Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002029.1 Hibiscus syriacus cultivar Beakdansim tig00004141_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 88205
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:9082 original size:15 final size:15
Alignment explanation
Indices: 9064--9098 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
9054 CCCTATGGTG
9064 GTCGATAATGATCAA
1 GTCGATAATGATCAA
9079 GTCGATAATGATCAA
1 GTCGATAATGATCAA
9094 GTCGA
1 GTCGA
9099 GGAACAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (15 bp):
GTCGATAATGATCAA
Found at i:16294 original size:23 final size:23
Alignment explanation
Indices: 16238--16291 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
16228 TAGGAATACT
* *
16238 TATATCGTTATGACATGTTTATC
1 TATATCTTTGTGACATGTTTATC
*
16261 TATGTCTTTGTGACAT-TTTATC
1 TATATCTTTGTGACATGTTTATC
*
16283 TCTATCTTT
1 TATATCTTT
16292 TGTCAGTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.54
Consensus pattern (23 bp):
TATATCTTTGTGACATGTTTATC
Found at i:17784 original size:213 final size:214
Alignment explanation
Indices: 17416--17845 Score: 763
Period size: 213 Copynumber: 2.0 Consensus size: 214
17406 AGAGCCAAAT
* *
17416 TACTGATATACCTATAGAGGTCGAAAAGGTTCCCGTCATGGAAAACATCAAAAATAGCTGCCCCT
1 TACTGATATACCCATAGAAGTCGAAAAGGTTCCCGTCATGGAAAACATCAAAAATAGCTGCCCCT
* *
17481 GCTATCACCACGACATCTTTGGATTCATTGGAGTCTTTTGAGCAAGCATTTCAGTTGGAAGAAAT
66 GCTATCACCACGACATCTTTGGATTCATTGGAGTCGTTTGAGCAAGCATTTCAGTTGGAAGAAAC
*
17546 AGATGAAGAAAGTGGCCTGATGAAGACGGCTGATCAGGACATGTCAATGTTTGGTCATGTGCCTT
131 AGATGAAGAAAGTGGCCTGATGAAGACGGCTGATCAGGACATGTCAATGTTTGATCATGTGCCTT
17611 TGTTGACAAGCCAAGGACA
196 TGTTGACAAGCCAAGGACA
**
17630 TACTGATATACCCATAGAAGTCGAAAAGGTTCCCGTCATGGAAAACAT-TGAAATAGCTGCCCCT
1 TACTGATATACCCATAGAAGTCGAAAAGGTTCCCGTCATGGAAAACATCAAAAATAGCTGCCCCT
*
17694 GCTATCACCACGACATCTTTGGATTCGTTGGAGTCGTTTGAGCAAGCATTTCAGTTGGAAGAAAC
66 GCTATCACCACGACATCTTTGGATTCATTGGAGTCGTTTGAGCAAGCATTTCAGTTGGAAGAAAC
*
17759 AGATGAAGAAAGTGGCCTGATGAAGACGGCTGATCAGGACATGTCGATGTTTGATCATGTGCCTT
131 AGATGAAGAAAGTGGCCTGATGAAGACGGCTGATCAGGACATGTCAATGTTTGATCATGTGCCTT
*
17824 TGTTGGCAAGCCAAGGACA
196 TGTTGACAAGCCAAGGACA
17843 TAC
1 TAC
17846 GGATTGGCGA
Statistics
Matches: 206, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
213 160 0.78
214 46 0.22
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (214 bp):
TACTGATATACCCATAGAAGTCGAAAAGGTTCCCGTCATGGAAAACATCAAAAATAGCTGCCCCT
GCTATCACCACGACATCTTTGGATTCATTGGAGTCGTTTGAGCAAGCATTTCAGTTGGAAGAAAC
AGATGAAGAAAGTGGCCTGATGAAGACGGCTGATCAGGACATGTCAATGTTTGATCATGTGCCTT
TGTTGACAAGCCAAGGACA
Found at i:20924 original size:18 final size:18
Alignment explanation
Indices: 20888--20928 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
20878 AATAATATAA
*
20888 ATATAAACTATACCGTTT
1 ATATAAACTATAACGTTT
20906 ATATAAACTATATAC-TTT
1 ATATAAACTATA-ACGTTT
20924 ATATA
1 ATATA
20929 GTATATGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.41
Consensus pattern (18 bp):
ATATAAACTATAACGTTT
Found at i:21141 original size:19 final size:20
Alignment explanation
Indices: 21128--21170 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
21118 AATTTTTCTA
21128 TTCCCTCTAAATTTCTCAAT
1 TTCCCTCTAAATTTCTCAAT
*
21148 TTTCCTCTAAA-TTCTCAAT
1 TTCCCTCTAAATTTCTCAAT
21167 TTCC
1 TTCC
21171 TATATTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCCCTCTAAATTTCTCAAT
Found at i:21489 original size:20 final size:20
Alignment explanation
Indices: 21464--21660 Score: 89
Period size: 20 Copynumber: 9.8 Consensus size: 20
21454 AAATGACCAA
*
21464 CAAATTCGCAACACGGTTTC
1 CAAATTCGCAACACGATTTC
* * * *
21484 CAAATTTGCAACTCAATTTTTG
1 CAAATTCGCAACACGA--TTTC
21506 C-AA-TCGCAACACGATTTC
1 CAAATTCGCAACACGATTTC
*
21524 CAAATTCGCAACTCGATTTC
1 CAAATTCGCAACACGATTTC
** *
21544 TGAATTCGCAACGCGAATTT-
1 CAAATTCGCAACACG-ATTTC
*** *
21564 CTTTTTCGCAACACAAGTTTC
1 CAAATTCGCAACACGA-TTTC
*** *
21585 CTTTTTCGCAACAAGATTTTC
1 CAAATTCGCAACACGA-TTTC
*
21606 TAAA-TCGCAACACGAATTT-
1 CAAATTCGCAACACG-ATTTC
**** * *
21625 TGTTTTCGCAACTCGATTTT
1 CAAATTCGCAACACGATTTC
21645 CAAATTCGCAACACGA
1 CAAATTCGCAACACGA
21661 ATTTTAATTT
Statistics
Matches: 131, Mismatches: 36, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
18 4 0.03
19 8 0.06
20 90 0.69
21 25 0.19
22 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (20 bp):
CAAATTCGCAACACGATTTC
Found at i:21590 original size:21 final size:20
Alignment explanation
Indices: 21548--21664 Score: 94
Period size: 20 Copynumber: 5.8 Consensus size: 20
21538 GATTTCTGAA
*
21548 TTCGCAACGCGAATTTCTTT
1 TTCGCAACACGAATTTCTTT
21568 TTCGCAACAC-AAGTTTCCTTT
1 TTCGCAACACGAA-TTT-CTTT
* * **
21589 TTCGCAACAAGATTTTCTAA
1 TTCGCAACACGAATTTCTTT
*
21609 ATCGCAACACGAATTT-TGTT
1 TTCGCAACACGAATTTCT-TT
* * ***
21629 TTCGCAACTCGATTTTCAAA
1 TTCGCAACACGAATTTCTTT
21649 TTCGCAACACGAATTT
1 TTCGCAACACGAATTT
21665 TAATTTCGCA
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
19 3 0.04
20 54 0.73
21 16 0.22
22 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (20 bp):
TTCGCAACACGAATTTCTTT
Found at i:21657 original size:40 final size:41
Alignment explanation
Indices: 21468--21675 Score: 153
Period size: 40 Copynumber: 5.2 Consensus size: 41
21458 GACCAACAAA
* * * * *
21468 TTCGCAACACGGTTTCCAAATTTGCAACTC-AATTTTTGCA-
1 TTCGCAACACGATTTTCAAATTCGCAACACGAATTTCTG-AT
* * * *
21508 ATCGCAACACGATTTCCAAATTCGCAACTCG-ATTTCTGAA
1 TTCGCAACACGATTTTCAAATTCGCAACACGAATTTCTGAT
* * *** *
21548 TTCGCAACGCGAATTTCTTTTTCGCAACAC-AAGTTTCCT-TT
1 TTCGCAACACGATTTTCAAATTCGCAACACGAA-TTT-CTGAT
* *
21589 TTCGCAACAAGATTTTCTAAA-TCGCAACACGAATTT-TGTT
1 TTCGCAACACGATTTTC-AAATTCGCAACACGAATTTCTGAT
* *
21629 TTCGCAACTCGATTTTCAAATTCGCAACACGAATTT-TAAT
1 TTCGCAACACGATTTTCAAATTCGCAACACGAATTTCTGAT
21669 TTCGCAA
1 TTCGCAA
21676 TAACTTTTAT
Statistics
Matches: 135, Mismatches: 24, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
39 5 0.04
40 97 0.72
41 29 0.21
42 4 0.03
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (41 bp):
TTCGCAACACGATTTTCAAATTCGCAACACGAATTTCTGAT
Found at i:21672 original size:20 final size:20
Alignment explanation
Indices: 21588--21696 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
21578 AAGTTTCCTT
* *
21588 TTTCGCAACAAGATTTTCTAA
1 TTTCGCAACACGAATTT-TAA
* **
21609 -ATCGCAACACGAATTTTGT
1 TTTCGCAACACGAATTTTAA
*
21628 TTTCGCAACTCG-ATTTTCAA
1 TTTCGCAACACGAATTTT-AA
*
21648 ATTCGCAACACGAATTTTAA
1 TTTCGCAACACGAATTTTAA
* * *
21668 TTTCGCAATA--ACTTTTAT
1 TTTCGCAACACGAATTTTAA
21686 TTTCGCAACAC
1 TTTCGCAACAC
21697 AAATGTTTTG
Statistics
Matches: 68, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
18 15 0.22
19 6 0.09
20 42 0.62
21 5 0.07
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (20 bp):
TTTCGCAACACGAATTTTAA
Found at i:22677 original size:24 final size:24
Alignment explanation
Indices: 22626--22678 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
22616 GTATTCGAAA
* *
22626 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGCCAATACCAGGAC
* *
22650 TTTGATCTTGGCCAATACTAGGAT
1 TTTGATCTTGGCCAATACCAGGAC
22674 TTTGA
1 TTTGA
22679 CGATTTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (24 bp):
TTTGATCTTGGCCAATACCAGGAC
Found at i:24968 original size:18 final size:18
Alignment explanation
Indices: 24945--24980 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
24935 AAGCAAAAGG
24945 AAATCAAAATCGCAATCA
1 AAATCAAAATCGCAATCA
*
24963 AAATCAAAATCTCAATCA
1 AAATCAAAATCGCAATCA
24981 CAACCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCGCAATCA
Found at i:26533 original size:21 final size:21
Alignment explanation
