Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 3 of 259
Found at i:737997 original size:36 final size:32
Alignment explanation
Indices: 737915--737980 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
737905 TTTTTATGAC
*
737915 TTAACTAAAACCCTTTACAAATTAATTAAGGT
1 TTAACTAAAAACCTTTACAAATTAATTAAGGT
737947 TTAACTAAAAACCTTTACAAATTAATTAAGGT
1 TTAACTAAAAACCTTTACAAATTAATTAAGGT
737979 TT
1 TT
737981 TATATCTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (32 bp):
TTAACTAAAAACCTTTACAAATTAATTAAGGT
Found at i:748444 original size:18 final size:18
Alignment explanation
Indices: 748421--748457 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
748411 GCAGAAATCA
748421 CCCTTTTTCCAATTCTAT
1 CCCTTTTTCCAATTCTAT
748439 CCCTTTTTCCAATTCTAT
1 CCCTTTTTCCAATTCTAT
748457 C
1 C
748458 TTTATCTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.35, G:0.00, T:0.49
Consensus pattern (18 bp):
CCCTTTTTCCAATTCTAT
Found at i:751392 original size:15 final size:14
Alignment explanation
Indices: 751372--751422 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
751362 GTTAAGATAA
751372 ATATTATTTATTTTT
1 ATATTATTT-TTTTT
751387 ATATTACTTTTTTTT
1 ATATTA-TTTTTTTT
751402 A-ATTATATTTATTTT
1 ATATTAT-TTT-TTTT
*
751417 AAATTA
1 ATATTA
751423 AATTTTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.03
14 7 0.22
15 17 0.53
16 7 0.22
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
ATATTATTTTTTTT
Found at i:751416 original size:16 final size:16
Alignment explanation
Indices: 751376--751427 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
751366 AGATAAATAT
751376 TATTTATTTTTATATTA
1 TATTTATTTTTA-ATTA
*
751393 -CTTT-TTTTTAATTA
1 TATTTATTTTTAATTA
*
751407 TATTTATTTTAAATTA
1 TATTTATTTTTAATTA
*
751423 AATTT
1 TATTT
751428 TCTATGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 16 0.55
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTATTTTTAATTA
Found at i:756716 original size:74 final size:74
Alignment explanation
Indices: 756596--756775 Score: 191
Period size: 74 Copynumber: 2.4 Consensus size: 74
756586 AAATAACTGT
* * * * ** * * *
756596 TTATTCGTCAGTTTATCCGACTACCTGTGGGCGCAAATATCGTTGGTAAATCCAACTAGAGCTAG
1 TTATTCGTCGGCTTATCCAACTAGCACTGGGCGCAAATACCGTTGGTAAATCCAACTAAAGCTAA
*
756661 GCTTAC-TA
66 GCTCACTTA
* * * *
756669 TTTATTCGTTGGCTTATCCAACTAGCACTGGGTGCAAATACCTTTGGTATATCCAACTAAAGCTA
1 -TTATTCGTCGGCTTATCCAACTAGCACTGGGCGCAAATACCGTTGGTAAATCCAACTAAAGCTA
756734 AGCTCACTTA
65 AGCTCACTTA
* * *
756744 TTATTCGTCGGTTTATCCGACTAGCGCTGGGC
1 TTATTCGTCGGCTTATCCAACTAGCACTGGGC
756776 ACAACTTTCG
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
74 84 0.98
75 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (74 bp):
TTATTCGTCGGCTTATCCAACTAGCACTGGGCGCAAATACCGTTGGTAAATCCAACTAAAGCTAA
GCTCACTTA
Found at i:756812 original size:35 final size:36
Alignment explanation
Indices: 756747--756848 Score: 111
Period size: 35 Copynumber: 2.9 Consensus size: 36
756737 TCACTTATTA
* * *
756747 TTCGTCGGTTTATCCGACTAGCGCTGGGCACAAC-T
1 TTCGTCGGTTTATCTGACTAGTGCTAGGCACAACAT
* *
756782 TTCGTCAGTTTATCTGACTAGTGTTAGGCAC-ACAT
1 TTCGTCGGTTTATCTGACTAGTGCTAGGCACAACAT
* * *
756817 TT-TTTGGTTTATCTGACTAGTGCTAGGTACAA
1 TTCGTCGGTTTATCTGACTAGTGCTAGGCACAA
756849 ACTCTTTCAC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 25 0.45
35 30 0.55
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (36 bp):
TTCGTCGGTTTATCTGACTAGTGCTAGGCACAACAT
Found at i:759447 original size:15 final size:15
Alignment explanation
Indices: 759428--759468 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
759418 TTATAATTAA
759428 CTTAATTAACCTAAG
1 CTTAATTAACCTAAG
* *
759443 TTTAATTAAACTTAAG
1 CTTAATT-AACCTAAG
759459 CTTAATTAAC
1 CTTAATTAAC
759469 AATTTTGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (15 bp):
CTTAATTAACCTAAG
Found at i:764816 original size:17 final size:17
Alignment explanation
Indices: 764793--764834 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
764783 TATCGAAATA
*
764793 AATATTAGATTAAATTT
1 AATATTAAATTAAATTT
*
764810 CATATTAAATTAAATTT
1 AATATTAAATTAAATTT
764827 AATATTAA
1 AATATTAA
764835 GATACTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
AATATTAAATTAAATTT
Found at i:767103 original size:39 final size:39
Alignment explanation
Indices: 767049--767127 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
767039 ATTTCCTTAA
767049 ATCTTTACAGGTTTGGAAGGCTGAGTCTGTAGATCCAAT
1 ATCTTTACAGGTTTGGAAGGCTGAGTCTGTAGATCCAAT
*
767088 ATCTTTACAGGTTTGGAAGTCTGAGTCTGTAGATCCAAT
1 ATCTTTACAGGTTTGGAAGGCTGAGTCTGTAGATCCAAT
767127 A
1 A
767128 GGAGTAAGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (39 bp):
ATCTTTACAGGTTTGGAAGGCTGAGTCTGTAGATCCAAT
Found at i:767570 original size:20 final size:20
Alignment explanation
Indices: 767541--767578 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
767531 TTTAACCCTT
767541 CAAAAATCAAA-TCAAATAA
1 CAAAAATCAAATTCAAATAA
767560 CAAATAATCAAATTCAAAT
1 CAAA-AATCAAATTCAAAT
767579 GCTATTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (20 bp):
CAAAAATCAAATTCAAATAA
Found at i:768486 original size:60 final size:63
Alignment explanation
Indices: 768378--768503 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 63
768368 ATTTTTAAAC
* * * *
768378 TTTTACAATTAGAATTAAATTGAAAATTTTTGTAAATTTTAAGTGTT-AAATCTATT-AAATT
1 TTTTACAATTAGAATAAAAATGAAAATTTTTGTAAAATTAAAGTGTTAAAATCTATTGAAATT
* * *
768439 TTTTAGAATTAGAA-AAAAATGAAAGTTTTTGTAAACATTAAAG-GTTAAAATTTATTGAAATT
1 TTTTACAATTAGAATAAAAATGAAAATTTTTGTAAA-ATTAAAGTGTTAAAATCTATTGAAATT
768501 TTT
1 TTT
768504 ATATTTAGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 21 0.38
61 26 0.47
62 8 0.15
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.44
Consensus pattern (63 bp):
TTTTACAATTAGAATAAAAATGAAAATTTTTGTAAAATTAAAGTGTTAAAATCTATTGAAATT
Found at i:768842 original size:6 final size:6
Alignment explanation
Indices: 768833--768860 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
768823 GAGAGAGCCA
768833 TTTCTG TTTCTG TTTCTG TTTCTG TTTC
1 TTTCTG TTTCTG TTTCTG TTTCTG TTTC
768861 AGTGAGCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.14, T:0.68
Consensus pattern (6 bp):
TTTCTG
Found at i:779604 original size:37 final size:37
Alignment explanation
Indices: 779554--779632 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
779544 TTATTACGAA
* * * *
779554 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
*
779591 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
779628 GTCTT
1 GTCTT
779633 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:779925 original size:49 final size:49
Alignment explanation
Indices: 779751--780139 Score: 627
Period size: 47 Copynumber: 8.1 Consensus size: 49
779741 CCCTTCGGGA
* * * * *
779751 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
779798 CCTGTCACAT-T-TATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
779845 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
779892 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
779941 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
779990 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
780037 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
780086 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
780133 CTTATCA
1 CTTATCA
780140 TCATTTCATA
Statistics
Matches: 323, Mismatches: 13, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 181 0.56
49 141 0.44
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:779948 original size:96 final size:95
Alignment explanation
Indices: 779751--780139 Score: 629
Period size: 96 Copynumber: 4.1 Consensus size: 95
779741 CCCTTCGGGA
* * * * * * * * *
779751 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATTTATACA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
779815 CTTCCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
779845 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATA
779909 CACTTTCACATTCATCACATCGGCCATTAGGC
64 CACTTTCACATTCATCACATCGGCCATTAGGC
*
779941 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
780006 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
780037 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
780102 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
780133 CTTATCA
1 CTTATCA
780140 TCATTTCATA
Statistics
Matches: 279, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
94 47 0.17
96 185 0.66
98 47 0.17
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (95 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:783660 original size:40 final size:41
Alignment explanation
Indices: 783438--783750 Score: 279
Period size: 40 Copynumber: 7.8 Consensus size: 41
783428 CCGAATACAC
* * * * *
783438 GTCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *** *
783479 -ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
*
783519 -TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *
783559 -TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *
783599 -TCACTAGCATGAATGCTCTTCGGAACTTAGCCCGGATTTA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * * *
783639 GTAACTCGCACCAATGC-CTTCGG-GCTTAGCCCGGA-ATTA
1 GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA-TA
* * * * *
783678 GT-ATCTCGCACAAATG-TCTTCGGATCTTAGTCCGGATATG
1 GTCA-CTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *
783718 GTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCC
1 GTCAC-TAGCACGAATGCTCTTCGGAACTTAGCCC
783751 AGACATCATT
Statistics
Matches: 231, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
38 1 0.00
39 32 0.14
40 179 0.77
41 19 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
GTCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:784098 original size:29 final size:29
