Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006680.1 Hibiscus syriacus cultivar Beakdansim tig00016571_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: 321219
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:11523 original size:2 final size:2
Alignment explanation
Indices: 11516--11543 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11506 TAAAACCTTT
11516 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11544 GATTTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11597 original size:2 final size:2
Alignment explanation
Indices: 11592--11645 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
11582 AAAAAAACCT
11592 TA TA TA TA TA TA TA TA TA TA TA TA 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 TA TA TA
11634 TA TA TA TA TA TA
1 TA TA TA TA TA TA
11646 CTTACATGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11623 original size:80 final size:80
Alignment explanation
Indices: 11450--11621 Score: 305
Period size: 80 Copynumber: 2.2 Consensus size: 80
11440 TTATATTAAA
11450 ATATATATATATAT-GATTTAAAAATGTGCATCACATGAAGCCCACTCAATGAAACATAAAACCT
1 ATATATATATATATAGATTTAAAAATGTGCATCACATGAAGCCCACTCAATGAAACATAAAACCT
11514 TTTATATATATATAT
66 TTTATATATATATAT
*
11529 ATATATATATATATAGATTTAAAAATGTGCATCACGTGAAGCCCACTCAATGAAA-A-AAAACCT
1 ATATATATATATATAGATTTAAAAATGTGCATCACATGAAGCCCACTCAATGAAACATAAAACCT
*
11592 TATATATATATATAT
66 TTTATATATATATAT
11607 ATATATATATATATA
1 ATATATATATATATA
11622 TATATATATA
Statistics
Matches: 90, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
78 36 0.40
79 15 0.17
80 39 0.43
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (80 bp):
ATATATATATATATAGATTTAAAAATGTGCATCACATGAAGCCCACTCAATGAAACATAAAACCT
TTTATATATATATAT
Found at i:12528 original size:10 final size:10
Alignment explanation
Indices: 12505--12552 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
12495 CGAATCCCCT
* *
12505 TTTTTATTTA
1 TTTTTCTTTT
*
12515 TTTTT-TTCT
1 TTTTTCTTTT
12524 TTTTTCTTTT
1 TTTTTCTTTT
12534 TTTTTCTTTT
1 TTTTTCTTTT
*
12544 TTCTTCTTT
1 TTTTTCTTT
12553 CTTCAGGAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 7 0.21
10 26 0.79
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:12548 original size:17 final size:17
Alignment explanation
Indices: 12515--12548 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12505 TTTTTATTTA
12515 TTTTTTTCTTTTTTCTT
1 TTTTTTTCTTTTTTCTT
12532 TTTTTTTCTTTTTTCTT
1 TTTTTTTCTTTTTTCTT
12549 CTTTCTTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTCTTTTTTCTT
Found at i:15585 original size:18 final size:19
Alignment explanation
Indices: 15546--15601 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
15536 TAATAAATTA
*
15546 ATTTA-AATAAAATTGATA-
1 ATTTATAATAAAA-TAATAG
* *
15564 ATTTATTA-AAAATATTAG
1 ATTTATAATAAAATAATAG
15582 ATTTATAATAAAATAATAG
1 ATTTATAATAAAATAATAG
15601 A
1 A
15602 AAGTTTAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.10
18 16 0.53
19 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTTATAATAAAATAATAG
Found at i:18531 original size:13 final size:13
Alignment explanation
Indices: 18513--18539 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18503 TTACAGACGC
18513 GCATATGAAGACT
1 GCATATGAAGACT
18526 GCATATGAAGACT
1 GCATATGAAGACT
18539 G
1 G
18540 TTCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:22567 original size:122 final size:122
Alignment explanation
Indices: 22187--23571 Score: 1824
Period size: 122 Copynumber: 11.5 Consensus size: 122
22177 TTAAAGTTAA
** *
22187 ATTTT-AAAAAAATTGAAAGTTTAGGTACTAAAACAAAAAAAAACTAATAGTTTAGGTACTAAAC
