Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 23 of 203
Found at i:7730357 original size:19 final size:19
Alignment explanation
Indices: 7730335--7730372 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7730325 AATAATTTTT
7730335 AAAAT-TCCAAATATTTATA
1 AAAATATCCAAAT-TTTATA
7730354 AAAATATCCAAATTTTATA
1 AAAATATCCAAATTTTATA
7730373 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATATCCAAATTTTATA
Found at i:7745366 original size:2 final size:2
Alignment explanation
Indices: 7745359--7745395 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7745349 TTTGATTCGT
7745359 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7745396 TTTCTTTCGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7745793 original size:26 final size:26
Alignment explanation
Indices: 7745764--7745813 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
7745754 TCTTCATTGT
7745764 TTTTAAAAAGTGCTGTGAAAAAATAC
1 TTTTAAAAAGTGCTGTGAAAAAATAC
* * * *
7745790 TTTTGAGAAGTGCTTTTAAAAAAT
1 TTTTAAAAAGTGCTGTGAAAAAAT
7745814 TTGAGTGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (26 bp):
TTTTAAAAAGTGCTGTGAAAAAATAC
Found at i:7746064 original size:19 final size:19
Alignment explanation
Indices: 7746040--7746077 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7746030 AATTATTTAT
7746040 TAAATT-TAATTAGAATATA
1 TAAATTATAATTA-AATATA
*
7746059 TAAATTATATTTAAATATA
1 TAAATTATAATTAAATATA
7746078 ATAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TAAATTATAATTAAATATA
Found at i:7747948 original size:72 final size:72
Alignment explanation
Indices: 7747857--7748020 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 72
7747847 AAAATCACAT
*
7747857 ATAAACAACTATTGATAAAACTA-ATTTAGTA-AAAAATAAGTAGAACATAAATTGAATATCTAA
1 ATAAACAACTATTGATAAAACTAGA-TTA-CACAAAAATAAGTAGAACATAAATTGAATATC-AA
*
7747920 A-GACCAAAC
63 ATAACCAAAC
* *
7747929 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTGAATATCAAATA
1 ATAAACAACTATTGATAAAACTAGATTACACAAAAATAAGTAGAACATAAATTGAATATCAAATA
7747994 ACCAAAC
66 ACCAAAC
*
7748001 ATAAATAACTATTGATAAAA
1 ATAAACAACTATTGATAAAA
7748021 ACATAATTCG
Statistics
Matches: 83, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
71 4 0.05
72 78 0.94
73 1 0.01
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.25
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACAAAAATAAGTAGAACATAAATTGAATATCAAATA
ACCAAAC
Found at i:7748489 original size:18 final size:18
Alignment explanation
Indices: 7748468--7748534 Score: 116
Period size: 18 Copynumber: 3.7 Consensus size: 18
7748458 TCCATCAATT
7748468 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
7748486 TGAACATCATTTGAAATA
1 TGAACATCATTTGAAATG
*
7748504 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
7748522 TGAACATCATTTG
1 TGAACATCATTTG
7748535 TAACGACCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.34
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:7750024 original size:39 final size:40
Alignment explanation
Indices: 7749981--7750068 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 40
7749971 CGAATTATGG
* * *
7749981 AATACTGGATATTGTTTTG-ATTACTG-AGTGAATTGTGAA
1 AATACTGAATATTGTTATGTA-TAATGCAGTGAATTGTGAA
*
7750020 AATACTGAATATTGTTATGTATAATGCATTGAATTGTGAA
1 AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
*
7750060 ATTACTGAA
1 AATACTGAA
7750069 GTAAAGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 21 0.50
40 21 0.50
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (40 bp):
AATACTGAATATTGTTATGTATAATGCAGTGAATTGTGAA
Found at i:7750323 original size:39 final size:39
Alignment explanation
Indices: 7750243--7750409 Score: 194
Period size: 39 Copynumber: 4.2 Consensus size: 39
7750233 ATTTGCCGAC
* * *
7750243 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
7750281 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
* *
7750320 TTACTGACTCGGCACTTTGTGTGTCGAATACTGTTACCG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
* *
7750359 TTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTACTG
1 TTACTG----A--TTCGGCACTTTGTGTGTCGAATACTGTTACTG
7750404 TTACTG
1 TTACTG
7750410 TTACTATTAC
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
38 12 0.11
39 65 0.58
43 1 0.01
45 34 0.30
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:7750362 original size:45 final size:44
Alignment explanation
Indices: 7750274--7750414 Score: 184
Period size: 45 Copynumber: 3.3 Consensus size: 44
7750264 GCCGACTACT
7750274 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATAC---T--
1 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTAC
*
7750313 GTTACTGTTACTGACTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTA-C
* * * *
7750358 GTTACTGTTACAGGTTCAGCACTTTGTGTGTTGAATACTGTTAC
1 GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTAC
7750402 TGTTACTGTTACT
1 -GTTACTGTTACT
7750415 ATTACTGATT
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
39 37 0.42
42 1 0.01
44 1 0.01
45 49 0.56
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (44 bp):
GTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTAC
Found at i:7750404 original size:6 final size:6
Alignment explanation
Indices: 7750393--7750426 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
7750383 GTGTGTTGAA
*
7750393 TACTGT TACTGT TACTGT TACTAT TACTGAT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTG-T TAC
7750427 AGTATACTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:7751042 original size:9 final size:9
Alignment explanation
Indices: 7751028--7751056 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
7751018 GAATGTGAAA
7751028 TGAATTGGT
1 TGAATTGGT
7751037 TGAATTGGT
1 TGAATTGGT
7751046 TGAATTGGT
1 TGAATTGGT
7751055 TG
1 TG
7751057 TGATTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (9 bp):
TGAATTGGT
Found at i:7752602 original size:44 final size:44
Alignment explanation
Indices: 7752536--7752622 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
7752526 GATATCGACT
*
7752536 GCTAGAGGTAGAGGAATGTTCAGAGGAGGTTCTATTCCGAGAAA
1 GCTAGAGGTAGAGGAATATTCAGAGGAGGTTCTATTCCGAGAAA
* *
7752580 GCTAGAGGTAGAGGAATATTCAGAGGAGGTTCTGTTTCGAGAA
1 GCTAGAGGTAGAGGAATATTCAGAGGAGGTTCTATTCCGAGAA
7752623 GATGAGCTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.10, G:0.34, T:0.24
Consensus pattern (44 bp):
GCTAGAGGTAGAGGAATATTCAGAGGAGGTTCTATTCCGAGAAA
Found at i:7760760 original size:17 final size:17
Alignment explanation
Indices: 7760734--7760771 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7760724 GTTATATATT
*
7760734 TATTTCAAATTATTTTA
1 TATTTCAAATTATTGTA
*
7760751 TATTTTAAATTATTGTA
1 TATTTCAAATTATTGTA
7760768 TATT
1 TATT
7760772 ATGTATTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTCAAATTATTGTA
Found at i:7762361 original size:24 final size:23
Alignment explanation
Indices: 7762300--7762367 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
7762290 TAAATTAAAA
*
7762300 TATATTA-AAATTATTTTATAAT
1 TATATTATAAATAATTTTATAAT
* *
7762322 T-TCTTATAAATTTAATTTTATGAT
1 TATATTATAAA--TAATTTTATAAT
7762346 TAATATTATAAATAATTTTATA
1 T-ATATTATAAATAATTTTATA
7762368 TTTGTATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
24 20 0.56
26 8 0.22
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (23 bp):
TATATTATAAATAATTTTATAAT
Found at i:7763752 original size:212 final size:212
Alignment explanation
Indices: 7763385--7763808 Score: 848
Period size: 212 Copynumber: 2.0 Consensus size: 212
7763375 CTCAGCTTCA
7763385 GTGGTAGACAAAGCAACTGTAGTTTGCAAAGTGGCTTTCCAACTGATTGCACAACTTTCGATTGT
1 GTGGTAGACAAAGCAACTGTAGTTTGCAAAGTGGCTTTCCAACTGATTGCACAACTTTCGATTGT
7763450 AAAGACATAACCTACGAGAGATCTTCTTTTATCAAGGTCTCTAGCAAAATCAGCATCAACATACC
