Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 47 of 79
Found at i:15704745 original size:56 final size:55
Alignment explanation
Indices: 15704685--15704853 Score: 120
Period size: 56 Copynumber: 3.1 Consensus size: 55
15704675 GATGTATAAG
15704685 ATGAAAAAGATGATCACAATAGATAAGATGGAAATTTGTTGAGAGCAAATCTCTAA
1 ATGAAAAAGAT-ATCACAATAGATAAGATGGAAATTTGTTGAGAGCAAATCTCTAA
* * * * * * * *
15704741 ATGAACAA-AT-TAATC-A-AGAT-AGCA---AATTTTGCTGAGATACGAGATGTATAA
1 ATGAAAAAGATATCA-CAATAGATAAG-ATGGAAATTTGTTGAGA-GC-AAATCTCTAA
* * *
15704792 GATGAAAAAGATTATCACAATGGATAATATGGAAATTTGTTGAGAGCAAAGCTCTAA
1 -ATGAAAAAGA-TATCACAATAGATAAGATGGAAATTTGTTGAGAGCAAATCTCTAA
15704849 ATGAA
1 ATGAA
15704854 CAAATTAAAC
Statistics
Matches: 80, Mismatches: 19, Indels: 28
0.63 0.15 0.22
Matches are distributed among these distances:
49 11 0.14
50 1 0.01
51 9 0.11
52 12 0.15
53 4 0.05
54 3 0.04
55 5 0.06
56 16 0.20
57 7 0.09
58 1 0.01
59 11 0.14
ACGTcount: A:0.46, C:0.09, G:0.20, T:0.26
Consensus pattern (55 bp):
ATGAAAAAGATATCACAATAGATAAGATGGAAATTTGTTGAGAGCAAATCTCTAA
Found at i:15704767 original size:108 final size:108
Alignment explanation
Indices: 15704606--15704878 Score: 456
Period size: 108 Copynumber: 2.5 Consensus size: 108
15704596 TGGACAAAAT
** *
15704606 GAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAATCAATCAAGATAGCAAATTTTGCTGAGAT
1 GAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAATTAATCAAGATAGCAAATTTTGCTGAGAT
15704671 ACGAGATGTATAAGATGAAAAAGATGATCACAATAGATAAGATG
65 ACGAGATGTATAAGATGAAAAAGATGATCACAATAGATAAGATG
*
15704715 GAAATTTGTTGAGAGCAAATCTCTAAATGAACAAATTAATCAAGATAGCAAATTTTGCTGAGATA
1 GAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAATTAATCAAGATAGCAAATTTTGCTGAGATA
* * *
15704780 CGAGATGTATAAGATGAAAAAGATTATCACAATGGATAATATG
66 CGAGATGTATAAGATGAAAAAGATGATCACAATAGATAAGATG
* *
15704823 GAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAATTAAACAAGATAGAAAATTTT
1 GAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAATTAATCAAGATAGCAAATTTT
15704879 TCTAGAATAC
Statistics
Matches: 154, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 150 0.97
109 4 0.03
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (108 bp):
GAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAATTAATCAAGATAGCAAATTTTGCTGAGATA
CGAGATGTATAAGATGAAAAAGATGATCACAATAGATAAGATG
Found at i:15705703 original size:9 final size:9
Alignment explanation
Indices: 15705689--15705741 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
15705679 CCAGTAGAGG
15705689 TTTTTTGTT
1 TTTTTTGTT
*
15705698 TTTTTTGTC
1 TTTTTTGTT
*
15705707 TCTTTTGTT
1 TTTTTTGTT
* *
15705716 CTTTTTCTT
1 TTTTTTGTT
15705725 TGTTTTTGTGT
1 T-TTTTTGT-T
15705736 TTTTTT
1 TTTTTT
15705742 TGCCTCCACT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
9 21 0.62
10 11 0.32
11 2 0.06
ACGTcount: A:0.00, C:0.08, G:0.11, T:0.81
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:15713296 original size:32 final size:30
Alignment explanation
Indices: 15713226--15713300 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 30
15713216 GGGGGTAAAT
15713226 GGGGAAATAAAAGATTTTTTGGAGTAAAGGG
1 GGGGAAAT-AAAGATTTTTTGGAGTAAAGGG
*
15713257 GAAGGAAAGTAAAGATTTTTTAGG-GTAAAGGAG
1 G-GGGAAA-TAAAGATTTTTT-GGAGTAAAGG-G
15713290 GGGGAAATAAA
1 GGGGAAATAAA
15713301 ATATTTGTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
31 5 0.13
32 28 0.74
33 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.23
Consensus pattern (30 bp):
GGGGAAATAAAGATTTTTTGGAGTAAAGGG
Found at i:15713760 original size:18 final size:17
Alignment explanation
Indices: 15713729--15713764 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
15713719 GGTAGTTTGG
15713729 TATTCAGTTATTTGAAT
1 TATTCAGTTATTTGAAT
*
15713746 TATTCGAGTTTTTTGAAT
1 TATTC-AGTTATTTGAAT
15713764 T
1 T
15713765 TGAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (17 bp):
TATTCAGTTATTTGAAT
Found at i:15714010 original size:330 final size:329
Alignment explanation
Indices: 15713345--15714010 Score: 1170
Period size: 329 Copynumber: 2.0 Consensus size: 329
15713335 AGAGGGAGGG
*
15713345 AAAGTAAATTTTTTTTTGAAAAGAATAGGGGCGTGGGGGAGAAGGGGTAGTTTGGTAGTCAGTTA
1 AAAGTAAAATTTTTTTTGAAAAGAATAGGGGCGTGGGGGAGAAGGGGTAGTTTGGTAGTCAGTTA
*
15713410 TTTGAATTAGTCGAATTTTTTGAATTCGAAAATTGAACTTGACTCGAACTCAAAATTTGAAAACA
66 TTTGAATTAGTCGAATTTTTTGAATTCGAAAATTGAACTTGACTCGAACTCAAAATTAGAAAACA
*
15713475 ATATCGAGCTGACTCGATTAACTCAATTAAATCAATTCGAATAATTTGAAATGTGAACTTCTTTT
131 ATATCGAGCTGACTCGATTAACTCAATTAAATCAATTCAAATAATTTGAAATGTGAACTTCTTTT
*
15713540 TCTCAATTTTTTGAATCGAATTAATTTTACTCAGTTCTACCTACGTCATTTATTAATGGTCTCTT
196 TCTCAATTTTTTGAATCGAATTAATTTTACTCACTTCTACCTACGTCATTTATTAATGGTCTCTT
*
15713605 GTGATGACATGAAAATTTAACTACCCCAAGGTAGGATTCTCACGTGGATCTCATCGAGGAGATTT
261 GTGATGACATGAAAATTTAACCACCCCAAGGTAGGATTCTCACGTGGATCTCATCGAGGAGATTT
* *
15713670 AGGG
326 ACGA
*
15713674 AAAGTAAAATTTTTTTTGAAAAGAATAGGGGCGTGGGGGAGAAGGGGTAGTTTGGTATTCAGTTA
1 AAAGTAAAATTTTTTTTGAAAAGAATAGGGGCGTGGGGGAGAAGGGGTAGTTTGGTAGTCAGTTA
* * *
15713739 TTTGAATTATTCGAGTTTTTTGAATTTGAAAATTGAACTTGACTCGAACTCAAAATTAGAAAACA
66 TTTGAATTAGTCGAATTTTTTGAATTCGAAAATTGAACTTGACTCGAACTCAAAATTAGAAAACA
* *
15713804 ATATCGAGTTGACTCGATTAACTCGATTAAATCAATTCAAATAATTTGAAATGTGAACTTCTTTT
131 ATATCGAGCTGACTCGATTAACTCAATTAAATCAATTCAAATAATTTGAAATGTGAACTTCTTTT
* *
15713869 TCTCAATTTTTTGAATCGAATTAAATTTTGCTTACTTCTACCTACGTCATTTATTAATGGTCTCT
196 TCTCAATTTTTTGAATCGAATT-AATTTTACTCACTTCTACCTACGTCATTTATTAATGGTCTCT
15713934 TGTGATGACATGAAAATTTAACCACCCCAAGGTAGGATTCTCACGTGGATCTCATCGAGGAGATT
260 TGTGATGACATGAAAATTTAACCACCCCAAGGTAGGATTCTCACGTGGATCTCATCGAGGAGATT
* *
15713999 TCCTA
325 TACGA
15714004 AAAGTAA
1 AAAGTAA
15714011 GTAGAACTCT
Statistics
Matches: 319, Mismatches: 17, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
329 208 0.65
330 111 0.35
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (329 bp):
AAAGTAAAATTTTTTTTGAAAAGAATAGGGGCGTGGGGGAGAAGGGGTAGTTTGGTAGTCAGTTA
TTTGAATTAGTCGAATTTTTTGAATTCGAAAATTGAACTTGACTCGAACTCAAAATTAGAAAACA
ATATCGAGCTGACTCGATTAACTCAATTAAATCAATTCAAATAATTTGAAATGTGAACTTCTTTT
TCTCAATTTTTTGAATCGAATTAATTTTACTCACTTCTACCTACGTCATTTATTAATGGTCTCTT
GTGATGACATGAAAATTTAACCACCCCAAGGTAGGATTCTCACGTGGATCTCATCGAGGAGATTT
ACGA
Found at i:15715474 original size:37 final size:38
Alignment explanation
Indices: 15715389--15715475 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 38
15715379 TGGCACCTAG
* *
15715389 TGCCTCATCGGCTAATTCGAAGTAATAAATTGACACCCAG
1 TGCCTCATCGGCTAAATCGAAG--ATAAATTGACACCCAA
** * *
15715429 TGTATCATCGGCTAAATCGAAG-TAAATTGGCACTCAA
1 TGCCTCATCGGCTAAATCGAAGATAAATTGACACCCAA
15715466 TGCCTCATCG
1 TGCCTCATCG
15715476 AATTAATCCA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
37 20 0.51
40 19 0.49
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (38 bp):
TGCCTCATCGGCTAAATCGAAGATAAATTGACACCCAA
Found at i:15716213 original size:24 final size:24
Alignment explanation
Indices: 15716186--15716234 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15716176 AACAAAAAAA
15716186 ACACTTAAAAACTTAATAATTTCT
1 ACACTTAAAAACTTAATAATTTCT
15716210 ACACTTAAAAACTTAATAATTTCT
1 ACACTTAAAAACTTAATAATTTCT
15716234 A
1 A
15716235 AAATTTTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (24 bp):
ACACTTAAAAACTTAATAATTTCT
Found at i:15723999 original size:16 final size:14
Alignment explanation
Indices: 15723961--15724021 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 14
15723951 CTTTGTTCCC
*
15723961 CTTTTTTTCTTTTT
1 CTTTGTTTCTTTTT
15723975 CTTCCTGTTTCGTTTGTT
1 CTT--TGTTTC-TTT-TT
15723993 CTTTGTTTCTTTTT
1 CTTTGTTTCTTTTT
*
15724007 CTTTTATTTCTTTTT
1 C-TTTGTTTCTTTTT
15724022 TTATTATTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 6 0.15
15 15 0.38
16 11 0.28
17 3 0.08
18 5 0.12
ACGTcount: A:0.02, C:0.16, G:0.07, T:0.75
Consensus pattern (14 bp):
CTTTGTTTCTTTTT
Found at i:15731654 original size:12 final size:12
Alignment explanation
Indices: 15731633--15731665 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
15731623 TAAAATATAA
15731633 AAAT-ATTTTTT
1 AAATAATTTTTT
15731644 AAATAATTTTTT
1 AAATAATTTTTT
15731656 -AATAATTTTT
1 AAATAATTTTT
15731666 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
AAATAATTTTTT
Found at i:15731668 original size:29 final size:28
Alignment explanation
Indices: 15731636--15731694 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 28
15731626 AATATAAAAA
15731636 TATTTTTTAAATAAT-TTTTTAATAATTTT
1 TATTTTTTAAA-AATATTTTT-ATAATTTT
15731665 TATTTTTTAAAAATAGTTTTTATAATTTT
1 TATTTTTTAAAAATA-TTTTTATAATTTT
15731694 T
1 T
15731695 TAAATTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 3 0.11
29 20 0.71
30 5 0.18
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
TATTTTTTAAAAATATTTTTATAATTTT
Found at i:15731690 original size:40 final size:39
Alignment explanation
Indices: 15731608--15731716 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 39
15731598 AACATTGAAT
* * *
15731608 TAATTTTTTAGAA--TTTAAAATATAAAAATATTTTTTAAA
1 TAATTTTTTA-AATTTTTAAATTTTAAAAATAGTTTTT-AA
**
15731647 TAATTTTTTAATAATTTTTATTTTTTAAAAATAGTTTTT-A
1 TAATTTTTT-A-AATTTTTAAATTTTAAAAATAGTTTTTAA
15731687 TAATTTTTTAAATTTTTAAATTTTAAAAAT
