Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 89
Found at i:9505982 original size:9 final size:9
Alignment explanation
Indices: 9505968--9506000 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
9505958 TTGAAAAACT
9505968 TAAAATAAA
1 TAAAATAAA
9505977 TAAAATAAA
1 TAAAATAAA
9505986 TAAAATAAA
1 TAAAATAAA
9505995 TGAAAA
1 T-AAAA
9506001 CTTGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
TAAAATAAA
Found at i:9508539 original size:19 final size:19
Alignment explanation
Indices: 9508497--9508550 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
9508487 AAATCAAAGA
* *
9508497 AAAAAATAAAAAT-AAATT
1 AAAAAATAAAATTGAAAAT
9508515 AGAAAAATAAAATTGAAAAT
1 A-AAAAATAAAATTGAAAAT
9508535 -AAAAATAAGAATTGAA
1 AAAAAATAA-AATTGAA
9508551 CAAACGGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.29
19 18 0.58
20 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (19 bp):
AAAAAATAAAATTGAAAAT
Found at i:9511450 original size:16 final size:16
Alignment explanation
Indices: 9511412--9511451 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
9511402 TAAAAAAATA
9511412 AAAATAAAAATAAGAT
1 AAAATAAAAATAAGAT
* * *
9511428 GAGATAAGAATAAGAT
1 AAAATAAAAATAAGAT
9511444 AAAATAAA
1 AAAATAAA
9511452 GGGATTTTAA
Statistics
Matches: 18, Mismatches: 6, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (16 bp):
AAAATAAAAATAAGAT
Found at i:9512775 original size:16 final size:16
Alignment explanation
Indices: 9512754--9512790 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9512744 TTAAAGTTAT
*
9512754 GAAAAGTATATGAAAA
1 GAAAAGAATATGAAAA
9512770 GAAAAGAATATGAAAA
1 GAAAAGAATATGAAAA
*
9512786 TAAAA
1 GAAAA
9512791 TAAAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (16 bp):
GAAAAGAATATGAAAA
Found at i:9514097 original size:20 final size:20
Alignment explanation
Indices: 9514072--9514117 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
9514062 ATCCTGATAG
*
9514072 CGATACCATCCC-ATAGGTAT
1 CGATACCAACCCTATA-GTAT
9514092 CGATACCAACCCTATAGTAT
1 CGATACCAACCCTATAGTAT
*
9514112 CAATAC
1 CGATAC
9514118 TTCAATCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.24
Consensus pattern (20 bp):
CGATACCAACCCTATAGTAT
Found at i:9520635 original size:17 final size:17
Alignment explanation
Indices: 9520613--9520678 Score: 89
Period size: 17 Copynumber: 3.8 Consensus size: 17
9520603 TATATATTAT
9520613 AAGAAGAAAAAAAACAG
1 AAGAAGAAAAAAAACAG
*
9520630 AAGAAGAAAAAAAATAG
1 AAGAAGAAAAAAAACAG
*
9520647 AAAAAGAAAATGAAAAC-G
1 AAGAAGAAAA--AAAACAG
9520665 AAGAAGAAAAAAAA
1 AAGAAGAAAAAAAA
9520679 TGAAAATGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
16 4 0.09
17 25 0.58
18 10 0.23
19 4 0.09
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (17 bp):
AAGAAGAAAAAAAACAG
Found at i:9520654 original size:6 final size:6
Alignment explanation
Indices: 9520616--9520708 Score: 61
Period size: 6 Copynumber: 16.3 Consensus size: 6
9520606 ATATTATAAG
* * * *
9520616 AAGAAA AA-AAA CAGAAG AAGAAA AA-AAA TAGAAA AAGAAA ATGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
* * * * * *
9520662 ACGAAG AAG-AA AA-AAA ATGAAA ATGAGA AAG-AA AAGAAA GAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
9520707 AA
1 AA
9520709 AAATGAGAAA
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
5 18 0.28
6 47 0.72
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:9520670 original size:35 final size:34
Alignment explanation
Indices: 9520616--9520727 Score: 124
Period size: 35 Copynumber: 3.2 Consensus size: 34
9520606 ATATTATAAG
9520616 AAGAAAA-AAAACAGAAGAAGAAAAAAAATAGAAA
1 AAGAAAAGAAAAC-GAAGAAGAAAAAAAATAGAAA
9520650 AAGAAAATGAAAACGAAGAAGAAAAAAAAT-GAAA
1 AAGAAAA-GAAAACGAAGAAGAAAAAAAATAGAAA
*
9520684 ATGAGAAAGAAAA-GAA-AGAGAAAAAAAATGAGAAA
1 AAGA-AAAGAAAACGAAGA-AGAAAAAAAAT-AGAAA
9520719 TGAAGAAAA
1 --AAGAAAA
9520728 AAGAATATTT
Statistics
Matches: 68, Mismatches: 2, Indels: 14
0.81 0.02 0.17
Matches are distributed among these distances:
32 1 0.01
33 14 0.21
34 19 0.28
35 23 0.34
36 8 0.12
37 3 0.04
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (34 bp):
AAGAAAAGAAAACGAAGAAGAAAAAAAATAGAAA
Found at i:9520675 original size:34 final size:33
Alignment explanation
Indices: 9520616--9520714 Score: 123
Period size: 34 Copynumber: 2.9 Consensus size: 33
9520606 ATATTATAAG
9520616 AAGAAAA-AAAACAGAAGAAGAAAAAAAATAGAAA
1 AAGAAAAGAAAAC-GAAGAAGAAAAAAAAT-GAAA
9520650 AAGAAAATGAAAACGAAGAAGAAAAAAAATGAAA
1 AAGAAAA-GAAAACGAAGAAGAAAAAAAATGAAA
*
9520684 ATGAGAAAGAAAA-GAA-AGAGAAAAAAAATGA
1 AAGA-AAAGAAAACGAAGA-AGAAAAAAAATGA
9520715 GAAATGAAGA
Statistics
Matches: 60, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
32 1 0.02
33 16 0.27
34 19 0.32
35 19 0.32
36 5 0.08
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (33 bp):
AAGAAAAGAAAACGAAGAAGAAAAAAAATGAAA
Found at i:9520690 original size:18 final size:18
Alignment explanation
Indices: 9520669--9520729 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
9520659 AAAACGAAGA
9520669 AGAAAAAAAATGAAAATG
1 AGAAAAAAAATGAAAATG
*
9520687 AGAAAGAAAA-G-AAA-G
1 AGAAAAAAAATGAAAATG
9520702 AGAAAAAAAATGAGAAATG
1 AGAAAAAAAATGA-AAATG
9520721 AAGAAAAAA
1 -AGAAAAAA
9520730 GAATATTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 10 0.28
16 4 0.11
17 1 0.03
18 12 0.33
19 1 0.03
20 8 0.22
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.07
Consensus pattern (18 bp):
AGAAAAAAAATGAAAATG
Found at i:9520693 original size:22 final size:23
Alignment explanation
Indices: 9520648--9520700 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
9520638 AAAAAATAGA
9520648 AAAAGAAAATGAAAACGAAGAAG
1 AAAAGAAAATGAAAACGAAGAAG
*
9520671 AAAA-AAAATGAAAATG-AGAAAG
1 AAAAGAAAATGAAAACGAAG-AAG
9520693 AAAAGAAA
1 AAAAGAAA
9520701 GAGAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 18 0.67
23 7 0.26
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.06
Consensus pattern (23 bp):
AAAAGAAAATGAAAACGAAGAAG
Found at i:9520732 original size:33 final size:33
Alignment explanation
Indices: 9520634--9520726 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 33
9520624 AAACAGAAGA
*
9520634 AGAAAAAAAATAGAAAAAGA-AAATGAAAACG-AAG
1 AGAAAAAAAAT-GAAAATGAGAAA-GAAAA-GAAAG
9520668 AAGAAAAAAAATGAAAATGAGAAAGAAAAGAAAG
1 -AGAAAAAAAATGAAAATGAGAAAGAAAAGAAAG
9520702 AGAAAAAAAATGAGAAATGAAGAAA
1 AGAAAAAAAATGA-AAATG-AGAAA
9520727 AAAGAATATT
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
33 14 0.26
34 20 0.38
35 19 0.36
ACGTcount: A:0.73, C:0.01, G:0.19, T:0.06
Consensus pattern (33 bp):
AGAAAAAAAATGAAAATGAGAAAGAAAAGAAAG
Found at i:9524727 original size:59 final size:59
Alignment explanation
Indices: 9524628--9524764 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 59
9524618 CAACAGGCTG
** * *
9524628 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** *
9524687 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
9524746 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
9524765 CGGTGCTTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 1 0.02
59 64 0.98
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:9524959 original size:47 final size:45
Alignment explanation
Indices: 9524865--9524986 Score: 174
Period size: 47 Copynumber: 2.7 Consensus size: 45
9524855 GTAAGCATAC
* *
9524865 AAATAAGCTTACGAGCTTTTGGAA-TAATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATTAATGGAAAGTATATGGGTA
* *
9524909 AAATAAGCTTACGAGCTTATGGAATTTAAATGGAAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA-TT-AATGGAAAGTATATGGGTA
*
9524956 AAATAAGCTTACGAGCTTATGGAATAAATGG
1 AAATAAGCTTACGAGCTTATGGAATTAATGG
9524987 TAAGGGATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 23 0.33
45 5 0.07
46 2 0.03
47 40 0.57
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATTAATGGAAAGTATATGGGTA
Found at i:9525943 original size:29 final size:29
Alignment explanation
Indices: 9525881--9525949 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
9525871 AATTTTTCAA
* * ** *
9525881 CATTTCAATTTCAGTTCTTTAATTTTTAG
1 CATTTAAATTTCAGTCCTTTAAACTCTAG
* *
9525910 TATTTACATTTCAGTCCTTTAAACTCTAG
1 CATTTAAATTTCAGTCCTTTAAACTCTAG
9525939 CATTTAAATTT
1 CATTTAAATTT
9525950 TTGCTCTTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.06, T:0.51
Consensus pattern (29 bp):
CATTTAAATTTCAGTCCTTTAAACTCTAG
Found at i:9526435 original size:137 final size:139
Alignment explanation
Indices: 9526123--9526460 Score: 344
Period size: 137 Copynumber: 2.4 Consensus size: 139
9526113 ATTTCAGTTG
* * * * * * * *
9526123 TTTGATTCAATAATTGGATAAAATTGACTAGGTTTATTATTAGATCCTTCACTTTAGGTTTAATT
1 TTTGATTCAATAATTTGTTAAAATTGAATAGGATTAATATTAGAACCTACATTTTAGGTTTAATT
* * * * * *
9526188 TCACTTTAGTCCTTTAATTTAGGTGAATTTTTCATTTAGTCCTCACATTTATGCTTGAGGTTACA
66 ACACTTTAGTCCCTTAATTTAGGGGAATTCTTCATTTAGTCATCACATTTATGCTCGAGGTTACA
9526253 ATTCAATTA
131 ATTCAATTA
* * * * *
9526262 TTCGTTTTCAATAA-TTGATT-ACATTGAATAAGATTAATATTAGAACCTCCATTTTA-GTTTAA
1 TTTG-ATTCAATAATTTG-TTAAAATTGAATAGGATTAATATTAGAACCTACATTTTAGGTTTAA
* **
9526324 TTACACTTTAGTCCCTTAATTTAGGGGAA-TCTTGATTT-GTTCATTGCATTTATGCTCGAGGTT
64 TTACACTTTAGTCCCTTAATTTAGGGGAATTCTTCATTTAG-TCATCACATTTATGCTCGAGGTT
** * *
9526387 TTATTTTAATTA
128 ACAATTCAATTA
* * *
9526399 TTTGATTCCATAATTTGTTAAAATTTATTAGGATTAATATTAGAACCTACATTTTTAGGTTT
1 TTTGATTCAATAATTTGTTAAAATTGAATAGGATTAATATTAGAACCTACA-TTTTAGGTTT
9526461 CATCATCTAG
Statistics
Matches: 159, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