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* * * *
22251 GCATTAAGTTTTTAATGACGTGTACTAAAATGAAATGAAAACTAAACGTTATGTATG
66 GCATTAATTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
*
22308 ATTTTGAAAAAAA--GAAAGTTTAGGTACT-AAA-AAACCACAACTGATAGTTTAGGTACTAAAC
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* **
22369 ACATTAATTTTTTAACGGTGGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
66 GCATTAATTTTTTAAC-GACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* *
22427 GTTTTG-AAAAAATTGAAAGTTTAGGTACTAAAACATACCAAAACTGATAGTTTAGGTACTAAAC
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* * *
22491 GCATTAAGTTTTTAATGACGGGTACTAAAATGAAATGAAAACTAAATGTTAGGTATG
66 GCATTAATTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* *
22548 GTTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAAC
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* * * * *
22613 ACATTAATTTTTTAACGGCGGGGTTCTAAAATAAAATGAAAACTAAACATTAGGTATG
66 GCATTAATTTTTTAACGAC-GGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* *
22671 ATTTTGAAAAAAA-TGAAAGTTTAGGTACTAAAACATACCAAAACTGATAGTTTAGGTACTAAAT
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* * *
22735 GCATTAAGTTTTTAAAGACGGGTACTAAAATGAAATCAAAACTAAACGTTAGGTATG
66 GCATTAATTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * *
22792 ATTTTGAAAAAAATTGAAAGTTTAGGTACCAAAACAAAGCACAACTGATAGTTTAGGTACTAAAC
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
**
22857 GTGTTAATTTTTTAACG--GGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
66 GCATTAATTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * *
22912 ATTTTG-AAAAAATTGAAAGTTTAGGTACTAAAATAGACCAAAACTGATAGTTTAGGTACTAAGC
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* *
22976 ACATTAAATTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
66 GCATTAATTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* *
23033 ATTTTGAAAAAAATTGAATGTTTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAAC
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
** * * * * *
23098 GTGTTACTTTTTTAACGGCAGGGTACTAAAATAAAATGAAAACTAAACGTTAGATA-A
66 GCATTAATTTTTTAACGAC-GGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * * * *
23155 AGTTTTG-AAAAACTTAAAAGTTTAGGTACTAAAATAGACCAAAATTTATAGTTTAGGTACTAAA
1 A-TTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAA
* *
23219 CGCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACATTAGGTATG
65 CGCATTAATTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * * *
23277 ATTTTGAAAAAAATTGAAAG-TTAGGTACCAAAACAAATCACAATTGATAGTTTAGGTACTAAAT
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
* ** *
23341 GCGTTAATTTTTTAACGACAATGTACT---A--AAATGAAAACTAAATGTTAGGTATG
66 GCATTAATTTTTTAACGAC-GGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * * *
23394 ATTTTG-AAAAAATTGAAAGTTTAGGTACTAAAATAAACTACAACTAATAGTTTAGGTACCAAAC
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
** * * * **
23458 GTGTTAATTATTTAAC-A-GTGGTATTAAAATGAAATGAAAACTAAACATTATATATG
66 GCATTAATTTTTTAACGACG-GGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
* * * * * *
23514 ATTTTG-AAAAAATTAAAAGTTTAAGTACTAAAACAGACTAAAACTAATAATTTAGGTA
1 ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTA
23572 ATGAATTTTT
Statistics
Matches: 1109, Mismatches: 131, Indels: 49
0.86 0.10 0.04
Matches are distributed among these distances:
115 4 0.00
116 14 0.01
117 79 0.07
118 46 0.04
119 111 0.10
120 146 0.13
121 235 0.21
122 389 0.35
123 85 0.08
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (122 bp):