Indices: 26509--26585 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
26499 GTGAATCGGG
26509 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGATGAGAGGGGC
* * *
26530 CTCTTGAACGGTGGGAGGTGC
1 CTCTTGAACGATGAGAGGGGC
* * *
26551 CTCTTAAACAATGAGAGAGGC
1 CTCTTGAACGATGAGAGGGGC
*
26572 CTCTTGAATGATGA
1 CTCTTGAACGATGA
26586 CAGGTGAATC
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:26591 original size:42 final size:42
Alignment explanation
Indices: 26509--26591 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
26499 GTGAATCGGG
* * * * **
26509 CTCTTGAACGATGAGAGGGGCCTCTTGAACGGTGGGAGGTGC
1 CTCTTAAACAATGAGAGAGGCCTCTTGAACGATGACAGGTGC
*
26551 CTCTTAAACAATGAGAGAGGCCTCTTGAATGATGACAGGTG
1 CTCTTAAACAATGAGAGAGGCCTCTTGAACGATGACAGGTG
26592 AATCAGGCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (42 bp):
CTCTTAAACAATGAGAGAGGCCTCTTGAACGATGACAGGTGC
Found at i:26761 original size:4 final size:4
Alignment explanation
Indices: 26729--26778 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
26719 AGGCCACTAA
* * * *
26729 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
26777 AA
1 AA
26779 TGCTGAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:27021 original size:21 final size:21
Alignment explanation
Indices: 26997--27049 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
26987 TGCACCATTG
* *
26997 TCATCACGTAAAGTACTGACT
1 TCATCACGTAAAGCACTGACC
* *
27018 TCATCACGCAAAGCATTGACC
1 TCATCACGTAAAGCACTGACC
27039 TCATCACGTAA
1 TCATCACGTAA
27050 CTCCCCTAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (21 bp):
TCATCACGTAAAGCACTGACC
Found at i:28728 original size:20 final size:21
Alignment explanation
Indices: 28684--28737 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
28674 TCTGAAACTT
28684 AAATTCGCAACGCAAAAATGAA
1 AAATT-GCAACGCAAAAATGAA
28706 AAATTGCAACGCAAAAATG-A
1 AAATTGCAACGCAAAAATGAA
*
28726 AAATCGCAACGC
1 AAATTGCAACGC
28738 GAGTTGCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 12 0.39
21 14 0.45
22 5 0.16
ACGTcount: A:0.52, C:0.20, G:0.15, T:0.13
Consensus pattern (21 bp):
AAATTGCAACGCAAAAATGAA
Found at i:29283 original size:19 final size:20
Alignment explanation
Indices: 29261--29298 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29251 AATATTGTGT
29261 TTCGAATT-CGAAAATAAAA
1 TTCGAATTACGAAAATAAAA
**
29280 TTCGCGTTACGAAAATAAA
1 TTCGAATTACGAAAATAAA
29299 CGCGCTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (20 bp):
TTCGAATTACGAAAATAAAA
Found at i:29381 original size:20 final size:20
Alignment explanation
Indices: 29356--29410 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
29346 TACGAATTAC
29356 AAATTCACGTTGCGATTTAT
1 AAATTCACGTTGCGATTTAT
*
29376 AAATTCAAGTTGCGATTTAT
1 AAATTCACGTTGCGATTTAT
* *
29396 ATATTCGCGTTGCGA
1 AAATTCACGTTGCGA
29411 ATTTGGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
AAATTCACGTTGCGATTTAT
Found at i:29648 original size:19 final size:20
Alignment explanation
Indices: 29626--29678 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
29616 AAATCGCAAC
*
29626 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCAGTTTCGCATT
* *
29645 GCGATTTTCATTTTTGCATT
1 GCGATTTTCAGTTTCGCATT
29665 GCGATTTTCA-TTTC
1 GCGATTTTCAGTTTC
29679 ACGTTGTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.13, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GCGATTTTCAGTTTCGCATT
Found at i:31355 original size:21 final size:21
Alignment explanation
Indices: 31305--31355 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
31295 AGTTTGGGGA
*
31305 TTTACGTGATGAGGTCAGTGC
1 TTTACGTGATGAGGTCAGTAC
* *
31326 TTTGCGTGATGAGGTCGGTAC
1 TTTACGTGATGAGGTCAGTAC
*
31347 TTTATGTGA
1 TTTACGTGA
31356 CGACAATGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.37
Consensus pattern (21 bp):
TTTACGTGATGAGGTCAGTAC
Found at i:31792 original size:21 final size:21
Alignment explanation
Indices: 31766--31879 Score: 144
Period size: 21 Copynumber: 5.4 Consensus size: 21
31756 ACCTTTCATT
31766 GTTCAAGAGGCCCCTCCTATC
1 GTTCAAGAGGCCCCTCCTATC
31787 GTTCAAGAGGCCCCT-CTCATC
1 GTTCAAGAGGCCCCTCCT-ATC
* * *
31808 GTTCAAAAGGCCCCTCCCACC
1 GTTCAAGAGGCCCCTCCTATC
31829 GTTCAAGAGGCCCCT-CTCATC
1 GTTCAAGAGGCCCCTCCT-ATC
*
31850 GTTCAAGAGGCCCCTCCCA-C
1 GTTCAAGAGGCCCCTCCTATC
31870 TGTTCAAGAG
1 -GTTCAAGAG
31880 CCCGATTCAC
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.05
21 75 0.93
22 2 0.02
ACGTcount: A:0.21, C:0.39, G:0.19, T:0.21
Consensus pattern (21 bp):
GTTCAAGAGGCCCCTCCTATC
Found at i:31813 original size:42 final size:41
Alignment explanation
Indices: 31761--31879 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 41
31751 GACTCACCTT
* *
31761 TCATTGTTCAAGAGGCCCCTCCTATCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTCCCA-CGTTCAAGAGGCCCCTC
*
31803 TCATCGTTCAAAAGGCCCCTCCCACCGTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTCCCA-CGTTCAAGAGGCCCCTC
31845 TCATCGTTCAAGAGGCCCCTCCCACTGTTCAAGAG
1 TCATCGTTCAAGAGGCCCCTCCCAC-GTTCAAGAG
31880 CCCGATTCAC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.01
42 70 0.99
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (41 bp):
TCATCGTTCAAGAGGCCCCTCCCACGTTCAAGAGGCCCCTC
Found at i:33378 original size:20 final size:20
Alignment explanation
Indices: 33327--33378 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
33317 TGCAATTTTT
33327 GCGTTGCGAATTTGACTTTC
1 GCGTTGCGAATTTGACTTTC
* **
33347 GCGTAGTAAATTTGACTTTC
1 GCGTTGCGAATTTGACTTTC
33367 GCGTTGCGAATT
1 GCGTTGCGAATT
33379 CAAGGAAAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.38
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTTTC
Found at i:33604 original size:18 final size:18
Alignment explanation
Indices: 33581--33616 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33571 AAGCATGTTG
33581 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
33599 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
33617 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:34585 original size:21 final size:21
Alignment explanation
Indices: 34559--34600 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
34549 CCAGAATGGG
*
34559 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
34580 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
34601 ATATTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:34733 original size:15 final size:15
Alignment explanation
Indices: 34713--34768 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
34703 AACCATGCAA
34713 GGGGAATCTGTACCT
1 GGGGAATCTGTACCT
34728 GGGGAATC-GATACCCCT
1 GGGGAATCTG-TA--CCT
* *
34745 AGGGGAATCTGTTCCC
1 -GGGGAATCTGTACCT
34761 GGGGAATC
1 GGGGAATC
34769 GATACCCCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 18 0.53
16 2 0.06
17 3 0.09
18 9 0.26
19 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.21
Consensus pattern (15 bp):
GGGGAATCTGTACCT
Found at i:34792 original size:35 final size:33
Alignment explanation
Indices: 34712--34795 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
34702 AAACCATGCA
* *
34712 AGGGGAATCTGTACCTGGGGAATCGATACCCCT
1 AGGGGAATCTGTTCCCGGGGAATCGATACCCCT
34745 AGGGGAATCTGTTCCCGGGGAATCGATACCCCCT
1 AGGGGAATCTGTTCCCGGGGAATCGATA-CCCCT
34779 AGGGGGAATCTGTTCCC
1 A-GGGGAATCTGTTCCC
34796 CCTGGGGGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 26 0.55
34 6 0.13
35 15 0.32
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.21
Consensus pattern (33 bp):
AGGGGAATCTGTTCCCGGGGAATCGATACCCCT
Found at i:34819 original size:20 final size:20
Alignment explanation
Indices: 34761--34820 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
34751 ATCTGTTCCC