136 10 0.06
137 66 0.42
138 37 0.23
139 37 0.23
140 9 0.06
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (139 bp):
TTTGATTCAATAATTTGTTAAAATTGAATAGGATTAATATTAGAACCTACATTTTAGGTTTAATT
ACACTTTAGTCCCTTAATTTAGGGGAATTCTTCATTTAGTCATCACATTTATGCTCGAGGTTACA
ATTCAATTA
Found at i:9528686 original size:18 final size:18
Alignment explanation
Indices: 9528659--9528704 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
9528649 ACCCTATTCG
*
9528659 GTATCAATACTCCCTTGA
1 GTATCGATACTCCCTTGA
* *
9528677 GTATTGATACTCTCTTGA
1 GTATCGATACTCCCTTGA
9528695 GTATCGATAC
1 GTATCGATAC
9528705 AAAAATTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (18 bp):
GTATCGATACTCCCTTGA
Found at i:9532407 original size:63 final size:59
Alignment explanation
Indices: 9532290--9532407 Score: 134
Period size: 60 Copynumber: 1.9 Consensus size: 59
9532280 TTTTTTCCCT
*
9532290 CATTTTATTTATTGTATATTTTTTATTATATTTATTTACTTTCACGTTATTATATATACA
1 CATTTTATTTATTGTATATTTTTTATTATATTTATTTA-TCTCACGTTATTATATATACA
* *
9532350 CATTTTATTTATGTTTACTATTATTTTATTAT-TATTATTT-TCTCATG-TATATATATAT
1 CATTTTATTTAT-TGTA-TATT-TTTTATTATAT-TTATTTATCTCACGTTAT-TATATAT
9532408 TCTTTTTTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
60 15 0.30
61 15 0.30
62 5 0.10
63 15 0.30
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (59 bp):
CATTTTATTTATTGTATATTTTTTATTATATTTATTTATCTCACGTTATTATATATACA
Found at i:9532515 original size:2 final size:2
Alignment explanation
Indices: 9532508--9532536 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9532498 TTAATATTAG
9532508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9532537 TTACGTATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9532746 original size:19 final size:20
Alignment explanation
Indices: 9532722--9532761 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9532712 GTTCTATATG
9532722 TTTCTA-TA-TATTTCTTATT
1 TTTCTATTATTATTT-TTATT
9532741 TTTCTATTATTATTTTTATT
1 TTTCTATTATTATTTTTATT
9532761 T
1 T
9532762 AATACTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.32
20 8 0.42
21 5 0.26
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTCTATTATTATTTTTATT
Found at i:9537028 original size:183 final size:183
Alignment explanation
Indices: 9536716--9537065 Score: 628
Period size: 183 Copynumber: 1.9 Consensus size: 183
9536706 ATTAAATCCG
*
9536716 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGTTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
9536781 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCTACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
9536846 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTTTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTTTCCCTC
*
9536899 TAAAGCTGAGCTATTCCGCTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
9536964 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
9537029 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTT
131 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTT
9537066 TAGTTAAACC
Statistics
Matches: 159, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 159 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTTTCCCTC
Found at i:9538408 original size:37 final size:37
Alignment explanation
Indices: 9538341--9538427 Score: 122
Period size: 37 Copynumber: 2.4 Consensus size: 37
9538331 ATTGAAAACA
** * *
9538341 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
9538377 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
9538414 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
9538428 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 12 0.27
37 33 0.73
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:9538430 original size:102 final size:105
Alignment explanation
Indices: 9538246--9538493 Score: 353
Period size: 102 Copynumber: 2.4 Consensus size: 105
9538236 TTTTTATTAA
* * * * *
9538246 AACAAGATTTTATCTCGCTTGAGATAGTTTCCCTCGAAACAGAAAGTTTTGTCTCACTTGAGATA
1 AACAAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAGAAAGTTTTGTCTCACTTGAGACA
9538311 GTTTCTCTCTAAACATAAACATTGAAAACATTTCCCTT-G
66 GTTTCTCTCTAAACATAAACATTGAAAACATTTCCCTTGG
* * *
9538350 AA-ATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA-AAA-TTTTGTCTCCCTTGAGAC
1 AACA-AAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAGAAAGTTTTGTCTCACTTGAGAC
9538412 AGTTTCTCT-TGAAACATAAACATTGAAAACATTTCCCTTGG
65 AGTTTCTCTCT-AAACATAAACATTGAAAACATTTCCCTTGG
* *
9538453 AACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AACAAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACA
9538494 TAAACATTGA
Statistics
Matches: 129, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
101 1 0.01
102 53 0.41
103 40 0.31
104 35 0.27
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (105 bp):
AACAAAATTTTGTCTCCCTTGAGATAGTTTCCCTTGAAACAGAAAGTTTTGTCTCACTTGAGACA
GTTTCTCTCTAAACATAAACATTGAAAACATTTCCCTTGG
Found at i:9538483 original size:66 final size:66
Alignment explanation
Indices: 9538377--9538556 Score: 278
Period size: 66 Copynumber: 2.8 Consensus size: 66
9538367 CTTGAGATAG
*
9538377 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
9538442 A
66 A
*
9538443 TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAGC
1 TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
9538508 A
66 A
* * *
9538509 TTTCCCTT-GAA-ATAAA--TTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1 TTTCCCTTGGAACA-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
9538557 AAATTTTGTC
Statistics
Matches: 108, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
63 29 0.27
64 1 0.01
65 6 0.06
66 72 0.67
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (66 bp):
TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
A
Found at i:9538552 original size:34 final size:36
Alignment explanation
Indices: 9538508--9538593 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 36
9538498 CATTGAAAGC
* * *
9538508 ATTTCCCTTGAAA-TAAA-TTGTCTCTCTTGAGATA
1 ATTTCCCTTGAAACAAAATTTGTCTCCCTTGAGACA
*
9538542 GTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
1 ATTTCCCTTGAAACAAAA-TTTGTCTCCCTTGAGACA
*
9538579 ATTTCTCTTGAAACA
1 ATTTCCCTTGAAACA
9538594 TAAACATTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
34 12 0.28
35 3 0.07
37 28 0.65
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAAATTTGTCTCCCTTGAGACA
Found at i:9538586 original size:166 final size:169
Alignment explanation
Indices: 9538273--9538658 Score: 615
Period size: 166 Copynumber: 2.3 Consensus size: 169
9538263 CTTGAGATAG
* *
9538273 TTTCCCTCGAAACAGAAAGTTTTGTCTCACTTGAGATAGTTTCTCTCT-AAACATAAACATTGAA
1 TTTCCCTTGGAACAGAAA-TTTTGTCTCACTTGAGATAGTTTCTCT-TGAAACATAAACATTGAA
*
9538337 AACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCT
64 AACATTTCCCTTGAAATGAATATTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCT
*
9538402 CCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
129 CCCTTGAGACAATTTCTCTTGAAACATAAACATTGAAAACA
* * *
9538443 TTTCCCTTGGAACA-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAG
1 TTTCCCTTGGAACAGAAATTTTGTCTCACTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAA
9538507 CATTTCCCTTGAAAT-AA-ATTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCC
66 CATTTCCCTTGAAATGAATATTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCC
9538570 CTTGAGACAATTTCTCTTGAAACATAAACATTGAAAACA
131 CTTGAGACAATTTCTCTTGAAACATAAACATTGAAAACA
* *
9538609 TTTCCCTT-GAA-ATG-AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1 TTTCCCTTGGAACA-GAAATTTTGTCTCACTTGAGATAGTTTCTCTTGAAACA
9538659 AATTTTGTCT
Statistics
Matches: 203, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
164 1 0.00
165 36 0.18
166 91 0.45
167 3 0.01
168 57 0.28
169 3 0.01
170 12 0.06
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (169 bp):
TTTCCCTTGGAACAGAAATTTTGTCTCACTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAA
CATTTCCCTTGAAATGAATATTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCC
CTTGAGACAATTTCTCTTGAAACATAAACATTGAAAACA
Found at i:9538656 original size:36 final size:36
Alignment explanation
Indices: 9538609--9538694 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
9538599 ATTGAAAACA
** *
9538609 TTTCCCTTGAAATGAATTTTGTCT-CTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCCT-TTGAGACAG
9538645 TTTCCCTTGAAACAAATTTTGTCTCCTTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCCTTTGAGACAG
**
9538681 TTTCTATTGAAACA
1 TTTCCCTTGAAACA
9538695 TAAACTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 42 0.95
37 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCCTTTGAGACAG
Found at i:9538705 original size:101 final size:100
Alignment explanation
Indices: 9538443--9538789 Score: 469
Period size: 100 Copynumber: 3.5 Consensus size: 100
9538433 ATTGAAAACA
* *
9538443 TTTCCCTTGGAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAGC
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
9538508 ATTTCCCTTGAAATAAATTGTCTCTCTTGAGATAG
66 ATTTCCCTTGAAATAAATTGTCTCTCTTGAGATAG
*
9538543 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
*
9538608 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
66 ATTTCCCTTGAAAT-AA-ATTGTCTCTCTTGAGATAG
* * *
9538645 TTTCCCTTGAAAC-AAATTTTGTCTCCTTTGAGACAGTTTCTATTGAAACATAAACTTTGAAAAC
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
* *
9538709 AGTTTCCCTTGAAACAAA----ATCT-TTGA-ATATG
66 A-TTTCCCTTGAAATAAATTGTCTCTCTTGAGATA-G
