Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 289 of 352
Found at i:94940206 original size:10 final size:10
Alignment explanation
Indices: 94940193--94940238 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
94940183 TAATTTCTAC
94940193 TTATTTTTAT
1 TTATTTTTAT
94940203 TTA--TTTAT
1 TTATTTTTAT
*
94940211 TTCTATTTTAT
1 TTAT-TTTTAT
94940222 TTATTTTTAT
1 TTATTTTTAT
94940232 TT-TTTTT
1 TTATTTTT
94940239 CTAGACATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 7 0.23
9 5 0.16
10 11 0.35
11 8 0.26
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:94940222 original size:15 final size:15
Alignment explanation
Indices: 94940193--94940234 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
94940183 TAATTTCTAC
94940193 TTATTTTTA-TTTAT
1 TTATTTTTATTTTAT
*
94940207 TTATTTCTATTTTAT
1 TTATTTTTATTTTAT
94940222 TTATTTTTATTTT
1 TTATTTTTATTTT
94940235 TTTTCTAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTTATTTTAT
Found at i:94941081 original size:43 final size:43
Alignment explanation
Indices: 94940993--94941083 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 43
94940983 TTCTTTGGTC
* * * * ** *
94940993 CACACGGGCATGTACCTCAGTCACACGGCCGTGTGCTTCTTTT
1 CACACAGGCATGTACCTCAGCCACACAGCCATGTGCCCCTCTT
* *
94941036 CACACAGGCGTGTGCCTCAGCCACACAGCCATGTGCCCCTCTT
1 CACACAGGCATGTACCTCAGCCACACAGCCATGTGCCCCTCTT
94941079 CACAC
1 CACAC
94941084 TGGCTTTTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.19, C:0.38, G:0.21, T:0.22
Consensus pattern (43 bp):
CACACAGGCATGTACCTCAGCCACACAGCCATGTGCCCCTCTT
Found at i:94946277 original size:17 final size:17
Alignment explanation
Indices: 94946255--94946288 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94946245 ACCGGTTATG
*
94946255 ATTCTGTTGCAATTAGT
1 ATTCTGTTACAATTAGT
94946272 ATTCTGTTACAATTAGT
1 ATTCTGTTACAATTAGT
94946289 TACAGTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (17 bp):
ATTCTGTTACAATTAGT
Found at i:94946656 original size:33 final size:33
Alignment explanation
Indices: 94946614--94947021 Score: 510
Period size: 33 Copynumber: 12.0 Consensus size: 33
94946604 GGCATCATCC
* *
94946614 CCTGCTACCTCTCCTCTGGAAAAAGAAACGACA
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* *
94946647 CCTGCTACCTCTCCTCCGGAAAAGGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
94946680 CCTGCTACCTCTCCTCCGGAAAAAGGAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
94946713 CCTGCTACCTCTCCTCCGGAAAATGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
94946746 CCTGCTACCTCTCCTCCGGAAAATGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
94946779 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* * * *
94946812 CCTGTTACCTTTCCTCCGGAAAAGGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* * * * **
94946845 TCTTCGACCTCTCCTCTGGAAAAAGTAACAACTCCT
1 CCTGCTACCTCTCCTCCGGAAAAAG--A-AACGACT
*
94946881 GCTACTGCTACCTCTCCTCCGGAAAAAGTAACGACT
1 -C--CTGCTACCTCTCCTCCGGAAAAAGAAACGACT
*
94946917 CCTGCTACTGCCACCTCTCCTCCGGCAAAAGAAACGACT
1 CCTG---CT---ACCTCTCCTCCGGAAAAAGAAACGACT
*
94946956 CCTGCTACCTCTCCTCCGGCAAAAGAAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
* *
94946989 CCTGCTACCTCTCCTTCGGAAAAAGTAACGACT
1 CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
94947022 TCTGAAAAAG
Statistics
Matches: 328, Mismatches: 35, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
33 263 0.80
35 1 0.00
36 14 0.04
39 50 0.15
ACGTcount: A:0.27, C:0.36, G:0.16, T:0.21
Consensus pattern (33 bp):
CCTGCTACCTCTCCTCCGGAAAAAGAAACGACT
Found at i:94947713 original size:183 final size:183
Alignment explanation
Indices: 94947405--94947774 Score: 704
Period size: 183 Copynumber: 2.0 Consensus size: 183
94947395 GTGGGTCAAG
*
94947405 TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGGTG
1 TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
94947470 AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
66 AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
94947535 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
131 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
*
94947588 TTCAAATGGTCACAACCAAGGCGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
1 TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
*
94947653 AAACACGTGGTGCTTGTTTCAATGCTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
66 AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
*
94947718 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGTGTAGGATGTTGGATTT
131 GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
94947771 TTCA
1 TTCA
94947775 TCTAAAAACA
Statistics
Matches: 183, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (183 bp):
TTCAAATGGTCACAACCAAGACGATTCTATGATAAAAAATGGTGAATACTGGGCTCCACATGATG
AAACACGTGGTGCTTGTTTCAATACTTCAGAAGTGACGACTGAAAAAACTAAGGATAACGCAAAT
GATGGCGTGGTTGAGATTTCCGGTGATGAAAGGTGGCGTAGGATGTTGGATTT
Found at i:94947952 original size:45 final size:45
Alignment explanation
Indices: 94947902--94947990 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
94947892 TCTTATATTC
* *
94947902 TACCATTAAACCATCATCCTTTCATTTCACCAGCTGGGGGAGTCG
1 TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTCG
94947947 TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTC
1 TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTC
94947991 AGTGATCATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
TACCATTAAACCATCATCCCTTCATTTCACCAGCTGGGAGAGTCG
Found at i:94951347 original size:29 final size:30
Alignment explanation
Indices: 94951315--94951372 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
94951305 AATTGAAAAT
94951315 AAATGCATCCAAAATAATAA-AAAATTAAC
1 AAATGCATCCAAAATAATAACAAAATTAAC
* **
94951344 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATGCATCCAAAATAATAACAAAATTAA
94951373 TAAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGCATCCAAAATAATAACAAAATTAAC
Found at i:94969143 original size:16 final size:16
Alignment explanation
Indices: 94969122--94969176 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
94969112 TGAATTACTG
94969122 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
* *
94969138 ATTACAGCTCTATTCA
1 ATTACAGCCCTATTCC
*
94969154 ATTACAGCCCTATTTC
1 ATTACAGCCCTATTCC
94969170 ATTACAG
1 ATTACAG
94969177 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:94970564 original size:24 final size:21
Alignment explanation
Indices: 94970543--94970585 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
94970533 AATTTAAATT
94970543 TAATATTTATCATAAAAATAAA
1 TAATA-TTATCATAAAAATAAA
* *
94970565 TACTATTATTATAAAAATAAA
1 TAATATTATCATAAAAATAAA
94970586 AAAAATTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATATTATCATAAAAATAAA
Found at i:94970597 original size:21 final size:21
Alignment explanation
Indices: 94970549--94970597 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
94970539 AATTTAATAT
* * **
94970549 TTATCATAAAAATAAATACTA
1 TTATTATAAAAATAAAAAAAA
94970570 TTATTATAAAAATAAAAAAAA
1 TTATTATAAAAATAAAAAAAA
*
94970591 TTGTTAT
1 TTATTAT
94970598 TTAATTATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
TTATTATAAAAATAAAAAAAA
Found at i:94973288 original size:3 final size:3
Alignment explanation
Indices: 94973282--94973346 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
94973272 TTCTAAGATT
* ** *
94973282 TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA -AA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
94973325 ATA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
94973347 GGTTCATATT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
2 5 0.10
3 41 0.84
4 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:94973511 original size:23 final size:21
Alignment explanation
Indices: 94973485--94973544 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 21
94973475 ATAATGACAA
*
94973485 TTGTAATAAAAATATTGGTACAT
1 TTGTAATAAAAATA-T-GTACAC
94973508 TTGTAATAAATAGATATGTACAC
1 TTGTAATAAA-A-ATATGTACAC
94973531 TTGTAATAAAAATA
1 TTGTAATAAAAATA
94973545 ACTAATTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 3 0.09
22 1 0.03
23 25 0.74
24 2 0.06
25 3 0.09
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (21 bp):
TTGTAATAAAAATATGTACAC
Found at i:94973763 original size:22 final size:21
Alignment explanation
Indices: 94973731--94973771 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
94973721 TAAACAAAGT
94973731 AAATAAAAGAATA-AAAGAATG
1 AAATAAAAGAA-ACAAAGAATG
94973752 AAATAAAAAGAAACAAAGAA
1 AAAT-AAAAGAAACAAAGAA
94973772 AAGAAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAAACAAAGAATG
Found at i:94974740 original size:21 final size:21
Alignment explanation
Indices: 94974683--94974744 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
94974673 TTTACTGATC
94974683 AGGCACTTTATGTGTCGTATTTT
1 AGGCACTTTATGTGTCG--TTTT
* **
94974706 AGGCACCTCGTGTGTCGTTTT
1 AGGCACTTTATGTGTCGTTTT
94974727 AGGCACTTTATGTGTCGT
1 AGGCACTTTATGTGTCGT
94974745 ATTTTGATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 19 0.58
23 14 0.42
ACGTcount: A:0.15, C:0.18, G:0.26, T:0.42
Consensus pattern (21 bp):
AGGCACTTTATGTGTCGTTTT
Found at i:94978796 original size:42 final size:42
Alignment explanation
Indices: 94978727--94978969 Score: 283
Period size: 42 Copynumber: 5.8 Consensus size: 42
94978717 TCTTTCAAGC
* * *
94978727 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACCCCTATGAGT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * *
94978769 TTCTATTTAA-CTCTTACAAGCATCTGTTCAACTTTTATGAGT
1 TTCT-TTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * * * * *
94978811 TTCTGTTAAGCTTTTATGAGCTTCTGTTCAACTTTTTTGGGT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* * *
94978853 TT-TTGTTCAGCTCTTACGAGCTTTTGTTTAACTCTTATGAGT
1 TTCTT-TTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* *
94978895 TTCTGTTAAGCTCTTACGAGCTTTTGTTCAACTCTTATGAGT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
* *
94978937 TTCTATTCAGCTCTTACGAGCTTCTGTTCAACT
1 TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACT
94978970 TTCGAGTTTC
Statistics
Matches: 169, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
41 5 0.03
42 159 0.94
43 5 0.03
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (42 bp):
TTCTTTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGT
Found at i:94978868 original size:84 final size:84
Alignment explanation
Indices: 94978727--94978983 Score: 338
Period size: 84 Copynumber: 3.1 Consensus size: 84
94978717 TCTTTCAAGC
* * * * * *
94978727 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACCCCTATGAGTTTCTATTTAACTCTTACAAGCAT
1 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTCTATTCAGCTCTTACGAGCTT
94978792 CTGTTCAACTTTTATGAGT
66 CTGTTCAACTTTTATGAGT
* * * * * * *
94978811 TTCTGTTAAGCTTTTATGAGCTTCTGTTCAACTTTTTTGGGTTTTTGTTCAGCTCTTACGAGCTT
1 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTCTATTCAGCTCTTACGAGCTT
* * *
94978876 TTGTTTAACTCTTATGAGT
66 CTGTTCAACTTTTATGAGT
*
94978895 TTCTGTTAAGCTCTTACGAGCTTTTGTTCAACTCTTATGAGTTTCTATTCAGCTCTTACGAGCTT
1 TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTCTATTCAGCTCTTACGAGCTT
*
94978960 CTGTTCAAC-TTT-CGAGT
66 CTGTTCAACTTTTATGAGT
94978977 TTCTGTT
1 TTCTGTT
94978984 GGCATATTTA
Statistics
Matches: 145, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
82 11 0.08
83 2 0.01
84 132 0.91
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (84 bp):
TTCTGTTAAGCTCTTACGAGCTTCTGTTCAACTCTTATGAGTTTCTATTCAGCTCTTACGAGCTT
CTGTTCAACTTTTATGAGT
Found at i:94978966 original size:21 final size:21
Alignment explanation
Indices: 94978724--94978983 Score: 188
Period size: 21 Copynumber: 12.5 Consensus size: 21
94978714 AGCTCTTTCA
94978724 AGCTTCTGTT-AAGCTCTTACG
1 AGCTTCTGTTCAA-CTCTTACG
* * *
94978745 AGCTTCTGTTCAACCCCTATG
1 AGCTTCTGTTCAACTCTTACG
* * * *
94978766 AGTTTCTATTTAACTCTTACA
1 AGCTTCTGTTCAACTCTTACG
* * *
94978787 AGCATCTGTTCAACTTTTATG
1 AGCTTCTGTTCAACTCTTACG
* * *
94978808 AGTTTCTGTT-AAGCTTTTATG
1 AGCTTCTGTTCAA-CTCTTACG
* **
94978829 AGCTTCTGTTCAACTTTTTTG
1 AGCTTCTGTTCAACTCTTACG
* * * *
94978850 GGTTTTTGTTCAGCTCTTACG
1 AGCTTCTGTTCAACTCTTACG
* * *
94978871 AGCTTTTGTTTAACTCTTATG
1 AGCTTCTGTTCAACTCTTACG
*
94978892 AGTTTCTGTT-AAGCTCTTACG
1 AGCTTCTGTTCAA-CTCTTACG
* *
94978913 AGCTTTTGTTCAACTCTTATG
1 AGCTTCTGTTCAACTCTTACG
* * *
94978934 AGTTTCTATTCAGCTCTTACG
1 AGCTTCTGTTCAACTCTTACG
94978955 AGCTTCTGTTCAACT-TT-CG
1 AGCTTCTGTTCAACTCTTACG
*
94978974 AGTTTCTGTT
1 AGCTTCTGTT
94978984 GGCATATTTA
Statistics
Matches: 186, Mismatches: 48, Indels: 12
0.76 0.20 0.05
Matches are distributed among these distances:
19 11 0.06
20 6 0.03
21 163 0.88
22 6 0.03
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (21 bp):
AGCTTCTGTTCAACTCTTACG
Found at i:94983135 original size:46 final size:46
Alignment explanation
Indices: 94983083--94983402 Score: 444
Period size: 46 Copynumber: 7.0 Consensus size: 46
94983073 AGTGTGCTCT
* *
94983083 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94983129 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94983175 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
94983221 GTGATATGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
94983267 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
94983313 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
94983359 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
94983403 TCATGTCAAA
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 254 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94983709 original size:16 final size:17
Alignment explanation
Indices: 94983688--94983720 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
94983678 ATGATGGAGC
94983688 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
94983704 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
94983721 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:94999666 original size:6 final size:6
Alignment explanation
Indices: 94999622--94999647 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
94999612 TCATTTTTTG
94999622 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
94999648 GAAGAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:95005054 original size:18 final size:18
Alignment explanation
Indices: 95005027--95005073 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
95005017 TTACACCAAA
* *
95005027 AAAATTTAAAATATATAT-
1 AAAATATAAAAGA-ATATC
*
95005045 AAAATCTAAAAGAATATC
1 AAAATATAAAAGAATATC
95005063 AAAATATAAAA
1 AAAATATAAAA
95005074 AAAAATTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAATATAAAAGAATATC
Found at i:95014635 original size:24 final size:24
Alignment explanation
Indices: 95014581--95014626 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
95014571 GGCACCAGCT
95014581 GAACCATTTTCTTGACAGTCAAAA
1 GAACCATTTTCTTGACAGTCAAAA
95014605 GAACCATTTTCTTGACAGTCAA
1 GAACCATTTTCTTGACAGTCAA
95014627 CAAATCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (24 bp):
GAACCATTTTCTTGACAGTCAAAA
Found at i:95016142 original size:89 final size:89
Alignment explanation
Indices: 95015991--95016169 Score: 349
Period size: 89 Copynumber: 2.0 Consensus size: 89
95015981 GCAATGTGTT
95015991 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
1 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
95016056 CTTCCACGGAGTTCAAATCTGTAA
66 CTTCCACGGAGTTCAAATCTGTAA
95016080 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
1 AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
*
95016145 CTTCCATGGAGTTCAAATCTGTAA
66 CTTCCACGGAGTTCAAATCTGTAA
95016169 A
1 A
95016170 TGCGACCCCC
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (89 bp):
AACTTTTTTACATCTGCTCAAATGACGTTCGTTTTTTTATCCTTCCATTTACAAAGAAGTTAAAG
CTTCCACGGAGTTCAAATCTGTAA
Found at i:95024503 original size:61 final size:61
Alignment explanation
Indices: 95024344--95024504 Score: 148
Period size: 61 Copynumber: 2.6 Consensus size: 61
95024334 TCCTCTAATG
* * * * *
95024344 TTTACAC-ATCCTATCAATTT-GATCCTAAATATAAAAAATTCAACAAATTTAGCCTTCAATA
1 TTTACACAAT-CTTTCAATTTAG-TCCTAAATCTAAAAATTTCAACAAATTTAGCCCTCAACA
* * * * * * * *
95024405 TTTACAAAAT-TTGACATTTTAGTTCTAATTCTAAAAATTTTAATAAATTTGGCCCTCAACA
1 TTTACACAATCTT-TCAATTTAGTCCTAAATCTAAAAATTTCAACAAATTTAGCCCTCAACA
*
95024466 TTTACACAATCTTTCAATTTAGTCCTAACTCTAAAAATT
1 TTTACACAATCTTTCAATTTAGTCCTAAATCTAAAAATT
95024505 AAAAAATATA
Statistics
Matches: 78, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
60 1 0.01
61 72 0.92
62 5 0.06
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (61 bp):
TTTACACAATCTTTCAATTTAGTCCTAAATCTAAAAATTTCAACAAATTTAGCCCTCAACA
Found at i:95037987 original size:27 final size:27
Alignment explanation
Indices: 95037957--95038033 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
95037947 TGCATACATA
*
95037957 ACATAAGGGCAAAACAGTCATTTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
* *
95037984 ACATAAGGGCAAAATACTTATTTTACC
1 ACATAAGGGCAAAATAGTCATTTTACC
*
95038011 ACATGAGGGCAAAATAGTCATTT
1 ACATAAGGGCAAAATAGTCATTT
95038034 ATCAATCTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (27 bp):
ACATAAGGGCAAAATAGTCATTTTACC
Found at i:95047170 original size:48 final size:46
Alignment explanation
Indices: 95047071--95047239 Score: 112
Period size: 46 Copynumber: 3.6 Consensus size: 46
95047061 TATTGTGAGT
* ** * *
95047071 TAGTGTTAGACATGTCTGTGACATGCATCGGTCATATTATGGGAGC
1 TAGTGTTAGACATGTCTGGGACATGCATCGGTCATAAGACGAGAGC
* *
95047117 CAGTGTTAGACCATGTCTGGGGCATAGCATCGG-CATTAAGACGAGAGC
1 TAGTGTTAGA-CATGTCTGGGACAT-GCATCGGTCA-TAAGACGAGAGC
* * * * * *
95047165 TAGTGTAAGACATGT-TAAGGACATGTATCGG-CCTCGAGAC-ATAAGC
1 TAGTGTTAGACATGTCT-GGGACATGCATCGGTCAT-AAGACGA-GAGC
* * *
95047211 CAGTGTAAGACATGTTTGGGACATGCATC
1 TAGTGTTAGACATGTCTGGGACATGCATC
95047240 AGTTATGAAA
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
45 2 0.02
46 48 0.49
47 25 0.26
48 23 0.23
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (46 bp):
TAGTGTTAGACATGTCTGGGACATGCATCGGTCATAAGACGAGAGC
Found at i:95060597 original size:16 final size:16
Alignment explanation
Indices: 95060576--95060606 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95060566 ATCAAGTTAA
*
95060576 AAAAATTATTTAATTG
1 AAAAATTAATTAATTG
95060592 AAAAATTAATTAATT
1 AAAAATTAATTAATT
95060607 AATTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAAATTAATTAATTG
Found at i:95071281 original size:15 final size:16
Alignment explanation
Indices: 95071261--95071291 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
95071251 AATTTATATT
95071261 TTAGAA-AATAAAAAA
1 TTAGAAGAATAAAAAA
95071276 TTAGAAGAATAAAAAA
1 TTAGAAGAATAAAAAA
95071292 AAACTCTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
TTAGAAGAATAAAAAA
Found at i:95080683 original size:25 final size:24
Alignment explanation
Indices: 95080629--95080683 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 24
95080619 TTTTTAAAAC
*
95080629 TATTTTAAAATTATTAAAATATTA
1 TATTTTAAAATTATTAAAATATCA
*
95080653 TAATTTTCAATATTATTAAACATA-CA
1 T-ATTTT-AAAATTATTAAA-ATATCA
95080679 TATTT
1 TATTT
95080684 AATTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 9 0.35
26 13 0.50
27 3 0.12
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (24 bp):
TATTTTAAAATTATTAAAATATCA
Found at i:95080792 original size:15 final size:16
Alignment explanation
Indices: 95080765--95080794 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
95080755 AATTTTATTT
95080765 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
95080781 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
95080795 GTAATATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:95090877 original size:21 final size:21
Alignment explanation
Indices: 95090852--95090910 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
95090842 AAAAATAATG
*
95090852 GTAGCGGTGAGATTAGTTACT
1 GTAGCGGTGAGATTAGATACT
* * *
95090873 GTAGCGATGAGATTGGATATT
1 GTAGCGGTGAGATTAGATACT
95090894 GTAGCGGTGAGATTAGA
1 GTAGCGGTGAGATTAGA