66 AAAGACATAACCTACGAGAGATCTTCTTTTATCAAGGTCTCTAGCAAAATCAGCATCAACATACC
7763515 CAATGACTCCATCTCTAGTTCTTCCAAATTGTAAGAAAACATCAGTAGTACCTCGTAAGTATCTT
131 CAATGACTCCATCTCTAGTTCTTCCAAATTGTAAGAAAACATCAGTAGTACCTCGTAAGTATCTT
7763580 AAAATCTATTGAACTGT
196 AAAATCTATTGAACTGT
7763597 GTGGTAGACAAAGCAACTGTAGTTTGCAAAGTGGCTTTCCAACTGATTGCACAACTTTCGATTGT
1 GTGGTAGACAAAGCAACTGTAGTTTGCAAAGTGGCTTTCCAACTGATTGCACAACTTTCGATTGT
7763662 AAAGACATAACCTACGAGAGATCTTCTTTTATCAAGGTCTCTAGCAAAATCAGCATCAACATACC
66 AAAGACATAACCTACGAGAGATCTTCTTTTATCAAGGTCTCTAGCAAAATCAGCATCAACATACC
7763727 CAATGACTCCATCTCTAGTTCTTCCAAATTGTAAGAAAACATCAGTAGTACCTCGTAAGTATCTT
131 CAATGACTCCATCTCTAGTTCTTCCAAATTGTAAGAAAACATCAGTAGTACCTCGTAAGTATCTT
7763792 AAAATCTATTGAACTGT
196 AAAATCTATTGAACTGT
7763809 TTTCCAATGT
Statistics
Matches: 212, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 212 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (212 bp):
GTGGTAGACAAAGCAACTGTAGTTTGCAAAGTGGCTTTCCAACTGATTGCACAACTTTCGATTGT
AAAGACATAACCTACGAGAGATCTTCTTTTATCAAGGTCTCTAGCAAAATCAGCATCAACATACC
CAATGACTCCATCTCTAGTTCTTCCAAATTGTAAGAAAACATCAGTAGTACCTCGTAAGTATCTT
AAAATCTATTGAACTGT
Found at i:7771675 original size:232 final size:232
Alignment explanation
Indices: 7771269--7771735 Score: 889
Period size: 232 Copynumber: 2.0 Consensus size: 232
7771259 TATTTCTTCT
7771269 GCAGTCCAATTGTTTAAAACACTCCCAGGTTCAAAGGGATAGATGCCTGATGTACTTCCTTCTTC
1 GCAGTCCAATTGTTTAAAACACTCCCAGGTTCAAAGGGATAGATGCCTGATGTACTTCCTTCTTC
7771334 AGATTCTTCTTCAAATATGGCATTGATGTTCAGGTTTCCTAACATTTCCTCTGTGGTCTTCCTTC
66 AGATTCTTCTTCAAATATGGCATTGATGTTCAGGTTTCCTAACATTTCCTCTGTGGTCTTCCTTC
7771399 TTGGAGTCCTCAGTCCAGAATACATGGTTCCTCCCGATACGAAGGTCCTAGATATGTGGGGGAAA
131 TTGGAGTCCTCAGTCCAGAATACATGGTTCCTCCCGATACGAAGGTCCTAGATATGTGGGGGAAA
7771464 GCCATAGGTTCCCAATCAACTTCTTCTTCTTTCAAAC
196 GCCATAGGTTCCCAATCAACTTCTTCTTCTTTCAAAC
*
7771501 GCAGTCCAATTGTTTAAAACACTCCCAGGTTCAAAGGGATAGATGCCTGATGTACTTCTTTCTTC
1 GCAGTCCAATTGTTTAAAACACTCCCAGGTTCAAAGGGATAGATGCCTGATGTACTTCCTTCTTC
* *
7771566 AGATTCTTCTTCAAATATGGCATTGATGTTCAGGTTTCCTAACATTTCCTTTGTGGTCTTCTTTC
66 AGATTCTTCTTCAAATATGGCATTGATGTTCAGGTTTCCTAACATTTCCTCTGTGGTCTTCCTTC
* *
7771631 TTGGAGTCCTCAGTCTAGAATACATGGTTTCTCCCGATACGAAGGTCCTAGATATGTGGGGGAAA
131 TTGGAGTCCTCAGTCCAGAATACATGGTTCCTCCCGATACGAAGGTCCTAGATATGTGGGGGAAA
7771696 GCCATAGGTTCCCAATCAACTTCTTCTTCTTTCAAAC
196 GCCATAGGTTCCCAATCAACTTCTTCTTCTTTCAAAC
7771733 GCA
1 GCA
7771736 CCTTTCTCCT
Statistics
Matches: 230, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
232 230 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (232 bp):
GCAGTCCAATTGTTTAAAACACTCCCAGGTTCAAAGGGATAGATGCCTGATGTACTTCCTTCTTC
AGATTCTTCTTCAAATATGGCATTGATGTTCAGGTTTCCTAACATTTCCTCTGTGGTCTTCCTTC
TTGGAGTCCTCAGTCCAGAATACATGGTTCCTCCCGATACGAAGGTCCTAGATATGTGGGGGAAA
GCCATAGGTTCCCAATCAACTTCTTCTTCTTTCAAAC
Found at i:7776327 original size:36 final size:35
Alignment explanation
Indices: 7776253--7776327 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 35
7776243 ATGACTAAAC
*
7776253 AATTCAATAATATAAATAATATAAAATGTGAAATTT
1 AATTCAATAATATAAATAATATAAAA-GTGAAAATT
*
7776289 AATTTAATAATATAAATAGTATATATAAA-T-AAAATT
1 AATTCAATAATATAAATA--ATATA-AAAGTGAAAATT
7776325 AAT
1 AAT
7776328 ACTATTTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 5 0.15
39 3 0.09
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (35 bp):
AATTCAATAATATAAATAATATAAAAGTGAAAATT
Found at i:7776899 original size:9 final size:9
Alignment explanation
Indices: 7776882--7776912 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7776872 TCGAGTTGAT
7776882 TCGAATAAC
1 TCGAATAAC
*
7776891 TCGATTAAC
1 TCGAATAAC
7776900 TCGAATAAC
1 TCGAATAAC
7776909 TCGA
1 TCGA
7776913 TTCTTTTACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:7779803 original size:3 final size:3
Alignment explanation
Indices: 7779793--7779822 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
7779783 AATACTAATA
7779793 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7779823 ATAGGATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:7782090 original size:16 final size:17
Alignment explanation
Indices: 7782058--7782093 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
7782048 ATGGGCTTGT
*
7782058 ACAATTGTCATATTTAC
1 ACAATTGTCACATTTAC
7782075 ACAATT-TCACATTTAC
1 ACAATTGTCACATTTAC
7782091 ACA
1 ACA
7782094 TATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (17 bp):
ACAATTGTCACATTTAC
Found at i:7784687 original size:15 final size:16
Alignment explanation
Indices: 7784667--7784696 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7784657 AAAATACTTT
7784667 ATTTAA-AATAAATAC
1 ATTTAATAATAAATAC
7784682 ATTTAATAATAAATA
1 ATTTAATAATAAATA
7784697 AAAAAGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTTAATAATAAATAC
Found at i:7786880 original size:39 final size:40
Alignment explanation
Indices: 7786809--7786897 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
7786799 TAAAAAATAT
* ** *
7786809 TTATATTAAAAACACTACCATAAATATGATAAATATTTTA
1 TTATATTAAAAACACTACAATAAATACAATAAATATTGTA
7786849 TTATATTAAAAA-A-TACAAATAAATACAATAAATATTGTA
1 TTATATTAAAAACACTAC-AATAAATACAATAAATATTGTA
*
7786888 TTGTATTAAA
1 TTATATTAAA
7786898 TATAAATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 3 0.07
39 28 0.65
40 12 0.28
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (40 bp):
TTATATTAAAAACACTACAATAAATACAATAAATATTGTA
Found at i:7792685 original size:19 final size:20
Alignment explanation
Indices: 7792651--7792693 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
7792641 GAAGTACTGT
7792651 TACTTTCCTTTAGGTATCGA
1 TACTTTCCTTTAGGTATCGA
* *
7792671 TACTTT-CTTTTGGTATTGA
1 TACTTTCCTTTAGGTATCGA
7792690 TACT
1 TACT
7792694 ATTTTCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (20 bp):
TACTTTCCTTTAGGTATCGA
Found at i:7795117 original size:19 final size:19
Alignment explanation
Indices: 7795077--7795117 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7795067 AATTAACTTA
*
7795077 TAATTAATCATAATTAGTT
1 TAATTAATCATAATTAGAT
7795096 TAATTAATCAATAATTA-AT
1 TAATTAATC-ATAATTAGAT
7795115 TAA
1 TAA
7795118 CATTAATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATTAATCATAATTAGAT
Found at i:7803503 original size:31 final size:32
Alignment explanation
Indices: 7803460--7803523 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 32
7803450 TTGATACTTG
*
7803460 TATTGTTTATTATCCA-TTTGGCCCTTATATTT
1 TATTGTTTATTAT-CATTTTGGCCCCTATATTT
7803492 TATT-TTTATTATCATTTTGGCCCCTATATTT
1 TATTGTTTATTATCATTTTGGCCCCTATATTT
7803523 T
1 T
7803524 CATTAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 2 0.07
31 24 0.80
32 4 0.13
ACGTcount: A:0.19, C:0.16, G:0.08, T:0.58
Consensus pattern (32 bp):
TATTGTTTATTATCATTTTGGCCCCTATATTT
Found at i:7804103 original size:20 final size:19
Alignment explanation
Indices: 7804075--7804115 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
7804065 ATAAGTATTC
*
7804075 AAAACTTCAAACAAATTTTA
1 AAAAATTCAAA-AAATTTTA
*
7804095 AAAAATTCATAAAATTTTA
1 AAAAATTCAAAAAATTTTA
7804114 AA
1 AA
7804116 TACCTGTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTCAAAAAATTTTA
Found at i:7804154 original size:18 final size:20
Alignment explanation
Indices: 7804131--7804174 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
7804121 GTTTGTTTGG
*
7804131 AATTTTAGGCTTTT-AT-AA
1 AATTTTAGGATTTTCATGAA
7804149 AATTTTAGGATTTTCATGAA
1 AATTTTAGGATTTTCATGAA
7804169 AATTTT
1 AATTTT
7804175 CATGTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.57
19 2 0.09
20 8 0.35
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (20 bp):
AATTTTAGGATTTTCATGAA
Found at i:7804247 original size:20 final size:20