1 TAATTTTTTAAATTTTTAAATTTTAAAAAT
15731717 TAATTAAATG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
38 18 0.31
39 10 0.17
40 13 0.22
42 18 0.31
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (39 bp):
TAATTTTTTAAATTTTTAAATTTTAAAAATAGTTTTTAA
Found at i:15731703 original size:31 final size:29
Alignment explanation
Indices: 15731639--15731707 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
15731629 ATAAAAATAT
*
15731639 TTTTTAAATAATTTTTTAATAATTTTTAT
1 TTTTTAAATAATTTTTTAATAATTTTTAA
15731668 TTTTTAAA-AATAGTTTTT-ATAATTTTTTAAA
1 TTTTTAAATAAT--TTTTTAATAA-TTTTT-AA
15731699 TTTTTAAAT
1 TTTTTAAAT
15731708 TTTAAAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
28 3 0.09
29 12 0.35
30 10 0.29
31 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (29 bp):
TTTTTAAATAATTTTTTAATAATTTTTAA
Found at i:15731707 original size:29 final size:28
Alignment explanation
Indices: 15731639--15731707 Score: 68
Period size: 31 Copynumber: 2.3 Consensus size: 28
15731629 ATAAAAATAT
*
15731639 TTTTTAAATAATTTTTTAATAATTTTTAT
1 TTTTTAAATAATTTTTTAAT-ATTTTTAA
*
15731668 TTTTTAAAAATAGTTTTTATAAT-TTTTTAAA
1 TTTTT--AAATAATTTTT-TAATATTTTT-AA
15731699 TTTTTAAAT
1 TTTTTAAAT
15731708 TTTAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
29 9 0.26
30 5 0.15
31 16 0.47
32 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTTAAATAATTTTTTAATATTTTTAA
Found at i:15732229 original size:2 final size:2
Alignment explanation
Indices: 15732222--15732251 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15732212 TAATTTTCTA
*
15732222 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15732252 TTGTTAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15733637 original size:24 final size:24
Alignment explanation
Indices: 15733610--15733661 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15733600 TTAGTAAGTC
*
15733610 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15733634 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15733658 AAAT
1 AAAT
15733662 CTTTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:15735599 original size:24 final size:24
Alignment explanation
Indices: 15735572--15735623 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15735562 TTAGTAAGTC
*
15735572 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15735596 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15735620 AAAT
1 AAAT
15735624 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:15737371 original size:23 final size:22
Alignment explanation
Indices: 15737328--15737385 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
15737318 AAAAGGTATC
* *
15737328 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
15737349 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
15737372 TGCATATCATATCT
1 TACAAATCATATCT
15737386 AAGTTAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:15737379 original size:17 final size:19
Alignment explanation
Indices: 15737364--15737415 Score: 81
Period size: 17 Copynumber: 2.8 Consensus size: 19
15737354 AATCATATCT
15737364 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15737383 TCTAAG-TT-AATATCATA
1 TCTAAGATTGCATATCATA
15737400 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15737416 CTTGAAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 14 0.48
18 4 0.14
19 11 0.38
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15738354 original size:50 final size:50
Alignment explanation
Indices: 15738238--15738355 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 50
15738228 TCGAAGCTTT
* *
15738238 AACGCCAGGGAGATAAGATTCACCGTCGTGGCGTCAATCTGCTCCGCTAC
1 AACGCCAAGGAGATAAGATTCACCGTCGTGGCGTCAATCTGCTCCACTAC
* * * * ** * *
15738288 AACGCCAGGGAAATAAGATTCACCGTTGTGGCTTCAATCTTTTCCATTGC
1 AACGCCAAGGAGATAAGATTCACCGTCGTGGCGTCAATCTGCTCCACTAC
* *
15738338 AACGTCAAGGTGATAAGA
1 AACGCCAAGGAGATAAGA
15738356 CTGATGTCTT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.24
Consensus pattern (50 bp):
AACGCCAAGGAGATAAGATTCACCGTCGTGGCGTCAATCTGCTCCACTAC
Found at i:15738460 original size:44 final size:43
Alignment explanation
Indices: 15738409--15738530 Score: 156
Period size: 44 Copynumber: 2.8 Consensus size: 43
15738399 ATCTGCTATT
* * * *
15738409 TTCAACCTACTCCATTGTTGCTCAGGAAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTGC-CAGGGAGATAGGACTT-ACAATC
*
15738453 TTTAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTG-CCAGGGAGATAGGACTTACAATC
15738497 TTCAACCTATTCCACTGCTGCCCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTG-CCAGGGAGATAGG
15738531 GTTGGGGTCA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
44 66 0.96
45 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
TTCAACCTATTCCACTGCTGCCAGGGAGATAGGACTTACAATC
Found at i:15738649 original size:88 final size:88
Alignment explanation
Indices: 15738541--15739022 Score: 743
Period size: 88 Copynumber: 5.5 Consensus size: 88
15738531 GTTGGGGTCA
*
15738541 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
*
15738606 CCAGGGAGGCAAGCCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
15738629 TCGATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATCTGTTA-TTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
* *
15738693 CTAGGGAGGTAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
15738716 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
* *
15738781 CCAGGGAGGCAAGGTTGGTGTTT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
15738804 TCGATTTGCTTCGCTGTCGGTGCAGGAAGACAAGATCTG-TAATTTTTAACCTGCTCCACTGCAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT-ATTTTTAACCTGCTTCGCTGCAA
*
15738868 CTCAGGGAGGCAAGGCTGGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * * *
15738892 TCGATCTGCTTCGCTGTCAGTGCAGGAAGACAAGATTTGCTATTTTTAACCTGCTTCGCTGCAAT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
*
15738957 CCAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
15738980 TCGATCTGTTTCGCTGTCGGTGGAGGAAGGCAAGATCTGCTAT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAT
15739023 CTTCACTGAT
Statistics
Matches: 355, Mismatches: 36, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
87 81 0.23
88 273 0.77
89 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:15738660 original size:44 final size:44
Alignment explanation
Indices: 15738541--15739013 Score: 136
Period size: 44 Copynumber: 10.8 Consensus size: 44
15738531 GTTGGGGTCA
* * * *
15738541 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG-CCTGGTGTCT
** * * **** *
15738586 TTAACCTACTTCGCTG-CAACCCAGGGAGGCAAGCCTGGTGTCT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGCCTGGTGTCT
* * * *
15738629 TCGATCTGCTTTGCTGTCGGTGCAGGAAGGCAAGATCTGTTAT-T
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG-CCTGGTGTCT
** * * *** * * *
15738673 TTAACCTGCTCCGCTG-C-AACCTAGGGAGGTAAGGCTGGTGTCT
1 TCGATCTGCTTCGCTGTCGGTGC-AGGAAGGCAAGCCTGGTGTCT
* * * *
15738716 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG-CCTGGTGTCT
** * * **** * ** *
15738761 TTAACCTGCTTCGCT-ACAACCCAGGGAGGCAAGGTTGGTGTTT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGCCTGGTGTCT
* * * * *
15738804 TCGATTTGCTTCGCTGTCGGTGCAGGAAGACAAGATCT-GTAATTT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG-CCTGGT-GTCT
** * * * ** * *
15738849 TTAACCTGCTCCACTG-CAACT-CAGGGAGGCAAGGCTGGTGTCT
1 TCGATCTGCTTCGCTGTC-GGTGCAGGAAGGCAAGCCTGGTGTCT
* * ** * * *
15738892 TCGATCTGCTTCGCTGTCAGTGCAGGAAGACAAGATTTGCTATTT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG-CCTGGTGTCT
** * ** * * * *
15738937 TTAACCTGCTTCGCTG-CAATCCAGGGAGGCAAGGCTAGTGTCT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGCCTGGTGTCT
* *
15738980 TCGATCTGTTTCGCTGTCGGTGGAGGAAGGCAAG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAG
15739014 ATCTGCTATC
Statistics
Matches: 285, Mismatches: 127, Indels: 33
0.64 0.29 0.07
Matches are distributed among these distances:
42 6 0.02
43 90 0.32
44 120 0.42
45 69 0.24
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (44 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGCCTGGTGTCT
Found at i:15741206 original size:20 final size:20
Alignment explanation
Indices: 15741181--15741223 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
15741171 CTATTTGTAC
15741181 AATATAATTATGAATAAAAG
1 AATATAATTATGAATAAAAG
*
15741201 AATATAATTATGAATGAAAG
1 AATATAATTATGAATAAAAG
15741221 AAT
1 AAT
15741224 GATGTGGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (20 bp):
AATATAATTATGAATAAAAG
Found at i:15745019 original size:19 final size:19
Alignment explanation
Indices: 15744962--15745076 Score: 149
Period size: 19 Copynumber: 5.8 Consensus size: 19
15744952 AAATTAAATC
*
15744962 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
* *
15744982 TCTTTTAATATTGCATATCATA
1 TC---TAAGATTACATATCATA
15745004 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
15745023 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
15745042 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
15745061 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
15745077 CTTGAAGATT
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
19 66 0.79
20 2 0.02
22 9 0.11
23 7 0.08