* * * *
9538740 TTTTACATT-AAAC-AAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 -TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
9538790 AATTTTGTCT
Statistics
Matches: 225, Mismatches: 17, Indels: 15
0.88 0.07 0.06
Matches are distributed among these distances:
94 3 0.01
95 42 0.19
96 9 0.04
100 76 0.34
101 52 0.23
102 43 0.19
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (100 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
ATTTCCCTTGAAATAAATTGTCTCTCTTGAGATAG
Found at i:9538712 original size:30 final size:30
Alignment explanation
Indices: 9538677--9538735 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
9538667 CTCCTTTGAG
*
9538677 ACAGTTTCTATTGAAACATAAA-CTTTGAAA
1 ACAGTTTCCATTGAAACA-AAATCTTTGAAA
*
9538707 ACAGTTTCCCTTGAAACAAAATCTTTGAA
1 ACAGTTTCCATTGAAACAAAATCTTTGAA
9538736 TATGTTTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (30 bp):
ACAGTTTCCATTGAAACAAAATCTTTGAAA
Found at i:9538800 original size:36 final size:36
Alignment explanation
Indices: 9538749--9538863 Score: 158
Period size: 36 Copynumber: 3.1 Consensus size: 36
9538739 GTTTTACATT
*
9538749 AAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
* * * *
9538785 AAACAAATTTTGTCTCTCTTAAGACATGTTTTTTTTA
1 AAACAAATTTTGTCTCTCTTGAGACA-GTTTCTCTTG
*
9538822 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
9538859 AAACA
1 AAACA
9538864 TCAATCCTTG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
36 25 0.37
37 22 0.33
38 20 0.30
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:9538966 original size:33 final size:33
Alignment explanation
Indices: 9538902--9539016 Score: 153
Period size: 33 Copynumber: 3.5 Consensus size: 33
9538892 CCTTGATACA
*
9538902 GTTTCTCTTTAAACACAAAAAGAAACCTTTGAAATT
1 GTTTCTCTTGAAACAC--AAA-AAACCTTTGAAATT
*
9538938 GTTTCTCTTGAAACACAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
*
9538971 GTTTCTCTTGAAACAC--AAAACCTTTGAGATT
1 GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
*
9539002 GTTTCCCTTGAAACA
1 GTTTCTCTTGAAACA
9539017 AATTTCGTCT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.36
33 29 0.39
34 3 0.04
36 15 0.20
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (33 bp):
GTTTCTCTTGAAACACAAAAAACCTTTGAAATT
Found at i:9539063 original size:67 final size:67
Alignment explanation
Indices: 9538971--9539157 Score: 214
Period size: 67 Copynumber: 2.7 Consensus size: 67
9538961 CTTTGAAAAT
*
9538971 GTTTCTCTTGAAACACAAAACCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTG-AG
1 GTTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAAG
9539035 ACA
66 -CA
* * * * *
9539038 GTTTCTCTTGAAACACAAAATCTTTGAGTTTATTTCCTTTAAAACAAAATTTTGTCTCCCTTGAA
1 GTTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAAC-AAATTTCGTCTCCCTTGAA
*
9539103 GCC
65 GCA
** * * * *
9539106 GTTTCTCAAGAAACAACATATATCTTTAAGATCGTTTCCCTTGAAACGAATT
1 GTTTCTCTTGAAAC-ACA-AAATCTTTGAGATTGTTTCCCTTGAAACAAATT
9539158 CTGTCTTTTT
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
67 40 0.40
68 29 0.29
69 9 0.09
70 21 0.21
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (67 bp):
GTTTCTCTTGAAACACAAAATCTTTGAGATTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAAG
CA
Found at i:9539660 original size:106 final size:107
Alignment explanation
Indices: 9539470--9539676 Score: 317
Period size: 106 Copynumber: 1.9 Consensus size: 107
9539460 GTTTTAGCTA
* *
9539470 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAAC
1 GAGCCAATTTCAACTTCACAGCGAAGGACATTGGACTCAAGACAACACAAGTTCAACCTCACAAC
* * **
9539535 GAATGGACGGCTGGTTGTCAAC-AAACAATTTCCCAATTTCG
66 GAAGGGACCGCTGACTGTCAACAAAACAATTTCCCAATTTCG
** * *
9539576 GAGCCAATTTCAACTTCACATTGAAGGGCATTGGACTCAAGACAGCACAAGTTCAACCTCACAAC
1 GAGCCAATTTCAACTTCACAGCGAAGGACATTGGACTCAAGACAACACAAGTTCAACCTCACAAC
9539641 GAAGGGACCGCTGACTGTCAACAAAACAATTTCCCA
66 GAAGGGACCGCTGACTGTCAACAAAACAATTTCCCA
9539677 GTTCTAGAAC
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
106 77 0.86
107 13 0.14
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (107 bp):
GAGCCAATTTCAACTTCACAGCGAAGGACATTGGACTCAAGACAACACAAGTTCAACCTCACAAC
GAAGGGACCGCTGACTGTCAACAAAACAATTTCCCAATTTCG
Found at i:9539729 original size:107 final size:106
Alignment explanation
Indices: 9539473--9539720 Score: 295
Period size: 106 Copynumber: 2.3 Consensus size: 106
9539463 TTAGCTAGAG
* * *
9539473 CCAATTTCAACTTCACAGC-GAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACAACGA
1 CCAACTTCAACTTCACA-CAGAAGGATATTGGACTCAAGACAGCACAAGTTCAACCTCACAACGA
* * ** * *
9539537 ATGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAG
65 AGGGACCGCTGACTGTCAACAAACAATTTCCCAATTTCAGAA
* ** **
9539579 CCAATTTCAACTTCACATTGAAGGGCATTGGACTCAAGACAGCACAAGTTCAACCTCACAACGAA
1 CCAACTTCAACTTCACACAGAAGGATATTGGACTCAAGACAGCACAAGTTCAACCTCACAACGAA
*
9539644 GGGACCGCTGACTGTCAACAAAACAATTTCCC-AGTTCTAGAA
66 GGGACCGCTGACTGTCAAC-AAACAATTTCCCAATTTC-AGAA
*
9539686 CCAACTTCAACTTCATGACAGAA-GATATTGGACTC
1 CCAACTTCAACTTCA-CACAGAAGGATATTGGACTC
9539721 GGAACAGCAG
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
106 78 0.65
107 38 0.32
108 4 0.03
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (106 bp):
CCAACTTCAACTTCACACAGAAGGATATTGGACTCAAGACAGCACAAGTTCAACCTCACAACGAA
GGGACCGCTGACTGTCAACAAACAATTTCCCAATTTCAGAA
Found at i:9541050 original size:2 final size:2
Alignment explanation
Indices: 9541043--9541083 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9541033 TTAATATTAG
9541043 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9541084 TACGTATACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9541309 original size:20 final size:21
Alignment explanation
Indices: 9541259--9541309 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
9541249 TTATATTTTG
*
9541259 TTCTATATGTTTCTATATATAT
1 TTCT-TATTTTTCTATATATAT
9541281 TTCTTATTTTTCTAT-TATTAT
1 TTCTTATTTTTCTATATA-TAT
9541302 TT-TTATTT
1 TTCTTATTT
9541310 AATACTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 8 0.30
21 15 0.56
22 4 0.15
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.69
Consensus pattern (21 bp):
TTCTTATTTTTCTATATATAT
Found at i:9543724 original size:23 final size:24
Alignment explanation
Indices: 9543698--9543758 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 24
9543688 ATAACGCTGT
9543698 CTTTATGACACA-TTTTCCTCTAC
1 CTTTATGACACAGTTTTCCTCTAC
* *
9543721 CTTTATGACA-AGTTTTCCTTTAT
1 CTTTATGACACAGTTTTCCTCTAC
9543744 CTTTATGACAC-GTTT
1 CTTTATGACACAGTTT
9543759 CTTTCTGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 1 0.03
23 33 0.97
ACGTcount: A:0.21, C:0.23, G:0.08, T:0.48
Consensus pattern (24 bp):
CTTTATGACACAGTTTTCCTCTAC
Found at i:9544206 original size:17 final size:18
Alignment explanation
Indices: 9544171--9544211 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
9544161 AATTTGATTA
*
9544171 TAAATATTTATTGTAATT
1 TAAATATTTATTCTAATT
9544189 TAAATATTT-TTCTAATT
1 TAAATATTTATTCTAATT
*
9544206 TTAATA
1 TAAATA
9544212 AAACTAGTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
TAAATATTTATTCTAATT
Found at i:9545722 original size:22 final size:22
Alignment explanation
Indices: 9545672--9545723 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
9545662 ATAATAATTT
9545672 AATTTAAA-ATATAAAAAATAA
1 AATTTAAACATATAAAAAATAA
* * *
9545693 AATATAAACATATAAATATTAA
1 AATTTAAACATATAAAAAATAA
*
9545715 GATTTAAAC
1 AATTTAAAC
9545724 CTAAATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (22 bp):
AATTTAAACATATAAAAAATAA
Found at i:9546809 original size:21 final size:20
Alignment explanation
Indices: 9546771--9546820 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
9546761 TGCATGTTTT
9546771 GATGCTTTATAGAGTCATCA
1 GATGCTTTATAGAGTCATCA
*
9546791 CGATGCTTTATTG-GCTCATCA
1 -GATGCTTTATAGAG-TCATCA
9546812 GAATGCTTT
1 G-ATGCTTT
9546821 TGAGACTGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (20 bp):
GATGCTTTATAGAGTCATCA
Found at i:9547606 original size:21 final size:21
Alignment explanation
Indices: 9547582--9547644 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
9547572 TTTTAAATTG
9547582 TGATCGATCCCTTGAAAAAAA
1 TGATCGATCCCTTGAAAAAAA
* * **
9547603 TGATCGATCCTTTCACCAAAA
1 TGATCGATCCCTTGAAAAAAA
*
9547624 TCATCGATCCCTCATGAAAAA
1 TGATCGATCCCT--TGAAAAA
9547645 GGACCGGTCC
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 27 0.87
23 4 0.13
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.25
Consensus pattern (21 bp):
TGATCGATCCCTTGAAAAAAA
Found at i:9552079 original size:20 final size:20
Alignment explanation
Indices: 9552056--9552096 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9552046 TGATACCAAG
*
9552056 CCTTCAGTATGAAGACTAGT
1 CCTTCAGTATGAAGACCAGT
* *
9552076 CCTTCGGTATGGAGACCAGT
1 CCTTCAGTATGAAGACCAGT
9552096 C
1 C
9552097 ATTTGGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (20 bp):
CCTTCAGTATGAAGACCAGT
Found at i:9552104 original size:20 final size:20
Alignment explanation
Indices: 9552062--9552105 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
9552052 CAAGCCTTCA
* *
9552062 GTATGAAGACTAGTCCTTCG
1 GTATGAAGACCAGTCATTCG
* *
9552082 GTATGGAGACCAGTCATTTG
1 GTATGAAGACCAGTCATTCG
9552102 GTAT
1 GTAT
9552106 AGACACTAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (20 bp):
GTATGAAGACCAGTCATTCG
Found at i:9553799 original size:21 final size:21
Alignment explanation
Indices: 9553758--9553802 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9553748 TAAGCCTTCA