Alignment explanation
Indices: 7804205--7804250 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
7804195 ATGTTTTGCA
* *
7804205 TTTTTATGAATTTTTGACAT
1 TTTTTAAGAAATTTTGACAT
*
7804225 TTTTTAAGAAATTTTGA-GT
1 TTTTTAAGAAATTTTGACAT
7804244 TTTTTAA
1 TTTTTAA
7804251 AGTAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (20 bp):
TTTTTAAGAAATTTTGACAT
Found at i:7812804 original size:18 final size:17
Alignment explanation
Indices: 7812767--7812801 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
7812757 GATTATACGG
7812767 TGAAAAAAGATTAAAAA
1 TGAAAAAAGATTAAAAA
7812784 TGAAATAAATGATTAAAA
1 TGAAA-AAA-GATTAAAA
7812802 TGATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (17 bp):
TGAAAAAAGATTAAAAA
Found at i:7814153 original size:7 final size:7
Alignment explanation
Indices: 7814141--7814172 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
7814131 ACCTCACAAA
7814141 CAATTTG
1 CAATTTG
7814148 CAATTTG
1 CAATTTG
7814155 CAATTTG
1 CAATTTG
7814162 CAATTTG
1 CAATTTG
7814169 CAAT
1 CAAT
7814173 GTATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (7 bp):
CAATTTG
Found at i:7818384 original size:31 final size:31
Alignment explanation
Indices: 7818324--7818390 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
7818314 TGAAAATTTA
* * * *
7818324 AAAAACTTGAAGGGTCTAATTAAATTTTTTT
1 AAAAACTTGAAGGGACTAATGAAACTTTTTC
* *
7818355 AAAAACTTTAAGGGAGTAATGAAACTTTTTC
1 AAAAACTTGAAGGGACTAATGAAACTTTTTC
7818386 AAAAA
1 AAAAA
7818391 TTTTGGGAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.34
Consensus pattern (31 bp):
AAAAACTTGAAGGGACTAATGAAACTTTTTC
Found at i:7818671 original size:9 final size:9
Alignment explanation
Indices: 7818657--7818681 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7818647 ACATAGATGT
7818657 GACTGATTG
1 GACTGATTG
7818666 GACTGATTG
1 GACTGATTG
7818675 GACTGAT
1 GACTGAT
7818682 AATACATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (9 bp):
GACTGATTG
Found at i:7819152 original size:38 final size:38
Alignment explanation
Indices: 7819101--7819176 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
7819091 ATAGAGAGAA
7819101 TGAATATTATCCCAAAGAGATAAATGATATCTTATGAG
1 TGAATATTATCCCAAAGAGATAAATGATATCTTATGAG
7819139 TGAATATTATCCCAAAGAGATAAATGATATCTTATGAG
1 TGAATATTATCCCAAAGAGATAAATGATATCTTATGAG
7819177 GGTAACACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (38 bp):
TGAATATTATCCCAAAGAGATAAATGATATCTTATGAG
Found at i:7819759 original size:25 final size:26
Alignment explanation
Indices: 7819693--7819760 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
7819683 TTTCTTGAAT
* **
7819693 TTTTATC-AGGGTAAAATCGTCAAAA
1 TTTTATCGAAGGTAAAATTATCAAAA
7819718 TTTTATCGAAGGT-AAATTATCAAAA
1 TTTTATCGAAGGTAAAATTATCAAAA
*
7819743 TTTTATTG-AGGTAAAATT
1 TTTTATCGAAGGTAAAATT
7819761 GTGGTGAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 4 0.11
25 29 0.78
26 4 0.11
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (26 bp):
TTTTATCGAAGGTAAAATTATCAAAA
Found at i:7831240 original size:59 final size:59
Alignment explanation
Indices: 7831175--7831291 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
7831165 AAGCATACAG
7831175 TGAGTTGACACAAGAAATGAACAAGCCATGAATCTGAAGGTCAGGCAAAGCTCACTAAA
1 TGAGTTGACACAAGAAATGAACAAGCCATGAATCTGAAGGTCAGGCAAAGCTCACTAAA
* *
7831234 TGAGTTGACACAAGAATTGAACAAGCCATGAATCTGACGGTCAGGCAAAGCTCACTAA
1 TGAGTTGACACAAGAAATGAACAAGCCATGAATCTGAAGGTCAGGCAAAGCTCACTAA
7831292 TGCCGTGTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (59 bp):
TGAGTTGACACAAGAAATGAACAAGCCATGAATCTGAAGGTCAGGCAAAGCTCACTAAA
Found at i:7839246 original size:14 final size:14
Alignment explanation
Indices: 7839192--7839250 Score: 68
Period size: 14 Copynumber: 4.2 Consensus size: 14
7839182 AATATTGAGT
7839192 ATTTAAAATTCG-AA
1 ATTTAAAATT-GAAA
7839206 ATTTAAAATT-AAA
1 ATTTAAAATTGAAA
*
7839219 ATTTGAAGATTGAAA
1 ATTT-AAAATTGAAA
*
7839234 ATATAAAATTGAAA
1 ATTTAAAATTGAAA
7839248 ATT
1 ATT
7839251 GGGGATTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
13 6 0.16
14 26 0.68
15 6 0.16
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.36
Consensus pattern (14 bp):
ATTTAAAATTGAAA
Found at i:7839251 original size:21 final size:20
Alignment explanation
Indices: 7839194--7839251 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
7839184 TATTGAGTAT
*
7839194 TTAAAATTCG-AAATTTAAAA
1 TTAAAATT-GAAAATTGAAAA
*
7839214 TTAAAATTTGAAGATTGAAAA
1 TTAAAA-TTGAAAATTGAAAA
7839235 TATAAAATTGAAAATTG
1 T-TAAAATTGAAAATTG
7839252 GGGATTGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 7 0.22
21 20 0.62
22 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.34
Consensus pattern (20 bp):
TTAAAATTGAAAATTGAAAA
Found at i:7847429 original size:17 final size:18
Alignment explanation
Indices: 7847395--7847431 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
7847385 ATTATAGTTT
7847395 AATTCTTAAAAATGATAA
1 AATTCTTAAAAATGATAA
7847413 AATTC-TAAAATAT-ATAA
1 AATTCTTAAAA-ATGATAA
7847430 AA
1 AA
7847432 ATATACGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (18 bp):
AATTCTTAAAAATGATAA
Found at i:7852839 original size:3 final size:3
Alignment explanation
Indices: 7852831--7852875 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
7852821 CAATAATGTA
7852831 ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7852876 CAATGATGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:7852990 original size:29 final size:30
Alignment explanation
Indices: 7852937--7852995 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
7852927 ATATAATAAA
*
7852937 ATAATTTATGATAATTCATTGTT-AATATT
1 ATAATTTATGATAATTAATTGTTAAATATT
7852966 ATAATTTATGA-AATATAAATT-TTAAATATT
1 ATAATTTATGATAAT-T-AATTGTTAAATATT
7852996 TTTAAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 3 0.12
29 14 0.54
30 9 0.35
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (30 bp):
ATAATTTATGATAATTAATTGTTAAATATT
Found at i:7853882 original size:13 final size:13
Alignment explanation
Indices: 7853866--7853915 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
7853856 TTTAAACCAA
7853866 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
* **
7853879 ACTTCTCAAAAGT
1 ACTTTTCAAAAAC
* *
7853892 ACTTTTCCACAAC
1 ACTTTTCAAAAAC
7853905 ACTTTTCAAAA
1 ACTTTTCAAAA
7853916 GTAATAAAAA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.26, G:0.02, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:7853905 original size:26 final size:26
Alignment explanation
Indices: 7853866--7853918 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
7853856 TTTAAACCAA
7853866 ACTTTTCAAAAACACTTCTCAAAAGT
1 ACTTTTCAAAAACACTTCTCAAAAGT
* * *
7853892 ACTTTTCCACAACACTTTTCAAAAGT
1 ACTTTTCAAAAACACTTCTCAAAAGT
7853918 A
1 A
7853919 ATAAAAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAACACTTCTCAAAAGT
Found at i:7859575 original size:15 final size:15
Alignment explanation
Indices: 7859555--7859587 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
7859545 TAGTGGCCAA
7859555 TAAAGCATGCAAACG
1 TAAAGCATGCAAACG
7859570 TAAAGCATGCAAACG
1 TAAAGCATGCAAACG
7859585 TAA
1 TAA
7859588 GTTACCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.15
Consensus pattern (15 bp):
TAAAGCATGCAAACG
Found at i:7861080 original size:7 final size:7
Alignment explanation
Indices: 7861068--7861098 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
7861058 CTATCTCGGA
7861068 ATAATTT
1 ATAATTT
7861075 ATAATTT
1 ATAATTT
7861082 ATAATTT
1 ATAATTT
7861089 ATAATTT
1 ATAATTT
7861096 ATA
1 ATA
7861099 TAATTTACGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATAATTT
Found at i:7864000 original size:19 final size:19