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:15745040 original size:38 final size:38
Alignment explanation
Indices: 15744962--15745076 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
15744952 AAATTAAATC
* *
15744962 TCTAAGATTACAAAATCATATCTTTTAATATTGCATATCATA
1 TCTAAGATTAC-ATATCATATC---TAAGATTGCATATCATA
15745004 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
15745042 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
15745077 CTTGAAGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 51 0.72
41 9 0.13
42 11 0.15
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:15750906 original size:30 final size:30
Alignment explanation
Indices: 15750870--15750930 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
15750860 CCAGCCCGCT
** *
15750870 AAAGAAACCAAAC-ACAAAATAATAAATAAA
1 AAAGAAAAAAAACAACAAAACAA-AAATAAA
15750900 AAAGAAAAAAAACAACAAAACAAAAATAAA
1 AAAGAAAAAAAACAACAAAACAAAAATAAA
15750930 A
1 A
15750931 GTTAATGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.79, C:0.11, G:0.03, T:0.07
Consensus pattern (30 bp):
AAAGAAAAAAAACAACAAAACAAAAATAAA
Found at i:15764051 original size:26 final size:26
Alignment explanation
Indices: 15764021--15764074 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
15764011 TTCATATTAC
15764021 TTGTTATTCTTAGAAGACTTTATTCT
1 TTGTTATTCTTAGAAGACTTTATTCT
* * *
15764047 TTGTTGTTCTTGGAATACTTTATTCT
1 TTGTTATTCTTAGAAGACTTTATTCT
15764073 TT
1 TT
15764075 TCAAGATACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.11, G:0.13, T:0.57
Consensus pattern (26 bp):
TTGTTATTCTTAGAAGACTTTATTCT
Found at i:15764974 original size:44 final size:43
Alignment explanation
Indices: 15764926--15765468 Score: 423
Period size: 44 Copynumber: 12.6 Consensus size: 43
15764916 AAACCAATCC
15764926 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-CAGATCT
* * * *** *
15764970 TATCTCTCTGAAGTTGCAATAGAGCAGA-TCGCATCCA-ATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCT
** * * *
15765011 TATCTCCCTGAAGTTGCAGTAAAGCAGATTGAAAAAACTA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT--AAAACCCAGATCT
* * *
15765055 TATCTCCCTAAAGTTTCA-TCGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGT-GGAGCAGATTAAAACC-CAGATCT
* * **
15765099 TATCTCTCTGAAGTTGCAGTAGAGCA-A--AGCACGTCCA-ATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC--CCAGATCT
*
15765140 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAATCCAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AACCCAGATCT
* * *
15765184 TATCTCCCTGAAGTTACAATGGAGCAGATTGAAGAATCCAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AACCCAGATCT
* * * *
15765228 TATCTCCTTGAAGTTGCAATGGAGCAGATTGAAAAATCTAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT--AAAACCCAGATCT
* * ** *
15765272 TATCTCCCTGAAGTTGCAATAGAGCAGACAGAAGAAACCA-ATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCCAGATCT
* *
15765316 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AACCCAGATCT
* *
15765360 TATGTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-CCCAGATCT
* * *** * *
15765404 TATCTCTCTGAAGTTGCAGTTGAGCAGA-TCGCATCTAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCT
*
15765445 TATCTTCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
15765469 TAGAATGAAG
Statistics
Matches: 408, Mismatches: 69, Indels: 47
0.78 0.13 0.09
Matches are distributed among these distances:
41 84 0.21
42 15 0.04
43 15 0.04
44 289 0.71
45 4 0.01
46 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCT
Found at i:15765136 original size:129 final size:128
Alignment explanation
Indices: 15764906--15765345 Score: 508
Period size: 129 Copynumber: 3.4 Consensus size: 128
15764896 CCTTAGAGAA
*
15764906 CAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTT
1 CAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACA-TGGAGCAGATTAAAACCACAGATCTT
* * *
15764971 ATCTCTCTGAAGTTGCAATAGAGCAGATCGCATCCAATCTTATCTCCCTGAAGTTGCAGTAAAG
65 ATCTCTCTGAAGTTGCAATAGAGCAAAGCACATCCAATCTTATCTCCCTGAAGTTGCAGTAAAG
* * * * *
15765035 CAGATTGAAAAAACTAATCCTATCTCCCTAAAGTTTCATCGGAGCGGATTAAAACCACAGATCTT
1 CAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACAT-GGAGCAGATTAAAACCACAGATCTT
* * **
15765100 ATCTCTCTGAAGTTGCAGTAGAGCAAAGCACGTCCAATCTTATCTCCCTGAAGTTGCAGTGGAG
65 ATCTCTCTGAAGTTGCAATAGAGCAAAGCACATCCAATCTTATCTCCCTGAAGTTGCAGTAAAG
* * * *
15765164 CAGATTGAAGAATCCAGTCTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGAATC-CAG-TC
1 CAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTAC-ATGGAGCAGATT-AA-AACCACAGATC
* * * * * * *
15765227 TTATCTC-CTTGAAGTTGCAATGGAGCAGATTGAAAAATCTAGTCTTATCTCCCTGAAGTTGCAA
63 TTATCTCTC-TGAAGTTGCAATAGAGCA-A-AG-CACATCCAATCTTATCTCCCTGAAGTTGCAG
*
15765291 TAGAG
124 TAAAG
** * *
15765296 CAGACAGAAGAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 CAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACA-TGGAGCAGATT
15765346 GAAGAAACCA
Statistics
Matches: 266, Mismatches: 36, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
128 2 0.01
129 179 0.67
130 8 0.03
131 5 0.02
132 72 0.27
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (128 bp):
CAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTACATGGAGCAGATTAAAACCACAGATCTTA
TCTCTCTGAAGTTGCAATAGAGCAAAGCACATCCAATCTTATCTCCCTGAAGTTGCAGTAAAG
Found at i:15765251 original size:88 final size:88
Alignment explanation
Indices: 15764906--15765432 Score: 497
Period size: 88 Copynumber: 6.1 Consensus size: 88
15764896 CCTTAGAGAA
* * * *
15764906 CAGATTGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AACCACAGATC
1 CAGATTGAAGAATCCAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAAAC-CA-ATC
* *
15764969 TTATCTCTCTGAAGTTGCAATAGAG
64 TTATCTCCCTGAAGTTGCAATGGAG
* * * * * *
15764994 CAGA-T--CGCATCCAATCTTATCTCCCTGAAGTTGCAGTAAAGCAGATTGAAAAAACTAATCCT
1 CAGATTGAAGAATCCAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAAACCAATCTT
* *
15765056 ATCTCCCTAAAGTTTC-ATCGGAG
66 ATCTCCCTGAAGTTGCAAT-GGAG
* * * * * *
15765079 CGGATT-AA-AACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-A-AGCACG--TCCAAT
1 CAGATTGAAGAATC-CA-ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTG-AAGAAACCAAT
*
15765138 CTTATCTCCCTGAAGTTGCAGTGGAG
63 CTTATCTCCCTGAAGTTGCAATGGAG
* * * * * *
15765164 CAGATTGAAGAATCCAGTCTTATCTCCCTGAAGTTACAATGGAGCAGATTGAAGAATCCAGTCTT
1 CAGATTGAAGAATCCAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAAACCAATCTT
*
15765229 ATCTCCTTGAAGTTGCAATGGAG
66 ATCTCCCTGAAGTTGCAATGGAG
* * * * **
15765252 CAGATTGAAAAATCTAGTCTTATCTCCCTGAAGTTGCAATAGAGCAGACAGAAGAAACCAATCTT
1 CAGATTGAAGAATCCAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAAACCAATCTT
*
15765317 ATCTCCCTGAAGTTGCAGTGGAG
66 ATCTCCCTGAAGTTGCAATGGAG
* * * * *
15765340 CAGATTGAAGAAACCAATCCTATGTCCCTGAAGTTGCAGTGGAGCAGATT-AA-AAGCACAGATC
1 CAGATTGAAGAATCCAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAAAC-CA-ATC
* * *
15765403 TTATCTCTCTGAAGTTGCAGTTGAG
64 TTATCTCCCTGAAGTTGCAATGGAG
15765428 CAGAT
1 CAGAT
15765433 CGCATCTAGT
Statistics
Matches: 359, Mismatches: 63, Indels: 34
0.79 0.14 0.07
Matches are distributed among these distances:
84 2 0.01
85 113 0.31
86 18 0.05
87 16 0.04
88 210 0.58
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (88 bp):
CAGATTGAAGAATCCAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAAACCAATCTT
ATCTCCCTGAAGTTGCAATGGAG
Found at i:15765683 original size:31 final size:30
Alignment explanation
Indices: 15765625--15765686 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
15765615 CCGGCCCGCT
* *
15765625 AAAGAAACCAAACACAAACTAATAAATAAA
1 AAAGAAAACAAACACAAAATAATAAATAAA
15765655 AAAGAAAAACAAACAACAAAATAA-AAATAAA
1 AAAG-AAAACAAAC-ACAAAATAATAAATAAA
15765686 A
1 A
15765687 GTTAATGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 4 0.14
31 16 0.57
32 8 0.29
ACGTcount: A:0.76, C:0.13, G:0.03, T:0.08
Consensus pattern (30 bp):
AAAGAAAACAAACACAAAATAATAAATAAA
Found at i:15776509 original size:13 final size:13
Alignment explanation
Indices: 15776491--15776554 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
15776481 AGTTCTTTAT
15776491 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
15776504 TGCTTTTCAAAAG
1 TGCTTTTGAGAAG
*
15776517 TGTTTTTGAGAAG
1 TGCTTTTGAGAAG
15776530 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
15776543 TGTTTTTGAGAA
1 TGCTTTTGAGAA
15776555 ATTTGAGTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.25, C:0.06, G:0.27, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:15776529 original size:26 final size:26
Alignment explanation
Indices: 15776494--15776554 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
15776484 TCTTTATTGC
15776494 TTTTGAGAAGTGCTTTTCAAAAGTGT
1 TTTTGAGAAGTGCTTTTCAAAAGTGT
* *
15776520 TTTTGAGAAGTGCTTTTGAGAAGTGT
1 TTTTGAGAAGTGCTTTTCAAAAGTGT
15776546 TTTTGAGAA
1 TTTTGAGAA
15776555 ATTTGAGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.43
Consensus pattern (26 bp):
TTTTGAGAAGTGCTTTTCAAAAGTGT
Found at i:15777024 original size:12 final size:12
Alignment explanation
Indices: 15777007--15777036 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15776997 GTCATTAACC
15777007 CTAGATTATATT
1 CTAGATTATATT
15777019 CTAGATTATATT
1 CTAGATTATATT