*
9553758 GTATGGACACTAGTTTATTCG
1 GTATGGACACTAATTTATTCG
*
9553779 GTATGGATACTAAATTT-TTCG
1 GTATGGACACT-AATTTATTCG
9553800 GTA
1 GTA
9553803 CGGAGACCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (21 bp):
GTATGGACACTAATTTATTCG
Found at i:9555231 original size:22 final size:22
Alignment explanation
Indices: 9555203--9555245 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9555193 CAAACCATTC
9555203 AGGGGGGAATCGGTACCCTCTT
1 AGGGGGGAATCGGTACCCTCTT
*
9555225 AGGGGGGAATCGGTTCCCTCT
1 AGGGGGGAATCGGTACCCTCT
9555246 GAGCAATCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.37, T:0.23
Consensus pattern (22 bp):
AGGGGGGAATCGGTACCCTCTT
Found at i:9557286 original size:21 final size:21
Alignment explanation
Indices: 9557260--9557299 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9557250 CAGAACCCTA
*
9557260 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
9557281 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
9557300 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:9557308 original size:23 final size:21
Alignment explanation
Indices: 9557282--9557339 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 21
9557272 TTCCCCTGTG
9557282 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCC-TC-AA
*
9557305 GGGGGAATTGGTT-CCCTCAA
1 GGGGGAATCGGTTCCCCTCAA
*
9557325 GGGGG-ATCGATTCCC
1 GGGGGAATCGGTTCCC
9557340 TCTGCACCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 5 0.16
20 9 0.29
21 2 0.06
22 3 0.10
23 12 0.39
ACGTcount: A:0.19, C:0.24, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCTCAA
Found at i:9568299 original size:21 final size:21
Alignment explanation
Indices: 9568257--9568301 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9568247 TGAAAGCAAG
*
9568257 ATCAAAGAATTTCAAATCAAA
1 ATCAAAGAATTTAAAATCAAA
* *
9568278 ATCAAAGATTTTGAAAATAAAA
1 ATCAAAGAATTT-AAAATCAAA
9568300 AT
1 AT
9568302 ACTAATTCGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.27
Consensus pattern (21 bp):
ATCAAAGAATTTAAAATCAAA
Found at i:9584712 original size:28 final size:28
Alignment explanation
Indices: 9584632--9584722 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 28
9584622 AAATATTAAG
* * * *
9584632 ATTAGTATATTCTATTGAAATAAAATATT
1 ATTAGTATATTATATT-TATTAAAATAAT
*
9584661 ATAAGTTATATTAATTATTTATTAAAATAAT
1 ATTAG-TATATT-A-TATTTATTAAAATAAT
9584692 ATTAGTATATTATATTTATTAAAAT-AT
1 ATTAGTATATTATATTTATTAAAATAAT
9584719 ATTA
1 ATTA
9584723 ATTTTTAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
27 6 0.11
28 13 0.25
29 5 0.09
30 12 0.23
31 13 0.25
32 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (28 bp):
ATTAGTATATTATATTTATTAAAATAAT
Found at i:9585099 original size:54 final size:54
Alignment explanation
Indices: 9585041--9585155 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
9585031 TACTAAATAA
* * *
9585041 TATATT-TTTTATTAATTATTAATTAT-TTATTATTAAAATAAAAATATAATATCT
1 TATATTATTTTAAT-ATAATTAAGTATATTATTA-TAAAATAAAAATATAATATCT
* **
9585095 TATATTATTTTAATATAATTGAGTATATTATTATAATTTAAAAATATAATA--T
1 TATATTATTTTAATATAATTAAGTATATTATTATAAAATAAAAATATAATATCT
9585147 TATATTATT
1 TATATTATT
9585156 AGAAATATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
52 10 0.19
54 31 0.58
55 12 0.23
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (54 bp):
TATATTATTTTAATATAATTAAGTATATTATTATAAAATAAAAATATAATATCT
Found at i:9587482 original size:2 final size:2
Alignment explanation
Indices: 9587477--9587514 Score: 58
Period size: 2 Copynumber: 18.5 Consensus size: 2
9587467 CAAGTTAATT
*
9587477 TA TA TA TT TGA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
9587515 TTCATTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 32 0.97
3 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9589708 original size:20 final size:20
Alignment explanation
Indices: 9589661--9589709 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
9589651 TACTTTGTTG
*
9589661 TTTGTTTCTATATATGAACT
1 TTTGTTTTTATATATGAACT
9589681 TTTGTTTTTATATATGAACT
1 TTTGTTTTTATATATGAACT
9589701 TTTGTTTTT
1 TTTGTTTTT
9589710 TACACAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.20, C:0.06, G:0.10, T:0.63
Consensus pattern (20 bp):
TTTGTTTTTATATATGAACT
Found at i:9590444 original size:44 final size:44
Alignment explanation
Indices: 9590378--9590483 Score: 167
Period size: 44 Copynumber: 2.4 Consensus size: 44
9590368 TTTAATGTTA
* * * *
9590378 AAATTACATTACAGCCCCCATATTTGTGCTTTCTTTCTGATGGTT
1 AAATTACA-TAAACCCCCCATATTTGTGCTTTCTTTATGATGGCT
9590423 AAATTACATAAACCCCCCATATTTGTGCTTTCTTTATGATGGCT
1 AAATTACATAAACCCCCCATATTTGTGCTTTCTTTATGATGGCT
9590467 AAATTACATAAACCCCC
1 AAATTACATAAACCCCC
9590484 ATAATTTCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 49 0.86
45 8 0.14
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (44 bp):
AAATTACATAAACCCCCCATATTTGTGCTTTCTTTATGATGGCT
Found at i:9593486 original size:2 final size:2
Alignment explanation
Indices: 9593479--9593550 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
9593469 AGAATTATCA
9593479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9593521 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
9593551 GAGATTTTTG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9594767 original size:9 final size:9
Alignment explanation
Indices: 9594753--9594785 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9594743 AAAATAATTC
9594753 TATATTTAA
1 TATATTTAA
9594762 TATATTTAA
1 TATATTTAA
9594771 TATA-TTAA
1 TATATTTAA
9594779 T-TATTTA
1 TATATTTA
9594786 TAATTTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.09
8 8 0.35
9 13 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TATATTTAA
Found at i:9594783 original size:16 final size:18
Alignment explanation
Indices: 9594753--9594785 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
9594743 AAAATAATTC
9594753 TATATTTAATATATTTAA
1 TATATTTAATATATTTAA
9594771 TATA-TTAAT-TATTTA
1 TATATTTAATATATTTA
9594786 TAATTTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTTAATATATTTAA
Found at i:9595223 original size:19 final size:18
Alignment explanation
Indices: 9595199--9595265 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 18
9595189 ACAACAACTG
9595199 TTCCTTCATTCTTCCTTCC
1 TTCCTTCATTCTT-CTTCC
*
9595218 TTCCTTCATTATTCTTCC
1 TTCCTTCATTCTTCTTCC
*
9595236 TCTTCTTCA-TCTT-TCTCC
1 T-TCCTTCATTCTTCT-TCC
9595254 -TCCTTCTATTCT
1 TTCCTTC-ATTCT
9595266 CGGGGTTCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 5 0.12
17 2 0.05
18 15 0.38
19 18 0.45
ACGTcount: A:0.07, C:0.37, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCCTTCATTCTTCTTCC
Found at i:9598365 original size:13 final size:14
Alignment explanation
Indices: 9598349--9598390 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
9598339 TCAATAATTT
9598349 TTTTTCAATTTA-A
1 TTTTTCAATTTATA
9598362 TTTTTCAACTTTATA
1 TTTTTCAA-TTTATA
9598377 TTTTATGCAATTTA
1 TTTT-T-CAATTTA
9598391 GTCCTTCGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
15 5 0.20
16 5 0.20
17 3 0.12
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (14 bp):
TTTTTCAATTTATA
Found at i:9600272 original size:21 final size:21
Alignment explanation
Indices: 9600248--9600303 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
9600238 CGAGTTACCT
*
9600248 GCGACGGCCGCAATAGCGTCC
1 GCGACGGCCGCAATAGCGCCC
* *
9600269 GCGATGGCCGTAATAGCGCCC
1 GCGACGGCCGCAATAGCGCCC
9600290 GCGACGGCCGCAAT
1 GCGACGGCCGCAAT
9600304 CACGGTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.36, G:0.34, T:0.11
Consensus pattern (21 bp):
GCGACGGCCGCAATAGCGCCC
Found at i:9601465 original size:37 final size:37
Alignment explanation
Indices: 9601423--9601496 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
9601413 TCTAACCCAC
9601423 CTTATATCGTTTACAATTACCTACCTAACCAATCCAT
1 CTTATATCGTTTACAATTACCTACCTAACCAATCCAT
9601460 CTTATATCGTTTACAATTACCTACCTAACCAATCCAT
1 CTTATATCGTTTACAATTACCTACCTAACCAATCCAT
9601497 TTGAGTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.03, T:0.35
Consensus pattern (37 bp):
CTTATATCGTTTACAATTACCTACCTAACCAATCCAT
Found at i:9604534 original size:19 final size:19
Alignment explanation
Indices: 9604512--9604561 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
9604502 GTTATTTTTA
9604512 AAATAAAAAAATAAGAATT
1 AAATAAAAAAATAAGAATT
*
9604531 AAATAAAAGAAA-AATAATT
1 AAATAAAA-AAATAAGAATT
*
9604550 AAATAAACAAAT
1 AAATAAAAAAAT
9604562 TAAAGAGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 21 0.78
20 3 0.11
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.20
Consensus pattern (19 bp):
AAATAAAAAAATAAGAATT
Found at i:9605037 original size:12 final size:12
Alignment explanation
Indices: 9605022--9605051 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9605012 AAAAATATGC
9605022 GAAAAATAGAGA
1 GAAAAATAGAGA
*
9605034 GAAAACTAGAGA
1 GAAAAATAGAGA
9605046 GAAAAA
1 GAAAAA
9605052 GAAGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:9607011 original size:5 final size:5
Alignment explanation
Indices: 9607003--9607038 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
9606993 TAAGCATCTG
9607003 ATAAA ATAAA ATAAA AT-AA ATAAA ATAAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT-AAA ATAAA A
9607039 ACGAAATGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:9607018 original size:10 final size:10
Alignment explanation
Indices: 9607003--9607038 Score: 56