Alignment explanation
Indices: 784059--784137 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
784049 CTTAATAATC
*
784059 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
* *
784089 AACTCGCACACTTAGTGCTATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
784118 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
784138 ATCTCACAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.07
29 36 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:784180 original size:43 final size:43
Alignment explanation
Indices: 784119--784221 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
784109 TGCATTTCAA
784119 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
784162 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
784205 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
784222 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:786128 original size:37 final size:37
Alignment explanation
Indices: 786078--786156 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
786068 TTATTACGAA
* * * *
786078 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
*
786115 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
786152 GTCTT
1 GTCTT
786157 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:786353 original size:47 final size:47
Alignment explanation
Indices: 786275--786781 Score: 559
Period size: 47 Copynumber: 10.1 Consensus size: 47
786265 CCCTTCGGGA
* * ** * * *
786275 CTTATCACATTTATACACTTTCACATCCATCATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
786322 CCTGTCACATTTATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
786369 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
786416 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* ** *
786463 CCTATCACATATATAC-CTTATCACATATATACACTTTCACATTCATCACA-TCGGC
1 CTTATCACATATATACACTT-TCAC--AT-T-CA---TCACA-TCGGC-CATTAGGC
*
786518 CATTAGGCCCTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 C--T------TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
786573 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT----C----GG--CCATTAGGC
786632 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
786679 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
786728 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
786775 CTTATCA
1 CTTATCA
786782 TCATTTCATA
Statistics
Matches: 401, Mismatches: 25, Indels: 68
0.81 0.05 0.14
Matches are distributed among these distances:
46 3 0.01
47 216 0.54
49 77 0.19
50 1 0.00
51 2 0.00
53 2 0.00
54 7 0.02
55 16 0.04
56 6 0.01
57 29 0.07
59 18 0.04
60 1 0.00
61 2 0.00
63 18 0.04
64 3 0.01
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:786486 original size:16 final size:17
Alignment explanation
Indices: 786465--786504 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
786455 CATTAGGCCC
786465 TATCACATATATAC-CT
1 TATCACATATATACACT
786481 TATCACATATATACACT
1 TATCACATATATACACT
786498 T-TCACAT
1 TATCACAT
786505 TCATCACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (17 bp):
TATCACATATATACACT
Found at i:786491 original size:63 final size:63
Alignment explanation
Indices: 786415--786551 Score: 258
Period size: 63 Copynumber: 2.2 Consensus size: 63
786405 GGCCATTAGG
786415 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
786478 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
786541 CACTT-TCACAT
1 C-CTTATCACAT
786552 TCATCATATC
Statistics
Matches: 73, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 70 0.96
64 3 0.04
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.32
Consensus pattern (63 bp):
CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
Found at i:786491 original size:110 final size:110
Alignment explanation
Indices: 786368--786693 Score: 474
Period size: 110 Copynumber: 3.0 Consensus size: 110
786358 GGCCATTAGG
786368 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
786433 CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
66 CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
*
786478 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACA
1 CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
*
786543 CTTTCACATTCATCATATCGGCCATTAGGCCCTATCACATATATA
66 CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
* * *
786588 ---TA-CAC-T-T-T-CACATTCATCA--CATCGGCCATTAGGCCCCATTAGGCCTTATCACATA
1 CCTTATCACATATATACACTTTCA-CATTCATC--ACA-TCGG--CCATTAGGCCTTATCACATA
*
786643 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
60 TATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
786694 TACACTTTCA
Statistics
Matches: 202, Mismatches: 8, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
101 4 0.02
102 7 0.03
103 5 0.02
104 4 0.02
105 1 0.00
106 71 0.35
107 2 0.01
110 108 0.53
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (110 bp):
CCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
Found at i:786601 original size:96 final size:96
Alignment explanation
Indices: 786478--786781 Score: 477
Period size: 106 Copynumber: 3.1 Consensus size: 96
786468 CACATATATA
786478 CCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
1 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
*
786541 CACTTTCACATTCATCATATCGGCCATTAGG
66 CACTTTCACATTCATCACATCGGCCATTAGG
*
786572 CCCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCCATTAGGCCTTAT
1 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG---C------CC-TAT
786637 CACATATATACACTTTCACATTCATCACATCGGCCATTAGG
56 CACATATATACACTTTCACATTCATCACATCGGCCATTAGG
*
786678 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
786743 CACTTTCACATTCATCACATCGGCCATTAGG
66 CACTTTCACATTCATCACATCGGCCATTAGG
786774 CCTTATCA
1 CCTTATCA
786782 TCATTTCATA
Statistics
Matches: 194, Mismatches: 4, Indels: 22
0.88 0.02 0.10
Matches are distributed among these distances:
94 8 0.04
96 90 0.46
97 1 0.01
99 1 0.01
103 1 0.01
105 2 0.01
106 91 0.47
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATA
CACTTTCACATTCATCACATCGGCCATTAGG
Found at i:796513 original size:31 final size:29
Alignment explanation
Indices: 796466--796535 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
796456 ACTGCAAAAA
* * *
796466 TAGTCACTTTTATTTGACTCATATTATATTT
1 TAGTCACTTATATTTGA--AATATTACATTT
* *
796497 TAGTCACTTATGTTTGAAATGTTACATTT
1 TAGTCACTTATATTTGAAATATTACATTT
796526 TAGTCACTTA
1 TAGTCACTTA
796536 CGTTATCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (29 bp):
TAGTCACTTATATTTGAAATATTACATTT
Found at i:797326 original size:24 final size:24
Alignment explanation
Indices: 797294--797341 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
797284 GTTGTAAGTA
797294 TGAATTAAAATATATTATATTTAT
1 TGAATTAAAATATATTATATTTAT
797318 TGAATTAAAATATATTATATTTAT
1 TGAATTAAAATATATTATATTTAT
797342 CTTTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
TGAATTAAAATATATTATATTTAT
Found at i:797347 original size:22 final size:22
Alignment explanation
Indices: 797297--797350 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 22
797287 GTAAGTATGA
797297 ATTAAAATATATTATATTTATT
1 ATTAAAATATATTATATTTATT
797319 GAATTAAAATATATTATATTTATCT
1 --ATTAAAATATATTATATTTAT-T
797344 -TTAAAAT
1 ATTAAAAT
797351 TTGATACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.24
24 21 0.72
25 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTAAAATATATTATATTTATT
Found at i:798768 original size:21 final size:21
Alignment explanation
Indices: 798742--798791 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
798732 TGTAAAATAT
798742 TAAATATAATTTAATAAAAAA
1 TAAATATAATTTAATAAAAAA
*
798763 TAAATATAATTTAATATAAAA
1 TAAATATAATTTAATAAAAAA
*
798784 TAATTATA
1 TAAATATA
798792 CTAAGAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAATATAATTTAATAAAAAA
Found at i:803902 original size:25 final size:25
Alignment explanation
Indices: 803873--803922 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
803863 AAAACGGGCT
803873 GTTACAACTATGTATATGATCCTCA
1 GTTACAACTATGTATATGATCCTCA
803898 GTTACAACTATGTATATGATCCTCA
1 GTTACAACTATGTATATGATCCTCA
803923 AACTTGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (25 bp):
GTTACAACTATGTATATGATCCTCA
Found at i:804762 original size:138 final size:138
Alignment explanation
Indices: 804583--804866 Score: 446
Period size: 138 Copynumber: 2.1 Consensus size: 138
804573 AAACATATAT
*
804583 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-CTGAATTTAT
1 ATATAATTAATATATGAATTTGATTCATACAAAATAATAATTGTATATATTTTATC-GAATTTAT
* * *
804647 TAATATAAAAAATTATATTAATTAATTTCAGTCAAAATATTAAAGACAT-GAAAGTTAATATTCT
65 TAATATAAAAAATTATATTAATTAATTTCAGGCAAAATATAAAAGACATGGAAA-TTAATATTAT
*
804711 TTTGGAAAGA
129 TTTAGAAAGA
* * *
804721 TTATAATTAATATATGAATTTGATTCATGCAAAGTAATAATTGTATATATTTTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATAATAATTGTATATATTTTATCGAATTTATT
* *
804786 AATATAAACAATTATATTAATTAATTTCAGGCAAAATATAAAAGACATGGAAATTTATATTATTT
66 AATATAAAAAATTATATTAATTAATTTCAGGCAAAATATAAAAGACATGGAAATTAATATTATTT
804851 TAGAAAGA
131 TAGAAAGA
804859 ATATAATT
1 ATATAATT
804867 CTTTTTTCTA
Statistics
Matches: 133, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
138 128 0.96
139 5 0.04
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATAATAATTGTATATATTTTATCGAATTTATT
AATATAAAAAATTATATTAATTAATTTCAGGCAAAATATAAAAGACATGGAAATTAATATTATTT
TAGAAAGA
Found at i:804967 original size:76 final size:75
Alignment explanation
Indices: 804841--804989 Score: 244
Period size: 76 Copynumber: 2.0 Consensus size: 75
804831 CATGGAAATT
804841 TATATTATTTTAGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGCCTTCCTCTATTAATAA
1 TATATTATTTTAGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGCCTT-CTCTATTAATAA
804906 GGGAATAATCC