*
34761 GGGGAATC-GATACCCCCTAG
1 GGGGAATCTG-TACCCCCTGG
*
34781 GGGGAATCTGTTCCCCCTGG
1 GGGGAATCTGTACCCCCTGG
34801 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
34821 ACAATCTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (20 bp):
GGGGAATCTGTACCCCCTGG
Found at i:37016 original size:24 final size:24
Alignment explanation
Indices: 36989--37054 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
36979 CAAAATCTGA
36989 GTATTGACCAAGATCAAAGTCCGG
1 GTATTGACCAAGATCAAAGTCCGG
*
37013 GTATTGACCAAGATTAAAGTCCGG
1 GTATTGACCAAGATCAAAGTCCGG
37037 GTATTGACCAAGATCAAA
1 GTATTGACCAAGATCAAA
37055 TTTTGAATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTCCGG
Found at i:38027 original size:20 final size:19
Alignment explanation
Indices: 37984--38069 Score: 68
Period size: 20 Copynumber: 4.4 Consensus size: 19
37974 AAAACATTTG
*
37984 TGTTGCGAAAATAAAAGC-
1 TGTTGCGAAAATAAAATCA
*
38002 TGTTGCGAAATTAAAATTCA
1 TGTTGCGAAAATAAAA-TCA
**
38022 TGTTGCGAATTTGAAAATCGA
1 TGTTGCGAAAAT-AAAATC-A
* *
38043 -GTTGCGAAAAGAAAATTCG
1 TGTTGCGAAAATAAAA-TCA
38062 TGTTGCGA
1 TGTTGCGA
38070 TTTAGAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
18 15 0.27
19 5 0.09
20 30 0.55
21 5 0.09
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.29
Consensus pattern (19 bp):
TGTTGCGAAAATAAAATCA
Found at i:38051 original size:40 final size:40
Alignment explanation
Indices: 38003--38080 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
37993 AATAAAAGCT
**
38003 GTTGCGAAATTAAAATTCATGTTGCGAATTT-GAAAATCGA
1 GTTGCGAAAAGAAAATTCATGTTGCG-ATTTAGAAAATCGA
*
38043 GTTGCGAAAAGAAAATTCGTGTTGCGATTTAGAAAATC
1 GTTGCGAAAAGAAAATTCATGTTGCGATTTAGAAAATC
38081 TTGTTACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.31
Consensus pattern (40 bp):
GTTGCGAAAAGAAAATTCATGTTGCGATTTAGAAAATCGA
Found at i:38078 original size:21 final size:21
Alignment explanation
Indices: 38014--38079 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
38004 TTGCGAAATT
*
38014 AAAATTCATGTTGCGAATTT-G
1 AAAATTCGTGTTGCG-ATTTAG
* **
38035 AAAA-TCGAGTTGCGA-AAAG
1 AAAATTCGTGTTGCGATTTAG
38054 AAAATTCGTGTTGCGATTTAG
1 AAAATTCGTGTTGCGATTTAG
38075 AAAAT
1 AAAAT
38080 CTTGTTACGA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 6 0.17
20 18 0.51
21 11 0.31
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (21 bp):
AAAATTCGTGTTGCGATTTAG
Found at i:38091 original size:40 final size:40
Alignment explanation
Indices: 38014--38109 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
38004 TTGCGAAATT
* *
38014 AAAATTCATGTTGCGAATTTGAAAATCGAGTTGCGAAAA-G
1 AAAATTCGTGTTGCG-ATTTGAAAATCGAGTTACGAAAAGG
**
38054 AAAATTCGTGTTGCGATTTAGAAAATCTTGTTACGAAAAGG
1 AAAATTCGTGTTGCGATTT-GAAAATCGAGTTACGAAAAGG
*
38095 AAACTT-GTGTTGCGA
1 AAAATTCGTGTTGCGA
38110 AAAAGAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.08
40 39 0.80
41 6 0.12
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.30
Consensus pattern (40 bp):
AAAATTCGTGTTGCGATTTGAAAATCGAGTTACGAAAAGG
Found at i:38126 original size:20 final size:20
Alignment explanation
Indices: 38023--38210 Score: 64
Period size: 20 Copynumber: 9.3 Consensus size: 20
38013 TAAAATTCAT
** * *
38023 GTTGCGAATTTGAAAATCGA
1 GTTGCGAATAAGAAATTCGC
*
38043 GTTGCGAA-AAGAAAATTCGT
1 GTTGCGAATAAG-AAATTCGC
* * * **
38063 GTTGCGATTTAGAAAATCTT
1 GTTGCGAATAAGAAATTCGC
* *
38083 GTTACGAA-AAGGAAACTT-GT
1 GTTGCGAATAA-GAAA-TTCGC
*
38103 GTTGCGAAAAAGAAATTCGC
1 GTTGCGAATAAGAAATTCGC
* * *
38123 GTTGTGAATTCAGAAA-TCGA
1 GTTGCGAA-TAAGAAATTCGC
* ** *
38143 GTTGTGAATTTGAAATTCCGT
1 GTTGCGAATAAGAAATT-CGC
**
38164 GTTGCGAATTTGGAAA-TCGC
1 GTTGCGAA-TAAGAAATTCGC
38184 GTTGCGAGA-AAGAAATTCGC
1 GTTGCGA-ATAAGAAATTCGC
*
38204 GATGCGA
1 GTTGCGA
38211 TTGTAGAAAC
Statistics
Matches: 128, Mismatches: 28, Indels: 24
0.71 0.16 0.13
Matches are distributed among these distances:
19 13 0.10
20 88 0.69
21 21 0.16
22 6 0.05
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (20 bp):
GTTGCGAATAAGAAATTCGC
Found at i:38229 original size:20 final size:19
Alignment explanation
Indices: 38206--38253 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
38196 AAATTCGCGA
38206 TGCGATTGTAGAAACTGA-GT
1 TGCGATT-TAGAAACT-ACGT
*
38226 TGCGAATTTGGAAACTACGT
1 TGCG-ATTTAGAAACTACGT
38246 TGCGATTT
1 TGCGATTT
38254 CGAGATCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 17 0.68
21 3 0.12
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (19 bp):
TGCGATTTAGAAACTACGT
Found at i:38604 original size:16 final size:16
Alignment explanation
Indices: 38571--38604 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
38561 ATCTAATAAT
*
38571 AATAAAAAAAATTCAA
1 AATAAAAAAAATTAAA
*
38587 AATAAAAATAATTAAA
1 AATAAAAAAAATTAAA
38603 AA
1 AA
38605 AACTAACCCT
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:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAAAAAAAATTAAA
Found at i:38850 original size:25 final size:26
Alignment explanation
Indices: 38822--38870 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
38812 ATTTGTGTTA
*
38822 CGAAATTAATATTAT-GTTTCGAATT
1 CGAAATTAAAATTATAGTTTCGAATT
*
38847 CGAAATTAAAATTCTAGTTTCGAA
1 CGAAATTAAAATTATAGTTTCGAA
38871 AATAAACGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (26 bp):
CGAAATTAAAATTATAGTTTCGAATT
Found at i:39495 original size:2 final size:2
Alignment explanation
Indices: 39488--39516 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
39478 TATGTTTAAT
39488 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
39517 TATTCAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39876 original size:14 final size:14
Alignment explanation
Indices: 39859--39906 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
39849 ATATAAACCT
*
39859 TAAACCTTAAATCA
1 TAAACCTTAAATCC
*
39873 TAAACCTTAAACCC
1 TAAACCTTAAATCC
*
39887 TAAACCCTAAATCC
1 TAAACCTTAAATCC
39901 TAAACC
1 TAAACC
39907 CTACTATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAATCC
Found at i:39877 original size:21 final size:21
Alignment explanation
Indices: 39851--39909 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
39841 TATAGTTTAT
*
39851 ATAAACCTTAAACCTTAAATC
1 ATAAACCTTAAACCCTAAATC
*
39872 ATAAACCTTAAACCCTAAACC
1 ATAAACCTTAAACCCTAAATC
*
39893 CTAAATCC-TAAACCCTA
1 ATAAA-CCTTAAACCCTA
39910 CTATATGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (21 bp):
ATAAACCTTAAACCCTAAATC
Found at i:39909 original size:7 final size:7
Alignment explanation
Indices: 39852--39909 Score: 62
Period size: 7 Copynumber: 8.3 Consensus size: 7
39842 ATAGTTTATA
*
39852 TAAACCT
1 TAAACCC
*
39859 TAAACCT
1 TAAACCC
* *
39866 TAAATCA
1 TAAACCC
*
39873 TAAACCT
1 TAAACCC
39880 TAAACCC
1 TAAACCC
39887 TAAACCC
1 TAAACCC
*
39894 TAAATCC
1 TAAACCC
39901 TAAACCC
1 TAAACCC
39908 TA
1 TA
39910 CTATATGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCC
Found at i:39951 original size:20 final size:19
Alignment explanation
Indices: 39917--39988 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
39907 CTACTATATG
* *
39917 TATAAACCATGTATAGTTTA
1 TATAAACTATATATA-TTTA
*
39937 TATAAACTATATATATATA
1 TATAAACTATATATATTTA
*
39956 TAT-ACCTATATATATATATA
1 TATAAACTATATATAT-T-TA
39976 TATAAACTATATA
1 TATAAACTATATA
39989 AAGTAAATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 11 0.26
19 6 0.14
20 18 0.42
21 8 0.19
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (19 bp):
TATAAACTATATATATTTA
Found at i:39954 original size:39 final size:39
Alignment explanation
Indices: 39911--39988 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
39901 TAAACCCTAC
* *
39911 TATATGTATAAACC-ATGTATAGT-T-TATATAAACTATA