Period size: 9 Copynumber: 3.6 Consensus size: 10
9606993 TAAGCATCTG
9607003 ATAAAATAAA
1 ATAAAATAAA
9607013 ATAAAAT-AA
1 ATAAAATAAA
9607022 ATAAAATAAAA
1 ATAAAAT-AAA
9607033 ATAAAA
1 ATAAAA
9607039 ACGAAATGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 7 0.29
11 8 0.33
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
ATAAAATAAA
Found at i:9607025 original size:14 final size:15
Alignment explanation
Indices: 9607006--9607037 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
9606996 GCATCTGATA
9607006 AAATAAAAT-AAAAT
1 AAATAAAATAAAAAT
9607020 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
9607035 AAA
1 AAA
9607038 AACGAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:9610657 original size:65 final size:65
Alignment explanation
Indices: 9610530--9610657 Score: 188
Period size: 65 Copynumber: 2.0 Consensus size: 65
9610520 TAAAACATCT
*
9610530 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAAAATAATATAATATTC
1 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAAAATAATAAAATATTC
* * *
9610595 TAAATTCTAATTAAAACAC-TAAAACCTATTTCAACTAAAATACCTAAAACAAA-GATAAAATAT
1 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAA-AAATAATAAAATAT
9610658 AAAATAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
64 5 0.09
65 49 0.86
66 3 0.05
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (65 bp):
TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCTAAAAAAATAATAAAATATTC
Found at i:9611837 original size:22 final size:22
Alignment explanation
Indices: 9611796--9611837 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9611786 TCACATAATA
* *
9611796 CTTTGCTTGGTATTTTGATGCC
1 CTTTGCTTGGTACTTCGATGCC
*
9611818 CTTTGTTTGGTACTTCGATG
1 CTTTGCTTGGTACTTCGATG
9611838 GTTTTCTGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.50
Consensus pattern (22 bp):
CTTTGCTTGGTACTTCGATGCC
Found at i:9620028 original size:78 final size:78
Alignment explanation
Indices: 9619931--9620079 Score: 176
Period size: 77 Copynumber: 1.9 Consensus size: 78
9619921 ATATAGTAAG
** *
9619931 TAAACATTAAAAGAATGTAATTTTGATTACAACTCTTTTAATCGTTATTTAATTCGGAA-TAATT
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTC-TTTAATCGATATTTAATT-GGAATTAATT
9619995 AAATAAGAGTTTAAA
64 AAATAAGAGTTTAAA
* * * * * **
9620010 TAAACGTT-AAAGATTGTAATTCAGATTATAAGTCTTTAATGGATATTTAATTTTAATTAATTAA
1 TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTAATCGATATTTAATTGGAATTAATTAA
9620074 ATAAGA
66 ATAAGA
9620080 TATTTAATTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
76 2 0.03
77 29 0.49
78 21 0.36
79 7 0.12
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (78 bp):
TAAACATTAAAAGAATGTAATTCAGATTACAACTCTTTAATCGATATTTAATTGGAATTAATTAA
ATAAGAGTTTAAA
Found at i:9620125 original size:27 final size:26
Alignment explanation
Indices: 9620051--9620129 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 26
9620041 GTCTTTAATG
9620051 GATATTTAATTTTAATTAATTAAATAA
1 GATATTTAA-TTTAATTAATTAAATAA
9620078 GATATTTAATTTTAATTAATTAAATAA
1 GATATTTAA-TTTAATTAATTAAATAA
*
9620105 GATTTTTAA-TTAATTCAAATTAAAT
1 GATATTTAATTTAATT--AATTAAAT
9620130 TAAAATCCCT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
25 6 0.12
27 43 0.88
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (26 bp):
GATATTTAATTTAATTAATTAAATAA
Found at i:9620127 original size:31 final size:27
Alignment explanation
Indices: 9620051--9620115 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
9620041 GTCTTTAATG
9620051 GATATTTAATTTTAATTAATTAAATAA
1 GATATTTAATTTTAATTAATTAAATAA
9620078 GATATTTAATTTTAATTAATTAAATAA
1 GATATTTAATTTTAATTAATTAAATAA
*
9620105 GATTTTTAATT
1 GATATTTAATT
9620116 AATTCAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.51
Consensus pattern (27 bp):
GATATTTAATTTTAATTAATTAAATAA
Found at i:9625398 original size:18 final size:18
Alignment explanation
Indices: 9625375--9625413 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
9625365 TATTTTGATT
9625375 AATGAACTAACATTATTC
1 AATGAACTAACATTATTC
*
9625393 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
9625411 AAT
1 AAT
9625414 TAGCTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:9626926 original size:65 final size:64
Alignment explanation
Indices: 9626854--9627010 Score: 242
Period size: 65 Copynumber: 2.4 Consensus size: 64
9626844 GAATTAATTG
* *
9626854 AACATCGAATGCATTTTATGCATCGATGTAGATACCATGCATCGATGCACTCAGGGTTTTATAAA
1 AACATCGAATGCATTTTATGCATCGATGTACATACCATGCATCGATGCACTCAGGCTTTT-TAAA
* * *
9626919 AACATCGAATGCATTTGATGCATCGATGTACATACCATGCATCGATGCACTCTGGCTTTTTCAA
1 AACATCGAATGCATTTTATGCATCGATGTACATACCATGCATCGATGCACTCAGGCTTTTTAAA
* *
9626983 AACATCGAATCCATTTTATACATCGATG
1 AACATCGAATGCATTTTATGCATCGATG
9627011 CACTCTTAGT
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
64 28 0.33
65 56 0.67
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGTACATACCATGCATCGATGCACTCAGGCTTTTTAAA
Found at i:9630092 original size:18 final size:18
Alignment explanation
Indices: 9630069--9630113 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
9630059 TAGTTTGATT
*
9630069 AATGAACTAACATTT-TTC
1 AATGAACTAAC-TTTATTA
9630087 AATGAACTAACTTTATTA
1 AATGAACTAACTTTATTA
9630105 AATGAACTA
1 AATGAACTA
9630114 GATGCATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTATTA
Found at i:9631253 original size:24 final size:24
Alignment explanation
Indices: 9631201--9631259 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
9631191 GTTAGTTATA
* * *
9631201 GAAGCTTGTACTTTTGCAGCCGAT
1 GAAGCTTGTGCTTTCGCAGCAGAT
* *
9631225 AAAGCTTGTGCTTTCGCAGTAGAT
1 GAAGCTTGTGCTTTCGCAGCAGAT
*
9631249 GAAGCGTGTGC
1 GAAGCTTGTGC
9631260 ATTTGTAGTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (24 bp):
GAAGCTTGTGCTTTCGCAGCAGAT
Found at i:9633926 original size:15 final size:15
Alignment explanation
Indices: 9633906--9633937 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9633896 TTAGTAAGAT
9633906 AATAATAATAATCAA
1 AATAATAATAATCAA
*
9633921 AATAATAATAATGAA
1 AATAATAATAATCAA
9633936 AA
1 AA
9633938 AGATTCCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (15 bp):
AATAATAATAATCAA
Found at i:9636345 original size:5 final size:5
Alignment explanation
Indices: 9636337--9636530 Score: 96
Period size: 5 Copynumber: 39.8 Consensus size: 5
9636327 GTTAAATAAA
* *
9636337 AATAT AATAT AATAT AATAT AATAT AATAC AATCT -ATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* *
9636386 -ATA- ATATGT AATAT AATACT -ATAAT AATAT ACTAT AGA-AT AATAT
1 AATAT A-ATAT AATAT AATA-T AAT-AT AATAT AATAT A-ATAT AATAT
* * *
9636431 -ATAG AATACT -ATAT ACTAT -ATA- AATATT AA-A- AATAT -ATAT AATAC
1 AATAT AATA-T AATAT AATAT AATAT AATA-T AATAT AATAT AATAT AATAT
* *
9636476 CATACT -ATAT AATAT ATACTAT AAAAT AATAT -ATA- ATATAT AATA-
1 AATA-T AATAT AATAT A-A-TAT AATAT AATAT AATAT A-ATAT AATAT
9636521 AGATAT AATA
1 A-ATAT AATA
9636531 AGAAGGAATA
Statistics
Matches: 145, Mismatches: 17, Indels: 54
0.67 0.08 0.25
Matches are distributed among these distances:
3 2 0.01
4 26 0.18
5 102 0.70
6 11 0.08
7 4 0.03
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:9636387 original size:7 final size:7
Alignment explanation
Indices: 9636377--9636520 Score: 77
Period size: 7 Copynumber: 20.1 Consensus size: 7
9636367 AATCTATATA
9636377 ATATAAT
1 ATATAAT
9636384 ATATAAT
1 ATATAAT
*
9636391 ATGT-A-
1 ATATAAT
9636396 ATATAAT
1 ATATAAT
9636403 ACTATAAT
1 A-TATAAT
*
9636411 AATATACT
1 -ATATAAT
*
9636419 ATAGAAT
1 ATATAAT
9636426 A-AT-AT
1 ATATAAT
*
9636431 ATAGAAT
1 ATATAAT
9636438 ACTATATACT
1 A-TATA-A-T
9636448 ATATAA-
1 ATATAAT
9636454 ATATTAA-
1 ATA-TAAT
*
9636461 AAAT-AT
1 ATATAAT
9636467 ATATAAT
1 ATATAAT
* *
9636474 ACCATACT
1 A-TATAAT
9636482 ATATAAT
1 ATATAAT
9636489 ATATACTAT
1 ATATA--AT
*
9636498 AAAATAAT
1 -ATATAAT
9636506 ATATAAT
1 ATATAAT
9636513 ATATAAT
1 ATATAAT
9636520 A
1 A
9636521 AGATATAATA
Statistics
Matches: 105, Mismatches: 16, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
5 7 0.07
6 11 0.10
7 51 0.49
8 22 0.21
9 8 0.08
10 6 0.06
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (7 bp):
ATATAAT
Found at i:9636410 original size:8 final size:8
Alignment explanation
Indices: 9636340--9636530 Score: 65
Period size: 8 Copynumber: 22.8 Consensus size: 8
9636330 AAATAAAAAT
9636340 ATAATATA
1 ATAATATA
9636348 AT-ATA-A
1 ATAATATA
9636354 TATAATATA
1 -ATAATATA
*
9636363 ATACAATCTA
1 AT--AATATA
9636373 TATAATATA
1 -ATAATATA
9636382 ATATATAATA
1 ATA-AT-ATA
*
9636392 TGTAATATA
1 -ATAATATA
*
9636401 ATACTATA
1 ATAATATA
9636409 ATAATATA
1 ATAATATA
* *
9636417 CT-ATAGA
1 ATAATATA
9636424 ATAATATA
1 ATAATATA
*
9636432 TAGAATACTA
1 -ATAATA-TA
*
9636442 TATACTAT-
1 -ATAATATA
9636450 ATAAATATTA
1 AT-AATA-TA
*
9636460 AAAATATA
1 ATAATATA
**
9636468 TATAATACC
1 -ATAATATA
9636477 ATACTATATA
1 ATA--ATATA
9636487 AT-ATATA
1 ATAATATA
*
9636494 CTATAAAATA
1 --ATAATATA
9636504 AT-ATATA
1 ATAATATA
9636511 AT-ATATA
1 ATAATATA
*
9636518 ATAAGAT-
1 ATAATATA
9636525 ATAATA
1 ATAATA
9636531 AGAAGGAATA
Statistics
Matches: 137, Mismatches: 24, Indels: 45
0.67 0.12 0.22
Matches are distributed among these distances:
6 1 0.01
7 35 0.26
8 41 0.30
9 29 0.21
10 27 0.20
11 4 0.03
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.37
Consensus pattern (8 bp):
ATAATATA
Found at i:9636467 original size:24 final size:25
Alignment explanation
Indices: 9636377--9636517 Score: 103