95090911 AACAATGATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.27, C:0.07, G:0.36, T:0.31
Consensus pattern (21 bp):
GTAGCGGTGAGATTAGATACT
Found at i:95091213 original size:22 final size:22
Alignment explanation
Indices: 95091162--95091213 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
95091152 TTTTATAGTT
*
95091162 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
95091185 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
95091207 ATAATAA
1 ATAATAA
95091214 CATTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:95094564 original size:64 final size:64
Alignment explanation
Indices: 95094463--95094609 Score: 285
Period size: 64 Copynumber: 2.3 Consensus size: 64
95094453 ATGTTATATT
95094463 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
1 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
*
95094527 AGTTCGAATCCTTTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
1 AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
95094591 AGTTCGAATCCTCTAATTT
1 AGTTCGAATCCTCTAATTT
95094610 AAATACTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (64 bp):
AGTTCGAATCCTCTAATTTTGATTGAATTAATAAGGTTAGAAATTTGAGAATTTTAAAATCTTA
Found at i:95095262 original size:15 final size:15
Alignment explanation
Indices: 95095242--95095273 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
95095232 TGTAAGTTTC
95095242 TTAGAAATAAAATGA
1 TTAGAAATAAAATGA
*
95095257 TTAGAAATAAGATGA
1 TTAGAAATAAAATGA
95095272 TT
1 TT
95095274 GGGGAAATTT
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:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
TTAGAAATAAAATGA
Found at i:95095952 original size:378 final size:378
Alignment explanation
Indices: 95095257--95096000 Score: 1461
Period size: 378 Copynumber: 2.0 Consensus size: 378
95095247 AATAAAATGA
95095257 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
1 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
95095322 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
66 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
95095387 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
131 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
95095452 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
196 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
*
95095517 TTTCATTTGGTTTGATTTATCCTCTCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
261 TTTCATTTGGTTTGATTTATCCTCCCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
*
95095582 CAATTGTGTGTTCATCTCTTGTTTTCATTATAATTTATTGCATTTTAAGTTTC
326 CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGCATTTTAAGTTTC
95095635 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
1 TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
95095700 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
66 GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
95095765 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
131 GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
*
95095830 TTTTCATTTGGTTAACGAATCTTTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
196 TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
95095895 TTTCATTTGGTTTGATTTATCCTCCCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
261 TTTCATTTGGTTTGATTTATCCTCCCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
95095960 CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGC
326 CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGC
95096001 TATTGAATGC
Statistics
Matches: 363, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
378 363 1.00
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.42
Consensus pattern (378 bp):
TTAGAAATAAGATGATTGGGGAAATTTGGGTCAAAATTGAGGAAAAAGCAGTGAAGATAATCCTG
GGAAGTGAATGGGAAACTTCCCAATCCAGGTGTTGAATGCAACAGTTTTTTCCTTTGAAATGAAC
GACCGAAAGAGTGAGCTCTTTTTTTTCCTTCTTGTTGTTGATTTAATTTGTGCTTTCTTTGCTTC
TTTTCATTTGGTTAACGAATCTCTGAATCTTTTCATTTGATTTAATTTGTGCTTTCTTCGCTTTT
TTTCATTTGGTTTGATTTATCCTCCCCCTCTCTCTTTGTCTCACACATATGCACATCAACAGACG
CAATTGTGTGTTCATCTCTTGTTCTCATTATAATTTATTGCATTTTAAGTTTC
Found at i:95103978 original size:18 final size:19
Alignment explanation
Indices: 95103955--95103990 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
95103945 CTCCATGCCA
95103955 AAGTG-AAAAATGATTTTT
1 AAGTGAAAAAATGATTTTT
95103973 AAGTGAAAAAATGATTTT
1 AAGTGAAAAAATGATTTT
95103991 GGCCACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
AAGTGAAAAAATGATTTTT
Found at i:95104170 original size:48 final size:49
Alignment explanation
Indices: 95104060--95104171 Score: 147
Period size: 48 Copynumber: 2.3 Consensus size: 49
95104050 TGCATTAATA
* * *
95104060 TGACACTGTTCACAATTTTGATTATGTAGCAGTATATCTATGATTTTTG
1 TGACACTGTTCACAATATAGATTATGTAGCAGTATATCTATGATTTTGG
* * * *
95104109 TGGC-TTGTCCACAATATAGATTAT-TAGCAGTTTATCTATGATTTTGG
1 TGACACTGTTCACAATATAGATTATGTAGCAGTATATCTATGATTTTGG
95104156 TGACACTGTTCACAAT
1 TGACACTGTTCACAAT
95104172 TTGGTGTGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
47 24 0.46
48 25 0.48
49 3 0.06
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (49 bp):
TGACACTGTTCACAATATAGATTATGTAGCAGTATATCTATGATTTTGG
Found at i:95112194 original size:28 final size:28
Alignment explanation
Indices: 95112116--95112196 Score: 82
Period size: 27 Copynumber: 3.0 Consensus size: 28
95112106 AAAATGTGGG
*
95112116 ACAATTTTTAAAAT--AAAATA-A-AAT
1 ACAATTTTTAAAATAAAAAATACATAAA
* * *
95112140 ACAAGATCTTAAAATAAATAAT-CATAAA
1 ACAA-TTTTTAAAATAAAAAATACATAAA
95112168 ACAATTTTTAAAATAAAAAATACATAAA
1 ACAATTTTTAAAATAAAAAATACATAAA
95112196 A
1 A
95112197 ATAAAAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
24 4 0.09
25 8 0.18
27 19 0.43
28 13 0.30
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.28
Consensus pattern (28 bp):
ACAATTTTTAAAATAAAAAATACATAAA
Found at i:95112197 original size:17 final size:17
Alignment explanation
Indices: 95112177--95112214 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
95112167 AACAATTTTT
95112177 AAAATAAAAAATACATA
1 AAAATAAAAAATACATA
*
95112194 AAAATAAAAAATATATA
1 AAAATAAAAAATACATA
95112211 AAAA
1 AAAA
95112215 ATAGTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAAAATACATA
Found at i:95112330 original size:25 final size:24
Alignment explanation
Indices: 95112300--95112356 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
95112290 AAGAAAGTTA
* *
95112300 AATAAAAAAATTGAAATAAATAAT
1 AATAAAAAAATTAAAATAAACAAT
* *
95112324 ATATAAAGAGATTTAAAATAAACAAT
1 A-ATAAA-AAAATTAAAATAAACAAT
95112350 AATAAAA
1 AATAAAA
95112357 CAGAAAAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 2 0.07
25 10 0.37
26 15 0.56
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (24 bp):
AATAAAAAAATTAAAATAAACAAT
Found at i:95114114 original size:87 final size:87
Alignment explanation
Indices: 95113942--95114509 Score: 710
Period size: 88 Copynumber: 6.5 Consensus size: 87
95113932 ATAAAACTTC
* * *
95113942 TAATCTTCAGCCTATTTCCCTACTGCTTAGGGGGATGAA-GCTCACCATCTTCGATCCACTCCAC
1 TAAT-TTCAGCCTATTTCCCTACTGCTTAGGGGG-TTAAGGCTCACCGTCTTCGATCCGCTCCAC
* * *
95114006 TACTGCTTAGGGTGATGAGATCTA
64 TACTGCTTAGGGAGATAAGATCTG
* * * * *
95114030 TAATCTTCAGTCTGTTTCCCTACTGCTTAGGGAGATAAGGCTTA-CGTCTTCGATCCGCTCCACT
1 TAAT-TTCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACT
* *
95114094 ACCGCTTAAGGAGATAAGATCTG
65 ACTGCTTAGGGAGATAAGATCTG
* * * *
95114117 TAATTTCCAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCATT
1 TAATTT-CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACT
95114182 ACTGCTTA-GGAGATAAGATCTG
65 ACTGCTTAGGGAGATAAGATCTG
* * * * * * *
95114204 TAATTTCCAGCCTGTTTTCCTACTGCTTAAGGGGTTAAGGCTCACCATCTTTGATCTGCTTCACT
1 TAATTT-CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACT
*
95114269 ACTGCTTAGGGAGATAAAATCTG
65 ACTGCTTAGGGAGATAAGATCTG
* * *
95114292 TAATTTCCAGCCTATTTCCCTACTGCTTAGAGGGTTAAGGCTCACCGTTTTCGATCTGCTCCACT
1 TAATTT-CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACT
95114357 ACTGCTTAGGGAGATAAGATCTG
65 ACTGCTTAGGGAGATAAGATCTG
* * * * *
95114380 TAATTTCTAGCCTATTTCTCTACTACTTAGGGGGTTAAGGCTCACCGTCTTTGATCCACTCGACT
1 TAATTTC-AGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACT
* *
95114445 ACTACTTGGGGAGATAAGATCTG
65 ACTGCTTAGGGAGATAAGATCTG
* *
95114468 TAATTGCCAGCCTATTTCCCTACTACTTAGGGGGTTAAGGCT
1 TAATT-TCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCT
95114510 AGTGAATTCA
Statistics
Matches: 424, Mismatches: 50, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
86 2 0.00
87 156 0.37
88 265 0.62
89 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (87 bp):
TAATTTCAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCGCTCCACTA
CTGCTTAGGGAGATAAGATCTG
Found at i:95114187 original size:175 final size:174
Alignment explanation
Indices: 95113949--95114509 Score: 743
Period size: 175 Copynumber: 3.2 Consensus size: 174
95113939 TTCTAATCTT
* * * **
95113949 CAGCCTATTTCCCTACTGCTTAGGGGGATGAA-GCTCACCATCTTCGATCCACTCCACTACTGCT
1 CAGCCTATTTCCCTACTGCTTAGGGGG-TTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCT
* * * * * *
95114013 TAGGGTGATGAGATCTATAATCTTCAGTCTGTTTCCCTACTGCTTAGGGAGATAAGGCTTA-CGT
65 TAGGGAGATAAGATCTGTAAT-TTCAGCCTGTTTCCCTACTGCTTAGGG-GTTAAGGCTCACCGT
* * *
95114077 CTTCGATCCGCTCCACTACCGCTTAAGGAGATAAGATCTGTAATTTC
128 CTTTGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC
* *
95114124 CAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCATTACTGCTT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTT
* *
95114189 A-GGAGATAAGATCTGTAATTTCCAGCCTGTTTTCCTACTGCTTAAGGGGTTAAGGCTCACCATC
66 AGGGAGATAAGATCTGTAATTT-CAGCCTGTTTCCCTACTGCTT-AGGGGTTAAGGCTCACCGTC
* * *
95114253 TTTGATCTGCTTCACTACTGCTTAGGGAGATAAAATCTGTAATTTC
129 TTTGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC
*
95114299 CAGCCTATTTCCCTACTGCTTAGAGGGTTAAGGCTCACCGT-TTTCGATCTGCTCCACTACTGCT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTT-GATCTGCTCCACTACTGCT
* * *
95114363 TAGGGAGATAAGATCTGTAATTTCTAGCCTATTTCTCTACTACTTAGGGGGTTAAGGCTCACCGT