15777031 CTAGAT
1 CTAGAT
15777037 CCAAATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (12 bp):
CTAGATTATATT
Found at i:15800085 original size:17 final size:16
Alignment explanation
Indices: 15800065--15800110 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
15800055 TATATATGTA
15800065 TAATAAATATATAAAAT
1 TAATAAATAT-TAAAAT
*
15800082 TAATAATTATTAAAAT
1 TAATAAATATTAAAAT
15800098 CT-ATAAA-ATTAAA
1 -TAATAAATATTAAA
15800111 CTTTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATAAATATTAAAAT
Found at i:15800097 original size:16 final size:17
Alignment explanation
Indices: 15800065--15800097 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15800055 TATATATGTA
15800065 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
15800082 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
15800098 CTATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:15800352 original size:7 final size:7
Alignment explanation
Indices: 15800333--15800365 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
15800323 GCATATTTCA
15800333 AATAATAT
1 AATAAT-T
15800341 AATAATT
1 AATAATT
15800348 AATAATT
1 AATAATT
15800355 AATAATT
1 AATAATT
15800362 AATA
1 AATA
15800366 TATAATGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AATAATT
Found at i:15800359 original size:14 final size:15
Alignment explanation
Indices: 15800333--15800371 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
15800323 GCATATTTCA
15800333 AATAATATAATAATT
1 AATAATATAATAATT
15800348 AATAAT-TAATAATT
1 AATAATATAATAATT
15800362 AAT-ATATAAT
1 AATAATATAAT
15800372 GTACTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 15 0.65
15 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATATAATAATT
Found at i:15810431 original size:12 final size:12
Alignment explanation
Indices: 15810414--15810441 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15810404 ATTGATAGTG
15810414 TAATTCAAAAAT
1 TAATTCAAAAAT
15810426 TAATTCAAAAAT
1 TAATTCAAAAAT
15810438 TAAT
1 TAAT
15810442 ATGATGACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATTCAAAAAT
Found at i:15811392 original size:29 final size:28
Alignment explanation
Indices: 15811327--15811383 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
15811317 CTCGTGTACC
**
15811327 AAAACTTACCTGTCTGCTTATAAAAAAT
1 AAAACTTAAATGTCTGCTTATAAAAAAT
15811355 AAAACTTAAATGTCTGCTTATAAAAAAT
1 AAAACTTAAATGTCTGCTTATAAAAAAT
15811383 A
1 A
15811384 TTCTTTTAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (28 bp):
AAAACTTAAATGTCTGCTTATAAAAAAT
Found at i:15815300 original size:17 final size:17
Alignment explanation
Indices: 15815278--15815311 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15815268 AGCTACAGGG
15815278 GACACACGACCATGTCT
1 GACACACGACCATGTCT
*
15815295 GACACACGACCGTGTCT
1 GACACACGACCATGTCT
15815312 CTACCCGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.35, G:0.21, T:0.18
Consensus pattern (17 bp):
GACACACGACCATGTCT
Found at i:15829433 original size:9 final size:9
Alignment explanation
Indices: 15829415--15829458 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
15829405 ATGTTAATGC
15829415 TAATTATTT
1 TAATTATTT
*
15829424 TAATTTTTT
1 TAATTATTT
* *
15829433 TATTTATTCC
1 TAATTATT-T
15829443 TAATTATTT
1 TAATTATTT
15829452 TAATTAT
1 TAATTAT
15829459 CTAACCTAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (9 bp):
TAATTATTT
Found at i:15831504 original size:21 final size:20
Alignment explanation
Indices: 15831478--15831530 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
15831468 GACACGGCCA
*
15831478 TGTGTTGAGCCACAGT-AGCC
1 TGTGTTGAGCCACA-TCAACC
*
15831498 TTGTGTTAAGCCACATCAACC
1 -TGTGTTGAGCCACATCAACC
15831519 TGTGTTGAGCCA
1 TGTGTTGAGCCA
15831531 TAAGCCTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (20 bp):
TGTGTTGAGCCACATCAACC
Found at i:15845710 original size:35 final size:35
Alignment explanation
Indices: 15845664--15845733 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
15845654 ATTGTGGCAA
15845664 ATAAAGATTCAGGCAATTCTTGCACAGAAGAATTT
1 ATAAAGATTCAGGCAATTCTTGCACAGAAGAATTT
*
15845699 ATAAAGATTCAGGCAATTCTTGCGCAGAAGAATTT
1 ATAAAGATTCAGGCAATTCTTGCACAGAAGAATTT
15845734 GGAGGATGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.29
Consensus pattern (35 bp):
ATAAAGATTCAGGCAATTCTTGCACAGAAGAATTT
Found at i:15850711 original size:1 final size:1
Alignment explanation
Indices: 15850705--15850748 Score: 70
Period size: 1 Copynumber: 44.0 Consensus size: 1
15850695 TCTTTAAAAG
**
15850705 TTTTTTTTTTTTTTTTTTAATTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15850749 GTAGATTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.05, C:0.00, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:15850716 original size:21 final size:21
Alignment explanation
Indices: 15850692--15850737 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
15850682 TATAATTTAA
15850692 TTTTCTTTAAAAGTTTTTTTT
1 TTTTCTTTAAAAGTTTTTTTT
* ** *
15850713 TTTTTTTTTTAATTTTTTTTT
1 TTTTCTTTAAAAGTTTTTTTT
15850734 TTTT
1 TTTT
15850738 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (21 bp):
TTTTCTTTAAAAGTTTTTTTT
Found at i:15850723 original size:23 final size:23
Alignment explanation
Indices: 15850692--15850745 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
15850682 TATAATTTAA
*
15850692 TTTTCTTTAAAAGTTTTTTTTTT
1 TTTTTTTTAAAAGTTTTTTTTTT
***
15850715 TTTTTTTTAATTTTTTTTTTTTT
1 TTTTTTTTAAAAGTTTTTTTTTT
15850738 TTTTTTTT
1 TTTTTTTT
15850746 TTTGTAGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.85
Consensus pattern (23 bp):
TTTTTTTTAAAAGTTTTTTTTTT
Found at i:15852268 original size:11 final size:11
Alignment explanation
Indices: 15852252--15852284 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
15852242 AATCAACAAT
15852252 GGAGGAGATAA
1 GGAGGAGATAA
15852263 GGAGGAGATAA
1 GGAGGAGATAA
15852274 GGAGGAGATAA
1 GGAGGAGATAA
15852285 TGTAACAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (11 bp):
GGAGGAGATAA
Found at i:15861720 original size:2 final size:2
Alignment explanation
Indices: 15861713--15861759 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
15861703 CTATTGTAAG
* * * *
15861713 TA TA TA TA TA TT TA T- TA TT TA TA TA TA TA TG TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15861754 TA TA TA
1 TA TA TA
15861760 AAGGATTCTA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (2 bp):
TA
Found at i:15864999 original size:32 final size:32
Alignment explanation
Indices: 15864958--15865035 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
15864948 TGGTAATTTT
*
15864958 TTAATCAATCTTTATTTCTTTAAGG-GTTTGTA
1 TTAATCAATCTTTATTTC-TTAAGGCATTTGTA
* * *
15864990 TTAATCAATCCTAATTTCTTCAGGCATTTGTA
1 TTAATCAATCTTTATTTCTTAAGGCATTTGTA
*
15865022 TTAATCAACCTTTA
1 TTAATCAATCTTTA
15865036 AAAATTATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 5 0.13
32 33 0.87
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.47
Consensus pattern (32 bp):
TTAATCAATCTTTATTTCTTAAGGCATTTGTA
Found at i:15866634 original size:25 final size:25
Alignment explanation
Indices: 15866604--15866723 Score: 154
Period size: 25 Copynumber: 4.8 Consensus size: 25
15866594 TCCAAAAATT
15866604 CTTTACAGATAACTCGCCACAAAGG
1 CTTTACAGATAACTCGCCACAAAGG
* * *
15866629 CCTTACA-ATTAACTCACCACAAAGA
1 CTTTACAGA-TAACTCGCCACAAAGG
*
15866654 CTTTACA-ATTAACTCGCCATAAAGG
1 CTTTACAGA-TAACTCGCCACAAAGG
15866679 CTTTACAGATAACTCGCCACAAAGG
1 CTTTACAGATAACTCGCCACAAAGG
* *
15866704 CTTTATAGATAACCCGCCAC
1 CTTTACAGATAACTCGCCAC
15866724 CAATGCTAGG
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
24 1 0.01
25 81 0.98
26 1 0.01
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.23
Consensus pattern (25 bp):
CTTTACAGATAACTCGCCACAAAGG
Found at i:15868557 original size:4 final size:4
Alignment explanation
Indices: 15868548--15868963 Score: 567
Period size: 4 Copynumber: 104.8 Consensus size: 4
15868538 CCATGCATCT
*
15868548 ATAC ATAC ATAC ATAC ACAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
15868596 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATCC ATAC ATAC ATCC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
15868644 AT-C TATAC ATAC ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
15868691 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
15868739 ATAC ATAC ATAC ATAC ATAC ATAC ATACC ATAC ATAC A-AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC
* * * *
15868787 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATGC ATGC ATGC ATCC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * * *
15868833 ATCC ATGC ATAC ATCC ATGC ATCC ATAC ATCC ATAT ATAC ATCC ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
15868881 AT-C TATAC A-ATC ATGC ATGC ATAC ATAC ATAC ATGC ATAC ATAC ATAC
1 ATAC -ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
15868929 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
15868964 AGATAACGTA
Statistics
Matches: 375, Mismatches: 26, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
2 2 0.01
3 9 0.02
4 358 0.95
5 6 0.02
ACGTcount: A:0.45, C:0.27, G:0.02, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:15879846 original size:143 final size:143