65 GGGAATAATCC
* * * * *
804917 TATATTCTTTTGGAAAGATTATGATTCTTTTTTCTAACTTTCCATTTGCCTTTTCTATTAATAAG
1 TATATTATTTTAGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAG
804982 GGAATAAT
66 GGAATAAT
804990 TCTGGTTTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 20 0.29
76 48 0.71
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (75 bp):
TATATTATTTTAGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAG
GGAATAATCC
Found at i:805735 original size:24 final size:24
Alignment explanation
Indices: 805708--805766 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
805698 AATGTTTTGA
*
805708 ATTTTATATAATATTAATATAAAT
1 ATTTTATTTAATATTAATATAAAT
805732 ATTTTTATTTAA-ATTAATATAAAT
1 A-TTTTATTTAATATTAATATAAAT
805756 -TTTTATTTAAT
1 ATTTTATTTAAT
805767 TAAATTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
22 10 0.31
24 13 0.41
25 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
ATTTTATTTAATATTAATATAAAT
Found at i:805760 original size:22 final size:24
Alignment explanation
Indices: 805709--805769 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 24
805699 ATGTTTTGAA
*
805709 TTTTATATAATATTAATATAAATAT
1 TTTTATTTAA-ATTAATATAAATAT
805734 TTTTATTTAAATTAATAT-AA-AT
1 TTTTATTTAAATTAATATAAATAT
805756 TTTTATTT-AATTAA
1 TTTTATTTAAATTAA
805770 ATTTTAGGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
21 6 0.17
22 10 0.29
23 2 0.06
24 8 0.23
25 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTATTTAAATTAATATAAATAT
Found at i:805977 original size:16 final size:16
Alignment explanation
Indices: 805958--805994 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
805948 GGAAAGTGAT
805958 TAAAATAGAAACGATC
1 TAAAATAGAAACGATC
**
805974 TAAAATAGAAATTATC
1 TAAAATAGAAACGATC
805990 TAAAA
1 TAAAA
805995 CATTAGCTAC
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:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (16 bp):
TAAAATAGAAACGATC
Found at i:809462 original size:19 final size:19
Alignment explanation
Indices: 809423--809462 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
809413 AAAAAAATCA
*
809423 TTTTGGTCCTTTATATAAT
1 TTTTGGTCCTTTATAGAAT
* *
809442 TTTTTGTCCTTTATAGCAT
1 TTTTGGTCCTTTATAGAAT
809461 TT
1 TT
809463 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.60
Consensus pattern (19 bp):
TTTTGGTCCTTTATAGAAT
Found at i:809641 original size:10 final size:10
Alignment explanation
Indices: 809628--809652 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
809618 AAAAAGTACA
809628 AAAATATTTT
1 AAAATATTTT
809638 AAAATATTTT
1 AAAATATTTT
809648 AAAAT
1 AAAAT
809653 TAATTAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
AAAATATTTT
Found at i:819829 original size:14 final size:14
Alignment explanation
Indices: 819785--819829 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
819775 AAATTATGTT
* *
819785 AATTATTTATTTTT
1 AATTATTTATATTA
*
819799 AATTATTTA-AATA
1 AATTATTTATATTA
819812 AATTATTTATATTA
1 AATTATTTATATTA
819826 AATT
1 AATT
819830 TAACTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTATTTATATTA
Found at i:846585 original size:20 final size:20
Alignment explanation
Indices: 846562--846664 Score: 80
Period size: 20 Copynumber: 5.0 Consensus size: 20
846552 TAGAATACGA
*
846562 CACAAAGGCTAACAGAATCC
1 CACAAAGGCTAACAGAATGC
* **
846582 CACAATGGCTATTTTAGAATGC
1 CACAAAGGCTA--ACAGAATGC
* *
846604 TACAAAGGCTAATAGAATGC
1 CACAAAGGCTAACAGAATGC
** * *
846624 CACAAAAACCATATCATAATGC
1 CAC-AAAGGC-TAACAGAATGC
846646 CACAAAGGCTAACAGAATG
1 CACAAAGGCTAACAGAATG
846665 AGCCATAAAG
Statistics
Matches: 62, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
20 28 0.45
21 8 0.13
22 26 0.42
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (20 bp):
CACAAAGGCTAACAGAATGC
Found at i:847865 original size:46 final size:46
Alignment explanation
Indices: 847785--848058 Score: 390
Period size: 46 Copynumber: 6.0 Consensus size: 46
847775 TTTGACATGA
* * * * * * *
847785 TGCCATAGTGTCTTTCAACTATGGACTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
847831 TGCCATGGTATCTTTCAACCATAGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
847877 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
847923 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG-T
*
847970 T-CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
848015 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
848059 AGAGCACACT
Statistics
Matches: 209, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 5 0.02
46 202 0.97
47 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:850204 original size:3 final size:3
Alignment explanation
Indices: 850196--850232 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
850186 ATACTAAATA
850196 AAT AAT AAT -AT AAT AAAT AAT AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
850233 ACATCTCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.13
3 24 0.77
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:850212 original size:15 final size:15
Alignment explanation
Indices: 850192--850232 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
850182 TTTTATACTA
850192 AATAAATAATAATAT
1 AATAAATAATAATAT
850207 AATAAATAATAATAT
1 AATAAATAATAATAT
850222 AAT-AATAATAA
1 AATAAATAATAA
850233 ACATCTCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAATAATAATAT
Found at i:853239 original size:15 final size:15
Alignment explanation
Indices: 853221--853277 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
853211 TATCTGTTTT
*
853221 ATTGAGTTTATATTG
1 ATTGAATTTATATTG
* *
853236 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
853251 ATTGAATTTATATTG
1 ATTGAATTTATATTG
853266 ATTGAA-TTATAT
1 ATTGAATTTATAT
853278 AATATATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 6 0.16
15 31 0.84
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:853255 original size:30 final size:28
Alignment explanation
Indices: 853217--853275 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
853207 TGAATATCTG
*
853217 TTTTATTGAGTTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
853246 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
853275 T
1 T
853276 ATAATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:853688 original size:23 final size:23
Alignment explanation
Indices: 853662--853720 Score: 90
Period size: 21 Copynumber: 2.7 Consensus size: 23
853652 GCACTTTATC
853662 TGTCGTATTTCAGGCACCTCGTG
1 TGTCGTATTTCAGGCACCTCGTG
853685 TGTCGTA--TCAGGCACCTCGTG
1 TGTCGTATTTCAGGCACCTCGTG
853706 TGTCGT-TTT-AGGCAC
1 TGTCGTATTTCAGGCAC
853721 TTTATGTGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 26 0.76
22 1 0.03
23 7 0.21
ACGTcount: A:0.14, C:0.25, G:0.27, T:0.34
Consensus pattern (23 bp):
TGTCGTATTTCAGGCACCTCGTG
Found at i:853728 original size:21 final size:21
Alignment explanation
Indices: 853648--853730 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
853638 GCTTTACCGA
* * *
853648 TTAGGCACTTTATCTGTCGTAT
1 TTAGGCACCTCATGTGTCGT-T
* *
853670 TTCAGGCACCTCGTGTGTCGTA
1 TT-AGGCACCTCATGTGTCGTT
* *
853692 TCAGGCACCTCGTGTGTCGTT
1 TTAGGCACCTCATGTGTCGTT
* *
853713 TTAGGCACTTTATGTGTC
1 TTAGGCACCTCATGTGTC
853731 ATATACTGAT
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 32 0.65
22 3 0.06
23 14 0.29
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.39
Consensus pattern (21 bp):
TTAGGCACCTCATGTGTCGTT
Found at i:853917 original size:18 final size:19
Alignment explanation
Indices: 853896--853936 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
853886 AATGAAATGA
853896 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
853914 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
853933 GAAA
1 GAAA
853937 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:855151 original size:16 final size:17
Alignment explanation
Indices: 855130--855162 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
855120 TTAGGTTGAG
855130 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
*
855146 AAAATTAATTTAGTTAA
1 AAAATTAATTTAATTAA
855163 TTTAACTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:857154 original size:62 final size:62
Alignment explanation
Indices: 857031--857168 Score: 165
Period size: 62 Copynumber: 2.2 Consensus size: 62
857021 TTGTTATTAA
** * *
857031 ATTTTAATAGGATTATTATTAAATATAATTTAATAAAAATAAATAATAAATAATTTAATCAT
1 ATTTTAATATAATTAGTACTAAATATAATTTAATAAAAATAAATAATAAATAATTTAATCAT
* * *
857093 ATTTTAATATAATTAGTACTAAATATAATTTAAT-TAAATTAA-AATATATAATTTAAT-AT
1 ATTTTAATATAATTAGTACTAAATATAATTTAATAAAAATAAATAATAAATAATTTAATCAT
*
857152 CATTCTTATTATAATTA
1 -ATT-TTAATATAATTA
857169 TTTTTATATT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.03
60 17 0.26
61 17 0.26
62 30 0.45
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (62 bp):
ATTTTAATATAATTAGTACTAAATATAATTTAATAAAAATAAATAATAAATAATTTAATCAT
Found at i:857547 original size:28 final size:28
Alignment explanation
Indices: 857507--857570 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
857497 ATTACTGTCT
857507 AAATCAAGAAGATAACAAGAAACGCACA
1 AAATCAAGAAGATAACAAGAAACGCACA
*
857535 AAATCAAGGAGATAACAAGAAACGCACA
1 AAATCAAGAAGATAACAAGAAACGCACA
*
857563 AAAACAAG
1 AAATCAAG
857571 TTCTATGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.61, C:0.17, G:0.16, T:0.06
Consensus pattern (28 bp):
AAATCAAGAAGATAACAAGAAACGCACA
Found at i:862906 original size:23 final size:23
Alignment explanation
Indices: 862875--862949 Score: 68
Period size: 23 Copynumber: 3.4 Consensus size: 23
862865 TCTACAAACC
862875 TATTATTAAGCAAGTCTAAGGCA
1 TATTATTAAGCAAGTCTAAGGCA
* * * *
862898 TATTCTTAA-CAA-TATTTA--CC
1 TATTATTAAGCAAGT-CTAAGGCA
862918 TATTATTAAGCAAGTCTAAGGCA
1 TATTATTAAGCAAGTCTAAGGCA
*
862941 TATTCTTAA
1 TATTATTAA