65 TAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCCCTACTGCTTA-GGGGTTAAGGCTCACCGT
* * * * *
95114428 CTTTGATCCACTCGACTACTACTTGGGGAGATAAGATCTGTAATTGC
128 CTTTGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC
*
95114475 CAGCCTATTTCCCTACTACTTAGGGGGTTAAGGCT
1 CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCT
95114510 AGTGAATTCA
Statistics
Matches: 339, Mismatches: 39, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
173 2 0.01
174 49 0.14
175 163 0.48
176 125 0.37
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (174 bp):
CAGCCTATTTCCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGCTCCACTACTGCTT
AGGGAGATAAGATCTGTAATTTCAGCCTGTTTCCCTACTGCTTAGGGGTTAAGGCTCACCGTCTT
TGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTC
Found at i:95114403 original size:44 final size:44
Alignment explanation
Indices: 95114263--95114411 Score: 117
Period size: 44 Copynumber: 3.4 Consensus size: 44
95114253 TTTGATCTGC
*
95114263 TTCACTACTGCTTAGGGAGATAAAATCTGTAATTTCCAGCCTAT
1 TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
* * * * * * **
95114307 TTCCCTACTGCTTAGAGG-GTTAAGGCTCACCGT--TTTCGA-TCTGC
1 TTCACTACTGCTTAG-GGAGATAA-GAT--CTGTAATTTCCAGCCTAT
* *
95114351 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCTAGCCTAT
1 TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
* *
95114395 TTCTCTACTACTTAGGG
1 TTCACTACTGCTTAGGG
95114412 GGTTAAGGCT
Statistics
Matches: 76, Mismatches: 21, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
41 3 0.04
43 9 0.12
44 53 0.70
45 8 0.11
47 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (44 bp):
TTCACTACTGCTTAGGGAGATAAGATCTGTAATTTCCAGCCTAT
Found at i:95114679 original size:64 final size:64
Alignment explanation
Indices: 95114578--95114705 Score: 195
Period size: 64 Copynumber: 2.0 Consensus size: 64
95114568 TCATGTATCT
*
95114578 ATGCTTATGCTAAATAATTAAGATACTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCTAAATAATTAAGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * * *
95114642 ATGCTTATG-TCAAATAGTTAGGATGCTATGATCGAAATGAATCCAATGCTCCTAACTAGATGTG
1 ATGCTTATGCT-AAATAATTAAGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
95114706 TTATGAATGA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 1 0.02
64 57 0.98
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (64 bp):
ATGCTTATGCTAAATAATTAAGATACTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:95119134 original size:19 final size:19
Alignment explanation
Indices: 95119110--95119155 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
95119100 TGTGAAGTTT
* *
95119110 AATGCACATG-ATGCAATG
1 AATGCAAATGCATGAAATG
95119128 CAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
95119148 AATGCAAA
1 AATGCAAA
95119156 AGAAAGTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:95121445 original size:18 final size:18
Alignment explanation
Indices: 95121423--95121464 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
95121413 AACAATTTTT
95121423 AAAATAAAAAATACATAA
1 AAAATAAAAAATACATAA
* * *
95121441 TAAATAAATAATATATAA
1 AAAATAAAAAATACATAA
95121459 AAAATA
1 AAAATA
95121465 GTTTTAACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATAAAAAATACATAA
Found at i:95121823 original size:14 final size:14
Alignment explanation
Indices: 95121804--95121847 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
95121794 TTGATTGGCA
95121804 GTAAAATATTTTCC
1 GTAAAATATTTTCC
* *
95121818 GTAAAATGATTTACT
1 GTAAAAT-ATTTTCC
*
95121833 GGAAAATATTTTCC
1 GTAAAATATTTTCC
95121847 G
1 G
95121848 GTGTTTGATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (14 bp):
GTAAAATATTTTCC
Found at i:95123076 original size:13 final size:11
Alignment explanation
Indices: 95123044--95123077 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
95123034 GCAGGAATTA
95123044 GTACAATATAT
1 GTACAATATAT
95123055 GTACAATATAT
1 GTACAATATAT
95123066 GTACAATATAT
1 GTACAATATAT
95123077 G
1 G
95123078 AGAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (11 bp):
GTACAATATAT
Found at i:95123966 original size:16 final size:16
Alignment explanation
Indices: 95123945--95123978 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
95123935 GGACGGAGAG
*
95123945 GAAATGAGGAGGAAAT
1 GAAATGAGAAGGAAAT
95123961 GAAATGAGAAGGAAAT
1 GAAATGAGAAGGAAAT
95123977 GA
1 GA
95123979 GAGGTTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.35, T:0.12
Consensus pattern (16 bp):
GAAATGAGAAGGAAAT
Found at i:95126795 original size:46 final size:44
Alignment explanation
Indices: 95126691--95126798 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
95126681 TGTCTTTGAC
** * * *
95126691 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
95126735 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
95126781 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
95126799 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:95130629 original size:21 final size:21
Alignment explanation
Indices: 95130605--95130649 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
95130595 CAGTTTTAGC
*
95130605 ATTT-GGATTTAAGATTTTGAG
1 ATTTGGGATTCAA-ATTTTGAG
*
95130626 ATTTGGGATTCAATTTTTGAG
1 ATTTGGGATTCAAATTTTGAG
95130647 ATT
1 ATT
95130650 CAGGATTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (21 bp):
ATTTGGGATTCAAATTTTGAG
Found at i:95132477 original size:20 final size:20
Alignment explanation
Indices: 95132452--95132497 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
95132442 ATTTAATATC
*
95132452 TTAATGCTTTTTC-CTTACAT
1 TTAATGCATTTTCTC-TACAT
*
95132472 TTAATGCATTTTCTCTGCAT
1 TTAATGCATTTTCTCTACAT
95132492 TTAATG
1 TTAATG
95132498 TCTAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (20 bp):
TTAATGCATTTTCTCTACAT
Found at i:95134082 original size:6 final size:6
Alignment explanation
Indices: 95134066--95134105 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
95134056 ACTTGCTGGA
*
95134066 TTTTGG ATTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
1 TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTTGG TTTT
95134106 AGGTGCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.03, C:0.00, G:0.30, T:0.68
Consensus pattern (6 bp):
TTTTGG
Found at i:95134210 original size:43 final size:43
Alignment explanation
Indices: 95134147--95134245 Score: 171
Period size: 43 Copynumber: 2.3 Consensus size: 43
95134137 TTCTGCTGAC
*
95134147 ATAACTTACTCAAAATAGTATATTTAAACTAATCTTTGAAGGG
1 ATAACTTACTCAAAACAGTATATTTAAACTAATCTTTGAAGGG
95134190 ATAACTTACTCAAAACAGTATATTTAAACTAATCTTTGAAGGG
1 ATAACTTACTCAAAACAGTATATTTAAACTAATCTTTGAAGGG
*
95134233 CTATACTTACTCA
1 ATA-ACTTACTCA
95134246 TTAGATAACT
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
43 44 0.83
44 9 0.17
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.34
Consensus pattern (43 bp):
ATAACTTACTCAAAACAGTATATTTAAACTAATCTTTGAAGGG
Found at i:95136609 original size:34 final size:35
Alignment explanation
Indices: 95136566--95136657 Score: 127
Period size: 34 Copynumber: 2.7 Consensus size: 35
95136556 GTATTTTTTT
95136566 TAAATTAATTAAATTAGGGTTTA-ATGATTTTAA-A
1 TAAATTAATTAAATTAGGGTTTAGA-GATTTTAAGA
* * *
95136600 TAAAGTAATTAAATTAGAGTTTAGAGTTTTTAAGA
1 TAAATTAATTAAATTAGGGTTTAGAGATTTTAAGA
95136635 -AAATTAATTAAATTAGGGTTTAG
1 TAAATTAATTAAATTAGGGTTTAG
95136658 TTTTTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
34 49 0.96
35 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.41
Consensus pattern (35 bp):
TAAATTAATTAAATTAGGGTTTAGAGATTTTAAGA
Found at i:95137014 original size:125 final size:125
Alignment explanation
Indices: 95136748--95137093 Score: 449
Period size: 125 Copynumber: 2.8 Consensus size: 125
95136738 GAAGACGGTT
* * *
95136748 CTGAA-AAGATAATGTCAAAAACGCTTCAAGTAGTATGCACTATCA-CAAAAATTACTGAAAAAA
1 CTGAACAA-ATAATGTCAAAAACGTTTCAAGTAGGATGCACTGTCAGC-AAAATTACTGAAAAAA
* * * * * *
95136811 GCT-----TTGGACGCTCTTTTTCTACAATAATTCCTAAAAAAATAATTTTGAGAAGACGGTT
64 GCTCCCACATGGACGCTCTTTTTCTACAATAGTT-CTTAAAAAATAATTTTGAGAAAACAGTC
* *
95136869 CTGAACAAATAGTGTCAAAAACGTTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGC
1 CTGAACAAATAATGTCAAAAACGTTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGC
*
95136934 TCCCACGTGGACGCTCTTTTTCTACAATAGTTCTTAAAAAATAATTTTGAGAAAACAGTC
66 TCCCACATGGACGCTCTTTTTCTACAATAGTTCTTAAAAAATAATTTTGAGAAAACAGTC
* *
95136994 CTGAACAAATAATGTTAAAAACGCTTT-AAATAGGATGCACTGTCAGCAAAATTGA-TGAAAAAA
1 CTGAACAAATAATGTCAAAAACG-TTTCAAGTAGGATGCACTGTCAGCAAAATT-ACTGAAAAAA
*
95137057 GCTCCCACATGGATGCTCTTTTTCTACAATAGTTCTT
64 GCTCCCACATGGACGCTCTTTTTCTACAATAGTTCTT
95137094 GTTTGGCCTT
Statistics
Matches: 199, Mismatches: 17, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
121 56 0.28
122 3 0.02
125 112 0.56
126 28 0.14
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (125 bp):
CTGAACAAATAATGTCAAAAACGTTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGC
TCCCACATGGACGCTCTTTTTCTACAATAGTTCTTAAAAAATAATTTTGAGAAAACAGTC
Found at i:95147815 original size:24 final size:23
Alignment explanation
Indices: 95147759--95147815 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
95147749 AAGAACTTCT
*
95147759 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
95147782 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
95147807 ACTTTTATT
1 A-TTTTATT
95147816 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:95150021 original size:30 final size:30
Alignment explanation
Indices: 95149987--95150051 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
95149977 ATTAATTAAA
*
95149987 GAGAGATTTGAGAAATTTAAAAAGAAATTT
1 GAGAGATTTGAGAAATCTAAAAAGAAATTT
* * ***
95150017 GAGAGCTTTGTGAAATCTAGGGAGAAATTT
1 GAGAGATTTGAGAAATCTAAAAAGAAATTT
95150047 GAGAG
1 GAGAG
95150052 CTTTTTTGTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.28, T:0.28
Consensus pattern (30 bp):
GAGAGATTTGAGAAATCTAAAAAGAAATTT
Found at i:95157713 original size:21 final size:21
Alignment explanation
Indices: 95157687--95157728 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