ATTTTGAAAAAAATTGAAAGTTTAGGTACTAAAACAAACCAAAACTGATAGTTTAGGTACTAAAC
GCATTAATTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATG
Found at i:23111 original size:485 final size:483
Alignment explanation
Indices: 22184--23571 Score: 1963
Period size: 485 Copynumber: 2.9 Consensus size: 483
22174 AATTTAAAGT
**
22184 TAAATTTT-AAAAAAATTGAAAGTTTAGGTACTAAAACAAAAAAAAACTAATAGTTTAGGTACTA
1 TAAATTTTGAAAAAAA-TGAAAGTTTAGGTACTAAAACAAACCAAAACTAATAGTTTAGGTACTA
* * *
22248 AACGCATTAAGTTTTTAATGACGTGTACTAAAATGAAATGAAAACTAAACGTTATGTATGATTTT
65 AACGCATTAAGTTTTTAAAGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTT
* * *
22313 GAAAAAAA--GAAAGTTTAGGTA-CTAAA-AAACCACAACTGATAGTTTAGGTACTAAACACATT
130 GAAAAAAATTGAAAGTTTAGGTACCAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTT
*
22374 AATTTTTTAACGGTGGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGGTTTTGAAAAAA
195 AATTTTTTAAC---GGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAA
* * * *
22439 TTGAAAGTTTAGGTACTAAAACATACCAAAACTGATAGTTTAGGTACTAAACGCATTAAGTTTTT
257 TTGAAAGTTTAGGTACTAAAATAAACCAAAACTGATAGTTTAGGTACT-AACACATTAAATTTTT
* * *
22504 AATGACGGGTACTAAAATGAAATGAAAACTAAATGTTAGGTATGGTTTTGAAAAAAATTGAAAGT
321 AACGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAAATTGAAAGT
*
22569 TTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGGCGG
386 TTAGGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGGCAG
* *
22634 GGTTCTAAAATAAAATGAAAACTAAACATTAGG
451 GGTACTAAAATAAAATGAAAACTAAACATTAGA
* * *
22667 TATGATTTTGAAAAAAATGAAAGTTTAGGTACTAAAACATACCAAAACTGATAGTTTAGGTACTA
1 TA-AATTTTGAAAAAAATGAAAGTTTAGGTACTAAAACAAACCAAAACTAATAGTTTAGGTACTA
* *
22732 AATGCATTAAGTTTTTAAAGACGGGTACTAAAATGAAATCAAAACTAAACGTTAGGTATGATTTT
65 AACGCATTAAGTTTTTAAAGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTT
* *
22797 GAAAAAAATTGAAAGTTTAGGTACCAAAACAAAGCACAACTGATAGTTTAGGTACTAAACGTGTT
130 GAAAAAAATTGAAAGTTTAGGTACCAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTT
22862 AATTTTTTAACGGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTG
195 AATTTTTTAACGGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTG
*
22927 AAAGTTTAGGTACTAAAATAGACCAAAACTGATAGTTTAGGTACTAAGCACATTAAATTTTTAAC
260 AAAGTTTAGGTACTAAAATAAACCAAAACTGATAGTTTAGGTACTAA-CACATTAAATTTTTAAC
*
22992 GACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAAATTGAATGTTTA
324 GACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAAATTGAAAGTTTA
*** *
23057 GGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACGTGTTACTTTTTTAACGGCAGGGT
389 GGTACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGGCAGGGT
*
23122 ACTAAAATAAAATGAAAACTAAACGTTAGA
454 ACTAAAATAAAATGAAAACTAAACATTAGA
** * * * * *
23152 TAAAGTTTTGAAAAACTTAAAAGTTTAGGTACTAAAATAGACCAAAATTTATAGTTTAGGTACTA
1 TAAA-TTTTGAAAAAAATGAAAGTTTAGGTACTAAAACAAACCAAAACTAATAGTTTAGGTACTA
* *
23217 AACGCATTAAGTTTTTAACGACGGGTACTAAAATGAAATGAAAACTAAACATTAGGTATGATTTT
65 AACGCATTAAGTTTTTAAAGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTT
* * *
23282 GAAAAAAATTGAAAG-TTAGGTACCAAAACAAATCACAATTGATAGTTTAGGTACTAAATGCGTT
130 GAAAAAAATTGAAAGTTTAGGTACCAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTT
** * ** * * *
23346 AATTTTTTAAC--GACAATGTACTAAAATGAAAACTAAATGTTAGGTATGATTTTGAAAAAATTG
195 AATTTTTTAACGGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTG
* * * * * *
23409 AAAGTTTAGGTACTAAAATAAACTACAACTAATAGTTTAGGTACCAA-ACGTGTTAATTATTTAA
260 AAAGTTTAGGTACTAAAATAAACCAAAACTGATAGTTTAGGTACTAACACAT-TAAATT-TTTAA
* * ** *
23473 C-A-GTGGTATTAAAATGAAATGAAAACTAAACATTATATATGATTTTG-AAAAAATTAAAAGTT