862950 CAATATTTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 10
0.67 0.16 0.18
Matches are distributed among these distances:
20 9 0.24
21 6 0.16
22 6 0.16
23 17 0.45
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (23 bp):
TATTATTAAGCAAGTCTAAGGCA
Found at i:862920 original size:43 final size:43
Alignment explanation
Indices: 862872--862958 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
862862 TGATCTACAA
862872 ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
1 ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
862915 ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
1 ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
862958 A
1 A
862959 TGTAATTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (43 bp):
ACCTATTATTAAGCAAGTCTAAGGCATATTCTTAACAATATTT
Found at i:863688 original size:11 final size:11
Alignment explanation
Indices: 863651--863709 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
863641 TAAATATTAT
863651 AAATTTA-AAA
1 AAATTTATAAA
*
863661 AAATTATAAATATA
1 AAATT-T--ATAAA
863675 AAATTTATAAA
1 AAATTTATAAA
863686 AAA-TTATAAAA
1 AAATTTAT-AAA
*
863697 AAATTAATAAA
1 AAATTTATAAA
863708 AA
1 AA
863710 TCTTTACCCA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
10 9 0.22
11 19 0.47
12 3 0.08
13 2 0.05
14 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATTTATAAA
Found at i:863692 original size:25 final size:26
Alignment explanation
Indices: 863641--863695 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
863631 TGTAATATAT
863641 TAAATATTATAAATTTAAAAAAATTA
1 TAAATATTATAAATTTAAAAAAATTA
863667 TAAATA-TA-AAATTTATAAAAAATTA
1 TAAATATTATAAATTTA-AAAAAATTA
863692 TAAA
1 TAAA
863696 AAAATTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
TAAATATTATAAATTTAAAAAAATTA
Found at i:870414 original size:96 final size:95
Alignment explanation
Indices: 870250--870440 Score: 373
Period size: 96 Copynumber: 2.0 Consensus size: 95
870240 CGATGAGATT
870250 GTTGTATTTGACAATCAGACTGTGAATAGACTGGTGTGATCTTGTTCAAGTCCCATGTGCTATCC
1 GTTGTATTTGACAATCAGACTGTGAATAGACTGGTGTGATCTTGTTCAAGTCCCATGTGCTATCC
870315 AAGTAGGAAGGGGGGGGGGGAGGTAGAACAA
66 AAGTAGGAA-GGGGGGGGGGAGGTAGAACAA
870346 GTTGTATTTGACAATCAGACTGTGAATAGACTGGTGTGATCTTGTTCAAGTCCCATGTGCTATCC
1 GTTGTATTTGACAATCAGACTGTGAATAGACTGGTGTGATCTTGTTCAAGTCCCATGTGCTATCC
870411 AAGTAGGAAGGGGGGGGGGAGGTAGAACAA
66 AAGTAGGAAGGGGGGGGGGAGGTAGAACAA
870441 AGGAGTGTAC
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 21 0.22
96 74 0.78
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (95 bp):
GTTGTATTTGACAATCAGACTGTGAATAGACTGGTGTGATCTTGTTCAAGTCCCATGTGCTATCC
AAGTAGGAAGGGGGGGGGGAGGTAGAACAA
Found at i:872235 original size:100 final size:100
Alignment explanation
Indices: 872062--872259 Score: 396
Period size: 100 Copynumber: 2.0 Consensus size: 100
872052 TAGTTGCTAG
872062 ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
1 ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
872127 CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCTAA
66 CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCTAA
872162 ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
1 ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
872227 CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCT
66 CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCT
872260 CGTCTTTTTT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (100 bp):
ATCTATGAGTTGATGGTCAATAGCATGAATCGTTTAGACCAAAGCAGAGTTTAGGTAGTGTTGAT
CCTGATAAGTTCCATTTTCTAGCAGTTTTTTCTAA
Found at i:877113 original size:43 final size:44
Alignment explanation
Indices: 877052--877144 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
877042 TCCTAATTGG
877052 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACAT-AAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
877095 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
877139 -AAAATA
1 GAAAATA
877145 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 42 0.89
44 5 0.11
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:877188 original size:19 final size:18
Alignment explanation
Indices: 877166--877205 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
877156 TGAATAAAAC
877166 TTATCTATCC-AAATAATAT
1 TTATCTA-CCTAAATAA-AT
877185 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
877203 TTA
1 TTA
877206 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:881850 original size:43 final size:43
Alignment explanation
Indices: 881789--881924 Score: 238
Period size: 43 Copynumber: 3.2 Consensus size: 43
881779 TCCTAATTGG
881789 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
881832 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
* *
881875 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
881919 -AAAATA
1 GAAAATA
881925 TTTCTAGAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
43 89 0.99
44 1 0.01
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (43 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAA
Found at i:881968 original size:19 final size:18
Alignment explanation
Indices: 881946--881985 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
881936 TGAATAAAAC
881946 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
881965 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
881983 TTA
1 TTA
881986 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:891305 original size:13 final size:13
Alignment explanation
Indices: 891281--891319 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
891271 CATACAAAAT
891281 CACATGAGGGTTCA
1 CACAT-AGGGTTCA
891295 CACATAGGGTTCA
1 CACATAGGGTTCA
*
891308 CATATAGGGTTC
1 CACATAGGGTTC
891320 GAACATACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (13 bp):
CACATAGGGTTCA
Found at i:891410 original size:24 final size:24
Alignment explanation
Indices: 891349--891470 Score: 72
Period size: 24 Copynumber: 5.1 Consensus size: 24
891339 GTAGGGTTTG
* * * *
891349 CACATACAGGGTTCGGATATTAAGT
1 CACATAGA-GGTTCGCATAATAAAT
891374 CACAT-GAGAGTTCGCATAATAAAT
1 CACATAGAG-GTTCGCATAATAAAT
* *
891398 CACATAGAGGTTCACA-AACATAAT
1 CACATAGAGGTTCGCATAATA-AAT
** * *
891422 CGTATAGGGGTTCGCATACTAAAT
1 CACATAGAGGTTCGCATAATAAAT
* *
891446 C-CATA-AGGGTTCACATAGTAAAT
1 CACATAGA-GGTTCGCATAATAAAT
891469 CA
1 CA
891471 TATTAAAGTT
Statistics
Matches: 75, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
23 22 0.29
24 43 0.57
25 10 0.13
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (24 bp):
CACATAGAGGTTCGCATAATAAAT
Found at i:891462 original size:23 final size:24
Alignment explanation
Indices: 891424--891527 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
891414 AACATAATCG
*
891424 TATAGGGGTTCGCATACTAAATCCA
1 TATA-GGGTTCACATACTAAATCCA
*
891449 TA-AGGGTTCACATAGTAAAT-CA
1 TATAGGGTTCACATACTAAATCCA
** ** * *
891471 TATTAAAGTTTGCATATTAAA-ACA
1 TA-TAGGGTTCACATACTAAATCCA
891495 TATTAGGGTTCACATACTAAATCCA
1 TA-TAGGGTTCACATACTAAATCCA
891520 TA-AGGGTT
1 TATAGGGTT
891528 TGCATGAGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
22 4 0.06
23 21 0.34
24 31 0.50
25 6 0.10
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (24 bp):
TATAGGGTTCACATACTAAATCCA
Found at i:892365 original size:127 final size:127
Alignment explanation
Indices: 892139--892393 Score: 447
Period size: 127 Copynumber: 2.0 Consensus size: 127
892129 GGGTCTACGT
*
892139 TAAAAGCCAGAGGAAAAAGAAGGTTCGGAGTTAGTTACGCGCGAGGAAGGTATTAGCACCCTCGC
1 TAAAAGCCAGAGGAAAAAGAAGGTTCAGAGTTAGTTACGCGCGAGGAAGGTATTAGCACCCTCGC
*
892204 GACACTCAAAACTGGTATCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
66 GACACCCAAAACTGGTATCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
* *
892266 TAAAAGCCAGAGGAAAAATAAGGTTCAGAGTTAGTTACGCGCGAGGAAGGTATTAGCACCTTCGC
1 TAAAAGCCAGAGGAAAAAGAAGGTTCAGAGTTAGTTACGCGCGAGGAAGGTATTAGCACCCTCGC
* * *
892331 GACGCCCAAAATTGGTGTCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
66 GACACCCAAAACTGGTATCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
892393 T
1 T
892394 TTGACATTTA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 121 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (127 bp):
TAAAAGCCAGAGGAAAAAGAAGGTTCAGAGTTAGTTACGCGCGAGGAAGGTATTAGCACCCTCGC
GACACCCAAAACTGGTATCTTGTTAAACTTGTGTCGTCTTAATTTTCAAAATACGAATTCAA
Found at i:893289 original size:15 final size:17
Alignment explanation
Indices: 893255--893309 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
893245 ATATTGAAAG
*
893255 TATATATATACATAATA
1 TATATATATACATAACA
893272 TATATATATA-A-AACA
1 TATATATATACATAACA
893287 TATACGATATATACATATACA
1 TAT---ATATATACATA-ACA
893308 TA
1 TA
893310 GAAATGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 6 0.19
16 1 0.03
17 10 0.32
18 7 0.23
19 1 0.03
20 1 0.03
21 5 0.16
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (17 bp):
TATATATATACATAACA
Found at i:893432 original size:11 final size:11
Alignment explanation
Indices: 893416--893649 Score: 56
Period size: 11 Copynumber: 23.1 Consensus size: 11
893406 TAATACTTGA
893416 AATATATACAT
1 AATATATACAT
893427 AATATA-A-A-
1 AATATATACAT
*
893435 AATATATATAT
1 AATATATACAT
* * *
893446 AATGTAGTATTAA
1 AATATA-TA-CAT
*
893459 AATATATACAC
1 AATATATACAT
893470 AATATATACAT
1 AATATATACAT
*
893481 ATTA-ATA-AT
1 AATATATACAT
893490 AATA-ATA-AT
1 AATATATACAT
893499 AATA-ATA-A-
1 AATATATACAT
* *
893507 ACTAT-T-GAT
1 AATATATACAT
*
893516 AATATTTCACAAAT
1 AATATAT-AC--AT
893530 ATATATATAC-T
1 A-ATATATACAT
*
893541 AAAAATATACAT
1 -AATATATACAT
*
893553 AATA-ATATAT
1 AATATATACAT
*
893563 AAAATATA-AT
1 AATATATACAT
893573 -AT-TA-ACAT
1 AATATATACAT
893581 -ATATAT--AT
1 AATATATACAT
893589 AATATATGA-A-
1 AATATAT-ACAT
*
893599 AA-ATATATAT
1 AATATATACAT