Alignment explanation
Indices: 7863978--7864018 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
7863968 TGTTACTTAT
7863978 TATTTTTTAATTTAATTAA
1 TATTTTTTAATTTAATTAA
7863997 TATTTTTTAATTTAATTAA
1 TATTTTTTAATTTAATTAA
7864016 TAT
1 TAT
7864019 ACCTCTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATTTTTTAATTTAATTAA
Found at i:7866986 original size:78 final size:79
Alignment explanation
Indices: 7866877--7867042 Score: 194
Period size: 78 Copynumber: 2.1 Consensus size: 79
7866867 TATGCATATA
* * ** *
7866877 TATATATATATATATAGAAATCATACTTTTAATTCCATTAAAAAACTTATACATGTATATACT-T
1 TATATATATAAATATAGAAATCATACCTTTAATTAAATTAAAAAACTTATACATATATATA-TAT
*
7866941 AT-ATATTCGAACCT
65 ATAATATTCAAACCT
* * * *
7866955 TATATATATAAATATA-ACATCCATACCTTTAATTAAATTCAAGATCTTATACATATATATATAT
1 TATATATATAAATATAGAAAT-CATACCTTTAATTAAATTAAAAAACTTATACATATATATATAT
7867019 ATACATATTCAAACCT
65 ATA-ATATTCAAACCT
7867035 TATATATA
1 TATATATA
7867043 CATAACATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
77 4 0.05
78 51 0.69
80 19 0.26
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (79 bp):
TATATATATAAATATAGAAATCATACCTTTAATTAAATTAAAAAACTTATACATATATATATATA
TAATATTCAAACCT
Found at i:7867141 original size:77 final size:76
Alignment explanation
Indices: 7866922--7867150 Score: 227
Period size: 77 Copynumber: 3.0 Consensus size: 76
7866912 CATTAAAAAA
* * * *
7866922 CTTATACATGTATATACTTATATATTCGAACCTT-ATATATATAAATATAACATCCATACCTTTA
1 CTTATACATATATATA--TACATATTCGAA-CTTCATTTATATATATATAACATCCATACCTTTA
*
7866986 ATTAAATTCAAGAT
63 ACTAAATTCAAGAT
* * * *
7867000 CTTATACATATATATATATATACATATTCAAAC--C--TTATATATACATAACATTCTTACCTTT
1 CTTATAC----ATATATATATACATATTCGAACTTCATTTATATATATATAACATCCATACC-TT
7867061 TAACTAAATTCAAGAT
61 TAACTAAATTCAAGAT
*
7867077 CTTATACATATATATATACATATTCGAACTTCATTTATGCATATATATAACATCCATA-CATTAA
1 CTTATACATATATATATACATATTCGAACTTCATTTAT--ATATATATAACATCCATACCTTTAA
*
7867141 CTAATTTCAA
64 CTAAATTCAA
7867151 TTTATATACT
Statistics
Matches: 124, Mismatches: 15, Indels: 25
0.76 0.09 0.15
Matches are distributed among these distances:
73 21 0.17
75 1 0.01
76 19 0.15
77 41 0.33
78 8 0.06
79 16 0.13
80 10 0.08
82 8 0.06
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.40
Consensus pattern (76 bp):
CTTATACATATATATATACATATTCGAACTTCATTTATATATATATAACATCCATACCTTTAACT
AAATTCAAGAT
Found at i:7882122 original size:26 final size:26
Alignment explanation
Indices: 7882091--7882143 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
7882081 ATAAAAGGTA
7882091 AAAGGAAAGAAAATGGACAAGCTACC
1 AAAGGAAAGAAAATGGACAAGCTACC
7882117 AAAGGAAAGAAAATGGACAAGCTACC
1 AAAGGAAAGAAAATGGACAAGCTACC
7882143 A
1 A
7882144 TCACTTCTAT
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:0.55, C:0.15, G:0.23, T:0.08
Consensus pattern (26 bp):
AAAGGAAAGAAAATGGACAAGCTACC
Found at i:7887374 original size:20 final size:20
Alignment explanation
Indices: 7887351--7887419 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 20
7887341 AAGCTTGCAT
*
7887351 TTTTTTTTAA-TTTTTAATA
1 TTTTTTATAACTTTTTAATA
7887370 TTTTTTATAACTTTTTAATAA
1 TTTTTTATAACTTTTTAAT-A
* * *
7887391 TTTATTATAAAATTTTAAATAA
1 TTTTTTAT-AACTTTTTAAT-A
7887413 TTTTTTA
1 TTTTTTA
7887420 GAGATTTGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.21
20 8 0.19
21 8 0.19
22 17 0.40
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTATAACTTTTTAATA
Found at i:7887384 original size:11 final size:10
Alignment explanation
Indices: 7887351--7887419 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
7887341 AAGCTTGCAT
*
7887351 TTTTTTTTAA
1 TTTTTTATAA
*
7887361 TTTTTAAT-A
1 TTTTTTATAA
7887370 TTTTTTATAA
1 TTTTTTATAA
*
7887380 CTTTTTAATAA
1 -TTTTTTATAA
*
7887391 TTTATTATAAAA
1 TTT-TT-TATAA
**
7887403 TTTTAAATAA
1 TTTTTTATAA
7887413 TTTTTTA
1 TTTTTTA
7887420 GAGATTTGTT
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
9 8 0.18
10 18 0.41
11 12 0.27
12 6 0.14
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:7887385 original size:21 final size:21
Alignment explanation
Indices: 7887349--7887419 Score: 81
Period size: 20 Copynumber: 3.4 Consensus size: 21
7887339 CGAAGCTTGC
* *
7887349 ATTTTTTTTTAATTTTTAAT-
1 ATTTTTTATAAATTTTTAATA
*
7887369 ATTTTTTATAACTTTTTAATA
1 ATTTTTTATAAATTTTTAATA
* *
7887390 ATTTATTATAAAATTTTAAATA
1 ATTTTTTAT-AAATTTTTAATA
7887412 ATTTTTTA
1 ATTTTTTA
7887420 GAGATTTGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.40
21 8 0.19
22 17 0.40
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTTTTATAAATTTTTAATA
Found at i:7887411 original size:22 final size:21
Alignment explanation
Indices: 7887359--7887415 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
7887349 ATTTTTTTTT
*
7887359 AATTTTTAAT-ATTTTTTATA
1 AATTTTTAATAATTTATTATA
*
7887379 ACTTTTTAATAATTTATTATAA
1 AATTTTTAATAATTTATTAT-A
*
7887401 AATTTTAAATAATTT
1 AATTTTTAATAATTT
7887416 TTTAGAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.29
21 8 0.26
22 14 0.45
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
AATTTTTAATAATTTATTATA
Found at i:7894795 original size:19 final size:18
Alignment explanation
Indices: 7894771--7894813 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
7894761 TTTCATGTAA
* *
7894771 AATTTTGGGATGACTCTTG
1 AATTTTAGGATGACAC-TG
*
7894790 AATTTTAGGATTACACTG
1 AATTTTAGGATGACACTG
7894808 AATTTT
1 AATTTT
7894814 CATTTTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (18 bp):
AATTTTAGGATGACACTG
Found at i:7895895 original size:17 final size:17
Alignment explanation
Indices: 7895873--7895906 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7895863 ACAATTAAGA
*
7895873 TAATATTTTTACATTAT
1 TAATATTATTACATTAT
*
7895890 TAATATTATTATATTAT
1 TAATATTATTACATTAT
7895907 ATTTTGGTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATATTATTACATTAT
Found at i:7906409 original size:18 final size:17
Alignment explanation
Indices: 7906381--7906415 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7906371 ATTATTAAGA
*
7906381 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7906398 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7906416 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7906553 original size:18 final size:17
Alignment explanation
Indices: 7906525--7906559 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7906515 ATTATTAAGA
*
7906525 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7906542 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7906560 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7906672 original size:144 final size:140
Alignment explanation
Indices: 7906376--7906649 Score: 413
Period size: 144 Copynumber: 1.9 Consensus size: 140
7906366 TATTAATTAT
*
7906376 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATG
1 TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATG
** *
7906441 ATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAAAATAATTTACCAAAACAAA
66 ATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAAAATAAAATAACAAAAC-AA
7906506 TTTCTGCTAATTA
130 TTTC-GCTAA-TA
7906519 TTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATAT
1 -TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATAT
*
7906584 GATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAACAATAACA
65 GATTAAATTATTTATTATTGAT-AT---TAATCTTATTAAAATTTAAATAA-AATAA-AATAACA
7906649 A
124 A
7906650 TAATCATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
144 84 0.71
145 2 0.02
148 23 0.19
149 5 0.04
150 5 0.04
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (140 bp):
TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTTAAATATG
ATTAAATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAAAATAAAATAACAAAACAAT
TTCGCTAATA
Found at i:7906776 original size:44 final size:45
Alignment explanation
Indices: 7906727--7906821 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
7906717 TTACACCTCT
* *
7906727 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
7906771 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
7906816 ATTACA
1 ATTACA
7906822 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:7906821 original size:16 final size:16
Alignment explanation
Indices: 7906800--7906832 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7906790 TTGATTTGCT
*
7906800 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
7906816 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
7906832 A
1 A
7906833 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:7906842 original size:21 final size:21
Alignment explanation
Indices: 7906813--7906855 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
7906803 ACACCTCTAT
*
7906813 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
7906834 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
7906855 T
1 T
7906856 AGTTTAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:7909913 original size:19 final size:20
Alignment explanation
Indices: 7909874--7909913 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7909864 TCTTTAACAA
* *
7909874 TATATATTTTTATTTTTATT
1 TATATATTTTTATTATGATT
7909894 TATA-ATTTTTATTATGATT
1 TATATATTTTTATTATGATT
7909913 T
1 T
7909914 GAAACTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TATATATTTTTATTATGATT
Found at i:7910495 original size:13 final size:13
Alignment explanation
Indices: 7910477--7910501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7910467 CTTGAGAACT
7910477 CAAACAACAAAAC
1 CAAACAACAAAAC
7910490 CAAACAACAAAA
1 CAAACAACAAAA
7910502 AGTTTCTCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAACAACAAAAC
Found at i:7911460 original size:20 final size:20
Alignment explanation
Indices: 7911432--7911471 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7911422 TTTTAGATTG
7911432 TAAAAAATTATTATAATTTT
1 TAAAAAATTATTATAATTTT
* *
7911452 TAAATAATTTTTATAATTTT
1 TAAAAAATTATTATAATTTT
7911472 ATTCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAAAAATTATTATAATTTT
Found at i:7911972 original size:22 final size:22
Alignment explanation
Indices: 7911944--7911989 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
7911934 ATACATGCCA
7911944 TTGATTTCCAAAATAAAGTTTC
1 TTGATTTCCAAAATAAAGTTTC
7911966 TTGATTTCCAAAATAAAGTTTC
1 TTGATTTCCAAAATAAAGTTTC
7911988 TT
1 TT
7911990 TATATACCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (22 bp):
TTGATTTCCAAAATAAAGTTTC
Found at i:7922977 original size:52 final size:48
Alignment explanation
Indices: 7922915--7923107 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
7922905 GAAATGTGAT
* * *
7922915 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
7922967 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
7923014 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
7923060 ATCCGTATAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
7923108 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.22
47 53 0.43
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:7931874 original size:27 final size:27
Alignment explanation
Indices: 7931844--7931918 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
7931834 ATACAAGAGT
7931844 GTGATGCCTATTTGATAGGCGGCACTA
1 GTGATGCCTATTTGATAGGCGGCACTA
* * *
7931871 GTGA-CCCTTATCTGATAGGCGGCACTG
1 GTGATGCC-TATTTGATAGGCGGCACTA
* *
7931898 GTGGTGCCTATTTAATAGGCG
1 GTGATGCCTATTTGATAGGCG
7931919 ACACAGCTAG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.05
27 35 0.90
28 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (27 bp):
GTGATGCCTATTTGATAGGCGGCACTA
Found at i:7933143 original size:22 final size:24
Alignment explanation
Indices: 7933112--7933184 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 24
7933102 CGGCCCGAAT
7933112 TATATATTAAAAATATATATTTT-
1 TATATATTAAAAATATATATTTTA
*
7933135 TAT-TTTTAATCAAATATATATTTTA
1 TATATATTAA--AAATATATATTTTA
*
7933160 TATATATT--AAATATATATTTAA
1 TATATATTAAAAATATATATTTTA
7933182 TAT
1 TAT
7933185 GGGCCGGGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
22 21 0.49
23 3 0.07
24 13 0.30
25 3 0.07
26 3 0.07
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (24 bp):
TATATATTAAAAATATATATTTTA
Found at i:7933164 original size:11 final size:11
Alignment explanation
Indices: 7933147--7933184 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
7933137 TTTTTAATCA
7933147 AATATATATTT
1 AATATATATTT
* *
7933158 TATATATATTA
1 AATATATATTT
7933169 AATATATATTT
1 AATATATATTT
7933180 AATAT
1 AATAT
7933185 GGGCCGGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATATATATTT
Found at i:7933830 original size:25 final size:24
Alignment explanation
Indices: 7933776--7933833 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
7933766 TTCACTAAGA
*
7933776 TAATGAAATTTATTATATAATATAT
1 TAAT-AAATTTATTACATAATATAT
*
7933801 AAATAAATTTATTTACATAATA-ATT
1 TAATAAATTTA-TTACATAATATA-T
7933826 TAATAAAT
1 TAATAAAT
7933834 ATGTAAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TAATAAATTTATTACATAATATAT
Found at i:7937600 original size:5 final size:5
Alignment explanation
Indices: 7937590--7937618 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7937580 AAGTGAGAAA
7937590 GAAGG GAAGG GAAGG GAAGG GAAGG GAAG
1 GAAGG GAAGG GAAGG GAAGG GAAGG GAAG
7937619 TCGGAACTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (5 bp):
GAAGG
Found at i:7938386 original size:22 final size:24
Alignment explanation
Indices: 7938344--7938387 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
7938334 TTAATATAAA
7938344 TTTAATATGTTATGATAAAACTAT
1 TTTAATATGTTATGATAAAACTAT
*
7938368 TTTAAT-TTTTAT-ATAAAACT
1 TTTAATATGTTATGATAAAACT
7938388 TAAAATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 5 0.26
24 6 0.32
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (24 bp):
TTTAATATGTTATGATAAAACTAT
Found at i:7940833 original size:28 final size:27
Alignment explanation
Indices: 7940801--7940861 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
7940791 TTAAAATTTT
*
7940801 AATTAAGCT-TTAATAAAAAATTGTAATA
1 AATTAAGCTATTAATAAAAAAGT-TAA-A
* *
7940829 AATTAAGTTATTAATCAAAAAGTTAAA
1 AATTAAGCTATTAATAAAAAAGTTAAA
7940856 AATTAA
1 AATTAA
7940862 TTAAGTCCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 7 0.24
28 11 0.38
29 11 0.38
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (27 bp):
AATTAAGCTATTAATAAAAAAGTTAAA
Found at i:7943916 original size:14 final size:15
Alignment explanation
Indices: 7943897--7943928 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
7943887 TTATTAACAC
7943897 TGTTAAATTT-TTTT
1 TGTTAAATTTATTTT
7943911 TGTTAAATTTATTTT
1 TGTTAAATTTATTTT
7943926 TGT
1 TGT
7943929 GACATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (15 bp):
TGTTAAATTTATTTT
Found at i:7949480 original size:5 final size:4
Alignment explanation
Indices: 7949427--7949505 Score: 61
Period size: 4 Copynumber: 18.5 Consensus size: 4
7949417 ATACAAGAAG
* * *
7949427 AATA AAGA AATA AATA AATGC AA-A AATA AATA AATA AATG AATAA AATA
1 AATA AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AAT-A AATA
*
7949476 GAATAA CAATG AATA AATA AACTA AATA AA
1 -AAT-A -AATA AATA AATA AA-TA AATA AA
7949506 CTTGACATTA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
3 2 0.03
4 42 0.70
5 12 0.20
6 4 0.07
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (4 bp):
AATA
Found at i:7962153 original size:21 final size:21
Alignment explanation