95157677 TACTTTTTCA
95157687 TGCAACTATGTCTGTATACCT
1 TGCAACTATGTCTGTATACCT
95157708 TGCAACTATGTCTGTATACCT
1 TGCAACTATGTCTGTATACCT
95157729 CAATTTGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (21 bp):
TGCAACTATGTCTGTATACCT
Found at i:95160488 original size:27 final size:28
Alignment explanation
Indices: 95160417--95160488 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
95160407 GTTTATGGGT
95160417 TTAAGG-TTAGGGTTTTTGAAAAAAAAAA
1 TTAAGGTTTAGGGTTTTT-AAAAAAAAAA
* * * *
95160445 TTAAGGTTTATGATTTTT-TAAAATAAA
1 TTAAGGTTTAGGGTTTTTAAAAAAAAAA
95160472 TTAAGGTTTAGGGTTTT
1 TTAAGGTTTAGGGTTTT
95160489 AAGATATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 22 0.59
28 6 0.16
29 9 0.24
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (28 bp):
TTAAGGTTTAGGGTTTTTAAAAAAAAAA
Found at i:95166898 original size:43 final size:43
Alignment explanation
Indices: 95166850--95166997 Score: 181
Period size: 43 Copynumber: 3.4 Consensus size: 43
95166840 TGTAATTATA
* *
95166850 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTA-TATGATTACG
* *
95166893 TGTAAGACCATGTCTGAGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTACG
* * * * *
95166936 TGTAAGACCATGTTTGGGACATTGACATCGATATATGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTACG
* *
95166979 TGTAAGACTATATCTGGGA
1 TGTAAGACCATGTCTGGGA
95166998 TATGACATTG
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 88 0.98
44 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTACG
Found at i:95179303 original size:1 final size:1
Alignment explanation
Indices: 95179297--95179321 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
95179287 AATTCTCCCT
95179297 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
95179322 AAAAAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:95186711 original size:22 final size:22
Alignment explanation
Indices: 95186672--95186730 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
95186662 GTTTTAAGAA
*
95186672 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
95186693 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
95186715 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
95186731 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:95186747 original size:26 final size:24
Alignment explanation
Indices: 95186701--95186759 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
95186691 ATTTGTTTTA
*
95186701 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
95186725 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
*
95186751 -TTTTTATTT
1 ATATTTATTT
95186760 AATAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 8 0.26
26 13 0.42
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:95192249 original size:38 final size:38
Alignment explanation
Indices: 95192168--95192316 Score: 217
Period size: 38 Copynumber: 3.9 Consensus size: 38
95192158 GAATCCAGTC
* * * *
95192168 ACCAGCACAAAGCCTGTGGGACTTTAAGCTCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATATT
* *
95192208 ACCAGCACTAAGCCTGCAGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
95192246 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
*
95192284 ACCAGCACGAAGCCTGCGGGACTTAACCCGGAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
95192317 GTATCGAGTG
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 78 0.77
39 5 0.05
40 18 0.18
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:95201497 original size:35 final size:35
Alignment explanation
Indices: 95201421--95201497 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
95201411 TAAAGCTTAT
*
95201421 CAAAACAGCGTCATTTTGATTTAAAACACCAAGCG
1 CAAAACGGCGTCATTTTGATTTAAAACACCAAGCG
*
95201456 CAAAACGGCGTCGTTTTGATTTAAAACACCAAGCG
1 CAAAACGGCGTCATTTTGATTTAAAACACCAAGCG
95201491 CAAAACG
1 CAAAACG
95201498 AAATCAAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (35 bp):
CAAAACGGCGTCATTTTGATTTAAAACACCAAGCG
Found at i:95201878 original size:3 final size:3
Alignment explanation
Indices: 95201870--95201985 Score: 94
Period size: 3 Copynumber: 38.7 Consensus size: 3
95201860 TAATTTTAAC
* * *
95201870 ATT ATT ATTT ATT ATT ATTT ATT ATT ATT ACT ATT ATT TTT ATT ACT
1 ATT ATT A-TT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
95201917 ATT ATT ACT ACT ATT -TT CGTT ATT ATT ACT ATT ACT ATT -TT -TT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
95201960 TTT ACT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
95201986 ATTTTCTTTC
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
2 6 0.07
3 78 0.85
4 8 0.09
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:95214698 original size:44 final size:44
Alignment explanation
Indices: 95214548--95214716 Score: 128
Period size: 44 Copynumber: 3.8 Consensus size: 44
95214538 AGAATTGTGG
* * * *
95214548 AGCAGATTAAAGCTAT-AGATCTTATCTCCCTAAAGTTGTAGTAG
1 AGCAGATTAAAGCTATAAGA-CTTATCTCTCTGAAGTTGCAGTAA
* * * * * * *
95214592 AGTAGATTGATGATAGCAA-ATCTTATCTCTCTGAAGTTGTAGTAG
1 AGCAGATTAAAGCTA-TAAGA-CTTATCTCTCTGAAGTTGCAGTAA
*
95214637 AGTAGATTAAAGCTATAA-ACATTATCTCTCTGAAGTTGCAGTAA
1 AGCAGATTAAAGCTATAAGAC-TTATCTCTCTGAAGTTGCAGTAA
* * * * *
95214681 AGCAGGTTGAAGTTATAAGTCTTATCTCCCTGAAGT
1 AGCAGATTAAAGCTATAAGACTTATCTCTCTGAAGT
95214717 CACAGTGGAG
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
43 1 0.01
44 63 0.62
45 37 0.36
46 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (44 bp):
AGCAGATTAAAGCTATAAGACTTATCTCTCTGAAGTTGCAGTAA
Found at i:95215020 original size:44 final size:44
Alignment explanation
Indices: 95214954--95215048 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 44
95214944 TACCATGGCG
* * *
95214954 AATCTTGTCTCCCTGAAAGTGCAGTGGAGCAGATTGAAGCCACA
1 AATCTTATCTCCCTGAAAGTGCAATGGAGCAAATTGAAGCCACA
* *
95214998 AATCTTATCTCCTTGAAGGTGCAATGGAGCAAATTGAAGCCACA
1 AATCTTATCTCCCTGAAAGTGCAATGGAGCAAATTGAAGCCACA
95215042 AATCTTA
1 AATCTTA
95215049 AATTACAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAAGTGCAATGGAGCAAATTGAAGCCACA
Found at i:95216816 original size:3 final size:3
Alignment explanation
Indices: 95216798--95216931 Score: 80
Period size: 3 Copynumber: 42.3 Consensus size: 3
95216788 TTATCATTGG
*
95216798 TAT T-T TAT TAT CTAT TAT TAT CAT TAT TAT TAT TAT TATT TAT TCAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T-AT
* * * *
95216845 CTATT TATT TAT TACC CAT T-T TGCACT TA- TAT ATAT TAT TCT GAT T-T
1 -TA-T TA-T TAT TA-T TAT TAT T--A-T TAT TAT -TAT TAT TAT TAT TAT
95216892 CTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT T
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
95216932 TGTTTATATA
Statistics
Matches: 105, Mismatches: 10, Indels: 32
0.71 0.07 0.22
Matches are distributed among these distances:
2 9 0.09
3 71 0.68
4 21 0.20
5 2 0.02
6 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:95222195 original size:19 final size:19
Alignment explanation
Indices: 95222140--95222197 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
95222130 GATACCAGAC
*
95222140 AAGGTATTGATAAAATTTTT
1 AAGGTATTGAT-AATTTTTT
* *
95222160 AAGGTATCGACT-TTTTTTT
1 AAGGTATTGA-TAATTTTTT
*
95222179 AAGGTATTGATACTTTTTT
1 AAGGTATTGATAATTTTTT
95222198 TATTTTTGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.65
20 9 0.29
21 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (19 bp):
AAGGTATTGATAATTTTTT
Found at i:95222195 original size:20 final size:20
Alignment explanation
Indices: 95222140--95222199 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
95222130 GATACCAGAC
***
95222140 AAGGTATTGATAAAATTTTT
1 AAGGTATTGATACTTTTTTT
*
95222160 AAGGTATCG--ACTTTTTTTT
1 AAGGTATTGATAC-TTTTTTT
95222179 AAGGTATTGATACTTTTTTT
1 AAGGTATTGATACTTTTTTT
95222199 A
1 A
95222200 TTTTTGCTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 1 0.03
19 13 0.41
20 16 0.50
21 2 0.06
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (20 bp):
AAGGTATTGATACTTTTTTT
Found at i:95224886 original size:18 final size:16
Alignment explanation
Indices: 95224843--95224886 Score: 63
Period size: 15 Copynumber: 2.7 Consensus size: 16
95224833 TCTTTTACTA
95224843 TATTTATTATTATATC
1 TATTTATTATTATATC
95224859 TA-TTATTATTACTATC
1 TATTTATTATTA-TATC
95224875 TATTTATGTATT
1 TATTTAT-TATT
95224887 TTATTACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.36
16 8 0.32
17 4 0.16
18 4 0.16
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (16 bp):
TATTTATTATTATATC
Found at i:95226125 original size:22 final size:22
Alignment explanation
Indices: 95226100--95226142 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
95226090 TATCCAAACA
95226100 ATAACAACAAAATAGTAGTAAT
1 ATAACAACAAAATAGTAGTAAT
* * *
95226122 ATAATAGCAAAATGGTAGTAA
1 ATAACAACAAAATAGTAGTAA
95226143 AACTGTAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGTAAT
Found at i:95226443 original size:22 final size:22
Alignment explanation
Indices: 95226418--95226461 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
95226408 CATTCATAAG
95226418 CCAACATTGACTAATCAATCAA
1 CCAACATTGACTAATCAATCAA
95226440 CCAACATTGACTAATCAATCAA
1 CCAACATTGACTAATCAATCAA
95226462 TCTATACGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (22 bp):
CCAACATTGACTAATCAATCAA
Found at i:95227321 original size:42 final size:42
Alignment explanation
Indices: 95227267--95227430 Score: 159
Period size: 42 Copynumber: 3.7 Consensus size: 42
95227257 CTTCATTTTC
* * * * *
95227267 TCGATGCCATAGTTCAACTATGGTCTTACATATCTTCACATAA
1 TCGATGTCATAGTCCAGCTATGGTCTTACACATATTCACAT-A
95227310 T-GATGTCATAGTCCAGCTATGGTCTTACACATATTCACATA
1 TCGATGTCATAGTCCAGCTATGGTCTTACACATATTCACATA
* *
95227351 TCAATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGTCATAGTCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* * *
95227400 TCGATGCCATAGCCCAACTATGGTCTTACAC
1 TCGATGTCATAGTCCAGCTATGGTCTTACAC
95227431 GGATCACATA
Statistics
Matches: 103, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.02
42 61 0.59
43 1 0.01
45 2 0.02
48 2 0.02
49 35 0.34
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGTCATAGTCCAGCTATGGTCTTACACATATTCACATA