*
893609 AATATA-ATAT
1 AATATATACAT
893619 AATAT-TA-A-
1 AATATATACAT
* *
893627 AATATTTACAA
1 AATATATACAT
893638 AATATATACAT
1 AATATATACAT
893649 A
1 A
893650 TTAGAAATAA
Statistics
Matches: 174, Mismatches: 19, Indels: 60
0.69 0.08 0.24
Matches are distributed among these distances:
7 1 0.01
8 25 0.14
9 41 0.24
10 31 0.18
11 53 0.30
12 6 0.03
13 7 0.04
14 5 0.03
15 5 0.03
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (11 bp):
AATATATACAT
Found at i:893520 original size:57 final size:54
Alignment explanation
Indices: 893416--893658 Score: 187
Period size: 57 Copynumber: 4.4 Consensus size: 54
893406 TAATACTTGA
* * * *
893416 AATATATACATAATATAAAAATATATAT-ATAAT-GT-AGTATTAAAATATATACAC
1 AATATATACAT-AT-TAAAAATATACATAATAATAATAAATATTATAATAT-TACAC
* *
893470 AATATATACATATTAATAATAATA-ATAATAATAATAAACTATTGATAATATTTCAC
1 AATATATACATATTAAAAAT-ATACATAATAATAATAAA-TATT-ATAATATTACAC
* *
893526 AAATATATATATACTAAAAATATACATAATAATATATAAA-A-TATAATATTA-AC
1 -AATATATACATATTAAAAATATACATAATAATA-ATAAATATTATAATATTACAC
* * * *
893579 ATATATATATAATATATGAAAAATATATATAAT-ATAATATAATATTAAAATATTTACAA
1 A-ATATATA-CATAT-T-AAAAATATACATAATAATAATA-AATATTATAATA-TTACAC
*
893638 AATATATACATATTAGAAATA
1 AATATATACATATTAAAAATA
893659 AAAAAAACGA
Statistics
Matches: 155, Mismatches: 16, Indels: 35
0.75 0.08 0.17
Matches are distributed among these distances:
52 9 0.06
53 19 0.12
54 26 0.17
55 14 0.09
56 28 0.18
57 42 0.27
58 15 0.10
59 2 0.01
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (54 bp):
AATATATACATATTAAAAATATACATAATAATAATAAATATTATAATATTACAC
Found at i:893573 original size:26 final size:26
Alignment explanation
Indices: 893557--893643 Score: 78
Period size: 26 Copynumber: 3.5 Consensus size: 26
893547 ATACATAATA
893557 ATATATAAAATATAATATTAACATAT
1 ATATATAAAATATAATATTAACATAT
* *
893583 ATATATAATATATGA-A--AA-ATAT
1 ATATATAAAATATAATATTAACATAT
*
893605 ATATAATATAATATAATATTAA-A-AT
1 ATAT-ATAAAATATAATATTAACATAT
* *
893630 ATTTACAAAATATA
1 ATATATAAAATATA
893644 TACATATTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 8 0.16
23 10 0.20
24 9 0.18
25 6 0.12
26 16 0.33
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (26 bp):
ATATATAAAATATAATATTAACATAT
Found at i:893583 original size:49 final size:50
Alignment explanation
Indices: 893530--893649 Score: 128
Period size: 49 Copynumber: 2.5 Consensus size: 50
893520 TTTCACAAAT
893530 ATATATATACTAAAAATATACATAATA-ATAT-ATAAAATATAATATTAA
1 ATATATATACTAAAAATATACATAATATATATAATAAAATATAATATTAA
* * *
893578 CATATATATA-T-AATATATGA-AAAATATATATAATATAATATAATATTAA
1 -ATATATATACTAAAAATAT-ACATAATATATATAATAAAATATAATATTAA
*
893627 A-ATATTTAC-AAAATATATACATA
1 ATATATATACTAAAA-ATATACATA
893650 TTAGAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
47 17 0.29
48 10 0.17
49 31 0.53
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (50 bp):
ATATATATACTAAAAATATACATAATATATATAATAAAATATAATATTAA
Found at i:893628 original size:27 final size:27
Alignment explanation
Indices: 893579--893658 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
893569 TAATATTAAC
893579 ATATAT-ATATAATAT-ATGA--AAAAT
1 ATATATAATATAATATAAT-ATTAAAAT
893603 ATATATAATATAATATAATATTAAAAT
1 ATATATAATATAATATAATATTAAAAT
* * *
893630 ATTTACAAAAT-ATATACATATTAGAAAT
1 ATATATAATATAATATA-ATATTA-AAAT
893658 A
1 A
893659 AAAAAAACGA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 6 0.13
25 10 0.21
26 7 0.15
27 19 0.40
28 5 0.11
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (27 bp):
ATATATAATATAATATAATATTAAAAT
Found at i:893726 original size:14 final size:14
Alignment explanation
Indices: 893690--893738 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
893680 GCTACATAAG
*
893690 TATATACATAAATA
1 TATATAAATAAATA
*
893704 TAT-TAAATACATA
1 TATATAAATAAATA
*
893717 TATATAAATATATA
1 TATATAAATAAATA
893731 TATATAAA
1 TATATAAA
893739 ATTATGCACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
13 11 0.35
14 20 0.65
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (14 bp):
TATATAAATAAATA
Found at i:893916 original size:9 final size:9
Alignment explanation
Indices: 893886--893917 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
893876 ACACTACTAC
893886 ATATAATAA
1 ATATAATAA
*
893895 ATACAATAA
1 ATATAATAA
893904 ATATAATAA
1 ATATAATAA
893913 ATATA
1 ATATA
893918 TAGAGATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
ATATAATAA
Found at i:895688 original size:82 final size:85
Alignment explanation
Indices: 895602--895806 Score: 238
Period size: 89 Copynumber: 2.4 Consensus size: 85
895592 TGAGCCAAAA
* * ***
895602 CTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTG-A-AACTT-AAAAGCAGATTTTGAAAATA
1 CTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTGAATAAATTAAAAAACAGAAACTGAAAATA
*
895664 CCTCGACATATGACCCGAGG
66 CCTCAACATATGACCCGAGG
*
895684 CTCAACTCACCTCTCGCAATATGAGTT-GATTTTTGAAAAATATAAATTAAAAAACAGAAACTGA
1 CTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTG----A-ATAAATTAAAAAACAGAAACTGA
* * *
895748 AAATACCTCAACATGTGAGCTGAGG
61 AAATACCTCAACATATGACCCGAGG
*
895773 CTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CTCAACTCACCTCTCGCAATATGAGTTGGTTTTT
895807 GACAAACAGA
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
81 7 0.07
82 27 0.26
87 1 0.01
88 4 0.04
89 59 0.58
90 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (85 bp):
CTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTGAATAAATTAAAAAACAGAAACTGAAAATA
CCTCAACATATGACCCGAGG
Found at i:895857 original size:74 final size:74
Alignment explanation
Indices: 895767--896112 Score: 557
Period size: 74 Copynumber: 4.6 Consensus size: 74
895757 AACATGTGAG
*
895767 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATACTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATATTGAAATTACCT
895832 CAGCGTGTC
66 CAGCGTGTC
* *
895841 CTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTCGACAAACAGAATATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATATTGAAATTACCT
*
895906 CAGCGTTTC
66 CAGCGTGTC
* * *
895915 CTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTCGACAAATAGAATATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATATTGAAATTACCT
895980 CAGCGTGTC
66 CAGCGTGTC
*
895989 CTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGACAAACAGAATATTGAAATT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTGACAAACAGAATATTGAAATT
*
896054 ACCTCAACGTGTC
62 ACCTCAGCGTGTC
* *
896067 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAACAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA
896113 ATTGAAAATA
Statistics
Matches: 252, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
74 183 0.73
78 69 0.27
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAATATTGAAATTACCT
CAGCGTGTC
Found at i:897019 original size:44 final size:43
Alignment explanation
Indices: 896962--897076 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
896952 CATTAAAATG
*
896962 CCCTTTT-GGGTTTTCATCC-TAATCTTTTGTGTTAATCAAAACA
1 CCCTTTTCGGGTTTTCA-CCTTAATCCTTT-TGTTAATCAAAACA
* * ** *
897005 CCCTTTTCGGGTTTTCACCTTGATCCTTTTGTTCATCAAGGCT
1 CCCTTTTCGGGTTTTCACCTTAATCCTTTTGTTAATCAAAACA
*
897048 CCCTTTTCGGGTTTTCACCTTGAT-CTTTT
1 CCCTTTTCGGGTTTTCACCTTAATCCTTTT
897077 CCTTCTTCTT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
42 5 0.08
43 43 0.67
44 16 0.25
ACGTcount: A:0.15, C:0.25, G:0.14, T:0.46
Consensus pattern (43 bp):
CCCTTTTCGGGTTTTCACCTTAATCCTTTTGTTAATCAAAACA
Found at i:898365 original size:26 final size:26
Alignment explanation
Indices: 898336--898443 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
898326 TGATACAAAT
*
898336 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
898362 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
898388 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
898414 TGATAATGGGTTCGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
898440 TGAT
1 TGAT
898444 GGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:900146 original size:54 final size:53
Alignment explanation
Indices: 900064--900204 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
900054 AGGAAGCGTC
900064 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
900118 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
900172 CTGGTGGTTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
900205 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:900200 original size:32 final size:27
Alignment explanation
Indices: 900064--900204 Score: 189
Period size: 27 Copynumber: 5.2 Consensus size: 27
900054 AGGAAGCGTC
*
900064 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
*
900091 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
900118 CTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
900145 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
*
900172 CTGGTGGTTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
900199 CTGGTG
1 CTGGTG
900205 ACTTCGTCAC
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.09
27 90 0.88
28 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:900215 original size:27 final size:28
Alignment explanation
Indices: 900064--900222 Score: 167
Period size: 27 Copynumber: 5.9 Consensus size: 28
900054 AGGAAGCGTC
*
900064 CTGGTGGC-TATGCCACAATTATCTG-AT
1 CTGGTGGCTTCTGCCACAA-TATCTGTAT
900091 CTGGTGGC-TCTGCCACATATATCTGT-T
1 CTGGTGGCTTCTGCCACA-ATATCTGTAT
* *
900118 CTGGTGGC-TATGCCACGATTATCTG-AT
1 CTGGTGGCTTCTGCCAC-AATATCTGTAT
900145 CTGGTGGC-TCTGCCACATATATCTGT-T
1 CTGGTGGCTTCTGCCACA-ATATCTGTAT
900172 CTGGTGG-TTCTGCCACAATATCTGTAT
1 CTGGTGGCTTCTGCCACAATATCTGTAT
* *
900199 CTGGTGACTTC-GTCACAATATCTG
1 CTGGTGGCTTCTGCCACAATATCTG
900223 GCAGCCTCGC
Statistics
Matches: 116, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