Period size: 24 Copynumber: 5.5 Consensus size: 25
9636367 AATCTATATA
* *
9636377 ATATAATATATAATATGTAATATAAT
1 ATATAATATATACTATATAA-ATAAT
*
9636403 ACTATAATAATATACTATA-GAATAAT
1 A-TATAAT-ATATACTATATAAATAAT
*
9636429 ATATAGAATACTATATACTATATAAATATT
1 ATAT---A-A-TATATACTATATAAATAAT
* * *
9636459 A-AAAATATATA-TA-ATACCATACT
1 ATATAATATATACTATATA-AATAAT
9636482 ATATAATATATACTATA-AAATAAT
1 ATATAATATATACTATATAAATAAT
9636506 ATATAATATATA
1 ATATAATATATA
9636518 ATAAGATATA
Statistics
Matches: 92, Mismatches: 11, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
22 3 0.03
23 7 0.08
24 31 0.34
25 7 0.08
26 9 0.10
27 7 0.08
28 9 0.10
29 12 0.13
30 7 0.08
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATAATATATACTATATAAATAAT
Found at i:9636492 original size:41 final size:39
Alignment explanation
Indices: 9636371--9636513 Score: 118
Period size: 39 Copynumber: 3.7 Consensus size: 39
9636361 TAATACAATC
* **
9636371 TATATAATATAATATATAATATGTAATATAATAC--TATAA
1 TATATAATATAA-A-ATAATATATAATACCATACTATATAA
* * * *
9636410 TAATATACTATAGAATAATATAT-AGA--ATACTATATAC
1 T-ATATAATATAAAATAATATATAATACCATACTATATAA
9636447 TATATAAATATTAAAA-ATATATATAATACCATACTATATAA
1 TATAT-AATA-TAAAATA-ATATATAATACCATACTATATAA
*
9636488 TATATACTATAAAATAATATATAATA
1 TATATAATATAAAATAATATATAATA
9636514 TATAATAAGA
Statistics
Matches: 84, Mismatches: 10, Indels: 20
0.74 0.09 0.18
Matches are distributed among these distances:
35 4 0.05
36 4 0.05
37 11 0.13
38 18 0.21
39 19 0.23
40 13 0.15
41 15 0.18
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.38
Consensus pattern (39 bp):
TATATAATATAAAATAATATATAATACCATACTATATAA
Found at i:9637490 original size:3 final size:3
Alignment explanation
Indices: 9637484--9637509 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9637474 TTTTTTTGTC
9637484 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
9637510 CTTCATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:9638403 original size:19 final size:19
Alignment explanation
Indices: 9638342--9638403 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
9638332 ATACCCAATG
*
9638342 TAGGAGTATTCATACTCTAAC
1 TAGGAGTATTGATA-T-TAAC
* * *
9638363 TAGGAGTATCGATACTAGC
1 TAGGAGTATTGATATTAAC
*
9638382 TAGGAGTATTGATATTATC
1 TAGGAGTATTGATATTAAC
9638401 TAG
1 TAG
9638404 TCCTCTCAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 22 0.65
21 12 0.35
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (19 bp):
TAGGAGTATTGATATTAAC
Found at i:9638468 original size:20 final size:20
Alignment explanation
Indices: 9638443--9638483 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9638433 GGTATTGATA
9638443 TCAAGGATGAGTATAAATAT
1 TCAAGGATGAGTATAAATAT
* * *
9638463 TCAAGGGTTAGTATTAATAT
1 TCAAGGATGAGTATAAATAT
9638483 T
1 T
9638484 GAAGAGCTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.37
Consensus pattern (20 bp):
TCAAGGATGAGTATAAATAT
Found at i:9643518 original size:29 final size:29
Alignment explanation
Indices: 9643473--9643531 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
9643463 ATTTTCACCT
* *
9643473 AACTAAATTGATATAAGCAATGACATCAA
1 AACTAAATTGATATAAGAAACGACATCAA
*
9643502 AACTAAATTGATGTAAGAAACGACATCAA
1 AACTAAATTGATATAAGAAACGACATCAA
9643531 A
1 A
9643532 TTAATTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (29 bp):
AACTAAATTGATATAAGAAACGACATCAA
Found at i:9648196 original size:29 final size:29
Alignment explanation
Indices: 9648154--9648212 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
9648144 ATTTTCACCT
9648154 AACTAAATTAATGTAAGCAAT-ATCATCAA
1 AACTAAATTAATGTAAGCAATGA-CATCAA
*
9648183 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTAATGTAAGCAATGACATCAA
9648212 A
1 A
9648213 TTAATTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.25
Consensus pattern (29 bp):
AACTAAATTAATGTAAGCAATGACATCAA
Found at i:9648299 original size:12 final size:12
Alignment explanation
Indices: 9648282--9648310 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9648272 AAAGGGTGGG
9648282 ATAGAATAATGA
1 ATAGAATAATGA
9648294 ATAGAATAATGA
1 ATAGAATAATGA
9648306 A-AGAA
1 ATAGAA
9648311 ATGTCAGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (12 bp):
ATAGAATAATGA
Found at i:9651419 original size:42 final size:43
Alignment explanation
Indices: 9651308--9651552 Score: 195
Period size: 43 Copynumber: 5.7 Consensus size: 43
9651298 GTCCTTATTA
* * *
9651308 TTTTCAAT-TTCACTTTTTACATTTATAATTTAGACCCCTAATTT
1 TTTTCAATCATCAC-TTTTATATTTATAATTAAGACCCCTAA-TT
* * *
9651352 TTTTTAAT-ATCTCTTTTTTACTTTATAATTAAGACCCCTAATT
1 TTTTCAATCATCACTTTTATA-TTTATAATTAAGACCCCTAATT
* * *
9651395 TTTTCAGTCAT-ACTTTTATATTTATAATTGAGACCTCTAATT
1 TTTTCAATCATCACTTTTATATTTATAATTAAGACCCCTAATT
*
9651437 TTTTCAATC-TCACTTTTTATTTTTATAATTAA-ACTCCCTAATT
1 TTTTCAATCATCAC-TTTTATATTTATAATTAAGAC-CCCTAATT
* *
9651480 TTTTTAATC-TCACTTTT-TATCTTCATAATTGAAG-CCTCT-ATT
1 TTTTCAATCATCACTTTTATAT-TT-ATAATT-AAGACCCCTAATT
* **
9651522 TCTTCTAATC-TCACTTTCTAGGTTTATAATT
1 TTTTC-AATCATCACTTT-TATATTTATAATT
9651553 GCGGCTCCTA
Statistics
Matches: 166, Mismatches: 23, Indels: 25
0.78 0.11 0.12
Matches are distributed among these distances:
41 3 0.02
42 44 0.27
43 81 0.49
44 37 0.22
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.52
Consensus pattern (43 bp):
TTTTCAATCATCACTTTTATATTTATAATTAAGACCCCTAATT
Found at i:9651476 original size:85 final size:85
Alignment explanation
Indices: 9651190--9651552 Score: 242
Period size: 86 Copynumber: 4.2 Consensus size: 85
9651180 CTAATATGAT
* * * * * *
9651190 TTTTTA-CATTTATAATTGAGATCTCTAATTTTTCTCAATCTCATTTTCTATTTTTATAATCGAG
1 TTTTTATC-TTTATAATTAAGACCCCTAATTTTT-TCAATCTCACTTT-TATATTTATAATTGA-
* * * *
9651254 GTCC-ATAATATTTTT-AGTCTAAC
62 GACCTCTAAT-TTTTTCAATCTCAC
* * * ** * * * *
9651277 ATTTTACCTTTATTAATTGAG-GTCCTTATTATTTTCAATTTCACTTTTTACATTTATAATTTAG
1 TTTTTATCTTTA-TAATTAAGACCCCTAATT-TTTTCAATCTCAC-TTTTATATTTATAATTGAG
* * * *
9651341 ACCCCTAATTTTTTTTAATATCTC
63 ACCTCTAA-TTTTTTCAATCTCAC
*
9651365 TTTTT-TACTTTATAATTAAGACCCCTAATTTTTTCAGTCAT-ACTTTTATATTTATAATTGAGA
1 TTTTTAT-CTTTATAATTAAGACCCCTAATTTTTTCAATC-TCACTTTTATATTTATAATTGAGA
9651428 CCTCTAATTTTTTCAATCTCAC
64 CCTCTAATTTTTTCAATCTCAC
* *
9651450 TTTTTATTTTTATAATTAA-ACTCCCTAATTTTTTTAATCTCACTTTT-TATCTTCATAATTGA-
1 TTTTTATCTTTATAATTAAGAC-CCCTAATTTTTTCAATCTCACTTTTATAT-TT-ATAATTGAG
*
9651512 AGCCTCT-ATTTCTTCTAATCTCAC
63 A-CCTCTAATTTTTTC-AATCTCAC
* **
9651536 TTTCTAGGTTTATAATT
1 TTTTTATCTTTATAATT
9651553 GCGGCTCCTA
Statistics
Matches: 221, Mismatches: 38, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
84 6 0.03
85 59 0.27
86 63 0.29
87 57 0.26
88 36 0.16
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.52
Consensus pattern (85 bp):
TTTTTATCTTTATAATTAAGACCCCTAATTTTTTCAATCTCACTTTTATATTTATAATTGAGACC
TCTAATTTTTTCAATCTCAC
Found at i:9651551 original size:43 final size:43
Alignment explanation
Indices: 9651190--9651553 Score: 170
Period size: 43 Copynumber: 8.4 Consensus size: 43
9651180 CTAATATGAT
*
9651190 TTTTTA-CATTTATAATTG-AGATCTCTAATTTTTCTCAATCTCA-
1 TTTTTATC-TTTATAATTGAAG-CCTCTAATTTTTCT-AATCTCAC
* * * * * *
9651233 TTTTCTATTTTTATAATCGAGGTCC-ATAATATTTT-TAGTCTAAC
1 TTTT-TATCTTTATAATTGAAG-CCTCTAAT-TTTTCTAATCTCAC
* * * * *
9651277 ATTTTACCTTTATTAATTGAGGTCCT-TATTATTTTC-AATTTCAC
1 TTTTTATCTTTA-TAATTGAAG-CCTCTAAT-TTTTCTAATCTCAC
* * * * *
9651321 TTTTTA-CATTTATAATT-TAGACCCCTAATTTTTTTTAATATCTC
1 TTTTTATC-TTTATAATTGAAG-CCTCTAA-TTTTTCTAATCTCAC
* *
9651365 TTTTT-TACTTTATAATT-AAGACCCCTAATTTTT-TCAGTCAT-AC
1 TTTTTAT-CTTTATAATTGAAG-CCTCTAATTTTTCT-AATC-TCAC
*
9651408 -TTTTATATTTATAATTG-AGACCTCTAATTTTT-TCAATCTCAC
1 TTTTTATCTTTATAATTGAAG-CCTCTAATTTTTCT-AATCTCAC
* * * *
9651450 TTTTTATTTTTATAATT-AAACTCCCTAATTTTTTTAATCTCAC
1 TTTTTATCTTTATAATTGAAGC-CTCTAATTTTTCTAATCTCAC
*
9651493 TTTTTATCTTCATAATTGAAGCCTCT-ATTTCTTCTAATCTCAC
1 TTTTTATCTTTATAATTGAAGCCTCTAATTT-TTCTAATCTCAC
* **
9651536 TTTCTAGGTTTATAATTG
1 TTTTTATCTTTATAATTG
9651554 CGGCTCCTAA
Statistics
Matches: 252, Mismatches: 44, Indels: 50
0.73 0.13 0.14
Matches are distributed among these distances:
41 1 0.00
42 43 0.17
43 113 0.45
44 88 0.35
45 7 0.03
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.52
Consensus pattern (43 bp):
TTTTTATCTTTATAATTGAAGCCTCTAATTTTTCTAATCTCAC
Found at i:9651564 original size:129 final size:129
Alignment explanation
Indices: 9651285--9651569 Score: 298
Period size: 129 Copynumber: 2.2 Consensus size: 129
9651275 ACATTTTACC
* * *
9651285 TTTATTAATTGAGG-TCCTTATTATTTTCAATTTCACTTTTTACATTTATAATTTAGACCCCTAA
1 TTTA-TAATTGAGGCTCCTAATT-TTTTCAATCTCACTTTTTACATTTATAATTTAAACCCCTAA
* * * * *
9651349 TTTTTTTTAATATCTCTTTTTTACTTTATAATTAAGACCCCTAATTTTTTCAGTCATACTTTTAT
64 TTTTTTTTAATATCACTTTTTTACTTCATAATTAAGACCCCTAATTTCTTCAATCATACTTTTAG
9651414 A
129 A
* **
9651415 TTTATAATTGAGAC-CTCTAATTTTTTCAATCTCACTTTTTATTTTTATAA-TTAAACTCCCTAA
1 TTTATAATTGAGGCTC-CTAATTTTTTCAATCTCACTTTTTACATTTATAATTTAAAC-CCCTAA
* *
9651478 -TTTTTTTAATCTCAC-TTTTTATCTTCATAATTGAAG-CCTCT-ATTTCTTCTAATC-TCACTT
64 TTTTTTTTAATATCACTTTTTTA-CTTCATAATT-AAGACCCCTAATTTCTTC-AATCAT-ACTT
*
9651538 TCTAGG
125 T-TAGA
*
9651544 TTTATAATTGCGGCTCCTAATTTTTT
1 TTTATAATTGAGGCTCCTAATTTTTT
9651570 TTATTTCAAA
Statistics
Matches: 130, Mismatches: 16, Indels: 19
0.79 0.10 0.12
Matches are distributed among these distances:
127 14 0.11
128 39 0.30
129 67 0.52
130 10 0.08
ACGTcount: A:0.26, C:0.17, G:0.05, T:0.52