323 CGACG-GGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAAATTGAAAGTT
* * * * * *
23535 TAAGTACTAAAACAGACTAAAACTAATAATTTAGGTA
387 TAGGTACTAAAACAAACCACAACTGATAGTTTAGGTA
23572 ATGAATTTTT
Statistics
Matches: 819, Mismatches: 75, Indels: 25
0.89 0.08 0.03
Matches are distributed among these distances:
480 48 0.06
481 45 0.05
482 92 0.11
483 2 0.00
484 176 0.21
485 397 0.48
486 13 0.02
487 4 0.00
488 42 0.05
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (483 bp):
TAAATTTTGAAAAAAATGAAAGTTTAGGTACTAAAACAAACCAAAACTAATAGTTTAGGTACTAA
ACGCATTAAGTTTTTAAAGACGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTG
AAAAAAATTGAAAGTTTAGGTACCAAAACAAACCACAACTGATAGTTTAGGTACTAAACGCGTTA
ATTTTTTAACGGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAATTGA
AAGTTTAGGTACTAAAATAAACCAAAACTGATAGTTTAGGTACTAACACATTAAATTTTTAACGA
CGGGTACTAAAATGAAATGAAAACTAAACGTTAGGTATGATTTTGAAAAAAATTGAAAGTTTAGG
TACTAAAACAAACCACAACTGATAGTTTAGGTACTAAACACATTAATTTTTTAACGGCAGGGTAC
TAAAATAAAATGAAAACTAAACATTAGA
Found at i:23667 original size:2 final size:2
Alignment explanation
Indices: 23660--23686 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23650 ATACATAAAT
23660 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 T
23687 TGTTTACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56795 original size:22 final size:25
Alignment explanation
Indices: 56743--56796 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 25
56733 TATAATTATG
*
56743 AGAAAAAAATAATTTATATATATTT
1 AGAAATAAATAATTTATATATATTT
*
56768 AAAAATAAAT-ATTTAT-T-TATTT
1 AGAAATAAATAATTTATATATATTT
56790 AGAAATA
1 AGAAATA
56797 TCAGAAAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 11 0.42
23 1 0.04
24 6 0.23
25 8 0.31
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
AGAAATAAATAATTTATATATATTT
Found at i:58981 original size:101 final size:105
Alignment explanation
Indices: 58808--59065 Score: 348
Period size: 101 Copynumber: 2.5 Consensus size: 105
58798 AACTCCCTCT
* *
58808 TCCTT-TTCAGATGAGTTCTTCTCATTATGAACTCTTTCTGGAAATGTTGATGCTGATATATCTC
1 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACAC-TTCTGGAAATGTTGATGATGATATATCTC
* * * *
58872 TTTCTGTGATAGAATC-ACGCAAAATGTTGAACAAGTTC-T-
65 CTTATGTGATAGAATCGA-GCAAAAGGTTAAACAAGTTCTTC
* *
58911 T-C-TCTTCAGATGAATTCTTCTCATTATGAACACTTCTGGAAATGTTGATGATGATCTATCTCC
1 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGATGATATATCTCC
**
58974 TTATGTGATAGCGTCGAGCAAAAGGTTAAACAAGTTCTTC
66 TTATGTGATAGAATCGAGCAAAAGGTTAAACAAGTTCTTC
*
59014 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCCTTCTGGAAATGTTGAT
1 TCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-ACTTCTGGAAATGTTGAT
59066 CTTCAAAAGA
Statistics
Matches: 136, Mismatches: 12, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
101 58 0.43
102 30 0.22
103 2 0.01
104 1 0.01
105 28 0.21
106 17 0.12
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (105 bp):
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGATGATATATCTCC
TTATGTGATAGAATCGAGCAAAAGGTTAAACAAGTTCTTC
Found at i:59577 original size:113 final size:111
Alignment explanation
Indices: 59233--59665 Score: 514
Period size: 112 Copynumber: 3.9 Consensus size: 111
59223 ATAGAGTCAT
*
59233 GCAAAAGGCTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCA
1 GCAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCA
* * * * * *
59298 TTATGAACT-TTCTTCGGAAAAGTTAATTCATCAAGTGATGAATTCAG
65 TTATGAACTCTCCCT-GGAAATGTTGATCCATCAAGTGATGAATTCAA
* *
59345 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATAAGTTCTTCTCA
1 GCAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCA
* * * *
59410 TTATGAACTTTCTCTGGAAATATTGATCTATCAAGTGATGAATT-AGA
65 TTATGAACTCTCCCTGGAAATGTTGATCCATCAAGTGATGAATTCA-A
* * * * *
59457 GCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTATTCTTTCTTCAGATGAGTTCTTCTT
1 GC-AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATAAGTTCTTCTC
* * * * *
59522 ATTATGAACTCGCCCTGGCAATGCTGGTCCATCGAA-TGATAAATTCAA
64 ATTATGAACTCTCCCTGGAAATGTTGATCCATC-AAGTGATGAATTCAA
* *
59570 GCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GC-AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTC
* *
59635 ATTATGAACTCT-TCTAGAAATGTTGATCCAT
64 ATTATGAACTCTCCCTGGAAATGTTGATCCAT
59666 TGAATGATGG
Statistics
Matches: 274, Mismatches: 40, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
111 1 0.00
112 143 0.52
113 127 0.46
114 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (111 bp):
GCAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCAT
TATGAACTCTCCCTGGAAATGTTGATCCATCAAGTGATGAATTCAA
Found at i:59602 original size:225 final size:224
Alignment explanation
Indices: 59115--59662 Score: 584
Period size: 225 Copynumber: 2.4 Consensus size: 224
59105 GAATTAAAGC
* * * *
59115 AAGGTTGAACAAATTCTTCTTATTATGAACTTTTTC-TCCTTCTTCAGATGAGTTCTTCTTATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * * ** ** **
59179 TGAACACTTCTGGAAATATTGATAATGATCCATCTCTTTCTATGATAGAGTCATGCAAAAGGCTG
66 TGAACTCTTCTAGAAATATTGAT-CT-AT-CAAGT-GATGAAT--TAGAG-CA---AAAA-GCTG
* * **
59244 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTTT
120 AACAAGCTCTTCTCATTATGAACTTCTTATTCCTCTTCAGATAAGTTCTTCTCATTATGAACTGC
* * * * *
59309 CTTCGGAAAAGTTAATTCATCAAGTGATGAATTCAGGCAA
185 CCTCGGAAAAGCTAATCCATCAAGTGATAAATTCAAGCAA
* *
59349 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
* * *
59413 TGAACTTTCTCTGGAAATATTGATCTATCAAGTGATGAATTAGAGCAAAAAGTTGAACAAGCTCT
66 TGAACTCT-TCTAGAAATATTGATCTATCAAGTGATGAATTAGAGCAAAAAGCTGAACAAGCTCT
* * * *
59478 TCTCATTATGAACTTCTTATTCTTTCTTCAGATGAGTTCTTCTTATTATGAACTCGCCCT-GGCA
130 TCTCATTATGAACTTCTTATTC-CTCTTCAGATAAGTTCTTCTCATTATGAACT-GCCCTCGGAA
* **
59542 ATGCTGGTCCATCGAA-TGATAAATTCAAGCGAA
193 AAGCTAATCCATC-AAGTGATAAATTCAAGC-AA
* *
59575 AA-GTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
*
59639 TGAACTCTTCTAGAAATGTTGATC
66 TGAACTCTTCTAGAAATATTGATC
59663 CATTGAATGA
Statistics
Matches: 269, Mismatches: 38, Indels: 23
0.82 0.12 0.07
Matches are distributed among these distances:
224 33 0.12
225 103 0.38
226 38 0.14
228 2 0.01
229 5 0.02
231 3 0.01
232 3 0.01
233 2 0.01
234 62 0.23
235 18 0.07
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (224 bp):
AAGGTTGAACAAATTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAAGTTCTTCTCATTA
TGAACTCTTCTAGAAATATTGATCTATCAAGTGATGAATTAGAGCAAAAAGCTGAACAAGCTCTT
CTCATTATGAACTTCTTATTCCTCTTCAGATAAGTTCTTCTCATTATGAACTGCCCTCGGAAAAG
CTAATCCATCAAGTGATAAATTCAAGCAA
Found at i:60106 original size:22 final size:22
Alignment explanation
Indices: 60081--60135 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
60071 GATAAAGCTT
*
60081 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
60103 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
60125 TCATCTTTGAA
1 TCATCTTTGAA
60136 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:62781 original size:115 final size:114
Alignment explanation
Indices: 62364--62798 Score: 647
Period size: 114 Copynumber: 3.8 Consensus size: 114
62354 CATGCAGTTC
* * * * * *
62364 ATCTTTCAACTCCAATGATTGGTTCTGAGGTTCCTACCGAACCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
* * * *