Indices: 7962127--7962167 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7962117 AGACGAGCAA
* *
7962127 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
7962148 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
7962168 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:7964106 original size:16 final size:16
Alignment explanation
Indices: 7964073--7964106 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7964063 GGAGATTGTT
* *
7964073 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
7964089 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
7964105 AA
1 AA
7964107 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:7970461 original size:2 final size:2
Alignment explanation
Indices: 7970454--7970482 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7970444 TCTTTGTTTC
7970454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7970483 ATTGATAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7970656 original size:14 final size:14
Alignment explanation
Indices: 7970613--7970648 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
7970603 AATTTAAATT
7970613 TAATTATAAAATATA
1 TAATTA-AAAATATA
*
7970628 CAATTAAAAATATA
1 TAATTAAAAATATA
7970642 TAATTAA
1 TAATTAA
7970649 TATTATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATTAAAAATATA
Found at i:7973419 original size:79 final size:81
Alignment explanation
Indices: 7973283--7973467 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
7973273 TTGAATGATG
*
7973283 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
7973347 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
7973362 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
7973424 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
7973442 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
7973468 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:7973481 original size:40 final size:40
Alignment explanation
Indices: 7973284--7973467 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
7973274 TGAATGATGT
* * * *
7973284 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
7973324 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
7973364 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
7973402 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
7973443 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
7973468 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:7973489 original size:79 final size:79
Alignment explanation
Indices: 7973336--7973500 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
7973326 GGACTAAGAT
* **
7973336 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
7973401 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
7973415 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
7973478 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
7973494 CCGAAGG
1 CCGAAGG
7973501 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:7985301 original size:21 final size:22
Alignment explanation
Indices: 7985268--7985308 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
7985258 ACAAATGAGT
7985268 TTTTATATTTATAATTTATTTA
1 TTTTATATTTATAATTTATTTA
*
7985290 TTTTAT-TTTATATTTTATT
1 TTTTATATTTATAATTTATT
7985309 ATTGTTCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTATATTTATAATTTATTTA
Found at i:7987725 original size:39 final size:40
Alignment explanation
Indices: 7987663--7987751 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 40
7987653 TAAAAAGTAT
* * * * *
7987663 TTATATTAAAAAATATACCATAAATATAATAGATGTTTTA
1 TTATATTAAAAAACACACAATAAATATAATAAATATTTTA
7987703 TTATATTAAAAAACACA-AATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACACAATAAATATAATAAATATTTTA
7987742 TTATATTAAA
1 TTATATTAAA
7987752 TATAATTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 29 0.66
40 15 0.34
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (40 bp):
TTATATTAAAAAACACACAATAAATATAATAAATATTTTA
Found at i:7987886 original size:16 final size:17
Alignment explanation
Indices: 7987854--7987905 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
7987844 GTTAGTAAAT
7987854 TAATATAAGTATAAATATA
1 TAATATAA-TAT-AATATA
7987873 TAAT-TAATATAATAT-
1 TAATATAATATAATATA
**
7987888 TTTTATAATATAATATA
1 TAATATAATATAATATA
7987905 T
1 T
7987906 TCATGTCGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 2 0.07
16 16 0.55
17 4 0.14
18 3 0.10
19 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
TAATATAATATAATATA
Found at i:7989936 original size:26 final size:25
Alignment explanation
Indices: 7989905--7989955 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
7989895 TTCATTTTAT
7989905 ATTTAAAAAATTCAT-TATATTTATAA
1 ATTTAAAAAA--CATATATATTTATAA
7989931 ATTTAAAAAACATATATATTTATAA
1 ATTTAAAAAACATATATATTTATAA
7989956 TATTATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 3 0.12
25 11 0.46
26 10 0.42
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTTAAAAAACATATATATTTATAA
Found at i:7990652 original size:16 final size:16
Alignment explanation
Indices: 7990618--7990652 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7990608 TTTGAAATTT
*
7990618 AAACAAATAATTATCC
1 AAACAAATAATCATCC
*
7990634 AAACAAATAATCATTC
1 AAACAAATAATCATCC
7990650 AAA
1 AAA
7990653 TAAAAAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (16 bp):
AAACAAATAATCATCC
Found at i:7991318 original size:97 final size:97
Alignment explanation
Indices: 7991154--7991450 Score: 503
Period size: 97 Copynumber: 3.1 Consensus size: 97
7991144 ATTACTTTAG
7991154 AAAAAAAAAATCGTCGTCTTTGCAATTTATTTTGAGAAAAGACTCTAAAAATGGCCATTTTATCT
1 AAAAAAAAAATCGTCGTCTTTGCAATTTATTTTGAGAAAAGACTCTAAAAATGGCCATTTTATCT
7991219 ATATCTCCACGGTCATTTGTTTACTTTGTGGA
66 ATATCTCCACGGTCATTTGTTTACTTTGTGGA
7991251 AAAAAAAAACATCGTCGTCTTTGCAATTTATTTTGAGAAAAGACT-TAAAAATGGCCATTTTATC
1 AAAAAAAAA-ATCGTCGTCTTTGCAATTTATTTTGAGAAAAGACTCTAAAAATGGCCATTTTATC
7991315 TATATCTCCACGGTCATTTGTTTACTTTGTGG-
65 TATATCTCCACGGTCATTTGTTTACTTTGTGGA
** *
7991347 --GGAAAAAATCGTCTTCTTTGCAATTTATTTTGAGAAAAGACTCTAAAAATGGCCATTTTATCT
1 AAAAAAAAAATCGTCGTCTTTGCAATTTATTTTGAGAAAAGACTCTAAAAATGGCCATTTTATCT
* *
7991410 ATATCTCCACGGTCATTTGCTTACTTTGCGGA
66 ATATCTCCACGGTCATTTGTTTACTTTGTGGA
*
7991442 AAACAAAAA
1 AAAAAAAAA
7991451 CCTTAGTATA
Statistics
Matches: 188, Mismatches: 7, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
93 34 0.18
94 54 0.29
97 65 0.35
98 35 0.19
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (97 bp):
AAAAAAAAAATCGTCGTCTTTGCAATTTATTTTGAGAAAAGACTCTAAAAATGGCCATTTTATCT
ATATCTCCACGGTCATTTGTTTACTTTGTGGA
Found at i:7996014 original size:22 final size:22
Alignment explanation
Indices: 7995976--7996028 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
7995966 TCTGAAAAAT
* **
7995976 AAAAAAATACATAAATATTTTC
1 AAAAAAATAAATAAATAGATTC
7995998 AAAAAAATATAAT-AATAGATTC
1 AAAAAAATA-AATAAATAGATTC
*
7996020 TAAAAAATA
1 AAAAAAATA
7996029 CATGAAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAAAAATAAATAAATAGATTC
Found at i:7996105 original size:59 final size:53
Alignment explanation
Indices: 7995963--7996135 Score: 163
Period size: 59 Copynumber: 3.2 Consensus size: 53
7995953 TTTTGATCCT
* *
7995963 AATTCTGAAAAATAA-AAAAATACATAAATATTTTCAAAAAAATATAATAATA
1 AATTCTAAAAAATAATAAAAATAGATAAATATTTTCAAAAAAATATAATAATA
* * * * * *
7996015 GATTCTAAAAAATACATGAAAATGGAAAAATATTGTTGACAAGAAATATTAATATATAA
1 AATTCTAAAAAATA-ATAAAAATAGATAAATATT-TTCA-AAAAAATA-TAATA-AT-A
* * *
7996074 AATTTTAAAAAATATATAAAAATAGATAAATATTTT-TAAAAAGTATAATAATA
1 AATTCTAAAAAATA-ATAAAAATAGATAAATATTTTCAAAAAAATATAATAATA
7996127 AATT-TAAAA
1 AATTCTAAAA
7996136 TTTATATTAA
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
52 17 0.18
53 6 0.06