1 TATATATATAAACCTATATATA-TATATATATAAACTATA
*
39948 TATATATATATACCTATATATATATATATATAAACTATA
1 TATATATATAAACCTATATATATATATATATAAACTATA
39987 TA
1 TA
39989 AAGTAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
37 13 0.37
38 7 0.20
39 15 0.43
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (39 bp):
TATATATATAAACCTATATATATATATATATAAACTATA
Found at i:39988 original size:2 final size:2
Alignment explanation
Indices: 39944--39979 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
39934 TTATATAAAC
**
39944 TA TA TA TA TA TA TA TA CC TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
39980 AACTATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:40163 original size:15 final size:15
Alignment explanation
Indices: 40143--40178 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
40133 CTATATATTT
40143 TATATAGTTTATACA
1 TATATAGTTTATACA
*
40158 TATATAGTTTATATA
1 TATATAGTTTATACA
40173 TATATA
1 TATATA
40179 CTATATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (15 bp):
TATATAGTTTATACA
Found at i:40222 original size:18 final size:18
Alignment explanation
Indices: 40199--40241 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
40189 ATAAATAATA
40199 TTTTATAAACTATATACT
1 TTTTATAAACTATATACT
***
40217 TTTTATAGTTTATATACT
1 TTTTATAAACTATATACT
40235 TTTTATA
1 TTTTATA
40242 GTTTATACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTATAAACTATATACT
Found at i:40242 original size:18 final size:18
Alignment explanation
Indices: 40209--40248 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
40199 TTTTATAAAC
40209 TATATACTTTTTATAGTT
1 TATATACTTTTTATAGTT
40227 TATATACTTTTTATAGTT
1 TATATACTTTTTATAGTT
40245 TATA
1 TATA
40249 CATATATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (18 bp):
TATATACTTTTTATAGTT
Found at i:40270 original size:13 final size:13
Alignment explanation
Indices: 40238--40463 Score: 127
Period size: 13 Copynumber: 16.3 Consensus size: 13
40228 ATATACTTTT
40238 TATAGTTTATACATA
1 TATAGTTTAT--ATA
40253 TATAGTTTATATA
1 TATAGTTTATATA
*
40266 CATAGTTTATATA
1 TATAGTTTATATA
* *
40279 TATAGTTCACATAAA
1 TATAGTT--TATATA
* *
40294 CATAATTTATATA
1 TATAGTTTATATA
40307 TATAGCTTATATAATTA
1 TATAG-TT-TAT-A-TA
40324 TATAGTTTATA-A
1 TATAGTTTATATA
** *
40336 TATA-AATATAGTT
1 TATAGTTTATA-TA
*
40349 TATAATTTTATATA
1 TAT-AGTTTATATA
*
40363 CATAGTTTATATA
1 TATAGTTTATATA
* *
40376 TATAGTTCACATAAA
1 TATAGTT--TATATA
*
40391 TATAATTTATATA
1 TATAGTTTATATA
40404 TATAGTTTATAATAATTA
1 TATAG-TT-T-AT-A-TA
40422 TATAGTTTATATA
1 TATAGTTTATATA
*
40435 TA-ATTTTATATTA
1 TATAGTTTATA-TA
*
40448 TATA-TATATATA
1 TATAGTTTATATA
40460 TATA
1 TATA
40464 TATATTATAT
Statistics
Matches: 165, Mismatches: 27, Indels: 41
0.71 0.12 0.18
Matches are distributed among these distances:
11 4 0.02
12 18 0.11
13 67 0.41
14 11 0.07
15 42 0.25
16 6 0.04
17 10 0.06
18 7 0.04
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:40272 original size:28 final size:27
Alignment explanation
Indices: 40238--40463 Score: 135
Period size: 28 Copynumber: 8.1 Consensus size: 27
40228 ATATACTTTT
40238 TATAGTTTATACATATATAGTTTATATA
1 TATAGTTTATA-ATATATAGTTTATATA
* * *
40266 CATAGTTTAT-ATATATAGTTCACATAAA
1 TATAGTTTATAATATATAGTT--TATATA
* *
40294 CATAATTTAT-ATATATAGCTTATATAATTA
1 TATAGTTTATAATATATAG-TT-TAT-A-TA
* * *
40324 TATAGTTTATAATATA-AATATAGTTTA
1 TATAGTTTATAATATATAGTTTA-TATA
* *
40351 TA-ATTTTAT-ATACATAGTTTATATA
1 TATAGTTTATAATATATAGTTTATATA
* *
40376 TATAGTTCACATAA-ATATAATTTATATA
1 TATAGTT--TATAATATATAGTTTATATA
40404 TATAGTTTATAATAATTATATAGTTTATATA
1 TATAG-TT-T-ATAA-TATATAGTTTATATA
* * *
40435 TA-ATTTTATATTATATA-TATATATA
1 TATAGTTTATAATATATAGTTTATATA
40460 TATA
1 TATA
40464 TATATTATAT
Statistics
Matches: 156, Mismatches: 25, Indels: 36
0.72 0.12 0.17
Matches are distributed among these distances:
25 18 0.12
26 30 0.19
27 7 0.04
28 56 0.36
29 14 0.09
30 11 0.07
31 20 0.13
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (27 bp):
TATAGTTTATAATATATAGTTTATATA
Found at i:40377 original size:17 final size:18
Alignment explanation
Indices: 40301--40463 Score: 86
Period size: 18 Copynumber: 8.6 Consensus size: 18
40291 AAACATAATT
*
40301 TATATATATAGCTTAT-A
1 TATATATATAGTTTATAA
40318 TA-ATTATATAGTTTATAA
1 TATA-TATATAGTTTATAA
*
40336 TATAAATATAGTTTATAA
1 TATATATATAGTTTATAA
*
40354 TTTTATATACATAGTTTATATA
1 ---TATATATATAGTTTATA-A
* **
40376 TATAGTTCACATA-AATATAA
1 TATA--T-ATATAGTTTATAA
40396 TTTATATATATAGTTTATAA
1 --TATATATATAGTTTATAA
40416 TA-ATTATATAGTTTAT-A
1 TATA-TATATAGTTTATAA
*
40433 TATAATTTTATA-TTATATATA
1 TAT-A-TATATAGTT-TATA-A
40454 TATATATATA
1 TATATATATA
40464 TATATTATAT
Statistics
Matches: 116, Mismatches: 11, Indels: 36
0.71 0.07 0.22
Matches are distributed among these distances:
16 1 0.01
17 17 0.15
18 32 0.28
19 24 0.21
20 8 0.07
21 24 0.21
22 10 0.09
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (18 bp):
TATATATATAGTTTATAA
Found at i:40405 original size:2 final size:2
Alignment explanation
Indices: 40398--40473 Score: 58
Period size: 2 Copynumber: 40.5 Consensus size: 2
40388 AAATATAATT
* *
40398 TA TA TA TA TA GTT TA TA -A TA -A T- TA TA TA GTT TA TA TA TA -A
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
*
40438 T- TT TA TA T- TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
40474 TTTTTCAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
1 7 0.12
2 51 0.85
3 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:40432 original size:29 final size:25
Alignment explanation
Indices: 40399--40473 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 25
40389 AATATAATTT
*
40399 ATATATATAGTTTATAATAATTATATAGT
1 ATATATATAATTT-T-AT-ATTATATA-T
*
40428 TTATATATAATTTTATATTATATAT
1 ATATATATAATTTTATATTATATAT
*
40453 ATATATAT-A-TATATATTATAT
1 ATATATATAATTTTATATTATAT
40474 TTTTTCAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
23 11 0.26
24 1 0.02
25 8 0.19
26 8 0.19
27 2 0.05
28 1 0.02
29 11 0.26
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (25 bp):
ATATATATAATTTTATATTATATAT
Found at i:40449 original size:97 final size:97
Alignment explanation
Indices: 40258--40437 Score: 326
Period size: 97 Copynumber: 1.9 Consensus size: 97
40248 ACATATATAG
40258 TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATATAATT
1 TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATATAATT
40323 ATATAGTTTATAATATAAATATAGTTTATAAT
66 ATATAGTTTATAATATAAATATAGTTTATAAT
* *
40355 TTTATATACATAGTTTATATATATAGTTCACATAAATATAATTTATATATATAGTTTATAATAAT
1 TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTAT-ATAAT
40420 TATATAGTTTAT-ATATAA
65 TATATAGTTTATAATATAA
40438 TTTTATATTA
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
97 63 0.79
98 17 0.21
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (97 bp):
TTTATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATATAATT
ATATAGTTTATAATATAAATATAGTTTATAAT
Found at i:40459 original size:23 final size:23
Alignment explanation
Indices: 40390--40473 Score: 77
Period size: 22 Copynumber: 3.7 Consensus size: 23
40380 GTTCACATAA
*
40390 ATATA-AT-TTATATATATAGTTT
1 ATATATATATTATATATATA-TAT
*
40412 ATA-ATA-ATTATATAGTTTATAT
1 ATATATATATTATATA-TATATAT
*
40434 ATAATTTTATATTATATATATATAT
1 AT-A-TATATATTATATATATATAT
40459 ATATATATATTATAT
1 ATATATATATTATAT
40474 TTTTTCAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
21 1 0.02
22 15 0.30
23 15 0.30
24 1 0.02
25 10 0.20
26 8 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATATATATATTATATATATATAT
Found at i:40472 original size:19 final size:19
Alignment explanation
Indices: 40397--40474 Score: 65