62429 CTTCCAGAAGATGCCATTGAGTCTCCTTATTTCTACTATGAGTACATGG
66 CTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACATGG
* *
62478 ATCTTTCAAATCTAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGAACA
1 ATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
* * * * * *
62543 CCTCCAGAAAATGCTATT-GGACCTCTTTATTTCTACCATGAGCATATGG
66 CTTCCAGAAGATGCTATTGGGTCTTC-TTATTTCTACTATGAGCACATGG
* * *
62592 ATCTTTCAATTCCAATGATTGATTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAAAACA
1 ATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
62657 CTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACATGG
66 CTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACATGG
*
62706 ATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
1 ATCTTTCAAATCCAATGATT-GATTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAAC
62771 ACTTCCAGAAGATGCTATTGGGTCTTCT
65 ACTTCCAGAAGATGCTATTGGGTCTTCT
62799 ACTATGAGCA
Statistics
Matches: 287, Mismatches: 31, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
113 3 0.01
114 210 0.73
115 74 0.26
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (114 bp):
ATCTTTCAAATCCAATGATTGATTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACA
CTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACATGG
Found at i:65290 original size:2 final size:2
Alignment explanation
Indices: 65283--65311 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
65273 ACAACAAAGG
65283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65312 AAAGGATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68301 original size:14 final size:14
Alignment explanation
Indices: 68267--68320 Score: 72
Period size: 14 Copynumber: 3.8 Consensus size: 14
68257 TTGTGCAATA
*
68267 CAAATGCAAATATG
1 CAAATGTAAATATG
68281 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
68296 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
68310 TAAATGTAAAT
1 CAAATGTAAAT
68321 TATTTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
14 22 0.63
15 13 0.37
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:83498 original size:18 final size:16
Alignment explanation
Indices: 83467--83514 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
83457 AAAAAAAGAG
*
83467 AGGAAAAATG-GAAAA
1 AGGAAAAAAGAGAAAA
83482 AGGAATTAAAAGAGAAAA
1 AGGAA--AAAAGAGAAAA
*
83500 ATGAAAAAAGAGAAA
1 AGGAAAAAAGAGAAA
83515 TAAAAGGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 4 0.14
18 9 0.32
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (16 bp):
AGGAAAAAAGAGAAAA
Found at i:83498 original size:26 final size:27
Alignment explanation
Indices: 83451--83520 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
83441 GGAAAAAACG
* *
83451 AAAAGA-AAAAAAAGAGAGGAAAAATGGA
1 AAAAGAGAAATAAA-AGA-GAAAAATGAA
*
83479 AAAAG-GAATTAAAAGAGAAAAATGAA
1 AAAAGAGAAATAAAAGAGAAAAATGAA
83505 AAAAGAGAAATAAAAG
1 AAAAGAGAAATAAAAG
83521 GAGGGTTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 14 0.39
27 12 0.33
28 10 0.28
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (27 bp):
AAAAGAGAAATAAAAGAGAAAAATGAA
Found at i:84897 original size:51 final size:51
Alignment explanation
Indices: 84832--85241 Score: 649
Period size: 51 Copynumber: 8.0 Consensus size: 51
84822 AAGCAAATTC
84832 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
1 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
84883 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
1 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
*
84934 GTTCGTTAAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