Alignment explanation
Indices: 15879564--15879921 Score: 538
Period size: 143 Copynumber: 2.5 Consensus size: 143
15879554 GATTGAAGTC
* * *
15879564 ATTATGGCGGATCTTATTTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCGCCAGCCTTATCT-C
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * * * * *
15879628 CTAAAGTTGTAGCGGAGCAGACTGAGGACAACGATTCTTATTTCCCTAACGTTGTAGTGCAACAG
66 CTAAAGTTGCAGCAGAGCAGACTGAAGACAACGAATCTTATTTCCCTAACGTTGCAGAGCAACAG
15879693 ATTAAAGCTACAA
131 ATTAAAGCTACAA
* * * *
15879706 ATTATGGCAGATCTTATCTTCCTGAAGTTACAGTGGAGCAGGTTGAAGCCACCAGCCTTATATCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
* * ** *
15879771 CTGAAGTTGCAGCAGAGCAGACTGAAGACAACGAATCTTATTTCTCTGGCGTTGCAGAGGAACAG
66 CTAAAGTTGCAGCAGAGCAGACTGAAGACAACGAATCTTATTTCCCTAACGTTGCAGAGCAACAG
15879836 ATTAAAGCTACAA
131 ATTAAAGCTACAA
*
15879849 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGTCTTATCTCC
1 ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
15879914 CTAAAGTT
66 CTAAAGTT
15879922 TCAGTGGGTT
Statistics
Matches: 191, Mismatches: 24, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
142 56 0.29
143 135 0.71
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (143 bp):
ATTATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCC
CTAAAGTTGCAGCAGAGCAGACTGAAGACAACGAATCTTATTTCCCTAACGTTGCAGAGCAACAG
ATTAAAGCTACAA
Found at i:15889114 original size:27 final size:27
Alignment explanation
Indices: 15889084--15889136 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
15889074 ATAGGAACTA
15889084 AAGATACTTTAAAATAAATTCAAGTTC
1 AAGATACTTTAAAATAAATTCAAGTTC
* * *
15889111 AAGATATTTTTAGATAAATTCAAGTT
1 AAGATACTTTAAAATAAATTCAAGTT
15889137 GTAAACTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (27 bp):
AAGATACTTTAAAATAAATTCAAGTTC
Found at i:15891031 original size:30 final size:31
Alignment explanation
Indices: 15890992--15891051 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
15890982 AGAGGTGGAA
15890992 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
15891023 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
15891052 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:15891361 original size:9 final size:9
Alignment explanation
Indices: 15891344--15891374 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15891334 TCGAGTTGAT
15891344 TCGAATAAC
1 TCGAATAAC
*
15891353 TCGATTAAC
1 TCGAATAAC
15891362 TCGAATAAC
1 TCGAATAAC
15891371 TCGA
1 TCGA
15891375 TTTGTTTAAC
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:15891397 original size:21 final size:23
Alignment explanation
Indices: 15891357--15891398 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
15891347 AATAACTCGA
15891357 TTAACTCGAATAACTCGATTTGT
1 TTAACTCGAATAACTCGATTTGT
*
15891380 TTAACTC-AA-AATTCGATTT
1 TTAACTCGAATAACTCGATTT
15891399 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (23 bp):
TTAACTCGAATAACTCGATTTGT
Found at i:15896741 original size:14 final size:14
Alignment explanation
Indices: 15896722--15896748 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15896712 TTTGTACAAC
15896722 TAATATTGAAGCTA
1 TAATATTGAAGCTA
15896736 TAATATTGAAGCT
1 TAATATTGAAGCT
15896749 CAGAATCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (14 bp):
TAATATTGAAGCTA
Found at i:15898413 original size:16 final size:16
Alignment explanation
Indices: 15898389--15898424 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
15898379 TTGAATTGCT
*
15898389 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
15898405 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
15898421 ATTA
1 ATTA
15898425 TAGTGAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:15899539 original size:25 final size:27
Alignment explanation
Indices: 15899486--15899540 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
15899476 TGTTAGCTAT
* **
15899486 TATATGTAGTTATCAGCTCATAGTTCC
1 TATATATAGTTATCAGCTCATAGCACC
15899513 TATATATAG-TAT-AGCTCATAGCACC
1 TATATATAGTTATCAGCTCATAGCACC
15899538 TAT
1 TAT
15899541 CAGATAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 3 0.12
27 8 0.32
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (27 bp):
TATATATAGTTATCAGCTCATAGCACC
Found at i:15909663 original size:16 final size:16
Alignment explanation
Indices: 15909617--15909663 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
15909607 AGAATATAAA
*
15909617 TGAAGTGAGATGAAATAG
1 TGAA-TGAGAT-AAAAAG
15909635 TG-ATGAGATAAAAAG
1 TGAATGAGATAAAAAG
15909650 TGAATGAGATAAAA
1 TGAATGAGATAAAA
15909664 TTCTAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 7 0.26
16 17 0.63
17 1 0.04
18 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.28, T:0.21
Consensus pattern (16 bp):
TGAATGAGATAAAAAG
Found at i:15910499 original size:19 final size:19
Alignment explanation
Indices: 15910475--15910519 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
15910465 AAAAAGTATC
15910475 GATACTTAAGC-AATGTACA
1 GATACTTAAGCGAA-GTACA
15910494 GATACTTAAGCGAAGTACA
1 GATACTTAAGCGAAGTACA
*
15910513 AATACTT
1 GATACTT
15910520 TAAGGAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (19 bp):
GATACTTAAGCGAAGTACA
Found at i:15914553 original size:12 final size:13
Alignment explanation
Indices: 15914536--15914565 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
15914526 TAAATTGAAA
15914536 TAAAATAAAA-CC
1 TAAAATAAAACCC
15914548 TAAAATAAAACCC
1 TAAAATAAAACCC
15914561 TAAAA
1 TAAAA
15914566 ATAACTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAAATAAAACCC
Found at i:15919551 original size:26 final size:26
Alignment explanation
Indices: 15919518--15919570 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
15919508 TTAAAAAGAA
15919518 AAGAAAAACAAGATGAAAAGATAGAT
1 AAGAAAAACAAGATGAAAAGATAGAT
15919544 AAGAAAAACAAGATGAAAAGATAGAT
1 AAGAAAAACAAGATGAAAAGATAGAT
15919570 A
1 A
15919571 TTGCCGAATG
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:0.66, C:0.04, G:0.19, T:0.11
Consensus pattern (26 bp):
AAGAAAAACAAGATGAAAAGATAGAT
Found at i:15923035 original size:28 final size:28
Alignment explanation
Indices: 15922954--15923054 Score: 98
Period size: 28 Copynumber: 3.5 Consensus size: 28
15922944 ACCCATAATT
* *
15922954 ATATATATTGTATACAATAGAA-CCATGC
1 ATATATATTATATAAAATA-AATCCATGC
* **
15922982 ATATATTATATATATAACATCAAAATCCATTA
1 ATATA-TAT-TATATAAAAT--AAATCCATGC
15923014 ATATATATTATATAAAATAAATCCATGC
1 ATATATATTATATAAAATAAATCCATGC
15923042 ATAT-TATTATATA
1 ATATATATTATATA
15923055 TGCATAATCA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
27 9 0.15
28 17 0.28
29 3 0.05
30 16 0.27
31 5 0.08
32 10 0.17
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.38
Consensus pattern (28 bp):
ATATATATTATATAAAATAAATCCATGC
Found at i:15923107 original size:2 final size:2
Alignment explanation
Indices: 15923102--15923137 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
15923092 AACCCCACTC
*
15923102 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15923138 TACCAACTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15940660 original size:84 final size:83
Alignment explanation
Indices: 15940482--15940722 Score: 349
Period size: 83 Copynumber: 2.9 Consensus size: 83
15940472 TAACCGTTAC
* * *** *
15940482 ACGGTGGAATCAGCACTTAGCAACCACTTCATGTTCAAAGGATCCCGGTGGAATCAGCACTTATC
1 ACGG-GGAATCAGCACATAGCAACCCCTTCACAATC-AAGGAT-ACGGTGGAATCAGCACTTATC
15940547 AACCACCTTATAATCAATGAT
63 AACCACCTTATAATCAATGAT
**
15940568 A-TAGGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGGTGGAATCAGCACTTATCAA
1 ACGGGGAATCAGCACATAGCAACCCC-TTCACAATCAAGGATACGGTGGAATCAGCACTTATCAA
15940632 CCACCTTATAATCAATGAT
65 CCACCTTATAATCAATGAT
* *
15940651 ACGGGGAATCAGCACATAGCAACCCCTTCACAATCAAGGATACGATGGAATCAGCACTTAGCAAC
1 ACGGGGAATCAGCACATAGCAACCCCTTCACAATCAAGGATACGGTGGAATCAGCACTTATCAAC
15940716 CACCTTA
66 CACCTTA
15940723 CATTCAAAGA
Statistics
Matches: 141, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
83 86 0.61
84 48 0.34
85 6 0.04
86 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (83 bp):
ACGGGGAATCAGCACATAGCAACCCCTTCACAATCAAGGATACGGTGGAATCAGCACTTATCAAC
CACCTTATAATCAATGAT
Found at i:15944001 original size:24 final size:24
Alignment explanation
Indices: 15943956--15944002 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15943946 GTTTTAATTC
*
15943956 TGATTCTGACTATGACATATGTTT
1 TGATTCTGACTATGACACATGTTT
*
15943980 TGATTCTGA-TATCGAGACATGTT
1 TGATTCTGACTAT-GACACATGTT
15944003 CTGAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATTCTGACTATGACACATGTTT
Found at i:15947066 original size:27 final size:27
Alignment explanation
Indices: 15947034--15947087 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
15947024 ATAAATGAGT
15947034 TAATTTTTTTGTTATAATCAAGGAAAA
1 TAATTTTTTTGTTATAATCAAGGAAAA
15947061 TAATTTTTTTGTTATAATCAAGGAAAA
1 TAATTTTTTTGTTATAATCAAGGAAAA
15947088 ACTAGATTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (27 bp):
TAATTTTTTTGTTATAATCAAGGAAAA
Found at i:15956558 original size:20 final size:19
Alignment explanation
Indices: 15956525--15956607 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
15956515 AAATAGTGTC
* * *
15956525 AAAATAATTTAAAATTTAT
1 AAAAAAATTCAAAAATTAT
*