Period size: 17 Copynumber: 4.1 Consensus size: 19
40387 TAAATATAAT
*
40397 TTATATATATAGTTTATAATAA
1 TTATATATATA-TATAT-AT-A
*
40419 TTATATAGTTTATATATA-A
1 TTATATA-TATATATATATA
*
40438 TTTTATAT-TATATATATA
1 TTATATATATATATATATA
40456 -TATATATATATAT-TATA
1 TTATATATATATATATATA
40473 TT
1 TT
40475 TTTTCAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
17 18 0.38
18 8 0.17
19 7 0.15
21 1 0.02
22 11 0.23
23 3 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TTATATATATATATATATA
Found at i:40473 original size:97 final size:97
Alignment explanation
Indices: 40260--40468 Score: 299
Period size: 97 Copynumber: 2.2 Consensus size: 97
40250 ATATATAGTT
*
40260 TATATACATAGTTTATATATATAGTTCACATAAACATAATTTATATATATAGCTTATATAATTAT
1 TATATACATAGTATATATATATAGTTCACATAAACATAATTTATATATATAGCTTATATAATTAT
*
40325 ATAGTTTATAATATAAATATAGTTTATAATTT
66 ATAGTTTATAATATAAATATAGTTTATAATTA
* * *
40357 TATATACATAGTTTATATATATAGTTCACATAAATATAATTTATATATATAGTTTATAATAATTA
1 TATATACATAGTATATATATATAGTTCACATAAACATAATTTATATATATAGCTTAT-ATAATTA
40422 TATAGTTTAT-ATAT--A-AT--TTTAT-ATTA
65 TATAGTTTATAATATAAATATAGTTTATAATTA
*
40448 TATATATATA-TATATATATAT
1 TATATACATAGTATATATATAT
40469 TATATTTTTT
Statistics
Matches: 106, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
90 10 0.09
91 12 0.11
92 5 0.05
94 2 0.02
95 1 0.01
97 59 0.56
98 17 0.16
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (97 bp):
TATATACATAGTATATATATATAGTTCACATAAACATAATTTATATATATAGCTTATATAATTAT
ATAGTTTATAATATAAATATAGTTTATAATTA
Found at i:46361 original size:16 final size:16
Alignment explanation
Indices: 46340--46372 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46330 ATTACTGTAA
46340 AGAAAGTATTTCGGTT
1 AGAAAGTATTTCGGTT
46356 AGAAAGTATTTCGGTT
1 AGAAAGTATTTCGGTT
46372 A
1 A
46373 TTCACAGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (16 bp):
AGAAAGTATTTCGGTT
Found at i:48722 original size:18 final size:18
Alignment explanation
Indices: 48672--48724 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 18
48662 TTAACTAATC
48672 TATTATTTTTAATAAATAA
1 TATTA-TTTTAATAAATAA
* *
48691 TAAAATATTATTAATTAATAA
1 T--ATTATT-TTAATAAATAA
48712 TATTATTTTAATA
1 TATTATTTTAATA
48725 CAAAAAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 2 0.07
21 14 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTATTTTAATAAATAA
Found at i:48854 original size:30 final size:30
Alignment explanation
Indices: 48818--48874 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
48808 GCTTAACGAG
*
48818 TAACGAG-TCGAGTTGAGCAACAATTTTTTT
1 TAACGAGCACGAGTTGAGC-ACAATTTTTTT
48848 TAACGAGCACGAGTTGAGCACAATTTT
1 TAACGAGCACGAGTTGAGCACAATTTT
48875 AACGAGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (30 bp):
TAACGAGCACGAGTTGAGCACAATTTTTTT
Found at i:48884 original size:72 final size:67
Alignment explanation
Indices: 48806--48935 Score: 179
Period size: 67 Copynumber: 1.9 Consensus size: 67
48796 ATATTTTAGT
* * *
48806 GAGCTTAACGAGTAACGAGTCGAGTTGAGCAACAATTTTTTTTAACGAGCACGAGTTGAGCACAA
1 GAGCTTAACGAGCAACGAGTCGAG-T-AGCAA-AA--GTTTTTAACAAGCACGAGTTGAGCACAA
48871 TTTTAAC
61 TTTTAAC
*
48878 GAGCTTAACGAGCAATGAGTCGAGTAGCAAAAGTTTTTAACAAGCACGAGTTGAGCAC
1 GAGCTTAACGAGCAACGAGTCGAGTAGCAAAAGTTTTTAACAAGCACGAGTTGAGCAC
48936 TGCCCAACTC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
67 24 0.44
69 2 0.04
70 5 0.09
71 1 0.02
72 22 0.41
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (67 bp):
GAGCTTAACGAGCAACGAGTCGAGTAGCAAAAGTTTTTAACAAGCACGAGTTGAGCACAATTTTA
AC
Found at i:50639 original size:77 final size:79
Alignment explanation
Indices: 50497--50645 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 79
50487 ATATAGTAAG
* *
50497 TAAATATTAAAAGAATGTAATTCTGATTACAACTCTTTTAATCGATATTTAATTCGGAATAATTA
1 TAAATATTAAAAGAATGTAATTCGGATTACAAATCTTTTAATCGATATTTAATTCGGAATAATTA
50562 AATAAGAGTTTAAA
66 AATAAGAGTTTAAA
* * * *
50576 TAAATGTT-AAAGATTGTAATTCGGATTATAAATC-TTTAAT-GAATATTTAATT-TGAATTAAT
1 TAAATATTAAAAGAATGTAATTCGGATTACAAATCTTTTAATCG-ATATTTAATTCGGAA-TAAT
50637 TAAATAAGA
64 TAAATAAGA
50646 TTTTTTTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
76 4 0.06
77 29 0.47
78 22 0.35
79 7 0.11
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (79 bp):
TAAATATTAAAAGAATGTAATTCGGATTACAAATCTTTTAATCGATATTTAATTCGGAATAATTA
AATAAGAGTTTAAA
Found at i:51991 original size:29 final size:29
Alignment explanation
Indices: 51952--52018 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
51942 GGGCTAAGGC
* *
51952 CCGTG-GG-CTACCTGTATAACTCGCGGT
1 CCGTGCGGACTACCCGTATAACCCGCGGT
51979 CCGTGCGGACTACCCGTATAACCCGCGGT
1 CCGTGCGGACTACCCGTATAACCCGCGGT
52008 CCGTGCGGACT
1 CCGTGCGGACT
52019 TCGGGCCTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 5 0.14
28 2 0.06
29 29 0.81
ACGTcount: A:0.15, C:0.34, G:0.30, T:0.21
Consensus pattern (29 bp):
CCGTGCGGACTACCCGTATAACCCGCGGT
Found at i:52880 original size:74 final size:77
Alignment explanation
Indices: 52795--53000 Score: 258
Period size: 84 Copynumber: 2.6 Consensus size: 77
52785 TGATGTTGAT
* *
52795 TTTA-TTTAGACTTATTGAGACTTATTAGTGTTATGATATTATTTATTTTAG-A-T-TTAATGAT
1 TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGATATTATTTATTTTAGTACTATTAATGAT
*
52856 ATTATGGTGTTA
66 ATTATAGTGTTA
* *
52868 TTTATTTTAGACTTATTGAGACTTAATGGTATTATGATGTTATTTATTTTAGACTTACTGAGACT
1 TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGATATTATTTATTTTAG---TACT---A-T
* *
52933 TAATGGTGTTATAGTGTTA
59 TAATGATATTATAGTGTTA
52952 TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGATATTATTTATTT
1 TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGATATTATTTATTT
53001 ACTTCTTTAT
Statistics
Matches: 113, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
73 4 0.04
74 43 0.38
78 1 0.01
79 1 0.01
84 64 0.57
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.52
Consensus pattern (77 bp):
TTTATTTTAGACTTATTGAGACTTAATGGTGTTATGATATTATTTATTTTAGTACTATTAATGAT
ATTATAGTGTTA
Found at i:52901 original size:42 final size:42
Alignment explanation
Indices: 52848--53000 Score: 236
Period size: 42 Copynumber: 3.6 Consensus size: 42
52838 TATTTTAGAT
* *
52848 TTAATGATATTATGGTGTTATTTATTTTAGACTTATTGAGAC
1 TTAATGGTATTATGATGTTATTTATTTTAGACTTATTGAGAC
*
52890 TTAATGGTATTATGATGTTATTTATTTTAGACTTACTGAGAC
1 TTAATGGTATTATGATGTTATTTATTTTAGACTTATTGAGAC
*
52932 TTAATGGTGTTAT-AGTGTTATTTATTTTAGACTTATTGAGAC
1 TTAATGGTATTATGA-TGTTATTTATTTTAGACTTATTGAGAC
* *
52974 TTAATGGTGTTATGATATTATTTATTT
1 TTAATGGTATTATGATGTTATTTATTT
53001 ACTTCTTTAT
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.01
42 101 0.98
43 1 0.01
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (42 bp):
TTAATGGTATTATGATGTTATTTATTTTAGACTTATTGAGAC
Found at i:56760 original size:16 final size:16
Alignment explanation
Indices: 56718--56760 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
56708 GTTATTAGTC
56718 TATTTTAG-TTTTAAT
1 TATTTTAGATTTTAAT
*
56733 TATTTTGGATTTTAAT
1 TATTTTAGATTTTAAT
* *
56749 TTTTTTATATTT
1 TATTTTAGATTT
56761 CTTCCTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TATTTTAGATTTTAAT
Found at i:56930 original size:15 final size:15
Alignment explanation
Indices: 56910--56938 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56900 AATGTAAACT
56910 AAACATATAATTAAG
1 AAACATATAATTAAG
56925 AAACATATAATTAA
1 AAACATATAATTAA
56939 TACATTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (15 bp):
AAACATATAATTAAG
Found at i:59866 original size:28 final size:27
Alignment explanation
Indices: 59814--59867 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
59804 ATATATATTC
*
59814 AGTTCAAAATCCATAAAACATCAAATA