Consensus pattern (129 bp):
TTTATAATTGAGGCTCCTAATTTTTTCAATCTCACTTTTTACATTTATAATTTAAACCCCTAATT
TTTTTTAATATCACTTTTTTACTTCATAATTAAGACCCCTAATTTCTTCAATCATACTTTTAGA
Found at i:9651570 original size:86 final size:85
Alignment explanation
Indices: 9651373--9651552 Score: 217
Period size: 85 Copynumber: 2.1 Consensus size: 85
9651363 TCTTTTTTAC
* *
9651373 TTTATAATTAAGAC-CCCTAATTTTTTCAGTCATACTTTTATATTTATAATTGAGACCTCTAATT
1 TTTATAATTAA-ACTCCCTAATTTTTTTAATCATACTTTTATATTTATAATTGAGACCTCTAATT
* * **
9651437 TTTTCAATCTCACTTTTTATT
65 TCTTCAATCTCACTTTCTAGG
9651458 TTTATAATTAAACTCCCTAATTTTTTTAATC-TCACTTTT-TATCTTCATAATTGA-AGCCTCT-
1 TTTATAATTAAACTCCCTAATTTTTTTAATCAT-ACTTTTATAT-TT-ATAATTGAGA-CCTCTA
9651519 ATTTCTTCTAATCTCACTTTCTAGG
62 ATTTCTTC-AATCTCACTTTCTAGG
9651544 TTTATAATT
1 TTTATAATT
9651553 GCGGCTCCTA
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
84 6 0.07
85 42 0.51
86 35 0.42
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (85 bp):
TTTATAATTAAACTCCCTAATTTTTTTAATCATACTTTTATATTTATAATTGAGACCTCTAATTT
CTTCAATCTCACTTTCTAGG
Found at i:9653847 original size:21 final size:21
Alignment explanation
Indices: 9653821--9653870 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
9653811 AGACCAAGCA
9653821 GATGATACAATGTCTCTCTAG
1 GATGATACAATGTCTCTCTAG
* *
9653842 GATGATATAATGTCTCTTTAG
1 GATGATACAATGTCTCTCTAG
9653863 GATGATAC
1 GATGATAC
9653871 CAAAGGATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (21 bp):
GATGATACAATGTCTCTCTAG
Found at i:9655144 original size:23 final size:23
Alignment explanation
Indices: 9655109--9655181 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
9655099 ATACTTTACA
*
9655109 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
9655132 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
9655155 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
9655178 ATAT
1 ATAT
9655182 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:9655634 original size:23 final size:23
Alignment explanation
Indices: 9655599--9655671 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
9655589 ATACTTTACA
*
9655599 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
9655622 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
9655645 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
9655668 ATAT
1 ATAT
9655672 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:9659819 original size:33 final size:33
Alignment explanation
Indices: 9659782--9659847 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
9659772 CATCTTAATA
* *
9659782 TCACCCCTTAACACCCCAACTTCTTTGACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
9659815 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
9659848 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:9659906 original size:21 final size:21
Alignment explanation
Indices: 9659881--9659945 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
9659871 CCCCTTATGC
* *
9659881 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
9659902 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
9659923 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
9659944 CT
1 CT
9659946 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:9662191 original size:17 final size:18
Alignment explanation
Indices: 9662169--9662211 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
9662159 ATATATTCAG
9662169 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
9662186 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
9662206 TATCAT
1 TATCAT
9662212 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:9662229 original size:20 final size:19
Alignment explanation
Indices: 9662174--9662220 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
9662164 TTCAGTATCA
9662174 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
9662193 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
9662214 TTTTACC
1 TTTTACC
9662221 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:9662385 original size:20 final size:20
Alignment explanation
Indices: 9662355--9662401 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
9662345 TCCGGTAACG
*
9662355 TTTTACTGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
9662374 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
9662395 TTTTACC
1 TTTTACC
9662402 TGGTATATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:9662445 original size:181 final size:182
Alignment explanation
Indices: 9662141--9662613 Score: 678
Period size: 181 Copynumber: 2.6 Consensus size: 182
9662131 CGTACTTACG
* * * *
9662141 AAAGTATCGACACTTTCAATATATTCAGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATACGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
9662206 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
9662271 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTATCGATCCTTATATT
* * *
9662322 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACTGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATACGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
9662387 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
9662452 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTATCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTATCGATCCTTATATT
* * * * * * **
9662504 AAAGTACCGACACTTTAAATGTATACGGTAGCGCTTTACCGATTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATACGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
9662569 TGTCATAGTTTTACCTATTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
9662614 AATTTGGATT
Statistics
Matches: 259, Mismatches: 32, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
181 164 0.63
182 95 0.37
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATACGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTATCGATCCTTATATT
Found at i:9663552 original size:5 final size:5
Alignment explanation
Indices: 9663544--9663574 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
9663534 TCTTTTCTTG
9663544 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC T
9663575 GATGTTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:9663992 original size:42 final size:43
Alignment explanation
Indices: 9663933--9664045 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 43
9663923 CTTGTAAGAG
*
9663933 TTTTAATTGTGAATTTGTGACTACTTTTTGCTTCTGTATTCC-TT
1 TTTTAA-T-TGAATTTGTGACTACTTTTTGCTTCTGTATCCCATT
9663977 TTTTAATTGAATTTGTGGA-TA-TTTTATGCTTCTGTATCCCATT
1 TTTTAATTGAATTTGT-GACTACTTTT-TGCTTCTGTATCCCATT
* * * *
9664020 TTGTAAGTGAAATT-TGACTCCTTTTT
1 TTTTAATTGAATTTGTGACTACTTTTT
9664046 CAATGAATTG
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
41 6 0.10
42 27 0.46
43 20 0.34
44 6 0.10
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.54
Consensus pattern (43 bp):
TTTTAATTGAATTTGTGACTACTTTTTGCTTCTGTATCCCATT
Found at i:9664782 original size:41 final size:39
Alignment explanation
Indices: 9664551--9664858 Score: 116
Period size: 41 Copynumber: 7.5 Consensus size: 39
9664541 TAACATTAAC
* * * * *
9664551 GGCGTTTTTCAACAAATGCCACTAAAACTCATACTATGGT
1 GGCGTTTTTCGACAAACGCCACTAAAA-TCGTACTTTAGT
* *
9664591 GGCGTTTATTCGACAAACGCCACCATAGAATCGTTCTTTAGT
1 GGCGTTT-TTCGACAAACGCCA-C-TAAAATCGTACTTTAGT
* ** * * ** *
9664633 GGTGTTTTTAAACAAACGCCGC-AATAGGGTACATATATTGT
1 GGCGTTTTTCGACAAACGCCACTAAAATCGTAC-T-T-TAGT
* * * * * * * *
9664674 GGTGTTTTTAGATAAGCGCCGCTAAAACCTAGTAATTTAGC
1 GGCGTTTTTCGACAAACGCCACTAAAA--TCGTACTTTAGT
* * *
9664715 GGCGTTTTAT-GCAAAAATGCCGCTAAAACTCGTACTTTAGT
1 GGCGTTTT-TCG-ACAAACGCCACTAAAA-TCGTACTTTAGT
* *
9664756 GGCGTTTATTCGACAAACGCCACTAAAGATAAGTACTATAGT
1 GGCGTTT-TTCGACAAACGCCACTAAA-AT-CGTACTTTAGT
* ** * * *
9664798 GGCGTTTGTAAACAAACGCCGCCATAAAAACGTTCTTTAGT
1 GGCGTTTTTCGACAAACGCC-AC-TAAAATCGTACTTTAGT
* **
9664839 GGTGTTTTTAAACAAACGCC
1 GGCGTTTTTCGACAAACGCC
9664859 GCAATAGAAT
Statistics
Matches: 203, Mismatches: 48, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
38 5 0.02
39 1 0.00
40 9 0.04
41 122 0.60
42 54 0.27
43 9 0.04
44 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (39 bp):
GGCGTTTTTCGACAAACGCCACTAAAATCGTACTTTAGT
Found at i:9664927 original size:206 final size:205
Alignment explanation
Indices: 9664551--9664928 Score: 544
Period size: 206 Copynumber: 1.8 Consensus size: 205
9664541 TAACATTAAC
* * * * **
9664551 GGCGTTTTTCAACAAATGCCACTAAAACTCATACTATGGTGGCGTTTATTCGACAAACGCCACCA
1 GGCGTTTTTCAACAAACGCCACTAAAACTAATACTATAGTGGCGTTTAGTAAACAAACGCCACCA
* * ** *
9664616 TAGAATCGTTCTTTAGTGGTGTTTTTAAACAAACGCCGCAATAGGGTACATATATTGTGGTGTTT
66 TAAAAACGTTCTTTAGTGGTGTTTTTAAACAAACGCCGCAATAGAATACATATATCGTGGTGTTT
*
9664681 TTAGATAAGCGCCGCTAAAACCTAGTAATTTAGCGGCGTTTTATGCAAAAATGCCGCTAAAACTC
131 TTAGATAAACGCCGCTAAAACCTAGTAATTTAGCGGCGTTTTATGCAAAAATGCCGCTAAAACTC
9664746 GTACTTTAGT
196 GTACTTTAGT
* *
9664756 GGCGTTTATTCGACAAACGCCACTAAAGA-TAAGTACTATAGTGGCGTTT-GTAAACAAACGCCG
1 GGCGTTT-TTCAACAAACGCCACTAAA-ACTAA-TACTATAGTGGCGTTTAGTAAACAAACGCCA
9664819 CCATAAAAACGTTCTTTAGTGGTGTTTTTAAACAAACGCCGCAATAGAATACATATATCGTGGTG
63 CCATAAAAACGTTCTTTAGTGGTGTTTTTAAACAAACGCCGCAATAGAATACATATATCGTGGTG
* * * * *
9664884 TTTTTAGATAAACGTCGCTAAAACGTATTACTTTAGTGGCGTTTT
128 TTTTTAGATAAACGCCGCTAAAACCTAGTAATTTAGCGGCGTTTT
9664929 TAGACAAACA
Statistics
Matches: 151, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
205 7 0.05
206 128 0.85
207 16 0.11
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (205 bp):