15956544 AAAAACATTCAAAAA-TA-
1 AAAAAAATTCAAAAATTAT
*
15956561 AAAAAAATTCATAAATTAT
1 AAAAAAATTCAAAAATTAT
*
15956580 AAAAAAGTTCATAAAAATTA-
1 AAAAAAATTC--AAAAATTAT
15956600 AAAAAAAT
1 AAAAAAAT
15956608 GAATACTCTT
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
17 13 0.25
18 4 0.08
19 20 0.39
20 7 0.14
21 7 0.14
ACGTcount: A:0.66, C:0.05, G:0.01, T:0.28
Consensus pattern (19 bp):
AAAAAAATTCAAAAATTAT
Found at i:15964436 original size:21 final size:21
Alignment explanation
Indices: 15964398--15964439 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15964388 TCTGTTCGTT
*
15964398 AATCTCCCTAAGGAAATTCGC
1 AATCTCCCTAAGAAAATTCGC
15964419 AATCTCCCTAA-AATAATTCGC
1 AATCTCCCTAAGAA-AATTCGC
15964440 TACTCATGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.26
Consensus pattern (21 bp):
AATCTCCCTAAGAAAATTCGC
Found at i:15977888 original size:10 final size:10
Alignment explanation
Indices: 15977873--15977904 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
15977863 TAGACCTGTG
15977873 TTTTATTTTT
1 TTTTATTTTT
15977883 TTTTATTTTTT
1 TTTTA-TTTTT
15977894 TTTTATTTTT
1 TTTTATTTTT
15977904 T
1 T
15977905 GGAAGATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:15977892 original size:11 final size:11
Alignment explanation
Indices: 15977873--15977904 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
15977863 TAGACCTGTG
15977873 TTTTA-TTTTT
1 TTTTATTTTTT
15977883 TTTTATTTTTT
1 TTTTATTTTTT
15977894 TTTTATTTTTT
1 TTTTATTTTTT
15977905 GGAAGATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (11 bp):
TTTTATTTTTT
Found at i:15985693 original size:3 final size:3
Alignment explanation
Indices: 15985685--15985728 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
15985675 NNNNNNNNNN
*
15985685 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
15985729 CAAAAATAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:15997796 original size:25 final size:28
Alignment explanation
Indices: 15997746--15997796 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
15997736 TACAATGACT
*
15997746 TATGACATATTTTAATCTAGTATAAAAA
1 TATGACATATTTCAATCTAGTATAAAAA
15997774 TATGA-ATATTTCAAT-TA-TATAAA
1 TATGACATATTTCAATCTAGTATAAA
15997797 TATGAGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 9 0.41
28 5 0.23
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (28 bp):
TATGACATATTTCAATCTAGTATAAAAA
Found at i:15998903 original size:23 final size:23
Alignment explanation
Indices: 15998859--15998903 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15998849 TCTTATTTTG
* *
15998859 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
15998882 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
15998904 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:15999537 original size:14 final size:14
Alignment explanation
Indices: 15999498--15999552 Score: 53
Period size: 13 Copynumber: 4.1 Consensus size: 14
15999488 TGCATTGTCA
*
15999498 TTGTTTAT-TTTTT
1 TTGTTTATATTATT
* *
15999511 TTATGTATATTATT
1 TTGTTTATATTATT
15999525 TTCGTTTAT-TTA-T
1 TT-GTTTATATTATT
15999538 TTGTTTATATTATT
1 TTGTTTATATTATT
15999552 T
1 T
15999553 CTATGCCATT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
12 6 0.18
13 12 0.36
14 11 0.33
15 4 0.12
ACGTcount: A:0.18, C:0.02, G:0.07, T:0.73
Consensus pattern (14 bp):
TTGTTTATATTATT
Found at i:15999580 original size:15 final size:15
Alignment explanation
Indices: 15999560--15999591 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15999550 TTTCTATGCC
15999560 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
15999575 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
15999590 AT
1 AT
15999592 CGCGACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.66
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:16001320 original size:12 final size:10
Alignment explanation
Indices: 16001296--16001340 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 10
16001286 ACTTAATCCT
16001296 TTCTCTCAAA
1 TTCTCTCAAA
16001306 TTCTCTCTAATA
1 TTCTCTC-AA-A
*
16001318 TTCTCTCAAT
1 TTCTCTCAAA
16001328 TTCCTCTCAAA
1 TT-CTCTCAAA
16001339 TT
1 TT
16001341 ATTTTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.30
11 13 0.43
12 8 0.27
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:16001392 original size:30 final size:29
Alignment explanation
Indices: 16001337--16001393 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
16001327 TTTCCTCTCA
16001337 AATTATTTTTAAAAAAGGTTTAATTTTTT
1 AATTATTTTTAAAAAAGGTTTAATTTTTT
* *
16001366 AATTATTTTTAAAAAAGTTTTAAATTTT
1 AATTATTTTTAAAAAAGGTTTAATTTTT
16001394 ATTTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (29 bp):
AATTATTTTTAAAAAAGGTTTAATTTTTT
Found at i:16001393 original size:28 final size:29
Alignment explanation
Indices: 16001337--16001401 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
16001327 TTTCCTCTCA
*
16001337 AATTATTTTTAAAAAAGGTTTAATTTTTT
1 AATTATTTTTAAAAAAGGTTTAATATTTT
*
16001366 AATTATTTTTAAAAAAGTTTTAA-ATTTT
1 AATTATTTTTAAAAAAGGTTTAATATTTT
16001394 -ATT-TTTTT
1 AATTATTTTT
16001402 GAAATTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 3 0.09
28 4 0.12
29 22 0.65
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (29 bp):
AATTATTTTTAAAAAAGGTTTAATATTTT
Found at i:16003989 original size:84 final size:84
Alignment explanation
Indices: 16003880--16004076 Score: 342
Period size: 84 Copynumber: 2.4 Consensus size: 84
16003870 CAAAGGATCC
*
16003880 CGGTAGAATCAGCACTTAGCAACCACCTTATAATCAATGATATGGGGAATCAGCACATAGCAACC
1 CGGTAGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
16003945 CATTTCACAATCAAGGATA
66 CATTTCACAATCAAGGATA
*
16003964 CGGTAGAATCAGCACTTAACAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
1 CGGTAGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
* *
16004029 CCTTTCATAATCAAGGATA
66 CATTTCACAATCAAGGATA
*
16004048 CGGTGGAATCAGCACTTAGCAACC-CCTTA
1 CGGTAGAATCAGCACTTAGCAACCACCTTA
16004077 CATTCAAAGA
Statistics
Matches: 107, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
83 5 0.05
84 102 0.95
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (84 bp):
CGGTAGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACC
CATTTCACAATCAAGGATA
Found at i:16004073 original size:43 final size:43
Alignment explanation
Indices: 16003835--16004075 Score: 266
Period size: 42 Copynumber: 5.7 Consensus size: 43
16003825 TAACCATTAC
*
16003835 ACGGTGGAATCAGCACTTAGCAACCACC-TCA-AGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTCATA-ATC-AAGGAT
* * *
16003878 CCCGGTAGAATCAGCACTTAGCAACCACCTT-ATAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTCATAATCAAGGAT
* * * *
16003921 ATGG-GGAATCAGCACATAGCAACC-CATTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCAC-CTTCATAATCAAGGAT
* * *
16003963 ACGGTAGAATCAGCACTTAACAACCACCTT-ATAATCAATGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTCATAATCAAGGAT
*
16004005 ACGG-GGAATCAGCACATAGCAACC-CCTTTCATAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC-TTCATAATCAAGGAT
16004047 ACGGTGGAATCAGCACTTAGCAACC-CCTT
1 ACGGTGGAATCAGCACTTAGCAACCACCTT
16004076 ACATTCAAAG
Statistics
Matches: 165, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
40 3 0.02
41 39 0.24
42 46 0.28
43 45 0.27
44 30 0.18
45 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (43 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTCATAATCAAGGAT
Found at i:16005574 original size:7 final size:7
Alignment explanation
Indices: 16005562--16005600 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
16005552 GAGTCGATTG
16005562 GTATTTA
1 GTATTTA
16005569 GTATTTA
1 GTATTTA
16005576 GTATTTA
1 GTATTTA
16005583 GTATTTA
1 GTATTTA
16005590 GTATTTA
1 GTATTTA
16005597 GTAT
1 GTAT
16005601 ATATAACTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:16006157 original size:29 final size:31
Alignment explanation
Indices: 16006093--16006157 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
16006083 GACGACGGCG
16006093 TAGGCCCATCAACGAGGCCCAGACAATCACC
1 TAGGCCCATCAACGAGGCCCAGACAATCACC
* *
16006124 T-GGCCCATCATC-A-GCACCATACAATCA-C
1 TAGGCCCATCAACGAGGC-CCAGACAATCACC
16006152 TAGGCC
1 TAGGCC
16006158 TAGCAACAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
28 4 0.13
29 15 0.50
30 10 0.33
31 1 0.03
ACGTcount: A:0.31, C:0.38, G:0.17, T:0.14
Consensus pattern (31 bp):
TAGGCCCATCAACGAGGCCCAGACAATCACC
Found at i:16006266 original size:18 final size:18
Alignment explanation
Indices: 16006243--16006285 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
16006233 TGCCAGGTGC
*
16006243 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
16006261 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
16006279 GTTTCCT
1 GTATCCT
16006286 TTTTTCTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:16006874 original size:33 final size:33
Alignment explanation
Indices: 16006837--16006936 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 33
16006827 AATAGATTAG
16006837 ATTTTTTATGTACCAATTGTAATTTACTTTTAC
1 ATTTTTTATGTACCAATTGTAATTTACTTTTAC
* * * *
16006870 A-TTTTTA-ATA-TAATAG-AAATT-CTTTTAC
1 ATTTTTTATGTACCAATTGTAATTTACTTTTAC
* * *
16006898 ATTTTCTATGTACCAATTGTAATTTACTTTAAT
1 ATTTTTTATGTACCAATTGTAATTTACTTTTAC