26 9 0.08
27 102 0.88
28 5 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (28 bp):
CTGGTGGCTTCTGCCACAATATCTGTAT
Found at i:912010 original size:17 final size:16
Alignment explanation
Indices: 911990--912108 Score: 53
Period size: 17 Copynumber: 6.8 Consensus size: 16
911980 ATATATACAC
911990 AATATATACATATTAAA
1 AATATATA-ATATTAAA
*
912007 AATA-ATAATAATAATA
1 AATATATAATATTAA-A
*
912023 AACTATTGATAATACTTCACA
1 AA-TA-T-ATAATA-TT-AAA
*
912044 AATATATATATACTAAA
1 AATATATA-ATATTAAA
*
912061 AATATACATAATAATATATA
1 AATAT--ATAAT-AT-TAAA
*
912081 AA-ATGTAATATTAAA
1 AATATATAATATTAAA
*
912096 AACATATATATAT
1 AATATATA-ATAT
912109 AATATATGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 28
0.67 0.09 0.24
Matches are distributed among these distances:
15 11 0.14
16 12 0.15
17 21 0.27
18 6 0.08
19 10 0.13
20 13 0.17
21 4 0.05
22 1 0.01
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (16 bp):
AATATATAATATTAAA
Found at i:912090 original size:54 final size:52
Alignment explanation
Indices: 911990--912109 Score: 120
Period size: 54 Copynumber: 2.2 Consensus size: 52
911980 ATATATACAC
* * * *
911990 AATATATACATATTAAAAATAATAATAATAATAAACTATTGATAATACTTCACA
1 AATATATATATATAAAAAATAATAATAATAATAAAC-ATTGATAATA-TTAAAA
912044 AATATATATATACTAAAAATATACATAATAATATATAAA-A-TG-TAATATTAAAA
1 AATATATATATA-TAAAAA-ATA-ATAATAATA-ATAAACATTGATAATATTAAAA
912097 ACATATATATATA
1 A-ATATATATATA
912110 ATATATGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
53 5 0.09
54 27 0.47
55 7 0.12
56 4 0.07
57 9 0.16
58 5 0.09
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (52 bp):
AATATATATATATAAAAAATAATAATAATAATAAACATTGATAATATTAAAA
Found at i:912124 original size:22 final size:22
Alignment explanation
Indices: 912086--912132 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
912076 ATATAAAATG
912086 TAATATTAAAAACATATATATA
1 TAATATTAAAAACATATATATA
*
912108 TAATATATGAAAA-ATATATATA
1 TAATAT-TAAAAACATATATATA
912130 TAA
1 TAA
912133 CATAATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TAATATTAAAAACATATATATA
Found at i:912145 original size:24 final size:24
Alignment explanation
Indices: 912043--912175 Score: 76
Period size: 26 Copynumber: 5.2 Consensus size: 24
912033 AATACTTCAC
*
912043 AAATATATATATACTAAAAATA-TA
1 AAATATATATATA-TAATAATATTA
*
912067 CATAATA-ATATATAAAATGTAATATTAA
1 -A-AATATATATATATAA--TAATATT-A
* *
912095 AAACATATATATATAAT-ATATGA
1 AAATATATATATATAATAATATTA
912118 AAA-ATATATATATAACATAATATTA
1 AAATATATATATAT-A-ATAATATTA
* *
912143 AAATATTTACATAATATATACATATTA
1 AAATATATATAT-ATA-ATA-ATATTA
912170 GAAATA
1 -AAATA
912176 AAAAAAAACG
Statistics
Matches: 86, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
22 10 0.12
23 5 0.06
24 8 0.09
25 17 0.20
26 21 0.24
27 19 0.22
28 6 0.07
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATATATATATATAATAATATTA
Found at i:912430 original size:9 final size:9
Alignment explanation
Indices: 912397--912459 Score: 56
Period size: 9 Copynumber: 6.7 Consensus size: 9
912387 TATACACTAC
*
912397 TAAAAATAA
1 TAAATATAA
*
912406 TAAATACAA
1 TAAATATAA
912415 TAAATATAA
1 TAAATATAA
912424 TAAATAT-A
1 TAAATATAA
912432 TAGAGATTATAA
1 TA-A-A-TATAA
*
912444 TTAATAATAA
1 TAAAT-ATAA
912454 TAAATA
1 TAAATA
912460 ATAGAAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
8 3 0.07
9 25 0.57
10 10 0.23
11 4 0.09
12 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (9 bp):
TAAATATAA
Found at i:912481 original size:20 final size:21
Alignment explanation
Indices: 912446--912499 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
912436 GATTATAATT
* *
912446 AATAATAATAAATAA-TAGAA
1 AATAATAACAAGTAATTAGAA
*
912466 AATAATAACAAGTAATTTGAA
1 AATAATAACAAGTAATTAGAA
912487 AATAA-AAC-AGTAA
1 AATAATAACAAGTAA
912500 ACTAACACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.17
20 16 0.53
21 9 0.30
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (21 bp):
AATAATAACAAGTAATTAGAA
Found at i:927152 original size:61 final size:61
Alignment explanation
Indices: 927083--927208 Score: 252
Period size: 61 Copynumber: 2.1 Consensus size: 61
927073 AATTGAATCT
927083 GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTGAAATA
1 GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTGAAATA
927144 GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTGAAATA
1 GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTGAAATA
927205 GAAT
1 GAAT
927209 AGAATCGAAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 65 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.40
Consensus pattern (61 bp):
GAATTGAGGTATTTAAATAGTTTATAAGATATAATTTTAAAAGTTTCGATTATCTGAAATA
Found at i:928070 original size:9 final size:9
Alignment explanation
Indices: 928030--928071 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
928020 AAATGTTATA
928030 AAAAAATATT
1 AAAAAAT-TT
928040 AAAAAA-TT
1 AAAAAATTT
928048 ATAAAAATTAT
1 A-AAAAATT-T
928059 AAAAAATTT
1 AAAAAATTT
928068 AAAA
1 AAAA
928072 GCAACAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 3 0.10
9 10 0.34
10 14 0.48
11 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAAATTT
Found at i:939342 original size:21 final size:21
Alignment explanation
Indices: 939316--939356 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
939306 ATCTGCTCAA
* *
939316 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
939337 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
939357 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:942823 original size:17 final size:16
Alignment explanation
Indices: 942803--942863 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
942793 AATAAAAAAA
942803 TTATAATTTTAAATTTT
1 TTATAATTTT-AATTTT
*
942820 TTATAAATTT-A-TTT
1 TTATAATTTTAATTTT
*
942834 TTATAATTTTTATGTTT
1 TTATAATTTTAAT-TTT
942851 TTAATAATTTTAA
1 TT-ATAATTTTAA
942864 GCTTTAAAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 12 0.32
15 2 0.05
17 14 0.38
18 9 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATAATTTTAATTTT
Found at i:942852 original size:31 final size:32
Alignment explanation
Indices: 942803--942862 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
942793 AATAAAAAAA
942803 TTATAATTTTAAATTTTTT-ATAAATTTATTT
1 TTATAATTTTAAATTTTTTAATAAATTTATTT
* *
942834 TTATAATTTT-TATGTTTTTAATAATTTTA
1 TTATAATTTTAAAT-TTTTTAATAAATTTA
942863 AGCTTTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 15 0.60
32 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (32 bp):
TTATAATTTTAAATTTTTTAATAAATTTATTT
Found at i:944048 original size:27 final size:27
Alignment explanation
Indices: 944017--944070 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
944007 AGTATTTTAA
* *
944017 AATTTATTAAATTATAAATTTATATTT
1 AATTTATTAAATAATAAAATTATATTT
*
944044 AATTTTTTAAATAATAAAATTATATTT
1 AATTTATTAAATAATAAAATTATATTT
944071 TTACCCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
AATTTATTAAATAATAAAATTATATTT
Found at i:952037 original size:25 final size:25
Alignment explanation
Indices: 952009--952073 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
951999 CTGAGTAACA
952009 GGAAGCTCATACGAGTTGTATATCT
1 GGAAGCTCATACGAGTTGTATATCT
952034 GGAAGCTCATACGAGTTGTATATCT
1 GGAAGCTCATACGAGTTGTATATCT
* *
952059 GGAAGCCCTTACGAG
1 GGAAGCTCATACGAG
952074 CAAAATATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (25 bp):
GGAAGCTCATACGAGTTGTATATCT
Found at i:952088 original size:25 final size:25
Alignment explanation
Indices: 952060--952114 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
952050 TGTATATCTG
* *
952060 GAAGCCCTTACGAGCAAAATATCGA
1 GAAGCCCATAAGAGCAAAATATCGA
* *
952085 GAAGCTCATAAGAGCTAAATATCGA
1 GAAGCCCATAAGAGCAAAATATCGA
952110 GAAGC
1 GAAGC
952115 TCAAGAGAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (25 bp):
GAAGCCCATAAGAGCAAAATATCGA
Found at i:952115 original size:25 final size:25
Alignment explanation
Indices: 952071--952125 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
952061 AAGCCCTTAC
*
952071 GAGCAAAATATCGAGAAGCTCATA-A
1 GAGCTAAATATCGAGAAGCTCA-AGA
952096 GAGCTAAATATCGAGAAGCTCAAGA
1 GAGCTAAATATCGAGAAGCTCAAGA
952121 GAGCT
1 GAGCT
952126 GTGGTATGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.44, C:0.16, G:0.24, T:0.16
Consensus pattern (25 bp):
GAGCTAAATATCGAGAAGCTCAAGA
Found at i:962796 original size:73 final size:73
Alignment explanation
Indices: 962719--962879 Score: 162
Period size: 73 Copynumber: 2.2 Consensus size: 73
962709 TATAATGGGG
* ** * *
962719 AGCTCAAAAGAGCCATA-ATCAAGAAGCTCATGTGAGCCAATAACGAGTAGCTCTGAAGAGCCAT
1 AGCTCAAAAGAGCCATATATCAAGAAGCTCAAGCAAGCC-ATAACGAGAAGCTCCGAAGAGCCAT
962783 TAATCAAGA
65 TAATCAAGA
*** * ** * * *
962792 AGCTCCGGATAGCCATATATCGGGAAGTTCAAGCAAGCCATATCGGGAAGCTCCGAAGAGCCATT
1 AGCTCAAAAGAGCCATATATCAAGAAGCTCAAGCAAGCCATAACGAGAAGCTCCGAAGAGCCATT
*
962857 AATCAGGA
66 AATCAAGA
962865 AGCTCACAAAGAGCC
1 AGCTCA-AAAGAGCC
962880 TTTAATCGGG
Statistics
Matches: 67, Mismatches: 19, Indels: 3
0.75 0.21 0.03
Matches are distributed among these distances:
73 47 0.70
74 20 0.30
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (73 bp):
AGCTCAAAAGAGCCATATATCAAGAAGCTCAAGCAAGCCATAACGAGAAGCTCCGAAGAGCCATT
AATCAAGA
Found at i:962818 original size:25 final size:25
Alignment explanation
Indices: 962767--962915 Score: 105
Period size: 25 Copynumber: 6.0 Consensus size: 25
962757 AATAACGAGT
* **
962767 AGCTCTGAAGAGCCAT-TAATCAAGA
1 AGCTCCGAAGAGCCATAT-ATCGGGA
* *
962792 AGCTCCGGATAGCCATATATCGGGA
1 AGCTCCGAAGAGCCATATATCGGGA
*
962817 AG-TTC-AAGCAAGCC--ATATCGGGA
1 AGCTCCGAAG--AGCCATATATCGGGA
*
962840 AGCTCCGAAGAGCCAT-TAATCAGGA
1 AGCTCCGAAGAGCCATAT-ATCGGGA
* *
962865 AGCTCACAAAGAGCC-TTTAATCGGGA