1 AGTTCAAAATCCATAAAACAACAAATA
*
59841 AGTTCAAACATCCA-ACAACCAACAAAT
1 AGTTCAAA-ATCCATA-AAACAACAAAT
59868 TTAGACATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.54, C:0.24, G:0.04, T:0.19
Consensus pattern (27 bp):
AGTTCAAAATCCATAAAACAACAAATA
Found at i:61314 original size:44 final size:43
Alignment explanation
Indices: 61218--61318 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 43
61208 GCATGGCCTT
* *
61218 GTGCATCGATGCACATTCAAGGCGTGCATCGGTGCATCTTCAT
1 GTGCATCGATGCACATTCAAGGCGTGCATCGATGCATCTTCAA
* *
61261 GATGAATCGATGCACATTCAAAGG-GATGCATCGATGCA-CTGTTAA
1 G-TGCATCGATGCACATTC-AAGGCG-TGCATCGATGCATCT-TCAA
61306 GTGCATCGATGCA
1 GTGCATCGATGCA
61319 TGAAGCACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
43 1 0.02
44 30 0.61
45 18 0.37
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (43 bp):
GTGCATCGATGCACATTCAAGGCGTGCATCGATGCATCTTCAA
Found at i:65153 original size:21 final size:22
Alignment explanation
Indices: 65129--65171 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
65119 GAGTTTATTT
*
65129 TCATTTTT-CATTTTTGAAATA
1 TCATTTTTACATTTTTAAAATA
*
65150 TCATTTTTATATTTTTAAAATA
1 TCATTTTTACATTTTTAAAATA
65172 ACTTCTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (22 bp):
TCATTTTTACATTTTTAAAATA
Found at i:67277 original size:20 final size:20
Alignment explanation
Indices: 67252--67289 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
67242 CAATTTATTC
67252 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
67272 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
67290 AACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:68093 original size:16 final size:16
Alignment explanation
Indices: 68072--68102 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
68062 ATTTTAATTA
*
68072 TGTGACTAGGATTTAT
1 TGTGACGAGGATTTAT
68088 TGTGACGAGGATTTA
1 TGTGACGAGGATTTA
68103 ATCGAACATA
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:0.26, C:0.06, G:0.29, T:0.39
Consensus pattern (16 bp):
TGTGACGAGGATTTAT
Found at i:69119 original size:11 final size:9
Alignment explanation
Indices: 69086--69114 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
69076 TCAAAAAAAT
69086 AAAAA-TAA
1 AAAAAGTAA
69094 AAAAAGTAA
1 AAAAAGTAA
69103 AAAAAGTAA
1 AAAAAGTAA
69112 AAA
1 AAA
69115 TAAAGATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (9 bp):
AAAAAGTAA
Found at i:70623 original size:37 final size:37
Alignment explanation
Indices: 70573--70767 Score: 131
Period size: 37 Copynumber: 5.4 Consensus size: 37
70563 AAAAAATGTT
* * *
70573 TTTTTTAAAACTATATAACATATATGTTTTCAAAATG
1 TTTTTAAAAACTATATAATATATATATTTTCAAAATG
70610 TTTTTAAAAAC-------TATATAT-TTTTCAAAATG
1 TTTTTAAAAACTATATAATATATATATTTTCAAAATG
** * *
70639 TTTAAAAAAAAATATATAATATATTTATTTTCAAAAATG
1 TTT-TTAAAAACTATATAATATATATATTTTC-AAAATG
* * *
70678 -TTTTAAAAACTATATATTTTATTTATTTTCAAAATG
1 TTTTTAAAAACTATATAATATATATATTTTCAAAATG
** * *
70714 TTTAAAAAAAAATATATAATATATAAATGTTTTCAAACATG
1 TTT-TTAAAAACTATATAATATAT--ATATTTTCAAA-ATG
*
70755 -TTTTCAAAACTAT
1 TTTTTAAAAACTAT
70768 TTATTTTCAA
Statistics
Matches: 121, Mismatches: 22, Indels: 28
0.71 0.13 0.16
Matches are distributed among these distances:
29 14 0.12
30 11 0.09
36 6 0.05
37 41 0.34
38 22 0.18
39 13 0.11
40 11 0.09
41 3 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTTAAAAACTATATAATATATATATTTTCAAAATG
Found at i:70647 original size:29 final size:30
Alignment explanation
Indices: 70592--70648 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
70582 ACTATATAAC
**
70592 ATATATGTTTTCAAAATGTTTTTAAAAACT
1 ATATATGTTTTCAAAATGTTTAAAAAAACT
70622 ATATAT-TTTTCAAAATGTTTAAAAAAA
1 ATATATGTTTTCAAAATGTTTAAAAAAA
70649 AATATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (30 bp):
ATATATGTTTTCAAAATGTTTAAAAAAACT
Found at i:70653 original size:28 final size:30
Alignment explanation
Indices: 70592--70655 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 30
70582 ACTATATAAC
* **
70592 ATATATGTTTTCAAAATGTTTTTAAAAACT
1 ATATATGTTTTCAAAATGTTTTAAAAAAAA
70622 ATATAT-TTTTCAAAATG-TTTAAAAAAAA
1 ATATATGTTTTCAAAATGTTTTAAAAAAAA
70650 ATATAT
1 ATATAT
70656 AATATATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 14 0.45
29 11 0.35
30 6 0.19
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (30 bp):
ATATATGTTTTCAAAATGTTTTAAAAAAAA
Found at i:70718 original size:75 final size:76
Alignment explanation
Indices: 70628--70774 Score: 233
Period size: 75 Copynumber: 1.9 Consensus size: 76
70618 AACTATATAT
*
70628 TTTTCAAAATGTTTAAAAAAAAATATATAATATAT-TTATTTTCAAAAATGTTTTAAAAACTATA
1 TTTTCAAAATGTTTAAAAAAAAATATATAATATATAATATTTTCAAAAATGTTTTAAAAACTATA
70692 TATTTTATTTA
66 TATTTTATTTA
* * *
70703 TTTTCAAAATGTTTAAAAAAAAATATATAATATATAAATGTTTTCAAACATGTTTTCAAAACTAT
1 TTTTCAAAATGTTTAAAAAAAAATATATAATATAT-AATATTTTCAAAAATGTTTTAAAAACTAT
*
70768 TTATTTT
65 ATATTTT
70775 CAAGATTTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 35 0.54
77 30 0.46
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (76 bp):
TTTTCAAAATGTTTAAAAAAAAATATATAATATATAATATTTTCAAAAATGTTTTAAAAACTATA
TATTTTATTTA
Found at i:71574 original size:80 final size:78
Alignment explanation
Indices: 71425--71950 Score: 426
Period size: 83 Copynumber: 6.4 Consensus size: 78
71415 ATTTTATTGA
* * * * * * *
71425 CAGATAGCTCTTCTTGCCTTGAGCTATGCTGTAAATGATGTTTGCCTCTCAGATGAGTGTAATTG
1 CAGATAGCCCTTCTAGCCTT-AACTATGCTGCAAATGATG--TGCCT-TGAGCTGAGTGTAATCG
71490 AACTCGAAGGTCTTTGG
62 AACTCGAAGGTCTTTGG
* * * * *
71507 CAGATAGCCCTTTTAGCCTTGAACTATACCGCAAATAATGTGCCGTTGAGCTGAGTGTAATCAAA
1 CAGATAGCCCTTCTAGCCTT-AACTATGCTGCAAATGATGTGCC-TTGAGCTGAGTGTAATCGAA
71572 CTC-AATGGTCTTTGTTGG
64 CTCGAA-GGTC--T-TTGG
* ** * * *
71590 CAGATAACCCTTCTAGCCTTTAGTTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTAGCC-TTAACTATGCTGCAAATGATGTGCCTT-GAGCTGAGTGTAATCGAA
*
71655 CTCGAAGGTCTTTTG
64 CTCGAAGGTCTTTGG
* * *
71670 CAGATAGCCCTTCTAGCCTTGAGCTATGCTACAAATGATGTGCCCTCAGAGCTGAGTGTAATCGA
1 CAGATAGCCCTTCTAGCCTT-AACTATGCTGCAAATGATGTG-CCT-TGAGCTGAGTGTAATCGA
** *
71735 ACTCGGGGGTCCTTGG
63 ACTCGAAGGTCTTTGG
* ** * *
71751 CAGATAGCCCTTCTCGAATTAAGCTATGTTGCAAATGATGTGCCTCTGAGTTGAGTGTAATCGAA
1 CAGATAGCCCTTCTAGCCTTAA-CTATGCTGCAAATGATGTGCCT-TGAGCTGAGTGTAATCGAA
*
71816 CTCAAAGGTCTTTGTTG
64 CTCGAAGGTCTTTG--G
* * * * * *
71833 ACAGATAACCC-TCATCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAAGTTGAGTGTAATG
1 -CAGATAGCCCTTC-TAGCCTTAA-CTATGCTGCAAATGATGTG-CCTTG-AGCTGAGTGTAATC
*
71897 GAACTCGAAGGTCTTTGA
61 GAACTCGAAGGTCTTTGG
* * * * *
71915 CAGATAGCCTTTATGGACTTAAGCTATGCTACAAAT
1 CAGATAGCCCTTCTAGCCTTAA-CTATGCTGCAAAT
71951 AGTTTCTTTT
Statistics
Matches: 367, Mismatches: 58, Indels: 39
0.79 0.12 0.08
Matches are distributed among these distances:
79 4 0.01
80 96 0.26
81 94 0.26
82 39 0.11
83 98 0.27
84 36 0.10
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (78 bp):
CAGATAGCCCTTCTAGCCTTAACTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCGAACT
CGAAGGTCTTTGG
Found at i:71868 original size:244 final size:245
Alignment explanation
Indices: 71421--71950 Score: 642
Period size: 244 Copynumber: 2.2 Consensus size: 245
71411 GACAATTTTA
* * **
71421 TTGACAGATAGCTCTTCTTGCCTTGAGCTATGCTGTAAATGATGTTTGCCTCTCAGATGAGTGTA
1 TTGACAGATAGCCCTTCTAGCCTTGAGCTATGCTACAAATGATG-TTGCCTCTCAGATGAGTGTA
* * * **
71486 ATTGAACTCGAAGGTCTTTGGCAGATAGCCCTTTTAGCCTTGAACTATACCGCAAATAATGTGCC
65 ATCGAACTCGAAGGTCCTTGGCAGATAGCCCTTCTAGAATTGAACTATACCGCAAATAATGTGCC
* * * *
71551 GTTGAGCTGAGTGTAATCAAACTCAATGGTCTTTGTTGGCAGATAACCCTTCTAGCCTTTAGTTA
130 GTTGAGCTGAGTGTAATCAAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTA
* *