Found at i:95227399 original size:49 final size:48
Alignment explanation
Indices: 95227337--95227545 Score: 181
Period size: 49 Copynumber: 4.2 Consensus size: 48
95227327 TATGGTCTTA
*
95227337 CACATATTCACATATCAATGTCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCAATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* * *
95227387 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGGAT
1 CACATATCACATATCAATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * ** * * *
95227435 CACATATCTCA-CT-GATGTAATATCCCAGATATGGTCTTACACAGAAG
1 CACATATCACATATCAATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
* * * *
95227482 AACATAATCACATCA-CACCGATGCCATAGCCCAGCTATGGTTTTATACGGAT
1 CACAT-ATCACAT-ATCA---ATGCCATAGCCCAGCTATGGTCTTACACGAAT
95227534 CACATATCACAT
1 CACATATCACAT
95227546 GTTGCCATGG
Statistics
Matches: 125, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
46 24 0.19
47 7 0.06
48 17 0.14
49 36 0.29
50 6 0.05
51 7 0.06
52 6 0.05
53 22 0.18
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCAATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:95232783 original size:22 final size:22
Alignment explanation
Indices: 95232740--95232791 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
95232730 CAATATCCAA
* * *
95232740 AAAATAACAACAAAATAGTAGC
1 AAAACAACAACAAAACAATAGC
95232762 AAAACAACAACAAAACAATAGC
1 AAAACAACAACAAAACAATAGC
*
95232784 GAAACAAC
1 AAAACAAC
95232792 TAATTCAAGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.65, C:0.19, G:0.08, T:0.08
Consensus pattern (22 bp):
AAAACAACAACAAAACAATAGC
Found at i:95235286 original size:22 final size:22
Alignment explanation
Indices: 95235258--95235300 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
95235248 ATGTTTCATT
95235258 TACATGGATCGATTATTTTACA
1 TACATGGATCGATTATTTTACA
95235280 TACATGGATCGATTATTTTAC
1 TACATGGATCGATTATTTTAC
95235301 TAGTAAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (22 bp):
TACATGGATCGATTATTTTACA
Found at i:95235819 original size:18 final size:18
Alignment explanation
Indices: 95235780--95235837 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
95235770 TAAAAAATAC
* *
95235780 AAAT-TTTAAAATTTTTAT
1 AAATATTTAAAA-TTTAAA
95235798 AAATATTTAAAATTTAAA
1 AAATATTTAAAATTTAAA
95235816 AAATATTTTCAAAATTTGAAA
1 AAATA-TTT-AAAATTT-AAA
95235837 A
1 A
95235838 TTACTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 13 0.38
19 10 0.29
20 7 0.21
21 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATATTTAAAATTTAAA
Found at i:95235831 original size:20 final size:19
Alignment explanation
Indices: 95235780--95235837 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
95235770 TAAAAAATAC
** *
95235780 AAAT-TTTAAAATTTTTAT
1 AAATATTTAAAATTTGAAA
95235798 AAATATTTAAAATTT-AAA
1 AAATATTTAAAATTTGAAA
95235816 AAATATTTTCAAAATTTGAAA
1 AAATA-TTT-AAAATTTGAAA
95235837 A
1 A
95235838 TTACTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 10 0.29
19 13 0.38
20 7 0.21
21 4 0.12
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AAATATTTAAAATTTGAAA
Found at i:95253173 original size:23 final size:23
Alignment explanation
Indices: 95253147--95253191 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
95253137 CGCTCATGCT
95253147 TAGCACTTATGTGCTCGCGTTGC
1 TAGCACTTATGTGCTCGCGTTGC
* *
95253170 TAGCACTTTTGTGCTCGTGTTG
1 TAGCACTTATGTGCTCGCGTTG
95253192 TTCTGCGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.22, G:0.27, T:0.40
Consensus pattern (23 bp):
TAGCACTTATGTGCTCGCGTTGC
Found at i:95253273 original size:16 final size:16
Alignment explanation
Indices: 95253237--95253291 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
95253227 AAGGAGTACA
95253237 TGAAGTAAAG-GCTAA-
1 TGAAG-AAAGTGCTAAG
95253252 TCGAAGAAAGTGCTAAG
1 T-GAAGAAAGTGCTAAG
* **
95253269 TGAAGTAAGTTTTAAG
1 TGAAGAAAGTGCTAAG
95253285 TGAAGAA
1 TGAAGAA
95253292 TTTATACTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 5 0.15
16 27 0.82
17 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (16 bp):
TGAAGAAAGTGCTAAG
Found at i:95253504 original size:15 final size:15
Alignment explanation
Indices: 95253484--95253513 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95253474 TGTAGATTGC
95253484 ACAAAGTGATCGAGT
1 ACAAAGTGATCGAGT
*
95253499 ACAAAGTGTTCGAGT
1 ACAAAGTGATCGAGT
95253514 GTGGTTTGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (15 bp):
ACAAAGTGATCGAGT
Found at i:95286494 original size:20 final size:20
Alignment explanation
Indices: 95286469--95286508 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
95286459 CGAATAGGTG
95286469 TGTAATGAAAATATCAAAAA
1 TGTAATGAAAATATCAAAAA
95286489 TGTAATGAAAATATCAAAAA
1 TGTAATGAAAATATCAAAAA
95286509 ATAGCTAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.25
Consensus pattern (20 bp):
TGTAATGAAAATATCAAAAA
Found at i:95287266 original size:917 final size:913
Alignment explanation
Indices: 95285658--95287406 Score: 2309
Period size: 917 Copynumber: 1.9 Consensus size: 913
95285648 GGGAGGGGTT
* *
95285658 AGTTGGGCCATGTGGGCCACACAGGCATGTGGGCCCATTTTTTGTAAAACTTTGTCAGGGCCATA
1 AGTTGGGCCATGTAGGCCACACAGGCATGTGGGCCCATTTTTCGTAAAACTTTGTCAGGGCCATA
* * *
95285723 TTTGAAGTGCGATTCGAAAATTTGTCACTTTGTAGGTTCTGAAATGTGTTATGTAGGTACTATGG
66 TTTGAAGTGCGATTCGAAAAATTGTCACTTCGTAAGTTCTGAAATGTGTTATGTAGGTACTATGG
* * * * *
95285788 ACATGAAATTTGGTATTTTGCCTTTGTTAATGTGATTTTTGAACGCGTGATAGTATGTTCTAATA
131 ACATGAAATATGGTATTTTGCCTTCGTTAATGTGATTTCTAAAAGCGTGATAGTATGTTCTAATA
* *
95285853 TGTATAGTATGTATGATATATAAATACATCTGTTATCTTATTAGTGTTTGCAAGTGAAACCTGAA
196 TGTACAGTATGTATGATATATAAATACATCTGTTATCTTATTAATGTTTGCAAGTGAAACCTGAA
* * * *
95285918 ATACTGATATTGCATATGTAACATTCAAGAGCATGTCTGTGGTATAATCTTTACTTTTGATATAT
261 ATACTAATATTGCATATGTAACATTCAAGAGCATGTCTGTAGTATAATCTCTACTTCTGATATAT
*
95285983 AATTTGAGAAATCTGTATAAGCACGATTCATTTATGTGATTTCACCCTATATTCTTTGGTTTTCT
326 AATTTGAGAAATATGTATAAGCACGATTCATTTA-GTG--------CTATATTCTTTGGTTTTCT
* *
95286048 ATTAACCATTTTTAAGATTTCTTCATGGATGTTCTGACCTTTTTCATCTATAGTCTCCGAGTGTG
382 ATTAACCATTTTTAAGATTTCTTCATGGATGTTCTGACCATTTTCATCTATAGTCTCCGAGTATG
* * * * *
95286113 TGATTGGTGTATGAATTGGAATGATAGAGTTGTCATACGTTTCACACAATTGGTGTTCGGTTTTT
447 TGATTGGTGTACGAACTGGAATAATAGAGTTGTCATAAGTTTCACACAATTGGTGTTCGGTTCTT
* * *
95286178 TTTTTTAGATGGATATTTTGAGATAACCTTATTTGAGAATTTTTTTGTTAGAATTGATTACATTT
512 ATTTTTAGATGGATAATTTGAGATAACCTTATTTGAGAATTTTTTTATTAGAATTGATTACATTT
* * * * *
95286243 TGATGCATCTTTTTTGTAGGAATCTGTTAGGTGAATTTCACGAAGCACCCAACACTTTGCCAGTG
577 TGATGCATCTTCTGTGTAGGAATCTCTTAGGTGAATTTCACGAAGAACCCAACACTTTGCCAGCG
* * *
95286308 AGTAGAGTGTCTTAGGAATCAGTTTCTTTTTAGGTAAGGGTCG-GCATTT-TTGGTAGAACAATT
642 AGTAGAATGTCTTAGGAATCAGTTTCTTCTTAGGTAAGGGTCGAGCATTTGTT-GTAAAACAATT
* * * * *
95286371 GACTCGATATTGATAATCATTGTTAATTTATTTATTTTGAATGACATTTTAGGGTCT-AGAAGTG
706 AACTCGAGATTGATAATCATTGTAAATTTATTTATTCTGAATAACATTTTAGGGTCTGA-AAGTG
* * * * *
95286435 TGTTGTAAATTCGTGTTTTAGAATCGAATAGGTGTGTAATGAAAATATCAAAAATGTAATGAAAA
770 TGCTGTAAATTCCTATTTTAGAATCGAACAGGTGTGTAAAGAAAATATCAAAAATGTAATGAAAA
95286500 TATCAAAAAATAGCTAATGACGTGAAGCTAAAGGTCACTGTCTATGCCACACAGCCGTGCGGGTC
835 TATCAAAAAATAGCTAATGACGTGAAGCTAAAGGTCACTGTCTATGCCACACAGCCGTGCGGGTC
95286565 ACATGGGGTAAGTA
900 ACATGGGGTAAGTA
* * * * *
95286579 AGTTGGGCCGTGTAGGTCACACAGGCATGTGGGCCTAGTTTTTCGTAAAA-TTTCGTTAGGGTCA
1 AGTTGGGCCATGTAGGCCACACAGGCATGTGGGCCCA-TTTTTCGTAAAACTTT-GTCAGGGCCA
* *
95286643 TATTTGAAGTGCGATTC-AAAAATTGCTCACTTCGTAAGTTGTGAAATGTGTTATGTAGGTATTA
64 TATTTGAAGTGCGATTCGAAAAATTG-TCACTTCGTAAGTTCTGAAATGTGTTATGTAGGTACTA
* *
95286707 TGGACATGAAATATGGTATTTTTCCTTCGTTAATGTGATTTCTAAAAGCGTGATAGTATGTTCTG
128 TGGACATGAAATATGGTATTTTGCCTTCGTTAATGTGATTTCTAAAAGCGTGATAGTATGTTCTA
* * *
95286772 ATATGTACGGTATGTATGATATATACATACATTTGTTATC-TAGTTAATGTTTGCAAGTGAAACC
193 ATATGTACAGTATGTATGATATATAAATACATCTGTTATCTTA-TTAATGTTTGCAAGTGAAACC
* * *
95286836 TGAAATCTAAACACTAATATTGCTTGTGTAACATTCAAGAGCATGTTTGTAGTATAATCTCTACT
257 TGAAA--T----ACTAATATTGCATATGTAACATTCAAGAGCATGTCTGTAGTATAATCTCTACT
* * * *
95286901 TCTGATCTGTAATTTGAGAAATATGTATAAGCATGATTCATTTA-TG-TATATTCTTTTGTTTTC
316 TCTGATATATAATTTGAGAAATATGTATAAGCACGATTCATTTAGTGCTATATTCTTTGGTTTTC
*
95286964 TATTAACCATTTTTAAGATTTCTTCATGGATGTTCTGACCATTTTCATCTATAGTCTCTGAGTAT
381 TATTAACCATTTTTAAGATTTCTTCATGGATGTTCTGACCATTTTCATCTATAGTCTCCGAGTAT
* * **
95287029 GTGATTGGTGTACGAACTGGAATAATAGAGTTGTCGTAAGTTTCGCGTAATTGGTGTTC-G-TCT
446 GTGATTGGTGTACGAACTGGAATAATAGAGTTGTCATAAGTTTCACACAATTGGTGTTCGGTTCT
* * *
95287092 TATTTTTAGATGGATAATTTGAGATAACCTTATTTGAGAATTTTTTTTATTAGAGTTTATTGCAT
511 TATTTTTAGATGGATAATTTGAGATAACCTTATTTGAGAA-TTTTTTTATTAGAATTGATTACAT
* * * * * * *
95287157 TTTGATGCCCTCTTCTGTGTGGGAATTTCTTAGGTGAAGTTT-GCGAAGAACCTAACATTTTGCT
575 TTTGATG-CATCTTCTGTGTAGGAATCTCTTAGGTGAA-TTTCACGAAGAACCCAACACTTTGCC
* **
95287221 AGCGA--ACGAAATGTTTTAGGAATTGGTTTCTTCTTAGGTAAGGGTCGAATACCTTAGCATTTG
638 AGCGAGTA-G-AATGTCTTAGGAATCAGTTTCTTCTTAGGTAAGGGTCG--------AGCATTTG
* * * * *
95287284 TTGTAAAACAATTAACTTGAGATTGGTAATCCTTGTAAATTTGTTTATTCTGAATAATATTTTAG
693 TTGTAAAACAATTAACTCGAGATTGATAATCATTGTAAATTTATTTATTCTGAATAACATTTTAG
*
95287349 GGTCTGAAAGTGTGCTGTAAATTCCTATTTTAGAATCGACCAGGTGTGTAAAGAAAAT
758 GGTCTGAAAGTGTGCTGTAAATTCCTATTTTAGAATCGAACAGGTGTGTAAAGAAAAT
95287407 CCCGAAAAAC
Statistics
Matches: 714, Mismatches: 88, Indels: 47
0.84 0.10 0.06
Matches are distributed among these distances:
915 41 0.06
916 29 0.04
917 207 0.29
918 3 0.00
921 45 0.06
922 189 0.26
924 1 0.00
926 110 0.15
927 3 0.00
928 86 0.12
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (913 bp):
AGTTGGGCCATGTAGGCCACACAGGCATGTGGGCCCATTTTTCGTAAAACTTTGTCAGGGCCATA
TTTGAAGTGCGATTCGAAAAATTGTCACTTCGTAAGTTCTGAAATGTGTTATGTAGGTACTATGG
ACATGAAATATGGTATTTTGCCTTCGTTAATGTGATTTCTAAAAGCGTGATAGTATGTTCTAATA
TGTACAGTATGTATGATATATAAATACATCTGTTATCTTATTAATGTTTGCAAGTGAAACCTGAA
ATACTAATATTGCATATGTAACATTCAAGAGCATGTCTGTAGTATAATCTCTACTTCTGATATAT