1 AGCTC-CGAAGAGCCATAT-ATCGGGA
*
962891 AGCTCCAAAGAGCCATATATCGGGA
1 AGCTCCGAAGAGCCATATATCGGGA
962916 CACTCATAAG
Statistics
Matches: 100, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
23 16 0.16
24 5 0.05
25 55 0.55
26 24 0.24
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATATATCGGGA
Found at i:966375 original size:29 final size:24
Alignment explanation
Indices: 966332--966387 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 24
966322 AGATTACAAA
966332 ATCATATATTCAAGATTGCATATCAT
1 ATCATATATTCAAGATT--ATATCAT
966358 ATCATATTATATCTAAGATTATATCAT
1 ATCATA-TAT-TC-AAGATTATATCAT
966385 ATC
1 ATC
966388 TAAGATTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 6 0.22
27 13 0.48
28 2 0.07
29 6 0.22
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.41
Consensus pattern (24 bp):
ATCATATATTCAAGATTATATCAT
Found at i:966402 original size:19 final size:19
Alignment explanation
Indices: 966360--966420 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
966350 CATATCATAT
*
966360 CATATTATATCTAAGATT-
1 CATATCATATCTAAGATTG
966378 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
*
966396 CATATCATACCTAAGATTG
1 CATATCATATCTAAGATTG
966415 CATATC
1 CATATC
966421 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
17 16 0.41
19 23 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:967179 original size:261 final size:256
Alignment explanation
Indices: 966705--967217 Score: 683
Period size: 261 Copynumber: 2.0 Consensus size: 256
966695 CATGGTCCTC
*
966705 AATCTGCTCATTGCAAACTCAAGACTGTCATGTTTATATCTTCGATATGCTCTCTGCTGAACACA
1 AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATATGCTCTCTGCTGAACACA
* * *
966770 GAGACGCCAAATCTACTTCTTCGATTTGTTTTCTGACAATACAGAGATGCCAAATTATCTTAGAT
66 GAGACGCCAAATCTACTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
* * * * * * *
966835 CTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTGTGTCTTCGATTTGCTCCTTGTGAACAGA
131 CTGCTTCAGCGTAAACACGCGAAAACCAAATCAGCTATGCCTTAGATTTGCTCCTTGTGAACACA
* *
966900 AGGATGTCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCTT
196 AGGATGCCAAACCATCTTGGATCTGCTTCAG-----TCATCTGAAGGTCAGATCTGCTATGTCTT
966965 T
256 T
* * * * * * *
966966 AATCTGCTTC-TTGTAAACTTATGACTGTCCTGTTGATATCTTTGATCTGCTCTC--CATCGAAT
1 AATCTGC-TCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATATGCTCTCTGC-T-GAAC
* *
967028 ACTGAGACGCCAAATCTATTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTA
63 ACAGAGACGCCAAATCTACTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTA
* * *
967093 GATTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAGCTATGCCTTAGATTTGTTCCTTGT-AAG
128 GATCTGCTTCAGCGTAAACACGCGAAAACCAAATCAGCTATGCCTTAGATTTGCTCCTTGTGAA-
*
967157 CACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGT
192 CACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGT
967218 ATCTGCTCTC
Statistics
Matches: 222, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
256 25 0.11
259 1 0.00
260 3 0.01
261 191 0.86
262 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (256 bp):
AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATATGCTCTCTGCTGAACACA
GAGACGCCAAATCTACTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
CTGCTTCAGCGTAAACACGCGAAAACCAAATCAGCTATGCCTTAGATTTGCTCCTTGTGAACACA
AGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGTCTTT
Found at i:967747 original size:206 final size:205
Alignment explanation
Indices: 967049--967988 Score: 1498
Period size: 206 Copynumber: 4.6 Consensus size: 205
967039 AAATCTATTT
* *
967049 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * *
967114 GCGAAAACCAAATCAGCTATGCCTTAGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
*
967179 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
* *
967239 AGATGCCAGA
196 AGACGCCAAA
*
967249 CTTCGATTTGTTCTCTGACTATA-AGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
967313 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
*
967378 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCCGCTCTCCGTCGAAATGG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
** *
967443 AGATACCAGA
196 AGACGCCAAA
967453 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
**
967518 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
967583 GGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAA-ATG
967648 GAGACGCCAAA
195 GAGACGCCAAA
967659 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
967724 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* ** * ** *
967789 GGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGCCTGCTCTTCGTCGAATATG
131 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAA-ATG
967854 GAGACGCCAAA
195 GAGACGCCAAA
* * * * * *
967865 CTTTGGTTTGTTCTCTAACAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAAC-C
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
967929 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
967989 TGCTATCTTC
Statistics
Matches: 696, Mismatches: 37, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
199 114 0.16
200 21 0.03
201 1 0.00
204 75 0.11
205 221 0.32
206 264 0.38
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGG
AGACGCCAAA
Found at i:967849 original size:411 final size:405
Alignment explanation
Indices: 967049--967988 Score: 1508
Period size: 411 Copynumber: 2.3 Consensus size: 405
967039 AAATCTATTT
967049 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * * *
967114 GCGAAAACCAAATCAGCTATGCCTTAGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
967179 GGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATG
131 GGATCTGCTTCAGTCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGACG
* *
967244 CCAGACTTCGATTTGTTCTCTGACTATAAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAA
196 CCAAACTTCGATTTGTTCTCTGACAATAAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAA
*
967309 GCACGTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
261 GCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
* * ** *
967374 TCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTATCCGCTCTCCGTCGAA
326 CCTTGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTAGCCGCTCTCCGTCGAA
* *
967439 -ATGGAGATACCAGA
391 TATGGAGACACCAAA
* *
967453 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
**
967518 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
967583 GGATTTGCTTCAGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCTCTCCGTCGAATATG
131 GGATCTGCTTCAG--T---CATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAA-ATG
967648 GAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTC
190 GAGACGCCAAACTTCGATTTGTTCTCTGACAATA-AGAGATGCCAAATCATCTTAGATTTGCTTC
967713 ATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
254 ATCGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGC
* *
967778 CAAATCACCTTGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGT-GCCTGCTCT
319 CAAACCACCTTGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTAGCC-GCTCT
* *
967842 TCGTCGAATATGGAGACGCCAAA
383 CCGTCGAATATGGAGACACCAAA
* * * *
967865 CTTTGGTTTGTTCTCTAACAACACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAAC-C
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
967929 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
967989 TGCTATCTTC
Statistics
Matches: 492, Mismatches: 35, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
404 133 0.27
406 1 0.00
409 40 0.08
410 36 0.07
411 214 0.43
412 68 0.14
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (405 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTGCTTCAGTCATCTGAAGGTTAGATCTACTATGTATCTGCTCTCCGTCGAAATGGAGACG
CCAAACTTCGATTTGTTCTCTGACAATAAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAA
GCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
CCTTGGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTACTATGTAGCCGCTCTCCGTCGAA
TATGGAGACACCAAA
Found at i:968025 original size:44 final size:44
Alignment explanation
Indices: 967935--968253 Score: 252
Period size: 44 Copynumber: 7.2 Consensus size: 44
967925 AACCGTGAAA
* * * * * *
967935 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGAT
1 GCCAAATCTGCTA--TCTTCGACTTGTTCCCTATAAACACAGGGAT
*
967981 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
*** ** * * * *
968025 GCC--ATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAGGAAT
1 GCCAAAT-CTGCTATCTTCGA-CTTGTTCCCTATAAACACAGGGAT
* * * *
968069 GTCAGATCTGTTATCTTCGATTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
*
968113 GCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
** * * * * * *
968157 GCC--ATGCTGAAATCTTTGA-TCTGCTTCGCTGTAAGCACAAGAAT
1 GCCAAAT-CTGCTATCTTCGACT-TG-TTCCCTATAAACACAGGGAT
* * *
968201 GTCAGATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGAT
1 GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
968245 GCCAAATCT
1 GCCAAATCT
968254 TGTTTCTTTA
Statistics
Matches: 210, Mismatches: 53, Indels: 22
0.74 0.19 0.08
Matches are distributed among these distances:
42 5 0.02
43 20 0.10
44 146 0.70
45 22 0.10
46 17 0.08
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGACTTGTTCCCTATAAACACAGGGAT
Found at i:968113 original size:132 final size:132
Alignment explanation
Indices: 967950--968253 Score: 527
Period size: 132 Copynumber: 2.3 Consensus size: 132
967940 ATCAGCTATG
* * * *
967950 TCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* *
968015 ACACAGGGATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGT
66 ACACAGGGATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGC
968080 TA
131 TA
968082 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* * *
968147 ACACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCGCTGTAAGCACAAGAATGTCAGATCTGC