54 15 0.15
55 8 0.08
56 13 0.13
57 5 0.05
58 4 0.04
59 29 0.30
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (53 bp):
AATTCTAAAAAATAATAAAAATAGATAAATATTTTCAAAAAAATATAATAATA
Found at i:7996126 original size:21 final size:21
Alignment explanation
Indices: 7996102--7996149 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
7996092 AAAATAGATA
7996102 AATATTTTTAAAAAGTATAAT
1 AATATTTTTAAAAAGTATAAT
** ** *
7996123 AATAAATTTAAAATTTATATT
1 AATATTTTTAAAAAGTATAAT
7996144 AATATT
1 AATATT
7996150 AATATTAAAT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
AATATTTTTAAAAAGTATAAT
Found at i:7996461 original size:15 final size:14
Alignment explanation
Indices: 7996432--7996467 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
7996422 AAATTGACCT
7996432 ATATTTTTTTCTAA
1 ATATTTTTTTCTAA
*
7996446 ATATTTATTTTTTAA
1 ATATTT-TTTTCTAA
7996461 ATATTTT
1 ATATTTT
7996468 ATTATGTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATATTTTTTTCTAA
Found at i:7997537 original size:6 final size:6
Alignment explanation
Indices: 7997529--7997558 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
7997519 TAGATTCATG
*
7997529 AATATG AATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA
7997559 TAAATTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (6 bp):
AATATA
Found at i:7999481 original size:21 final size:21
Alignment explanation
Indices: 7999455--7999496 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
7999445 AATATATATA
7999455 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
7999476 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
7999497 GATTTTATGA
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:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTGAATTT
Found at i:8000156 original size:41 final size:41
Alignment explanation
Indices: 8000106--8000197 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
8000096 GGCTATGTGC
*
8000106 CTAGTAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
* * * * *
8000147 CTAGCAGGCTTAATGCCGGTGATATATTTCGGACTTTAGGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
*
8000188 CCAGCAGGCT
1 CTAGCAGGCT
8000198 AAGAGCTGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
Found at i:8021834 original size:18 final size:18
Alignment explanation
Indices: 8021731--8021841 Score: 92
Period size: 17 Copynumber: 6.3 Consensus size: 18
8021721 AGAAAAAAAT
8021731 TAAAATATA-AAAAATTA
1 TAAAATATATAAAAATTA
* *
8021748 GAAAA-ATATAAAAATTTT
1 TAAAATATATAAAAA-TTA
8021766 TAAAAT-TAT-AAAATTA
1 TAAAATATATAAAAATTA
*
8021782 TAAAAT-TATAAAATTTTA
1 TAAAATATATAAAA-ATTA
*
8021800 TAAAA-ATCTTAAAAAATTA
1 TAAAATAT-AT-AAAAATTA
*
8021819 TAAAATATATAGAAA-TA
1 TAAAATATATAAAAATTA
8021836 TAAAAT
1 TAAAAT
8021842 TTTATAAAGT
Statistics
Matches: 76, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
16 14 0.18
17 24 0.32
18 22 0.29
19 10 0.13
20 6 0.08
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAATATATAAAAATTA
Found at i:8021846 original size:46 final size:45
Alignment explanation
Indices: 8021754--8021887 Score: 148
Period size: 46 Copynumber: 2.9 Consensus size: 45
8021744 ATTAGAAAAA
**
8021754 TATAAAAAT-TTTTAAAATTATAAAATTATA-AAATTATAAAATTT
1 TATAAAAATCTTAAAAAATTATAAAATTATAGAAA-TATAAAATTT
8021798 TATAAAAATCTTAAAAAATTATAAAATATATAGAAATATAAAATTT
1 TATAAAAATCTTAAAAAATTATAAAAT-TATAGAAATATAAAATTT
* * *
8021844 TAT-AAAGTCGTAAGAAAATTATACAAAATGTAAAGAAATATAAA
1 TATAAAAATCTTAA-AAAATTAT--AAAAT-TATAGAAATATAAA
8021888 TTTCGTAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
44 9 0.12
45 23 0.29
46 25 0.32
47 3 0.04
48 18 0.23
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (45 bp):
TATAAAAATCTTAAAAAATTATAAAATTATAGAAATATAAAATTT
Found at i:8021849 original size:10 final size:8
Alignment explanation
Indices: 8021731--8021842 Score: 82
Period size: 8 Copynumber: 12.9 Consensus size: 8
8021721 AGAAAAAAAT
8021731 TAAAATATA
1 TAAAAT-TA
*
8021740 AAAAATTA
1 TAAAATTA
* *
8021748 GAAAAATA
1 TAAAATTA
*
8021756 TAAAAATTTT
1 T-AAAA-TTA
8021766 TAAAATTA
1 TAAAATTA
8021774 TAAAATTA
1 TAAAATTA
8021782 TAAAATTA
1 TAAAATTA
8021790 TAAAATTTTA
1 TAAAA--TTA
8021800 TAAAAATCTTA
1 T-AAAA--TTA
*
8021811 AAAAATTA
1 TAAAATTA
8021819 TAAAATATA
1 TAAAAT-TA
8021828 TAGAAA-TA
1 TA-AAATTA
8021836 TAAAATT
1 TAAAATT
8021843 TTATAAAGTC
Statistics
Matches: 85, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
7 3 0.04
8 44 0.52
9 17 0.20
10 13 0.15
11 8 0.09
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (8 bp):
TAAAATTA
Found at i:8031861 original size:6 final size:6
Alignment explanation
Indices: 8031852--8031880 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8031842 AAATAAAATT
8031852 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
8031881 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:8032000 original size:9 final size:9
Alignment explanation
Indices: 8031920--8032003 Score: 100
Period size: 9 Copynumber: 9.4 Consensus size: 9
8031910 GTAGTGATTC
8031920 AATTCGGTT
1 AATTCGGTT
8031929 AATTCAGG-T
1 AATTC-GGTT
8031938 AATTCGGTT
1 AATTCGGTT
*
8031947 AATTCGGGT
1 AATTCGGTT
*
8031956 AATCCGG-T
1 AATTCGGTT
*
8031964 AATCCGGTT
1 AATTCGGTT
*
8031973 AATTCGGGT
1 AATTCGGTT
8031982 AATTCGGTT
1 AATTCGGTT
*
8031991 AATTCTGTT
1 AATTCGGTT
8032000 AATT
1 AATT
8032004 TTTAACCAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
8 10 0.15
9 54 0.82
10 2 0.03
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:8037010 original size:8 final size:7
Alignment explanation
Indices: 8036991--8037026 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
8036981 ATAAATATAT
8036991 ATTTTTA
1 ATTTTTA
8036998 ATTTTTA
1 ATTTTTA
8037005 ATTTTTA
1 ATTTTTA
*
8037012 ATTTTTT
1 ATTTTTA
8037019 ATTTTTA
1 ATTTTTA
8037026 A
1 A
8037027 AATACTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
ATTTTTA
Found at i:8037085 original size:26 final size:28
Alignment explanation
Indices: 8037032--8037095 Score: 78
Period size: 26 Copynumber: 2.3 Consensus size: 28
8037022 TTTAAAATAC
* *
8037032 TTTTAAAATAATTTTTTTTATTTTTTTAT
1 TTTTAAAATAA-TTTTTTTATATGTTTAT
8037061 TTTTAAAATAA-TTTTTTA-ATGTTTAT
1 TTTTAAAATAATTTTTTTATATGTTTAT
*
8037087 TTTAAAAAT
1 TTTTAAAAT
8037096 GGGCCGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.44
27 7 0.22
29 11 0.34
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTAAAATAATTTTTTTATATGTTTAT
Found at i:8038249 original size:20 final size:20
Alignment explanation
Indices: 8038224--8038261 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8038214 ACAAAAATTT
8038224 ATATTTTT-TTATTTTTAAAG
1 ATATTTTTATT-TTTTTAAAG
8038244 ATATTTTTATTTTTTTAA
1 ATATTTTTATTTTTTTAA
8038262 TTTATGCTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (20 bp):
ATATTTTTATTTTTTTAAAG
Found at i:8041891 original size:6 final size:6
Alignment explanation
Indices: 8041880--8041905 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8041870 TATTTTATAA
8041880 TTAAAT TTAAAT TTAAAT TTAAAT TT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT
8041906 TTATTATTAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:8050675 original size:6 final size:6
Alignment explanation
Indices: 8050626--8050696 Score: 54
Period size: 6 Copynumber: 11.2 Consensus size: 6
8050616 TTATAGTAAT
* *
8050626 AAAAGA AAAA-A AAAAGA CAAAAGCA AAACGA AACAGAA AGAAAGA AAAAGA
1 AAAAGA AAAAGA AAAAGA -AAAAG-A AAAAGA AAAAG-A A-AAAGA AAAAGA
* *
8050677 AAAATA GAAAGA AAGAAGA A
1 AAAAGA AAAAGA AA-AAGA A
8050697 CCCGCGGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
5 5 0.10
6 24 0.47
7 18 0.35
8 4 0.08
ACGTcount: A:0.76, C:0.06, G:0.17, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:8051123 original size:19 final size:20