16006931 ATTTTT
1 ATTTTT
16006937 AATAGATTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
28 8 0.16
29 9 0.18
30 6 0.12
31 6 0.12
32 10 0.20
33 11 0.22
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.54
Consensus pattern (33 bp):
ATTTTTTATGTACCAATTGTAATTTACTTTTAC
Found at i:16010201 original size:126 final size:126
Alignment explanation
Indices: 16009976--16010519 Score: 849
Period size: 126 Copynumber: 4.3 Consensus size: 126
16009966 GCCTAACAGA
* * *
16009976 AGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTATTTTTGCTAACAAAGCATCC
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTAACAAAGCATCC
* * *
16010041 T-GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAGG
66 TAAC-TAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAG
* * *
16010102 AGCTACTGTAGCAAAAGCTCGTCCACGTGGGAGCTTCTTTCAATGCTTTTGCTGACAAAGCAT-C
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTAACAAAGCATCC
** *
16010166 TTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAAG
66 TAAC-TAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAG
* * * * *
16010228 AGCTACTGTAGCAAAAGCTCATCCACATGGGAGCTTATTTCAATACTTTTGCTAACAATGCATCC
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTAACAAAGCATCC
* *
16010293 TAACTAAAGCGTTTTTTACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGG
66 TAACTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAG
* *
16010354 AGCTACTGTAGGAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTAACAAAGCATCC
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTAACAAAGCATCC
16010419 TAACTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAG
66 TAACTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAG
* *
16010480 AGCTACTGTAGCAAAAACACGTCCACGTGGGAGCTTCTTT
1 AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
16010520 AAATTAACAA
Statistics
Matches: 386, Mismatches: 30, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
125 2 0.01
126 381 0.99
127 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (126 bp):
AGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTAACAAAGCATCC
TAACTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAG
Found at i:16010834 original size:22 final size:22
Alignment explanation
Indices: 16010809--16010854 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
16010799 CTCTAACCCT
16010809 AAACCCTAAACCATTCACCCAA
1 AAACCCTAAACCATTCACCCAA
16010831 AAACCCTAAACCATTCACCCAA
1 AAACCCTAAACCATTCACCCAA
16010853 AA
1 AA
16010855 CCAAAAACCA
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:0.48, C:0.39, G:0.00, T:0.13
Consensus pattern (22 bp):
AAACCCTAAACCATTCACCCAA
Found at i:16012047 original size:5 final size:5
Alignment explanation
Indices: 16012039--16012064 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
16012029 GAGATGGAAT
16012039 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
16012065 ATATTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:16012064 original size:26 final size:26
Alignment explanation
Indices: 16012013--16012064 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
16012003 TGAAGTTTTC
* * *
16012013 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
16012039 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
16012065 ATATTTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:16012325 original size:303 final size:304
Alignment explanation
Indices: 16011766--16012362 Score: 1187
Period size: 303 Copynumber: 2.0 Consensus size: 304
16011756 TTTTAAAATA
16011766 TATATACTAATATTTTTATATTTTATAATTAAATTAAATAAATTTATATTATTTTATGAACAATG
1 TATATACTAATATTTTTATATTTTATAATTAAATTAAATAAATTTATATTATTTTATGAACAATG
16011831 AAATGGGTCATTTGAGCGAGTTGAGCTCAGGCTTAAAATTTCTTTAAAATCGAACATAGCCTATA
66 AAATGGGTCATTTGAGCGAGTTGAGCTCAGGCTTAAAATTTCTTTAAAATCGAACATAGCCTATA
16011896 AACACCTCTAGGTAGGGGTGAGCATTCGATCGAATCGAATCGAATCGAATCAAAAATTTTCGAGT
131 AACACCTCTAGGTAGGGGTGAGCATTCGATCGAATCGAATCGAATCGAATCAAAAATTTTCGAGT
16011961 TAATCGAGTTTTCGAATCTCATTTTATCATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCG
196 TAATCGAGTTTTCGAATCTCATTTTATCATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCG
16012026 AGTGAGATGGAATTCGAATCGAATCGAATCGAATCGAATATATT
261 AGTGAGATGGAATTCGAATCGAATCGAATCGAATCGAATATATT
16012070 TATATACTAAT-TTTTTATATTTTATAATTAAATTAAATAAATTTATATTATTTTATGAACAATG
1 TATATACTAATATTTTTATATTTTATAATTAAATTAAATAAATTTATATTATTTTATGAACAATG
16012134 AAATGGGTCATTTGAGCGAGTTGAGCTCAGGCTTAAAATTTCTTTAAAATCGAACATAGCCTATA
66 AAATGGGTCATTTGAGCGAGTTGAGCTCAGGCTTAAAATTTCTTTAAAATCGAACATAGCCTATA
16012199 AACACCTCTAGGTAGGGGTGAGCATTCGATCGAATCGAATCGAATCGAATCAAAAATTTTCGAGT
131 AACACCTCTAGGTAGGGGTGAGCATTCGATCGAATCGAATCGAATCGAATCAAAAATTTTCGAGT
16012264 TAATCGAGTTTTCGAATCTCATTTTATCATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCG
196 TAATCGAGTTTTCGAATCTCATTTTATCATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCG
16012329 AGTGAGATGGAATTCGAATCGAATCGAATCGAAT
261 AGTGAGATGGAATTCGAATCGAATCGAATCGAAT
16012363 ATATTTGTTC
Statistics
Matches: 293, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
303 282 0.96
304 11 0.04
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (304 bp):
TATATACTAATATTTTTATATTTTATAATTAAATTAAATAAATTTATATTATTTTATGAACAATG
AAATGGGTCATTTGAGCGAGTTGAGCTCAGGCTTAAAATTTCTTTAAAATCGAACATAGCCTATA
AACACCTCTAGGTAGGGGTGAGCATTCGATCGAATCGAATCGAATCGAATCAAAAATTTTCGAGT
TAATCGAGTTTTCGAATCTCATTTTATCATCCTAACTTTATTTGAAGTTTTCTCGAATCGAGTCG
AGTGAGATGGAATTCGAATCGAATCGAATCGAATCGAATATATT
Found at i:16013206 original size:9 final size:9
Alignment explanation
Indices: 16013189--16013219 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16013179 TCGAGTTGAT
16013189 TCGAATAAC
1 TCGAATAAC
*
16013198 TCGATTAAC
1 TCGAATAAC
16013207 TCGAATAAC
1 TCGAATAAC
16013216 TCGA
1 TCGA
16013220 TTCGTTTAAC
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:16013722 original size:27 final size:27
Alignment explanation
Indices: 16013659--16013726 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
16013649 CACCTTACTT
*
16013659 CATTGAAAAGTTTACTCAATTCACAATT
1 CATTGAAAAGTTTACTCAATT-ACAATC
**
16013687 CATAAAAAAGATTTACTCAATT-CAATC
1 CATTGAAAAG-TTTACTCAATTACAATC
16013714 CATTGAAAAGTTT
1 CATTGAAAAGTTT
16013727 GGATTTTGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 3 0.09
27 12 0.35
28 8 0.24
29 11 0.32
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (27 bp):
CATTGAAAAGTTTACTCAATTACAATC
Found at i:16015095 original size:23 final size:26
Alignment explanation
Indices: 16015070--16015117 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
16015060 ATAAATCAGA
16015070 AAAAT-ATCTC-T-AAA-AATTTTCT
1 AAAATAATCTCTTCAAAGAATTTTCT
16015092 AAAATAATCTCTTCAAAGAATTTTCT
1 AAAATAATCTCTTCAAAGAATTTTCT
16015118 TTCTACAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 5 0.23
24 1 0.05
25 3 0.14
26 8 0.36
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.40
Consensus pattern (26 bp):
AAAATAATCTCTTCAAAGAATTTTCT
Found at i:16015344 original size:37 final size:36
Alignment explanation
Indices: 16015297--16015366 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
16015287 CACTTTAATA
16015297 TTAAATTAATA-AAACACTATTAAAATAAGTATTAAAT
1 TTAAATTAATATAAA-ACTATTAAAATAA-TATTAAAT
* *
16015334 TTAATTTAATATTAAACTATTAAAATAATATTA
1 TTAAATTAATATAAAACTATTAAAATAATATTA
16015367 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 5 0.17
37 23 0.77
38 2 0.07
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (36 bp):
TTAAATTAATATAAAACTATTAAAATAATATTAAAT
Found at i:16015347 original size:68 final size:69
Alignment explanation
Indices: 16015218--16015348 Score: 183
Period size: 68 Copynumber: 1.9 Consensus size: 69
16015208 TAAACTTAAC
* * * *
16015218 CACTTTAATTTTAAATTAATATAATACTTATCAAGATAAACATTAAATTAAATTTAATATTAAGA
1 CACTTTAATATTAAATTAATAAAACACTTATCAAAATAAACATTAAATTAAATTTAATATTAAGA
16015283 TAGT
66 TAGT
* ** *
16015287 CACTTTAATATTAAATTAATAAAACAC-TATTAAAATAAGTATTAAATTTAATTTAATATTAA
1 CACTTTAATATTAAATTAATAAAACACTTATCAAAATAAACATTAAATTAAATTTAATATTAA
16015349 ACTATTAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
68 30 0.56
69 24 0.44
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (69 bp):
CACTTTAATATTAAATTAATAAAACACTTATCAAAATAAACATTAAATTAAATTTAATATTAAGA
TAGT
Found at i:16019221 original size:26 final size:27
Alignment explanation
Indices: 16019173--16019226 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
16019163 AACTTAAAAA
16019173 TATATTAAAATCTTGATGTTCTTACCT
1 TATATTAAAATCTTGATGTTCTTACCT
16019200 TATATTAAAAT-TTGATGTTCTTACCT
1 TATATTAAAATCTTGATGTTCTTACCT
16019226 T
1 T
16019227 GTCCTATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (27 bp):
TATATTAAAATCTTGATGTTCTTACCT
Found at i:16019704 original size:22 final size:22
Alignment explanation
Indices: 16019678--16019720 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
16019668 TCCTTGAGTC
*
16019678 ATCACTTAATTTGGTAAAATTT
1 ATCACTTAATTTAGTAAAATTT
16019700 ATCACTTAATTTAGTAAAATT
1 ATCACTTAATTTAGTAAAATT
16019721 ATGATTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
ATCACTTAATTTAGTAAAATTT
Found at i:16030665 original size:19 final size:20
Alignment explanation