66 ACACAGGGATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGC
968212 TA
131 TA
968214 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
968254 TGTTTCTTTA
Statistics
Matches: 163, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 163 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAGGGATGCCATGCTAAAATCTTCGATCTACTTCGCTGTAAGCACAAGAATGTCAGATCTGC
TA
Found at i:969119 original size:7 final size:7
Alignment explanation
Indices: 969107--969167 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
969097 GGCCTCTCCA
969107 TTTTTCT
1 TTTTTCT
969114 TTTTTCAT
1 TTTTTC-T
969122 TTTTCTCT
1 TTTT-TCT
969130 TTTTTCT
1 TTTTTCT
969137 TTTTAT-T
1 TTTT-TCT
*
969144 ATTTT-T
1 TTTTTCT
*
969150 TTCTT-T
1 TTTTTCT
969156 TTTTTCT
1 TTTTTCT
969163 TTTTT
1 TTTTT
969168 TTTGAAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
6 10 0.22
7 23 0.50
8 11 0.24
9 2 0.04
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:969129 original size:26 final size:23
Alignment explanation
Indices: 969107--969167 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 23
969097 GGCCTCTCCA
969107 TTTTTCTTTTTTCATTTTTCTCT
1 TTTTTCTTTTTTCATTTTTCTCT
* *
969130 TTTTTCTTTTTATTATTTTTTTCTTT
1 TTTTTCTTTTT-TCA--TTTTTCTCT
969156 TTTTTCTTTTTT
1 TTTTTCTTTTTT
969168 TTTGAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 11 0.33
24 2 0.06
25 1 0.03
26 19 0.58
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTCTTTTTTCATTTTTCTCT
Found at i:969132 original size:16 final size:14
Alignment explanation
Indices: 969107--969167 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 14
969097 GGCCTCTCCA
969107 TTTTTCTTTTTTCAT
1 TTTTTCTTTTTTC-T
969122 TTTTCTCTTTTTTCT
1 TTTT-TCTTTTTTCT
*
969137 TTTTAT-TATTTT-T
1 TTTT-TCTTTTTTCT
*
969150 TTCTT-TTTTTTCT
1 TTTTTCTTTTTTCT
969163 TTTTT
1 TTTTT
969168 TTTGAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 6 0.15
13 9 0.23
14 5 0.13
15 10 0.26
16 9 0.23
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTTTCT
Found at i:969133 original size:9 final size:8
Alignment explanation
Indices: 969107--969168 Score: 65
Period size: 9 Copynumber: 7.6 Consensus size: 8
969097 GGCCTCTCCA
969107 TTTTTC-T
1 TTTTTCTT
*
969114 TTTTTC-A
1 TTTTTCTT
969121 TTTTTCTCT
1 TTTTTCT-T
969130 TTTTTCTT
1 TTTTTCTT
*
969138 TTTATTATT
1 TTT-TTCTT
969147 TTTTTCTTT
1 TTTTTC-TT
969156 TTTTTCTT
1 TTTTTCTT
969164 TTTTT
1 TTTTT
969169 TTGAAATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
7 12 0.26
8 13 0.28
9 22 0.47
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:969149 original size:17 final size:17
Alignment explanation
Indices: 969129--969168 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
969119 CATTTTTCTC
969129 TTTTTTCTTTTTATTAT
1 TTTTTTCTTTTTATTAT
* *
969146 TTTTTTCTTTTTTTTCT
1 TTTTTTCTTTTTATTAT
969163 TTTTTT
1 TTTTTT
969169 TTGAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.05, C:0.07, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTCTTTTTATTAT
Found at i:970671 original size:7 final size:7
Alignment explanation
Indices: 970654--970708 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
970644 TGCAGTTATA
970654 TATTTTT
1 TATTTTT
970661 T-TTTCTT
1 TATTT-TT
*
970668 TTTTTTT
1 TATTTTT
*
970675 TCTTTTT
1 TATTTTT
**
970682 GCTTTTT
1 TATTTTT
970689 TATTTTT
1 TATTTTT
970696 TA-TTTT
1 TATTTTT
970702 TATTTTT
1 TATTTTT
970709 GGAAATGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 9 0.22
7 29 0.71
8 3 0.07
ACGTcount: A:0.07, C:0.05, G:0.02, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:970671 original size:10 final size:11
Alignment explanation
Indices: 970656--970708 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
970646 CAGTTATATA
970656 TTTTTTTTTCT
1 TTTTTTTTTCT
970667 TTTTTTTTTCT
1 TTTTTTTTTCT
**
970678 TTTTGCTTT-T
1 TTTTTTTTTCT
* *
970688 TTATTTTTTAT
1 TTTTTTTTTCT
970699 TTTTATTTTT
1 TTTT-TTTTT
970709 GGAAATGGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 7 0.21
11 22 0.65
12 5 0.15
ACGTcount: A:0.06, C:0.06, G:0.02, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:975854 original size:17 final size:18
Alignment explanation
Indices: 975832--975884 Score: 90
Period size: 17 Copynumber: 2.9 Consensus size: 18
975822 ATATCATATC
975832 ATATCATATCTAAGATT-
1 ATATCATATCTAAGATTA
975849 ATATCATATCTAAGATTA
1 ATATCATATCTAAGATTA
975867 CATATCATATCTAAGATT
1 -ATATCATATCTAAGATT
975885 GCATATCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.50
19 17 0.50
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.40
Consensus pattern (18 bp):
ATATCATATCTAAGATTA
Found at i:975873 original size:19 final size:18
Alignment explanation
Indices: 975830--975891 Score: 99
Period size: 19 Copynumber: 3.4 Consensus size: 18
975820 GTATATCATA
975830 TCATATCATATCTAAGAT
1 TCATATCATATCTAAGAT
975848 T-ATATCATATCTAAGAT
1 TCATATCATATCTAAGAT
975865 TACATATCATATCTAAGAT
1 T-CATATCATATCTAAGAT
975884 TGCATATC
1 T-CATATC
975892 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 17 0.41
18 1 0.02
19 23 0.56
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (18 bp):
TCATATCATATCTAAGAT
Found at i:976285 original size:6 final size:6
Alignment explanation
Indices: 976274--976301 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
976264 TCTGTGTGTA
976274 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
976302 TTTACAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:980730 original size:6 final size:6
Alignment explanation
Indices: 980719--980758 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
980709 TCTGTGTGTA
980719 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
980759 TTCACACGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:993215 original size:16 final size:16
Alignment explanation
Indices: 993194--993261 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
993184 TTTGGTTCGC
993194 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
993210 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
993226 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
993242 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
993258 TGTA
1 TGTA
993262 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:993308 original size:45 final size:44
Alignment explanation
Indices: 993242--993332 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 44
993232 GGATTAGAGG
* * *
993242 TGTATTGGAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAAAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* *
993287 TGTAATGGAATAAAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAAAGGCGTAATAGAAATCATGTGTTTGGTTGAA
993331 TG
1 TG
993333 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
43 1 0.03
44 18 0.45
45 21 0.52
ACGTcount: A:0.32, C:0.04, G:0.27, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAAAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:993514 original size:16 final size:16
Alignment explanation
Indices: 993477--993518 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
993467 TTAATCATAT
*
993477 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
993493 TT-AAATATATTATAA
1 TTAAAATATATTATAA
993508 TTAAAATATAT
1 TTAAAATATAT
993519 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:993525 original size:14 final size:15
Alignment explanation
Indices: 993486--993527 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
993476 TTTAAACATA
*
993486 ATTATTATTAAATAT
1 ATTATAATTAAATAT
993501 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
993515 A-TATAATTTAATA
1 ATTATAATTAAATA
993528 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:993577 original size:61 final size:61
Alignment explanation
Indices: 993512--993699 Score: 215
Period size: 61 Copynumber: 3.1 Consensus size: 61
993502 TTATAATTAA
993512 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
993573 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATATTAAAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCAAATCAT
993632 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
993693 AATATAT
1 AATATAT
993700 GATACTATAA
Statistics
Matches: 97, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 1 0.01
59 32 0.33
60 24 0.25
61 39 0.40
62 1 0.01
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:993630 original size:120 final size:120
Alignment explanation
Indices: 993480--993709 Score: 451
Period size: 120 Copynumber: 1.9 Consensus size: 120
993470 ATCATATTTA
*
993480 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTAAAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
993545 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
993600 AACATAATTATTATTAAATATATTAAAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTAAAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
993665 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
993710 TTTACTCAAA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTAAAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:993698 original size:59 final size:59
Alignment explanation
Indices: 993515--993698 Score: 180
Period size: 59 Copynumber: 3.1 Consensus size: 59
993505 TAATTAAAAT
993515 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * * * *
993574 ATAT-ATGATACTATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATATTAAAATTAAAA
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCAAA-TCATA
993634 TATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 -ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
993694 ATATA
1 ATATA
993699 TGATACTATA
Statistics
Matches: 93, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
58 2 0.02
59 32 0.34
60 30 0.32
61 27 0.29
62 2 0.02
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Done.