71616 TACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
195 TACTGCAAATGATGTGCCCTTGAAGCTGAGCGTAATCGAACTCGAAGGTC-T
71667 TTG-CAGATAGCCCTTCTAGCCTTGAGCTATGCTACAAATGATG-TGCC-CTCAGAGCTGAGTGT
1 TTGACAGATAGCCCTTCTAGCCTTGAGCTATGCTACAAATGATGTTGCCTCTCAGA--TGAGTGT
** * *** *
71729 AATCGAACTCGGGGGTCCTTGGCAGATAGCCCTTCTCGAATT-AAGCTATGTTGCAAATGATGTG
64 AATCGAACTCGAAGGTCCTTGGCAGATAGCCCTTCTAGAATTGAA-CTATACCGCAAATAATGTG
* * *
71793 CC-TCTGAGTTGAGTGTAATCGAACTCAAAGGTCTTTGTTGACAGATAACCC-TCATCGACTTAA
128 CCGT-TGAGCTGAGTGTAATCAAACTCAAAGGTCTTTGTTGACAGATAACCCTTC-TAGACTTAA
* * * *
71856 GTTATGCTGCAAATGATGTGCCCTTGAAGTTGAGTGTAATGGAACTCGAAGGTCT
191 GTTATACTGCAAATGATGTGCCCTTGAAGCTGAGCGTAATCGAACTCGAAGGTCT
* * * * *
71911 TTGACAGATAGCCTTTATGGACTTAAGCTATGCTACAAAT
1 TTGACAGATAGCCCTTCTAGCCTTGAGCTATGCTACAAAT
71951 AGTTTCTTTT
Statistics
Matches: 243, Mismatches: 34, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
242 6 0.02
243 9 0.04
244 130 0.53
245 95 0.39
246 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (245 bp):
TTGACAGATAGCCCTTCTAGCCTTGAGCTATGCTACAAATGATGTTGCCTCTCAGATGAGTGTAA
TCGAACTCGAAGGTCCTTGGCAGATAGCCCTTCTAGAATTGAACTATACCGCAAATAATGTGCCG
TTGAGCTGAGTGTAATCAAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTAT
ACTGCAAATGATGTGCCCTTGAAGCTGAGCGTAATCGAACTCGAAGGTCT
Found at i:71922 original size:164 final size:161
Alignment explanation
Indices: 71619--71942 Score: 384
Period size: 164 Copynumber: 2.0 Consensus size: 161
71609 TTAGTTATAC
* * *
71619 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGCAGATAGCCCTTCT
1 TGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGCAGATAACCCTTCT
* * **
71684 AGCCTTGAGCTATGCTACAAATGATGTGCCCTCAGAGCTGAGTGTAATCGAACTCGGGGGTCCTT
66 AGACTTAAGCTATGCTACAAATGATGTGCCCTCAGAGCTGAGTGTAATCGAACTCGAAGGTCCTT
* *
71749 GGCAGATAGCCCTTCTCGAATTAAGCTATGT
131 GACAGATAGCCCTTATCGAATTAAGCTATGT
* *
71780 TGCAAATGATGTGCCTCT-GAGTTGAGTGTAATCGAACTCAAAGGTCTTTGTTGACAGATAACCC
1 TGCAAATGATGTGCCT-TGGAGCTGAGCGTAATCGAACTCAAAGGTC-TT-TTG-CAGATAACCC
* * * * * *
71844 -TCATCGACTTAAGTTATGCTGCAAATGATGTGCCCT-TGAAGTTGAGTGTAATGGAACTCGAAG
62 TTC-TAGACTTAAGCTATGCTACAAATGATGTGCCCTCAG-AGCTGAGTGTAATCGAACTCGAAG
* * * *
71907 GTCTTTGACAGATAGCCTTTATGGACTTAAGCTATG
125 GTCCTTGACAGATAGCCCTTATCGAATTAAGCTATG
71943 CTACAAATAG
Statistics
Matches: 136, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
161 40 0.29
162 3 0.02
163 6 0.04
164 87 0.64
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (161 bp):
TGCAAATGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGCAGATAACCCTTCT
AGACTTAAGCTATGCTACAAATGATGTGCCCTCAGAGCTGAGTGTAATCGAACTCGAAGGTCCTT
GACAGATAGCCCTTATCGAATTAAGCTATGT
Found at i:73270 original size:95 final size:94
Alignment explanation
Indices: 73107--73292 Score: 320
Period size: 95 Copynumber: 2.0 Consensus size: 94
73097 ATACATAAAC
* *
73107 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGAGTTTAACCAATTGCCTTAGAGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGAGTTTAACCAATTGCCTTAGAGGG
73172 ACAACTCAAGCTTTATTGTATAGTATAATT
66 ACAACTCAAGCTTTATTGTATA-TATAATT
*
73202 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG-CTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGAGTTTAACCAATTGCCT-TAGAGG
73266 GACAACTCAAGCTTTATTGTATATATA
65 GACAACTCAAGCTTTATTGTATATATA
73293 TAATATTATA
Statistics
Matches: 87, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
94 6 0.07
95 81 0.93
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (94 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGAGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATATATAATT
Found at i:78116 original size:12 final size:13
Alignment explanation
Indices: 78091--78115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78081 CTTGGACCCC
78091 TAAAAAATGAAAA
1 TAAAAAATGAAAA
78104 TAAAAAATGAAA
1 TAAAAAATGAAA
78116 TTAATAATAA
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:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (13 bp):
TAAAAAATGAAAA
Found at i:78336 original size:37 final size:36
Alignment explanation
Indices: 78265--78482 Score: 170
Period size: 37 Copynumber: 5.9 Consensus size: 36
78255 ATGTTTTCAA
* *
78265 AATTATATAGTTTTAAAAAATGTTTTTTTAAAACTATAT
1 AATTATAT-GTTTT-CAAAATG-TTTTTAAAAACTATAT
78304 AACTTATATGTTTTCAAAATGTTTTTAAAAAC----T
1 AA-TTATATGTTTTCAAAATGTTTTTAAAAACTATAT
*
78337 -A-TATAT-TTTTCAAAAT-TTTTTAAAAATATATAT
1 AATTATATGTTTTCAAAATGTTTTTAAAAA-CTATAT
*
78370 AATATATATATTTTCAAAAATG-TTTTAAAAACTATAT
1 AAT-TATATGTTTTC-AAAATGTTTTTAAAAACTATAT
*
78407 -ATTATATTTATTTTCAAAATGTTTTTAAAAAAACTATAT
1 AATTATA--TGTTTTCAAAATGTTTTT--AAAAACTATAT
*
78446 AATATATAAATGTTTTCAAACATG-TTTTCAAAACTAT
1 AAT-TAT--ATGTTTTCAAA-ATGTTTTTAAAAACTAT
78483 TTATTTTCAA
Statistics
Matches: 151, Mismatches: 6, Indels: 44
0.75 0.03 0.22
Matches are distributed among these distances:
28 10 0.07
29 10 0.07
30 5 0.03
32 1 0.01
33 2 0.01
34 1 0.01
35 4 0.03
36 13 0.09
37 31 0.21
38 20 0.13
39 26 0.17
40 8 0.05
41 16 0.11
42 3 0.02
43 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (36 bp):
AATTATATGTTTTCAAAATGTTTTTAAAAACTATAT
Found at i:78342 original size:39 final size:38
Alignment explanation
Indices: 78265--78482 Score: 153
Period size: 39 Copynumber: 5.9 Consensus size: 38
78255 ATGTTTTCAA
* *
78265 AATTATATAGTTTTAAAAAATGTTTTTTTAAAACTATATA-
1 AATTATAT-GTTTT-CAAAATG-TTTTTAAAAACTATATAT
*
78305 ACTTATATGTTTTCAAAATGTTTTTAAAAAC------T
1 AATTATATGTTTTCAAAATGTTTTTAAAAACTATATAT
78337 -A-TATAT-TTTTCAAAAT-TTTTTAAAAA-TATATAT
1 AATTATATGTTTTCAAAATGTTTTTAAAAACTATATAT
*
78370 AATATATATATTTTCAAAAATG-TTTTAAAAACTATATAT
1 AAT-TATATGTTTTC-AAAATGTTTTTAAAAACTATATAT
* * *
78409 TA-TATTTATTTTCAAAATGTTTTTAAAAAAACTATATA-
1 AATTATATGTTTTCAAAATGTTTTT--AAAAACTATATAT
* *
78447 ATATATAAATGTTTTCAAACATG-TTTTCAAAACTAT
1 A-AT-TATATGTTTTCAAA-ATGTTTTTAAAAACTAT
78483 TTATTTTCAA
Statistics
Matches: 146, Mismatches: 11, Indels: 43
0.73 0.05 0.22
Matches are distributed among these distances:
28 10 0.07
29 10 0.07
30 5 0.03
33 1 0.01
34 1 0.01
36 11 0.08
37 29 0.20
38 20 0.14
39 34 0.23
40 7 0.05
41 15 0.10
42 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (38 bp):
AATTATATGTTTTCAAAATGTTTTTAAAAACTATATAT
Found at i:78345 original size:28 final size:26
Alignment explanation
Indices: 78308--78369 Score: 88
Period size: 28 Copynumber: 2.3 Consensus size: 26
78298 CTATATAACT
*
78308 TATATGTTTTCAAAATGTTTTTAAAAA
1 TATATATTTTCAAAAT-TTTTTAAAAA
78335 CTATATATTTTTCAAAATTTTTTAAAAA
1 -TATATA-TTTTCAAAATTTTTTAAAAA
78363 TATATAT
1 TATATAT
78370 AATATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 1 0.03
27 6 0.19
28 15 0.47
29 10 0.31
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (26 bp):
TATATATTTTCAAAATTTTTTAAAAA
Found at i:78347 original size:29 final size:29
Alignment explanation
Indices: 78304--78369 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 29
78294 AAAACTATAT
78304 AACT-TATATGTTTTCAAAATGTTTTTAAA
1 AACTATATATGTTTTCAAAAT-TTTTTAAA
78333 AACTATATAT-TTTTCAAAATTTTTTAAA
1 AACTATATATGTTTTCAAAATTTTTTAAA
78361 AA-TATATAT
1 AACTATATAT
78370 AATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 7 0.19
28 10 0.28
29 14 0.39
30 5 0.14
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (29 bp):
AACTATATATGTTTTCAAAATTTTTTAAA
Found at i:78384 original size:66 final size:65
Alignment explanation
Indices: 78201--78500 Score: 221
Period size: 68 Copynumber: 4.3 Consensus size: 65
78191 AATCTATATA
* * * * * *
78201 ATATATATTTTCAAAAGTATTTTAAAATTATATATATTATA-ATTTTTATTAAAAATGTTTTCAA
1 ATATAT-TTTTCAAAA-TTTTTTAAAAATATATATAATATATA-TGTT-TTCAAAATGTTTTAAA
*