Indices: 16030635--16030677 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
16030625 AGTTTGGATG
16030635 ATGCTAAAGACTTGTAATGT
1 ATGCTAAAGACTTGTAATGT
16030655 ATGCT-AAGACTTGTAATGT
1 ATGCTAAAGACTTGTAATGT
16030674 ATGC
1 ATGC
16030678 AAACTGCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
ATGCTAAAGACTTGTAATGT
Found at i:16030993 original size:27 final size:27
Alignment explanation
Indices: 16030958--16031014 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
16030948 ATGAAAAAAT
*
16030958 AATCTTAAT-TCCGCTTGTAGAGTTAAA
1 AATCTTAATCT-CGCTTCTAGAGTTAAA
*
16030985 AATCTTAATCTCGCTTCTGGAGTTAAA
1 AATCTTAATCTCGCTTCTAGAGTTAAA
16031012 AAT
1 AAT
16031015 ACGGAGGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (27 bp):
AATCTTAATCTCGCTTCTAGAGTTAAA
Found at i:16033022 original size:26 final size:26
Alignment explanation
Indices: 16032992--16033045 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
16032982 CAATTCATTA
**
16032992 ATCAAGTCTTTC-ATCAAGTGTTTTTC
1 ATCAAGT-TTTCAATCAAGCCTTTTTC
16033018 ATCAAGTTTTCAATCAAGCCTTTTTC
1 ATCAAGTTTTCAATCAAGCCTTTTTC
16033044 AT
1 AT
16033046 TTCTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.44
Consensus pattern (26 bp):
ATCAAGTTTTCAATCAAGCCTTTTTC
Found at i:16037864 original size:3 final size:3
Alignment explanation
Indices: 16037856--16037945 Score: 94
Period size: 3 Copynumber: 29.7 Consensus size: 3
16037846 CCACTCATTT
16037856 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** ** *
16037903 -AA CCA TAA TAA TGGT TAA TAA TTA TAA TAA TATA TATA TAA TA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA-A TA-A TAA TA
16037946 TTTATATATA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
2 4 0.05
3 62 0.84
4 8 0.11
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:16052408 original size:6 final size:6
Alignment explanation
Indices: 16052399--16052440 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
16052389 AAAACCAAAA
16052399 TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG
1 TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG TAATAG
16052441 ACTCAGCTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
TAATAG
Found at i:16056137 original size:40 final size:40
Alignment explanation
Indices: 16056054--16056133 Score: 119
Period size: 39 Copynumber: 2.0 Consensus size: 40
16056044 TCTAAAAGAT
**
16056054 ATTTATCAAAATGTAAAAACATATAAATACCTTTTAAATA
1 ATTTATCAAAATGTAAAAACATATAAATACCTTAGAAATA
16056094 ATTTATCAAAATG-AAGAAA-ATATAAATACCTTAGAAATA
1 ATTTATCAAAATGTAA-AAACATATAAATACCTTAGAAATA
16056133 A
1 A
16056134 ATTTTTTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
39 21 0.57
40 16 0.43
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (40 bp):
ATTTATCAAAATGTAAAAACATATAAATACCTTAGAAATA
Found at i:16056187 original size:35 final size:38
Alignment explanation
Indices: 16056110--16056188 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
16056100 CAAAATGAAG
* * *
16056110 AAAATATAAATACCTTAGAAATAAATTTTTTTCCTTTCT
1 AAAAAATAAATACCCTAGAAATAAATTTTTTT-CTCTCT
16056149 AAAAAATAAATACCCTAGAAAT-AATTTTTTT-TCT-T
1 AAAAAATAAATACCCTAGAAATAAATTTTTTTCTCTCT
16056184 AAAAA
1 AAAAA
16056189 GAAAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
35 6 0.16
36 2 0.05
38 9 0.24
39 20 0.54
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (38 bp):
AAAAAATAAATACCCTAGAAATAAATTTTTTTCTCTCT
Found at i:16056810 original size:34 final size:35
Alignment explanation
Indices: 16056766--16056832 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
16056756 CAGTAAAATA
16056766 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
16056800 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
16056833 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:16059942 original size:2 final size:2
Alignment explanation
Indices: 16059896--16059929 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
16059886 CTTTACTTTA
16059896 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16059930 CTTAAAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16066516 original size:30 final size:31
Alignment explanation
Indices: 16066462--16066524 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
16066452 ATACCTGAAG
*
16066462 TTGACACTTTTTCTTAATTTGGTACATAAAC
1 TTGACACTTTTTCTTAAGTTGGTACATAAAC
*
16066493 TTGACACTTTTTC-TAAGTTGGTACTTAAAC
1 TTGACACTTTTTCTTAAGTTGGTACATAAAC
16066523 TT
1 TT
16066525 TTTGAGGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (31 bp):
TTGACACTTTTTCTTAAGTTGGTACATAAAC
Found at i:16067095 original size:60 final size:61
Alignment explanation
Indices: 16066966--16067095 Score: 183
Period size: 60 Copynumber: 2.1 Consensus size: 61
16066956 ATAAATTTAG
* *
16066966 GTACCAAATTGAACCTAAAAAAAAGCTTAGGTACCAAATTAGGAGAAAGTGCCAAGTTCAA
1 GTACCAAATTGAACCTAAAAAAAAGCTTAGGTACCAAATTAGAAGAAAATGCCAAGTTCAA
* * * *
16067027 GTATCAAATTGGACC-AAAAAAAAGTTTAGGTACCAAATTAGAAGAAAATGTCAAGTTC-A
1 GTACCAAATTGAACCTAAAAAAAAGCTTAGGTACCAAATTAGAAGAAAATGCCAAGTTCAA
16067086 GATACCAAAT
1 G-TACCAAAT
16067096 GTTACATTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 2 0.03
60 46 0.75
61 13 0.21
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.22
Consensus pattern (61 bp):
GTACCAAATTGAACCTAAAAAAAAGCTTAGGTACCAAATTAGAAGAAAATGCCAAGTTCAA
Found at i:16067482 original size:16 final size:17
Alignment explanation
Indices: 16067445--16067485 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
16067435 TGACTATATA
16067445 AAAAAATTTCAATAAAT
1 AAAAAATTTCAATAAAT
16067462 AAAAAATTTCAATAAAT
1 AAAAAATTTCAATAAAT
16067479 AAAAAAT
1 AAAAAAT
16067486 ATATAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAATTTCAATAAAT
Found at i:16073704 original size:7 final size:7
Alignment explanation
Indices: 16073692--16073733 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
16073682 AGTCCTATAC
16073692 AAAAA-A
1 AAAAAGA
16073698 AAAAA-A
1 AAAAAGA
16073704 AAAAAGA
1 AAAAAGA
16073711 AAAAAGA
1 AAAAAGA
16073718 AAAAAGA
1 AAAAAGA
*
16073725 AAAAGGA
1 AAAAAGA
16073732 AA
1 AA
16073734 GTCTAGAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 11 0.32
7 23 0.68
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:16073733 original size:14 final size:13
Alignment explanation
Indices: 16073692--16073729 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
16073682 AGTCCTATAC
16073692 AAAAAA-AAAAA-
1 AAAAAAGAAAAAG
16073703 AAAAAAGAAAAAAG
1 AAAAAAG-AAAAAG
16073717 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
16073730 GAAAGTCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.25
13 11 0.46
14 7 0.29
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:16080180 original size:18 final size:18
Alignment explanation
Indices: 16080159--16080193 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16080149 GGTGTGTGAG
16080159 CCACACGGACATGTGGGT
1 CCACACGGACATGTGGGT
*
16080177 CCACACGGGCATGTGGG
1 CCACACGGACATGTGGG
16080194 ATCAAAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.14
Consensus pattern (18 bp):
CCACACGGACATGTGGGT
Found at i:16091975 original size:24 final size:24
Alignment explanation
Indices: 16091943--16091988 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
16091933 TAAGAGAGTC
16091943 AGTGTGTTGGAGGTCCTGTGTTCA
1 AGTGTGTTGGAGGTCCTGTGTTCA
16091967 AGTGTGTTGGAGGTCCTGTGTT
1 AGTGTGTTGGAGGTCCTGTGTT
16091989 TGAGTTTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.11, C:0.11, G:0.39, T:0.39
Consensus pattern (24 bp):
AGTGTGTTGGAGGTCCTGTGTTCA
Found at i:16095998 original size:6 final size:6
Alignment explanation
Indices: 16095989--16096030 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
16095979 AGATTAATTC
16095989 TAAAAT TAAAAT TAAAAT ATAAAAT TAAAAT ATAAAGAT TAA
1 TAAAAT TAAAAT TAAAAT -TAAAAT TAAAAT -TAAA-AT TAA
16096031 TTCTAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 18 0.55
7 13 0.39
8 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (6 bp):
TAAAAT
Found at i:16096013 original size:13 final size:13
Alignment explanation
Indices: 16095989--16096030 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
16095979 AGATTAATTC
16095989 TAAAAT-TAAAAT
1 TAAAATATAAAAT
16096001 TAAAATATAAAAT
1 TAAAATATAAAAT
16096014 TAAAATATAAAGAT
1 TAAAATATAAA-AT
16096028 TAA
1 TAA
16096031 TTCTAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 6 0.21
13 17 0.61
14 5 0.18
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
TAAAATATAAAAT
Found at i:16099228 original size:6 final size:7
Alignment explanation
Indices: 16099208--16099233 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16099198 ATTTATATAA
16099208 TTATTTT
1 TTATTTT
16099215 TTATTTT
1 TTATTTT
16099222 TTATTTT
1 TTATTTT
16099229 TTATT
1 TTATT
16099234 ACGCCCTAAA
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:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:16100195 original size:18 final size:18
Alignment explanation
Indices: 16100172--16100207 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16100162 TTTAAACTAC
16100172 TTCTTGTTTAGATTAATT
1 TTCTTGTTTAGATTAATT
16100190 TTCTTGTTTAGATTAATT
1 TTCTTGTTTAGATTAATT
16100208 AGAGTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (18 bp):
TTCTTGTTTAGATTAATT
Done.