AATTTGAGAAATATGTATAAGCACGATTCATTTAGTGCTATATTCTTTGGTTTTCTATTAACCAT
TTTTAAGATTTCTTCATGGATGTTCTGACCATTTTCATCTATAGTCTCCGAGTATGTGATTGGTG
TACGAACTGGAATAATAGAGTTGTCATAAGTTTCACACAATTGGTGTTCGGTTCTTATTTTTAGA
TGGATAATTTGAGATAACCTTATTTGAGAATTTTTTTATTAGAATTGATTACATTTTGATGCATC
TTCTGTGTAGGAATCTCTTAGGTGAATTTCACGAAGAACCCAACACTTTGCCAGCGAGTAGAATG
TCTTAGGAATCAGTTTCTTCTTAGGTAAGGGTCGAGCATTTGTTGTAAAACAATTAACTCGAGAT
TGATAATCATTGTAAATTTATTTATTCTGAATAACATTTTAGGGTCTGAAAGTGTGCTGTAAATT
CCTATTTTAGAATCGAACAGGTGTGTAAAGAAAATATCAAAAATGTAATGAAAATATCAAAAAAT
AGCTAATGACGTGAAGCTAAAGGTCACTGTCTATGCCACACAGCCGTGCGGGTCACATGGGGTAA
GTA
Found at i:95295821 original size:20 final size:20
Alignment explanation
Indices: 95295783--95295821 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
95295773 GTCCAGTCCT
*
95295783 AAGTCAGAAGATTACCTAAA
1 AAGTCAGAAGATTAACTAAA
95295803 AAGTCA-AAGATTAAACTAA
1 AAGTCAGAAGATT-AACTAA
95295822 GGGGTGAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.21
Consensus pattern (20 bp):
AAGTCAGAAGATTAACTAAA
Found at i:95303624 original size:610 final size:610
Alignment explanation
Indices: 95302463--95303686 Score: 2223
Period size: 610 Copynumber: 2.0 Consensus size: 610
95302453 AAAGAGCAAA
*
95302463 AGTATTCTATTATTCTAACTATGAATATTCAAAAATAGTTCAATATAGCAAATAAATCATGAAAT
1 AGTATTCTATTATTCTAACTATGAATATTCAAAAATAGTTCAATATAGCAAAGAAATCATGAAAT
*
95302528 AAGCAATATATGTAGAGAAAATAGAGAGAAAAGAATAAAAAAATACAAAAAGAATGAACTTGGGG
66 AAGCAATATATGTAGAGAAAATAGAGAGAAAAGAATAAAAAAATACAAAAAGAAGGAACTTGGGG
*
95302593 TGTCGAAATCGGTGTTGTAGGCGGCGCACGGGTGTGGGGGGTAGGGTGTGTGGAGTTGCAGCGAC
131 TGTCGAAATCGGTGTTGTAGGCGGCGCACGGGTGTGGGGGGTAGAGTGTGTGGAGTTGCAGCGAC
95302658 TAGGGTTAGGGATTTTTGAGGAGGGAGATGATGAATAGTGAGGGGTTTTAAAGATTTTAGGTCAC
196 TAGGGTTAGGGATTTTTGAGGAGGGAGATGATGAATAGTGAGGGGTTTTAAAGATTTTAGGTCAC
* * *
95302723 ACGGCTCTGGGACACGCCCGTGTGCCCTAATTTTTGCCCATGTGTTTCGTGAATTTTGAGTATGG
261 ACGGCTATGGGACACGCCCGTGTGCCATAATTTTTGCCCATGTGTTTCGTGAATTTTGAATATGG
* *
95302788 GCGTGTCTGGCATTCGGCCCACTCCCGTGTCACACAGCCGTGTCTCGCTTGGTTCGCTTCTCCCA
326 GCGCGTCTGGCATTCGGCCCACGCCCGTGTCACACAGCCGTGTCTCGCTTGGTTCGCTTCTCCCA
* *
95302853 TGCCCGTGTTAACTTGATAGGTTCGTCCATGGATGATAGGCACGGGTGTGTCGCTTGCCCGTGCT
391 TGCCCGTGTTAACTTGATAGGTTCGCCCATGGATGATAGGCACGGGTGTGTCGCATGCCCGTGCT
*
95302918 AGTTTGGCAGGTTCGTCCACGGCCATGTAGCACTGCCGTGGCGACTTTATCGCTTCCTGTGTTGG
456 AGTTTGGCAGGTTCGTCCACGGCCATGTAGCACTGCCGTGGCGACTTTATCACTTCCTGTGTTGG
* * *
95302983 AAAATTTTTTCCCTATTTTCGCACAACCTAAGGTACGCCCGTGTGCCTGGCCGTGTGGTATTTAG
521 AAAAATTTTGCCCTATTTTCGCACAACCTAAGGTACGCCAGTGTGCCTGGCCGTGTGGTATTTAG
95303048 AGAATCTGTATACCATGATTCAGGT
586 AGAATCTGTATACCATGATTCAGGT
95303073 AGTATTCTATTATTCTAACTATGAATATTCAAAAATAGTTCAATATAGCAAAGAAATCATGAAAT
1 AGTATTCTATTATTCTAACTATGAATATTCAAAAATAGTTCAATATAGCAAAGAAATCATGAAAT
* * * *
95303138 AAGTAATATATGTAGAGAAAATAGAGAGAAAAGAGTAAACAAATGCAAAAAGAAGGAACTTGGGG
66 AAGCAATATATGTAGAGAAAATAGAGAGAAAAGAATAAAAAAATACAAAAAGAAGGAACTTGGGG
* *
95303203 TGTCGAAATCGGTGTTGTAGGTGGCGCACGGGTGTGGGGGGTAGAGTGTGTGGAGTTGCAGCGGC
131 TGTCGAAATCGGTGTTGTAGGCGGCGCACGGGTGTGGGGGGTAGAGTGTGTGGAGTTGCAGCGAC
*
95303268 TAGGGTTAGGGATTTTTGGGGAGGGAGATGATGAATAGTGAGGGGTTTTAAAGATTTTAGGTCAC
196 TAGGGTTAGGGATTTTTGAGGAGGGAGATGATGAATAGTGAGGGGTTTTAAAGATTTTAGGTCAC
95303333 ACGGCTATGGGACACGCCCGTGTGCCATAATTTTTGCCCATGTGTTTCGTGAATTTTGAATATGG
261 ACGGCTATGGGACACGCCCGTGTGCCATAATTTTTGCCCATGTGTTTCGTGAATTTTGAATATGG
95303398 GCGCGTCTGGCATTCGGCCCACGCCCGTGTCACACAGCCGTGTCTCGCTTGGTTCGCTTCTCCCA
326 GCGCGTCTGGCATTCGGCCCACGCCCGTGTCACACAGCCGTGTCTCGCTTGGTTCGCTTCTCCCA
95303463 TGCCCGTGTTAACTTGATAGGTTCGCCCATGGATGATAGGCACGGGTGTGTCGCATGCCCGTGCT
391 TGCCCGTGTTAACTTGATAGGTTCGCCCATGGATGATAGGCACGGGTGTGTCGCATGCCCGTGCT
*
95303528 AGTTTGGCAGGTTCGTCCACGGCCATGTAGCACTGCCGTGGTGACTTTATCACTTCCTGTGTTGG
456 AGTTTGGCAGGTTCGTCCACGGCCATGTAGCACTGCCGTGGCGACTTTATCACTTCCTGTGTTGG
* *
95303593 AAAAATTTTGCCCTATTTTCGCACGACCTAAGGTACGCCAGTGTGTCTGGCCGTGTGGTATTTAG
521 AAAAATTTTGCCCTATTTTCGCACAACCTAAGGTACGCCAGTGTGCCTGGCCGTGTGGTATTTAG
*
95303658 AGAATCTGTATACCATGATTCAGTT
586 AGAATCTGTATACCATGATTCAGGT
95303683 AGTA
1 AGTA
95303687 CGTTAGACAT
Statistics
Matches: 589, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
610 589 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (610 bp):
AGTATTCTATTATTCTAACTATGAATATTCAAAAATAGTTCAATATAGCAAAGAAATCATGAAAT
AAGCAATATATGTAGAGAAAATAGAGAGAAAAGAATAAAAAAATACAAAAAGAAGGAACTTGGGG
TGTCGAAATCGGTGTTGTAGGCGGCGCACGGGTGTGGGGGGTAGAGTGTGTGGAGTTGCAGCGAC
TAGGGTTAGGGATTTTTGAGGAGGGAGATGATGAATAGTGAGGGGTTTTAAAGATTTTAGGTCAC
ACGGCTATGGGACACGCCCGTGTGCCATAATTTTTGCCCATGTGTTTCGTGAATTTTGAATATGG
GCGCGTCTGGCATTCGGCCCACGCCCGTGTCACACAGCCGTGTCTCGCTTGGTTCGCTTCTCCCA
TGCCCGTGTTAACTTGATAGGTTCGCCCATGGATGATAGGCACGGGTGTGTCGCATGCCCGTGCT
AGTTTGGCAGGTTCGTCCACGGCCATGTAGCACTGCCGTGGCGACTTTATCACTTCCTGTGTTGG
AAAAATTTTGCCCTATTTTCGCACAACCTAAGGTACGCCAGTGTGCCTGGCCGTGTGGTATTTAG
AGAATCTGTATACCATGATTCAGGT
Found at i:95303727 original size:38 final size:38
Alignment explanation
Indices: 95303685--95303769 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
95303675 ATTCAGTTAG
*
95303685 TACGTTAGACATTAAAAACTTAAATTTAAATAAATTAA
1 TACGTTAGACATTAAAAACTTAAATTTAAAGAAATTAA
95303723 TACGTTAGACATTAAAAACTTAAATTTAAAGAAATTAA
1 TACGTTAGACATTAAAAACTTAAATTTAAAGAAATTAA
95303761 TACTGTTAG
1 TAC-GTTAG
95303770 TGCTCGGGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 40 0.89
39 5 0.11
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (38 bp):
TACGTTAGACATTAAAAACTTAAATTTAAAGAAATTAA
Found at i:95304132 original size:17 final size:17
Alignment explanation
Indices: 95304100--95304133 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
95304090 CATGGCGTGG
95304100 TTTTGGTTTATCGTGTT
1 TTTTGGTTTATCGTGTT
95304117 TTTTCGGTTTAT-GTGTT
1 TTTT-GGTTTATCGTGTT
95304134 CGCCATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.06, C:0.06, G:0.24, T:0.65
Consensus pattern (17 bp):
TTTTGGTTTATCGTGTT
Found at i:95309205 original size:18 final size:18
Alignment explanation
Indices: 95309168--95309206 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
95309158 AGTACAGTTT
*
95309168 CTATCAGTTTCAGTTTCA
1 CTATCAGTTTCAGTTACA
95309186 CTAT-AGTTTCAGTATACA
1 CTATCAGTTTCAGT-TACA
95309204 CTA
1 CTA
95309207 ACTAAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (18 bp):
CTATCAGTTTCAGTTACA
Found at i:95313495 original size:18 final size:19
Alignment explanation
Indices: 95313453--95313497 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
95313443 TCAAGATCTT
95313453 AAATTAATGTGGTCCAAAG
1 AAATTAATGTGGTCCAAAG
95313472 AAATTAATGTGGTCCAAA-
1 AAATTAATGTGGTCCAAAG
95313490 AAATTAAT
1 AAATTAAT
95313498 TAGTACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (19 bp):
AAATTAATGTGGTCCAAAG
Found at i:95313643 original size:118 final size:118
Alignment explanation
Indices: 95313494--95313740 Score: 449
Period size: 118 Copynumber: 2.1 Consensus size: 118
95313484 TCCAAAAAAT
*
95313494 TAATTAGTACATTTTTCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
* *
95313559 GTCCAAAAAATTAGAGTCAACATCTTAAAAAAGGGGAAAAATTAATTTTGTTG
66 GTCCAAAAAATTAGAGTCAACATCCTAAAAAAGGAGAAAAATTAATTTTGTTG
*
95313612 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACGTCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
95313677 GTCCAAAAAATTAGAGTCAACATCCTAAAAAAGGAGAAAAATTAATTTTGTTG
66 GTCCAAAAAATTAGAGTCAACATCCTAAAAAAGGAGAAAAATTAATTTTGTTG
*
95313730 TAATTAATACA
1 TAATTAGTACA
95313741 ATAAATAGGC
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 124 1.00
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (118 bp):
TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
GTCCAAAAAATTAGAGTCAACATCCTAAAAAAGGAGAAAAATTAATTTTGTTG
Found at i:95317017 original size:3 final size:3
Alignment explanation
Indices: 95317011--95317060 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
95317001 AAATATGTTG
* * *
95317011 AAT AAT AAT AAT AAT AAT ACT TAT AAT ATTT AAT AAT AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
95317056 AAT AA
1 AAT AA
95317061 AAACATGTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:95318225 original size:9 final size:11
Alignment explanation
Indices: 95318199--95318228 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
95318189 TTTAAGTAAG
95318199 TATTTTTAAAA
1 TATTTTTAAAA
95318210 TATTTTTAAAA
1 TATTTTTAAAA
95318221 T-TTTTTAA
1 TATTTTTAA
95318229 TAGGTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:95319345 original size:33 final size:33
Alignment explanation
Indices: 95319303--95319381 Score: 140
Period size: 33 Copynumber: 2.4 Consensus size: 33
95319293 AGAAAAGTAT
*
95319303 GTACCAATTTGGAAAAAAAAAGGTATAATTTTG
1 GTACCAATTTGGAAAAAAAAAGGTATAATTTAG
*
95319336 GTACTAATTTGGAAAAAAAAAGGTATAATTTAG
1 GTACCAATTTGGAAAAAAAAAGGTATAATTTAG
95319369 GTACCAATTTGGA
1 GTACCAATTTGGA
95319382 CTAATGGAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.30
Consensus pattern (33 bp):
GTACCAATTTGGAAAAAAAAAGGTATAATTTAG
Found at i:95321662 original size:47 final size:43
Alignment explanation
Indices: 95321577--95321667 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 43
95321567 GATCAACTAT
95321577 AAAAAATTATTTATGAATTACTATAAATATAAAATATTTTTTC
1 AAAAAATTATTTATGAATTACTATAAATATAAAATATTTTTTC
*
95321620 AAAAAATTAATATTATGAATTATTATTTTAAAT-TAAAATATTTTTTC
1 AAAAAATT-AT-TTATGAATTACTA---TAAATATAAAATATTTTTTC
95321667 A
1 A
95321668 GTACCCGTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
43 8 0.19
44 2 0.05
45 12 0.29
47 15 0.36
48 5 0.12
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
AAAAAATTATTTATGAATTACTATAAATATAAAATATTTTTTC
Found at i:95333420 original size:18 final size:18
Alignment explanation
Indices: 95333399--95333433 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
95333389 ATTTTTGTAA
* *
95333399 TATATTTTATTTAATTTT
1 TATATATTATATAATTTT
95333417 TATATATTATATAATTT
1 TATATATTATATAATTT
95333434 ACTTTACTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATATTATATAATTTT
Found at i:95356329 original size:20 final size:20
Alignment explanation
Indices: 95356304--95356343 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
95356294 TTCTGTATAT
95356304 GCATGCCATAACACATTGCA
1 GCATGCCATAACACATTGCA
95356324 GCATGCCATAACACATTGCA
1 GCATGCCATAACACATTGCA
95356344 TCAGACTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (20 bp):
GCATGCCATAACACATTGCA
Found at i:95356708 original size:15 final size:15
Alignment explanation
Indices: 95356661--95356711 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
95356651 CCTCTGTGTA
* * *
95356661 GTTCTGTTCGATTCA
1 GTTCTGCTCTATTCT
*
95356676 GTTCTACTCTATTCT
1 GTTCTGCTCTATTCT
95356691 GTTCTGCTCTACTT-T
1 GTTCTGCTCTA-TTCT
95356706 GTTCTG
1 GTTCTG
95356712 TTATGTTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 28 0.93
16 2 0.07
ACGTcount: A:0.10, C:0.24, G:0.16, T:0.51
Consensus pattern (15 bp):
GTTCTGCTCTATTCT
Found at i:95357450 original size:3 final size:3
Alignment explanation
Indices: 95357444--95357476 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
95357434 ATCATCATCA
*
95357444 TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
95357477 GTTGCTGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TCT
Found at i:95363809 original size:21 final size:20
Alignment explanation
Indices: 95363781--95363819 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
95363771 TATATATACC
*
95363781 TTTTAATTTTTACAATTATT
1 TTTTAATTTTTAAAATTATT
95363801 TTTTGAATTTTTAAAATTA
1 TTTT-AATTTTTAAAATTA
95363820 ATTAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTAATTTTTAAAATTATT
Found at i:95369522 original size:5 final size:5
Alignment explanation
Indices: 95369512--95369565 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
95369502 TAACATATAT
95369512 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
95369562 TATC
1 TATC
95369566 CCCATCCACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (5 bp):
TATCA
Found at i:95372831 original size:13 final size:13
Alignment explanation
Indices: 95372813--95372844 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
95372803 ATTATAATAG
95372813 TAATATAATATAA
1 TAATATAATATAA
95372826 TAATATAATATAA
1 TAATATAATATAA
95372839 TAATAT
1 TAATAT
95372845 TTTCTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:95375071 original size:4 final size:4
Alignment explanation
Indices: 95375062--95375095 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
95375052 TCAACAACAT
95375062 ACCA ACCA ACCA ACCA ACCA ACCA ACCA ACCA AC
1 ACCA ACCA ACCA ACCA ACCA ACCA ACCA ACCA AC
95375096 GCATACTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (4 bp):
ACCA
Found at i:95379535 original size:42 final size:43
Alignment explanation
Indices: 95379489--95379569 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 43
95379479 TCATATGGCT
* *
95379489 CACACGACCTGGACAAACGCCTATTTCCT-TGCCCGTGTGAAC
1 CACACGACCTGGACAAACACCTATGTCCTCTGCCCGTGTGAAC
* * * *
95379531 CACACGGCTTGGACACATACCTATGTCCTCTGCCCGTGT
1 CACACGACCTGGACAAACACCTATGTCCTCTGCCCGTGT
95379570 AGTTCTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 23 0.72
43 9 0.28
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (43 bp):
CACACGACCTGGACAAACACCTATGTCCTCTGCCCGTGTGAAC
Found at i:95381158 original size:5 final size:6
Alignment explanation
Indices: 95381139--95381169 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
95381129 GAAGAAATAT
95381139 AAAGAA AAAGAA AAAGAA AAAGAA AAGAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA-AGAA
95381170 TAAAATGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:95381911 original size:11 final size:11
Alignment explanation
Indices: 95381897--95382002 Score: 113
Period size: 11 Copynumber: 9.1 Consensus size: 11
95381887 ATATTAACTT
*
95381897 AATATGAATAA
1 AATATTAATAA
95381908 AATATTAATAA
1 AATATTAATAA
95381919 AATATCTTAATAA
1 AATA--TTAATAA
*
95381932 AATATTATTAA
1 AATATTAATAA
95381943 AATATCTTAATAA
1 AATA--TTAATAA
*
95381956 AATATTATTAA
1 AATATTAATAA
95381967 AATATCTTAATAA
1 AATA--TTAATAA
*
95381980 AATATTATTAA
1 AATATTAATAA
*
95381991 AATAGTAATAA
1 AATATTAATAA
95382002 A
1 A
95382003 TAATTTCACC
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
11 50 0.62
13 31 0.38
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (11 bp):
AATATTAATAA
Found at i:95381935 original size:24 final size:24
Alignment explanation
Indices: 95381903--95381994 Score: 175
Period size: 24 Copynumber: 3.8 Consensus size: 24
95381893 ACTTAATATG
*
95381903 AATAAAATATTAATAAAATATCTT
1 AATAAAATATTATTAAAATATCTT
95381927 AATAAAATATTATTAAAATATCTT
1 AATAAAATATTATTAAAATATCTT
95381951 AATAAAATATTATTAAAATATCTT
1 AATAAAATATTATTAAAATATCTT
95381975 AATAAAATATTATTAAAATA
1 AATAAAATATTATTAAAATA
95381995 GTAATAAATA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (24 bp):
AATAAAATATTATTAAAATATCTT
Found at i:95389742 original size:15 final size:17
Alignment explanation
Indices: 95389724--95389756 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
95389714 AATATTTAGG
95389724 AATT-AAAATT-TTAAT
1 AATTAAAAATTATTAAT
95389739 AATTAAAAATTATTAAT
1 AATTAAAAATTATTAAT
95389756 A
1 A
95389757 GTATGGGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTAAAAATTATTAAT
Found at i:95390445 original size:25 final size:25
Alignment explanation
Indices: 95390416--95390466 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
95390406 TCAATTATTG
95390416 TCATTGTTTCTTTGTTACGGTCCTC
1 TCATTGTTTCTTTGTTACGGTCCTC
*
95390441 TCATTGTTTCTTTGTTTCGGTCCTC
1 TCATTGTTTCTTTGTTACGGTCCTC
95390466 T
1 T
95390467 AAAATGAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.06, C:0.24, G:0.16, T:0.55
Consensus pattern (25 bp):
TCATTGTTTCTTTGTTACGGTCCTC
Found at i:95393223 original size:41 final size:41
Alignment explanation
Indices: 95393166--95393249 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
95393156 TTAAACTTTC
95393166 ATCATCTCATTTAAGTTGTTTATTTCAAAGATTTCAAAAAT
1 ATCATCTCATTTAAGTTGTTTATTTCAAAGATTTCAAAAAT
95393207 ATCATCTCATTTAAGTTGTTTATTTCAAAGATTTCAAAAAT
1 ATCATCTCATTTAAGTTGTTTATTTCAAAGATTTCAAAAAT
95393248 AT
1 AT
95393250 GTCTCTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (41 bp):
ATCATCTCATTTAAGTTGTTTATTTCAAAGATTTCAAAAAT
Found at i:95394125 original size:26 final size:27
Alignment explanation
Indices: 95394070--95394125 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
95394060 GGCCCAAGGG
**
95394070 TTTTTTTTTTTAAATTGAAAAATTATA
1 TTTTTTTTTCAAAATTGAAAAATTATA
95394097 TTTTTTTTTCAAAATT-AATAAATTA-A
1 TTTTTTTTTCAAAATTGAA-AAATTATA
95394123 TTT
1 TTT
95394126 AGGCAATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTTTTTTCAAAATTGAAAAATTATA
Found at i:95394538 original size:30 final size:30
Alignment explanation
Indices: 95394460--95394541 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 30
95394450 AAATGTGTAC
* * *
95394460 AATTAAATCAAAATTAAAGTTTCATTTATAT
1 AATTAAA-CCAAATCAAAGTTTCATATATAT
* * *
95394491 ATTTAAACTACAATCAAAGTTTCATATGTAT
1 AATTAAACCA-AATCAAAGTTTCATATATAT
*
95394522 AATTATACCAAATCAAAGTT
1 AATTAAACCAAATCAAAGTT
95394542 GATATGTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 12 0.29
31 30 0.71
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (30 bp):
AATTAAACCAAATCAAAGTTTCATATATAT
Found at i:95403315 original size:18 final size:18
Alignment explanation
Indices: 95403292--95403355 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
95403282 GAACAATTAT
*
95403292 TTATTCAGTACTAGTCAG
1 TTATTCAGTACTAATCAG
* *
95403310 TTATTCGGTAAC-AATCAA
1 TTATTCAGT-ACTAATCAG
* *
95403328 TTATTCAATAATAATCAG
1 TTATTCAGTACTAATCAG
95403346 TTATTCAGTA
1 TTATTCAGTA
95403356 TCAATCAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
17 1 0.03
18 33 0.92
19 2 0.06
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TTATTCAGTACTAATCAG
Found at i:95403324 original size:36 final size:36
Alignment explanation
Indices: 95403279--95403365 Score: 104
Period size: 36 Copynumber: 2.4 Consensus size: 36
95403269 AATCAATCAA
* * * * *
95403279 TCAG-AACAATTATTTATTCAGTACTAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAATAATAATCAGTTAT
*
95403314 TCGGTAACAATCAATTATTCAATAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAATAATAATCAGTTAT
*
95403350 TCAGTATCAATCAATT
1 TCAGTAACAATCAATT
95403366 GATCGGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 3 0.07
36 40 0.93
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAATAATAATCAGTTAT
Found at i:95403685 original size:45 final size:45
Alignment explanation
Indices: 95403618--95403762 Score: 175
Period size: 45 Copynumber: 3.2 Consensus size: 45
95403608 AATCCGGAAC
* * *
95403618 AGTAACAGTATTCAACAAACAAAGTGCTGAATTGGTAACGGTAAA
1 AGTAACAGTATTCGACACACAAAGTGCTGAATCGGTAACGGTAAA
* * * *
95403663 AGTAACGGTATTCGACACACAAAGTG-TCGAATCGGTAATGATAAC
1 AGTAACAGTATTCGACACACAAAGTGCT-GAATCGGTAACGGTAAA
* * *
95403708 AGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACAGTAAC
1 AGTAACAGTATTCGACACACAAAGTGCTGAATCGGTAACGGTAAA
*
95403753 GGTAACAGTA
1 AGTAACAGTA
95403763 ACAGCAGTCG
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.01
45 84 0.99
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTAACAGTATTCGACACACAAAGTGCTGAATCGGTAACGGTAAA
Found at i:95403757 original size:12 final size:12
Alignment explanation
Indices: 95403740--95403764 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95403730 AGTGCCGAAT
95403740 CGGTAACAGTAA
1 CGGTAACAGTAA
95403752 CGGTAACAGTAA
1 CGGTAACAGTAA
95403764 C
1 C
95403765 AGCAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:95405738 original size:26 final size:26
Alignment explanation
Indices: 95405702--95405754 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
95405692 CTTAAAATTC
95405702 GGGTCTTTACAAAGTAAATAATCTAA
1 GGGTCTTTACAAAGTAAATAATCTAA
95405728 GGGTCTTTACAAAGTAAATAATCTAA
1 GGGTCTTTACAAAGTAAATAATCTAA
95405754 G
1 G
95405755 TTTGAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (26 bp):
GGGTCTTTACAAAGTAAATAATCTAA
Done.