GGCGTTTTTCAACAAACGCCACTAAAACTAATACTATAGTGGCGTTTAGTAAACAAACGCCACCA
TAAAAACGTTCTTTAGTGGTGTTTTTAAACAAACGCCGCAATAGAATACATATATCGTGGTGTTT
TTAGATAAACGCCGCTAAAACCTAGTAATTTAGCGGCGTTTTATGCAAAAATGCCGCTAAAACTC
GTACTTTAGT
Found at i:9664928 original size:41 final size:41
Alignment explanation
Indices: 9664878--9664968 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
9664868 TACATATATC
* * * *
9664878 GTGGTGTTTTTAGATAAACGTC-GCTAAAACGTATTACTTTA
1 GTGGTGTTTTTAGACAAAC-ACAGCTAAAACCTAGTACTTTA
*
9664919 GTGGCGTTTTTAGACAAACACAGCTAAAACCTAGTACTTTA
1 GTGGTGTTTTTAGACAAACACAGCTAAAACCTAGTACTTTA
*
9664960 TTGGTGTTT
1 GTGGTGTTT
9664969 ACCCTTTAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 1 0.02
41 41 0.98
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (41 bp):
GTGGTGTTTTTAGACAAACACAGCTAAAACCTAGTACTTTA
Found at i:9667555 original size:21 final size:21
Alignment explanation
Indices: 9667529--9667608 Score: 142
Period size: 21 Copynumber: 3.8 Consensus size: 21
9667519 TGATTTATTA
9667529 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
9667550 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
9667571 TTATGGATTTCAAGTTTCTTA
1 TTATGGATTTCAAGTTTCTTG
*
9667592 TTATGGATTTAAAGTTT
1 TTATGGATTTCAAGTTT
9667609 GTGTCTTGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:9667801 original size:42 final size:43
Alignment explanation
Indices: 9667727--9667879 Score: 134
Period size: 42 Copynumber: 3.6 Consensus size: 43
9667717 TGAAAGGTAA
* ** *
9667727 TTAGCGGCGTTTGTATTGAAAAAACTTCGCTATATG-TCTGTCTT
1 TTAGTGGCGTTTGT-TTGAAAAATGTTCGCTATA-GATCTGACTT
*
9667771 TTTGTGGCGTTTGTTTGAAAAATGTT-GCTATAGATCTGACTT
1 TTAGTGGCGTTTGTTTGAAAAATGTTCGCTATAGATCTGACTT
** * *
9667813 TTAGTGGCGTTTGTTCCAAAAATG-TCGTTTTAGATCTCGATCTT
1 TTAGTGGCGTTTGTTTGAAAAATGTTCGCTATAGATCT-GA-CTT
* **
9667857 TT-GAGGCGTTTGTTCAAAAAATG
1 TTAGTGGCGTTTGTTTGAAAAATG
9667880 CCATTATAGA
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 43 0.46
43 31 0.33
44 17 0.18
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.42
Consensus pattern (43 bp):
TTAGTGGCGTTTGTTTGAAAAATGTTCGCTATAGATCTGACTT
Found at i:9667879 original size:43 final size:42
Alignment explanation
Indices: 9667770--9668033 Score: 158
Period size: 43 Copynumber: 6.2 Consensus size: 42
9667760 ATGTCTGTCT
** * *
9667770 TTTTGTGGCGTTTGTTTGAAAAATGTTGCTATAGATCT-GAC
1 TTTTGTGGCGTTTGTTCAAAAAATGTCGTTATAGATCTCGAC
* *
9667811 TTTTAGTGGCGTTTGTTCCAAAAATGTCGTTTTAGATCTCGATC
1 TTTT-GTGGCGTTTGTTCAAAAAATGTCGTTATAGATCTCGA-C
* * * *
9667855 TTTTGAGGCGTTTGTTCAAAAAATGCCATTATAGA-CGTCAACC
1 TTTTGTGGCGTTTGTTCAAAAAATGTCGTTATAGATC-TCGA-C
* * * *
9667898 TTTTGCGGCGTTTGTTCTAAAAATGCCGCTATAGATCT-GACC
1 TTTTGTGGCGTTTGTTCAAAAAATGTCGTTATAGATCTCGA-C
* * ** * * * * * *
9667940 TTTAGCGATGTTTTTTGAACAAACG-CGTTAAAGATCCCGACC
1 TTTTGTGGCGTTTGTTCAAAAAATGTCGTTATAGATCTCGA-C
** * * * * *
9667982 TTTTACGGCGTTTGTTCTAAAAACGCCGCTATAGATCTTGACC
1 TTTTGTGGCGTTTGTTCAAAAAATGTCGTTATAGATCTCGA-C
9668025 TTTTGTGGC
1 TTTTGTGGC
9668034 ATTTTTTGTT
Statistics
Matches: 174, Mismatches: 42, Indels: 12
0.76 0.18 0.05
Matches are distributed among these distances:
41 13 0.07
42 71 0.41
43 84 0.48
44 6 0.03
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (42 bp):
TTTTGTGGCGTTTGTTCAAAAAATGTCGTTATAGATCTCGAC
Found at i:9668006 original size:42 final size:41
Alignment explanation
Indices: 9667895--9668028 Score: 103
Period size: 42 Copynumber: 3.2 Consensus size: 41
9667885 ATAGACGTCA
* * * *
9667895 ACCTTTTGCGGCGTTTGTTCTAAAAATGCCGCTATAGATCTG
1 ACCTTTTACGGCGTTTGTTCTAAAAACG-CGCTAAAGATCCG
** *
9667937 ACC-TTTAGCGATGTTT-TT-TGAACAAACGCGTTAAAGATCCCG
1 ACCTTTTA-CGGCGTTTGTTCT-AA-AAACGCGCTAAAGAT-CCG
* *
9667979 ACCTTTTACGGCGTTTGTTCTAAAAACGCCGCTATAGATCTTG
1 ACCTTTTACGGCGTTTGTTCTAAAAACG-CGCTAAAGATC-CG
9668022 ACCTTTT
1 ACCTTTT
9668029 GTGGCATTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
40 1 0.01
41 15 0.21
42 30 0.42
43 24 0.34
44 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (41 bp):
ACCTTTTACGGCGTTTGTTCTAAAAACGCGCTAAAGATCCG
Found at i:9669070 original size:14 final size:14
Alignment explanation
Indices: 9669051--9669077 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9669041 AAAAGGCAAA
9669051 GATGATAAAGATAG
1 GATGATAAAGATAG
9669065 GATGATAAAGATA
1 GATGATAAAGATA
9669078 TTATAATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.22
Consensus pattern (14 bp):
GATGATAAAGATAG
Found at i:9671000 original size:81 final size:81
Alignment explanation
Indices: 9670862--9671024 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
9670852 CAACTATTCC
* *
9670862 TACCAGAGCATCATAACTTAACTAAGTACATGCCAACTAGTAATATCAAAAGAACATCTAGAGAT
1 TACCAGAGCATCATAACATAACTAAGTACATACCAACTAGTAATATCAAAAGAACATCTAGAGAT
9670927 GTCATACTGTTACTGA
66 GTCATACTGTTACTGA
*
9670943 TACCAGAGCATCATAACATAACTAAGTACATACCAACTAGTAATATCAAAAGGACATCTAGAGAT
1 TACCAGAGCATCATAACATAACTAAGTACATACCAACTAGTAATATCAAAAGAACATCTAGAGAT
9671008 GTCATACTGTTACTGA
66 GTCATACTGTTACTGA
9671024 T
1 T
9671025 GAGGCAACCC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (81 bp):
TACCAGAGCATCATAACATAACTAAGTACATACCAACTAGTAATATCAAAAGAACATCTAGAGAT
GTCATACTGTTACTGA
Found at i:9673316 original size:21 final size:20
Alignment explanation
Indices: 9673290--9673360 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 20
9673280 CCGAGCCTAT
9673290 AGTATTGATACCTTATGCATG
1 AGTATTGATACC-TATGCATG
9673311 AGTATTGATA--T-TGCCTAT-
1 AGTATTGATACCTATG-C-ATG
* *
9673329 AATATCGATACCCTATGCATG
1 AGTATTGATA-CCTATGCATG
9673350 AGTATTGATAC
1 AGTATTGATAC
9673361 TCCTACTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 15
0.67 0.07 0.26
Matches are distributed among these distances:
17 2 0.05
18 10 0.26
19 2 0.05
20 3 0.08
21 20 0.51
22 2 0.05
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
AGTATTGATACCTATGCATG
Found at i:9673339 original size:39 final size:39
Alignment explanation
Indices: 9673284--9673359 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
9673274 TTGGTACCGA
* * *
9673284 GCCTATAGTATTGATACCTTATGCATGAGTATTGATATT
1 GCCTATAATATCGATACCCTATGCATGAGTATTGATATT
9673323 GCCTATAATATCGATACCCTATGCATGAGTATTGATA
1 GCCTATAATATCGATACCCTATGCATGAGTATTGATA
9673360 CTCCTACTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (39 bp):
GCCTATAATATCGATACCCTATGCATGAGTATTGATATT
Found at i:9679138 original size:18 final size:19
Alignment explanation
Indices: 9679094--9679143 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
9679084 CCCCTATAGA
9679094 GAGTATCGATACTAAGCCCTT
1 GAGTATCGATACT-A-CCCTT
9679115 -AGTATCGATACT-CCCTT
1 GAGTATCGATACTACCCTT
*
9679132 GAGTATCAATAC
1 GAGTATCGATAC
9679144 CAAAATGGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
20 12 0.44
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (19 bp):
GAGTATCGATACTACCCTT
Found at i:9684062 original size:2 final size:2
Alignment explanation
Indices: 9684055--9684117 Score: 99
Period size: 2 Copynumber: 31.5 Consensus size: 2
9684045 ATTAATTGTG
*
9684055 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
9684097 TA CA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA T
9684118 TTTAGGATAC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9693740 original size:4 final size:4
Alignment explanation
Indices: 9693733--9693759 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
9693723 ATTAATTATA
9693733 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
9693760 ACATATTTTA
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:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:9694818 original size:21 final size:21
Alignment explanation
Indices: 9694794--9694863 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
9694784 TTTTCCTCAG
9694794 GTATCGATACCCTATGCATGA
1 GTATCGATACCCTATGCATGA
* *
9694815 GTATTGATA--CTA-CCTAT-A
1 GTATCGATACCCTATGC-ATGA
9694833 GTATCGATACCCTATGCATGA
1 GTATCGATACCCTATGCATGA
*
9694854 GTATTGATAC
1 GTATCGATAC
9694864 TCATACTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 10 0.26
19 5 0.13
20 5 0.13
21 19 0.49
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (21 bp):
GTATCGATACCCTATGCATGA
Found at i:9694928 original size:21 final size:21
Alignment explanation
Indices: 9694902--9694941 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9694892 TTGTATAAGA
9694902 ACAATATCGATACTGACACAT
1 ACAATATCGATACTGACACAT
*
9694923 ACAATATCGTTACTGACAC
1 ACAATATCGATACTGACAC
9694942 CCAAAAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (21 bp):
ACAATATCGATACTGACACAT
Found at i:9700816 original size:13 final size:13
Alignment explanation
Indices: 9700798--9700822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9700788 GTTTTTCAAA
9700798 AAAAAAACAAAAC
1 AAAAAAACAAAAC
9700811 AAAAAAACAAAA
1 AAAAAAACAAAA
9700823 AAAGGCAAAA
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:9700817 original size:8 final size:8
Alignment explanation
Indices: 9700794--9700860 Score: 82
Period size: 8 Copynumber: 8.0 Consensus size: 8
9700784 ATTTGTTTTT
9700794 CAAAAAAA
1 CAAAAAAA
9700802 -AAACAAAA
1 CAAA-AAAA
9700810 CAAAAAAA
1 CAAAAAAA
9700818 CAAAAAAA
1 CAAAAAAA
*
9700826 GGCAAAAAAGC
1 --CAAAAAA-A
9700837 CAAAAAAA
1 CAAAAAAA
9700845 CAAAAAAA
1 CAAAAAAA
9700853 CAAAAAAA
1 CAAAAAAA
9700861 GCCAAAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
7 3 0.06
8 32 0.62
9 10 0.19
10 7 0.13
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Done.