78265 AATT
62 AACT
** * *
78269 ATATAGTTTTAAAAAATGTTTTTTTAAAACTATATA-ACT-TATATGTTTTCAAAATGTTTTTAA
1 ATATA-TTTTTCAAAA---TTTTTTAAAAATATATATAATATATATGTTTTCAAAATG-TTTTAA
78332 AAACT
61 AAACT
*
78337 ATATATTTTTCAAAATTTTTTAAAAATATATATAATATATATATTTTCAAAAATGTTTTAAAAAC
1 ATATATTTTTCAAAATTTTTTAAAAATATATATAATATATATGTTTTC-AAAATGTTTTAAAAAC
78402 TATAT
65 ----T
*
78407 ATTATATTTATTTTCAAAATGTTTTTAAAAAAACTATATAATATATAAATGTTTTCAAACATGTT
1 A-TATA--T-TTTTCAAAAT-TTTTTAAAAATA-TATATAATATAT--ATGTTTTCAAA-ATGTT
*
78472 TTCAAAACT
57 TTAAAAACT
* *
78481 ATTTA-TTTTCAATATTTTTT
1 ATATATTTTTCAAAATTTTTT
78501 TTAGAAAAAT
Statistics
Matches: 191, Mismatches: 20, Indels: 42
0.75 0.08 0.17
Matches are distributed among these distances:
64 16 0.08
65 2 0.01
66 20 0.10
67 22 0.12
68 36 0.19
69 13 0.07
70 17 0.09
71 4 0.02
73 4 0.02
74 12 0.06
75 11 0.06
76 12 0.06
77 3 0.02
78 19 0.10
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (65 bp):
ATATATTTTTCAAAATTTTTTAAAAATATATATAATATATATGTTTTCAAAATGTTTTAAAAACT
Found at i:78462 original size:78 final size:74
Alignment explanation
Indices: 78343--78487 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 74
78333 AACTATATAT
*
78343 TTTTCAAAATTTTTTAAAAATATATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATA
1 TTTTCAAAATTTTTTAAAAAAATATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATA
78408 TTATATTTA
66 TTATATTTA
* * *
78417 TTTTCAAAATGTTTTTAAAAAAACTATATAATATATAAATGTTTTCAAACATGTTTTCAAAACTA
1 TTTTCAAAAT-TTTTTAAAAAAA-TATATAATATAT--ATATTTTCAAAAATGTTTTAAAAACTA
*
78482 TTTATT
62 TATATT
78488 TTCAATATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
74 10 0.16
75 11 0.18
76 12 0.19
78 29 0.47
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (74 bp):
TTTTCAAAATTTTTTAAAAAAATATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATA
TTATATTTA
Found at i:79379 original size:58 final size:58
Alignment explanation
Indices: 79289--79403 Score: 194
Period size: 58 Copynumber: 2.0 Consensus size: 58
79279 CATTTTGATG
* *
79289 ATTAGTTGATATTATTTGGTCACGTAAAACCTTTTGACCTGCCACTTTGATTCCGTTA
1 ATTAGTTGATATTATTTGGACACGTAAAACCTTTTGACCTACCACTTTGATTCCGTTA
* *
79347 ATTAGTTGATATTATTTGGACATGTAAAACCTTTTGACCTACTACTTTGATTCCGTT
1 ATTAGTTGATATTATTTGGACACGTAAAACCTTTTGACCTACCACTTTGATTCCGTT
79404 TAAAAATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (58 bp):
ATTAGTTGATATTATTTGGACACGTAAAACCTTTTGACCTACCACTTTGATTCCGTTA
Found at i:79650 original size:54 final size:55
Alignment explanation
Indices: 79551--79663 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 55
79541 GCTTGACTCA
* * * * *
79551 TTGCTCGTTAAGCTCATTAAAATTTTGCTTGATTTGTGTTAGTTAA-AAAATTTG
1 TTGCTCGTTAAACTCATTAAAATTTTGCTCGACTCGTCTTAGTTAAGAAAATTTG
*
79605 TTGCTCGTTAAACTCGTTAAAATTTTGCTCGACTCGTACTT-GTTAAGAAAATTTG
1 TTGCTCGTTAAACTCATTAAAATTTTGCTCGACTCGT-CTTAGTTAAGAAAATTTG
79660 TTGC
1 TTGC
79664 CCGACTTGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 37 0.73
55 14 0.27
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (55 bp):
TTGCTCGTTAAACTCATTAAAATTTTGCTCGACTCGTCTTAGTTAAGAAAATTTG
Found at i:81059 original size:21 final size:18
Alignment explanation
Indices: 81010--81061 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
81000 TTGTTATAGC
81010 AGTTAAGGTTGTTAGGAT
1 AGTTAAGGTTGTTAGGAT
**
81028 -GTTAACATTGTTAGTTGAAT
1 AGTTAAGGTTGTTAG--G-AT
81048 AGTTAAGGTTGTTA
1 AGTTAAGGTTGTTA
81062 CATTAGTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 12 0.46
19 1 0.04
20 2 0.08
21 11 0.42
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (18 bp):
AGTTAAGGTTGTTAGGAT
Found at i:82357 original size:36 final size:35
Alignment explanation
Indices: 82276--82418 Score: 135
Period size: 36 Copynumber: 4.0 Consensus size: 35
82266 TGAACAAGAA
* * * * * *
82276 GAACGAAAGGAAACAACAACACTTTTGATTTAAGT
1 GAACGGAAGGAAGCATCGACACTTTCGATTCAAGT
* *
82311 GAACGGAAGGAAGTATCGACACTATCGATTCAAGT
1 GAACGGAAGGAAGCATCGACACTTTCGATTCAAGT
* * * *
82346 CGAATGGAAGGAAACATCGGCACTTTCGATTCAAATT
1 -GAACGGAAGGAAGCATCGACACTTTCGATTC-AAGT
*
82383 GAACGGAAGGAGGCATC-ATCACTTTCGATTCAAGT
1 GAACGGAAGGAAGCATCGA-CACTTTCGATTCAAGT
82418 G
1 G
82419 TTCATCTTTT
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
35 31 0.36
36 52 0.60
37 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.22
Consensus pattern (35 bp):
GAACGGAAGGAAGCATCGACACTTTCGATTCAAGT
Found at i:85616 original size:2 final size:2
Alignment explanation
Indices: 85604--85634 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
85594 TTATAAGAAA
85604 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85635 TATTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85669 original size:23 final size:25
Alignment explanation
Indices: 85629--85675 Score: 71
Period size: 23 Copynumber: 1.9 Consensus size: 25
85619 ATATATATAT
85629 ATATATTATTTATTTTTATAAATAAG
1 ATATATTATTTA-TTTTATAAATAAG
85655 ATATA-TATTTA-TTTATAAATA
1 ATATATTATTTATTTTATAAATA
85676 TCAGAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATATATTATTTATTTTATAAATAAG
Found at i:85912 original size:142 final size:141
Alignment explanation
Indices: 85643--85900 Score: 378
Period size: 141 Copynumber: 1.8 Consensus size: 141
85633 ATTATTTATT
85643 TTTATAAATAAGATATATATTTATTTATAAATATCAGAAAATGACTTCTAGGTGCTTTAAGACAA
1 TTTATAAATAAGATATATATTTATTTATAAATATCAGAAAATGACTTCTAGGTGCTTTAAGACAA
****
85708 CCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTTTTCTAAAAATAATAATAAA
66 CCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTAAAATAAAAATAATAATAAA
85773 TTAATATATAA
131 TTAATATATAA
* *
85784 TTTATAAAATAAGATATTTATTTATTTA-AGAATATCAGAAAATGACTTCTAGGTGTTTTAA-AC
1 TTTAT-AAATAAGATATATATTTATTTATA-AATATCAGAAAATGACTTCTAGGTGCTTTAAGAC
* * * *
85847 ATCTCATTTCTTAATATTGAAAAATAAATAAATATTAA-AACAAGATTAAAATAA
64 AACCCATTTCTTAATATTAAAAAATAAATAAATATTAATAA-AACATTAAAATAA
85901 TTTATATTAA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
140 2 0.02
141 51 0.49
142 51 0.49
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (141 bp):
TTTATAAATAAGATATATATTTATTTATAAATATCAGAAAATGACTTCTAGGTGCTTTAAGACAA
CCCATTTCTTAATATTAAAAAATAAATAAATATTAATAAAACATTAAAATAAAAATAATAATAAA
TTAATATATAA
Found at i:86085 original size:9 final size:8
Alignment explanation
Indices: 86067--86116 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
86057 AATAATAATA
86067 ATTAAAAT
1 ATTAAAAT
86075 ATTAAACAT
1 ATTAAA-AT
86084 ATTAAAAT
1 ATTAAAAT
**
86092 ATTTTAAT
1 ATTAAAAT
*
86100 ACTAAAAT
1 ATTAAAAT
86108 AATTAAAAT
1 -ATTAAAAT
86117 TCAAACTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
8 19 0.56
9 15 0.44
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTAAAAT
Found at i:87432 original size:3 final size:3
Alignment explanation
Indices: 87424--87521 Score: 110
Period size: 3 Copynumber: 33.0 Consensus size: 3
87414 ATGTAATATG
* *
87424 TAA TAA TAA TATT TAT TAA TAA TAA TAA -AA T-A TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
87468 TAA TAA TAA TAA TAA TTA TAA CAA TTA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
87516 AAA TAA
1 TAA TAA
87522 AACGGGCCAA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
2 4 0.05
3 74 0.93
4 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:87775 original size:17 final size:17
Alignment explanation
Indices: 87753--87797 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
87743 AAAGTTGAAC
87753 AAATTCTTCTCATTATG
1 AAATTCTTCTCATTATG
87770 AAATTCTTCTCATTATG
1 AAATTCTTCTCATTATG
* *
87787 GATTTCTTCTC
1 AAATTCTTCTC
87798 CTTCTTCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.49
Consensus pattern (17 bp):
AAATTCTTCTCATTATG
Done.