT-AATCAAGAAAATGATAGCTTTTGTTGACA
*
11227670 TTTTGAATGTAATCAA
1 TTTTGGATGTAATCAA
11227686 CAATTAAGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
39 5 0.10
40 28 0.57
41 16 0.33
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (39 bp):
TTTTGGATGTAATCAAGAAAATGATAGCTTTTGTTGACA
Found at i:11227900 original size:23 final size:22
Alignment explanation
Indices: 11227868--11227917 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
11227858 GATCAAGTCT
*
11227868 AAAAGATCATAAATCAATAGCC
1 AAAATATCATAAATCAATAGCC
* *
11227890 ATAAATATCATGAATCAGTAGCC
1 A-AAATATCATAAATCAATAGCC
11227913 AAAAT
1 AAAAT
11227918 TAAATCTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.52, C:0.16, G:0.10, T:0.22
Consensus pattern (22 bp):
AAAATATCATAAATCAATAGCC
Found at i:11229144 original size:3 final size:3
Alignment explanation
Indices: 11229130--11229163 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11229120 TGAAAAACAA
11229130 AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11229164 AAGTCTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11229820 original size:40 final size:42
Alignment explanation
Indices: 11229763--11229843 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 42
11229753 ATATTTTCAT
* *
11229763 GATTACTTTTCTGTACTTGATTCATT-ATT-TTTTTTTTTAA
1 GATTACTTTTCTATACTTGATTAATTAATTATTTTTTTTTAA
11229803 GATTACTTTTCTATACTTGATTAATTAATTAATTTTTTTTT
1 GATTACTTTTCTATACTTGATTAATTAATT-ATTTTTTTTT
11229844 GAAGTGCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 24 0.67
41 3 0.08
43 9 0.25
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (42 bp):
GATTACTTTTCTATACTTGATTAATTAATTATTTTTTTTTAA
Found at i:11230663 original size:23 final size:26
Alignment explanation
Indices: 11230614--11230663 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
11230604 TTAATAAATT
11230614 TTTACTAAAAATATATATCAAATATA
1 TTTACTAAAAATATATATCAAATATA
*
11230640 TTTA-TAAAAAT-TATCT-AAATATA
1 TTTACTAAAAATATATATCAAATATA
11230663 T
1 T
11230664 AAGATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 4 0.17
25 7 0.30
26 4 0.17
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (26 bp):
TTTACTAAAAATATATATCAAATATA
Found at i:11237188 original size:2 final size:2
Alignment explanation
Indices: 11237181--11237217 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11237171 TCATATGCAT
11237181 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
11237218 TGCATATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:11238462 original size:22 final size:22
Alignment explanation
Indices: 11238427--11238470 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11238417 AATCTGTATA
11238427 TATTTGCATCCCTAGAAATAAG
1 TATTTGCATCCCTAGAAATAAG
* * *
11238449 TATTTGTATTCCTAGAATTAAG
1 TATTTGCATCCCTAGAAATAAG
11238471 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TATTTGCATCCCTAGAAATAAG
Found at i:11253416 original size:28 final size:27
Alignment explanation
Indices: 11253345--11253416 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
11253335 AGTGAATAAT
** * *
11253345 ATATTAATTAATAAATTTATAATTTTA
1 ATATTAATTAATATTTTTAAAATTTAA
* *
11253372 ATATCACATTAAAATTTTTAAAATTTAA
1 ATATTA-ATTAATATTTTTAAAATTTAA
11253400 ATATTATATTAATATTT
1 ATATTA-ATTAATATTT
11253417 CACTATAATT
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
27 5 0.14
28 30 0.86
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTAATTAATATTTTTAAAATTTAA
Done.