Alignment explanation
Indices: 8051099--8051139 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
8051089 GAATTTAGGC
8051099 AAATATTGAATA-AAAATTG
1 AAATATTGAATATAAAATTG
* *
8051118 AAATATTTAATATGAAATTG
1 AAATATTGAATATAAAATTG
8051138 AA
1 AA
8051140 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (20 bp):
AAATATTGAATATAAAATTG
Found at i:8054173 original size:13 final size:13
Alignment explanation
Indices: 8054155--8054194 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
8054145 CCAATTTCCC
8054155 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
8054168 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
* *
8054181 C-ATTCTTTCCTT
1 CTTTTCTTTCTTT
8054193 CT
1 CT
8054195 CTATTTCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.70
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:8054276 original size:13 final size:13
Alignment explanation
Indices: 8054258--8054284 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8054248 TTAATTAAAG
8054258 TAATATAATAATA
1 TAATATAATAATA
8054271 TAATATAATAATA
1 TAATATAATAATA
8054284 T
1 T
8054285 TTTAATCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATAATAATA
Found at i:8056220 original size:24 final size:24
Alignment explanation
Indices: 8056193--8056263 Score: 115
Period size: 24 Copynumber: 2.9 Consensus size: 24
8056183 CAGCTCATAT
8056193 GAGCTTACCGATTTAAGCTCGTGA
1 GAGCTTACCGATTTAAGCTCGTGA
*
8056217 GAGCCTACCGATTTAAGCTCGTGA
1 GAGCTTACCGATTTAAGCTCGTGA
*
8056241 GAGCTTACCGATTCACAGCTCGT
1 GAGCTTACCGATTTA-AGCTCGT
8056264 ATGAGCATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
24 36 0.84
25 7 0.16
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (24 bp):
GAGCTTACCGATTTAAGCTCGTGA
Found at i:8058578 original size:39 final size:37
Alignment explanation
Indices: 8058508--8058585 Score: 88
Period size: 39 Copynumber: 2.1 Consensus size: 37
8058498 CACTCCAGCA
*
8058508 TGACACCCAGTGCCTCATCTGATAGTTCGAAGCAATAGT
1 TGACACCCAGTGCCTCATCTGATAGTCCGAAG-AA-AGT
*
8058547 TGACACCCAGTGTCTCATC-GATAAAG-CCGAAGAAAGT
1 TGACACCCAGTGCCTCATCTGAT--AGTCCGAAGAAAGT
8058584 TG
1 TG
8058586 GTACCTAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 5 0.14
38 5 0.14
39 23 0.66
40 2 0.06
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (37 bp):
TGACACCCAGTGCCTCATCTGATAGTCCGAAGAAAGT
Found at i:8059556 original size:12 final size:12
Alignment explanation
Indices: 8059541--8059571 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8059531 TTCTCTTTTA
8059541 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
8059553 TTTTTCTTTCGC
1 TTTTTCTTTCCC
8059565 TTTTTCT
1 TTTTTCT
8059572 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:8063249 original size:11 final size:11
Alignment explanation
Indices: 8063212--8063267 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
8063202 ATATTCAAAC
*
8063212 AATAATAACAA
1 AATAATAGCAA
**
8063223 AATTGTAGCAA
1 AATAATAGCAA
* *
8063234 TATAATAGCGA
1 AATAATAGCAA
8063245 AATAATAGCAA
1 AATAATAGCAA
*
8063256 AACAATAG-AA
1 AATAATAGCAA
8063266 AA
1 AA
8063268 ACAATGACAA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
10 4 0.11
11 31 0.89
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.20
Consensus pattern (11 bp):
AATAATAGCAA
Found at i:8063268 original size:11 final size:11
Alignment explanation
Indices: 8063248--8063293 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
8063238 ATAGCGAAAT
*
8063248 AATAGCAAAAC
1 AATAGAAAAAC
8063259 AATAGAAAAAC
1 AATAGAAAAAC
8063270 AAT-GACAAAAC
1 AATAGA-AAAAC
8063281 AATA-AAAAA-
1 AATAGAAAAAC
8063290 AATA
1 AATA
8063294 ACAACAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
9 4 0.12
10 6 0.19
11 22 0.69
ACGTcount: A:0.72, C:0.11, G:0.07, T:0.11
Consensus pattern (11 bp):
AATAGAAAAAC
Found at i:8063278 original size:22 final size:20
Alignment explanation
Indices: 8063248--8063297 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
8063238 ATAGCGAAAT
*
8063248 AATAGCAAAACAATAGAAAAA
1 AATAACAAAACAATA-AAAAA
*
8063269 CAATGACAAAACAATAAAAAA
1 -AATAACAAAACAATAAAAAA
8063290 AATAACAA
1 AATAACAA
8063298 CAAATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.28
21 5 0.20
22 13 0.52
ACGTcount: A:0.72, C:0.12, G:0.06, T:0.10
Consensus pattern (20 bp):
AATAACAAAACAATAAAAAA
Found at i:8063934 original size:7 final size:7
Alignment explanation
Indices: 8063922--8063947 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8063912 GGTTGGCATC
8063922 ATTTCCT
1 ATTTCCT
8063929 ATTTCCT
1 ATTTCCT
8063936 ATTTCCT
1 ATTTCCT
8063943 ATTTC
1 ATTTC
8063948 TGATTCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTCCT
Found at i:8064306 original size:22 final size:21
Alignment explanation
Indices: 8064281--8064324 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
8064271 CCCTAAATAT
8064281 TAAATCCTAAATTTTAAAATTC
1 TAAATCCTAAATTTT-AAATTC
*
8064303 TAAATCTTAAATTTTAAATTC
1 TAAATCCTAAATTTTAAATTC
8064324 T
1 T
8064325 TTAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATCCTAAATTTTAAATTC
Found at i:8064315 original size:14 final size:14
Alignment explanation
Indices: 8064273--8064321 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
8064263 AGATTATACC
*
8064273 CTAAATATTAAATC
1 CTAAATATTAAATT
*
8064287 CTAAATTTTAAAATT
1 CTAAATATT-AAATT
*
8064302 CTAAATCTTAAATT
1 CTAAATATTAAATT
*
8064316 TTAAAT
1 CTAAAT
8064322 TCTTTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (14 bp):
CTAAATATTAAATT
Found at i:8064748 original size:10 final size:10
Alignment explanation
Indices: 8064733--8064820 Score: 52
Period size: 10 Copynumber: 8.4 Consensus size: 10
8064723 TTAGCAACTT
8064733 AAAATTATAA
1 AAAATTATAA
*
8064743 AAAATTGTAA
1 AAAATTATAA
***
8064753 AGTTTTATTAA
1 AAAATTA-TAA
*
8064764 AAACATTA-AC
1 AAA-ATTATAA
8064774 AAAATTATAAA
1 AAAATTAT-AA
*
8064785 AAAATTGTTAA
1 AAAATT-ATAA
* *
8064796 AAACTAATAA
1 AAAATTATAA
8064806 AAAATTATATA
1 AAAATTATA-A
8064817 AAAA
1 AAAA
8064821 AGCATTTATA
Statistics
Matches: 56, Mismatches: 16, Indels: 11
0.67 0.19 0.13
Matches are distributed among these distances:
9 4 0.07
10 26 0.46
11 22 0.39
12 4 0.07
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAATTATAA
Found at i:8064797 original size:32 final size:33
Alignment explanation
Indices: 8064760--8064821 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
8064750 TAAAGTTTTA
*
8064760 TTAAAAAC-ATTAACAAAATTATA-AAAAAATTG
1 TTAAAAACTAATAA-AAAATTATATAAAAAATTG
8064792 TTAAAAACTAATAAAAAATTATATAAAAAA
1 TTAAAAACTAATAAAAAATTATATAAAAAA
8064822 GCATTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (33 bp):
TTAAAAACTAATAAAAAATTATATAAAAAATTG
Found at i:8064817 original size:12 final size:12
Alignment explanation
Indices: 8064774--8064821 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
8064764 AAACATTAAC
8064774 AAAATTATA-AA
1 AAAATTATATAA
*
8064785 AAAATTGT-T-A
1 AAAATTATATAA
*
8064795 AAAACTA-ATAA
1 AAAATTATATAA
8064806 AAAATTATATAA
1 AAAATTATATAA
8064818 AAAA
1 AAAA
8064822 GCATTTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
10 7 0.24
11 14 0.48
12 8 0.28
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (12 bp):
AAAATTATATAA
Found at i:8064953 original size:17 final size:16
Alignment explanation
Indices: 8064914--8064954 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
8064904 AATAAATAAT
8064914 TTAATCTAATATTTTTA
1 TTAAT-TAATATTTTTA
8064931 TT--TTAATATTATTTA
1 TTAATTAATATT-TTTA
8064946 TTAATTAAT
1 TTAATTAAT
8064955 TTTGATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
17 7 0.33
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (16 bp):
TTAATTAATATTTTTA
Done.