1 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
*
84985 GTTCGTTGAAGATTGAGTCATATACTCTCTGAATGAATAGGGAGCGGACAA
1 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
85036 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
1 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
* * *
85087 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAAAGAATAGGGAACGGACTA
1 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
* * **
85138 GTTCGTTGAAGATTGAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACCT
1 GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
** * * * *
85189 GTTTATTGAAGATTTTTCGAGTTCTATACTCTCTGAAGGAAGAGAGAGCGGAC
1 GTTCGTTGAAGA---TT-GAGTCCTATACTCTCTGAATGAATAGGGAGCGGAC
85242 CCGTTTTATT
Statistics
Matches: 337, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
51 305 0.91
54 2 0.01
55 30 0.09
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (51 bp):
GTTCGTTGAAGATTGAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAA
Found at i:85274 original size:56 final size:56
Alignment explanation
Indices: 84948--85348 Score: 229
Period size: 51 Copynumber: 7.6 Consensus size: 56
84938 GTTAAAGATT
* * * ** **
84948 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* * * ** **
84999 GAGTCATATACTCTCTGAATGAATAGGGAGCGGACAAG-TTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* * * ** **
85050 GAGTCCTATACTCTCTGAATGAATAGGGAGCGGACAAG-TTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* * * * ** **
85101 GAGTCCTATACTCTCTGAAAGAATAGGGAACGGACTAG-TTCGTTGAAGA---TT-
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* * * * * *
85152 GAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACCTG-TTTATTGAAGATTTTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* *
85207 GAGT-TCTATACTCTCTGAAGGAAGAGAGAGCGGACCCGTTTTATTAAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
* * * * *
85263 AAATCTTATACTCTCTGAATGAATAGAGAGCAGACACGTTTTA-TGAAGATTGTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
*
85318 GAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 GAGTCTTATACTCT-CTGAAGGAATAGAGAGC
85349 AGGCTCGTCA
Statistics
Matches: 312, Mismatches: 30, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
51 191 0.61
54 3 0.01
55 67 0.21
56 50 0.16
57 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (56 bp):
GAGTCTTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTC
Found at i:85349 original size:55 final size:55
Alignment explanation
Indices: 85152--85350 Score: 208
Period size: 55 Copynumber: 3.6 Consensus size: 55
85142 GTTGAAGATT
* * * * * *
85152 GAGTCCTATACTCCCTGAAAGAATAGGGAGCGGACC-TGTTTATTGAAGATTTTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCAGACCGT-TTTATTGAAGATTGTTC
* * *
85207 GAGT-TCTATACTCTCTGAAGGAAGAGAGAGCGGACCCGTTTTATTAAAGATTGTTC
1 GAGTCT-TATACTCTCTGAAGGAATAGAGAGCAGA-CCGTTTTATTGAAGATTGTTC
* * *
85263 AAATCTTATACTCTCTGAATGAATAGAGAGCAGACACGTTTTA-TGAAGATTGTTC
1 GAGTCTTATACTCTCTGAAGGAATAGAGAGCAGAC-CGTTTTATTGAAGATTGTTC
*
85318 GAGTCTTATACT-TCCTGAAGGAATAGGGAGCAG
1 GAGTCTTATACTCT-CTGAAGGAATAGAGAGCAG
85351 GCTCGTCATT
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.01
55 67 0.55
56 51 0.42
57 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (55 bp):
GAGTCTTATACTCTCTGAAGGAATAGAGAGCAGACCGTTTTATTGAAGATTGTTC
Found at i:85365 original size:55 final size:55
Alignment explanation
Indices: 85213--85374 Score: 166
Period size: 55 Copynumber: 2.9 Consensus size: 55
85203 TTTCGAGTTC
* * * * *
85213 TATACTCTCTGAAGGAAGAGAGAGCGGACCCGTTTTATTAAAGATTGTTCAAATCT
1 TATACTCTCTGAAGGAATAGAGAGCAGACACGTATTA-TGAAGATTGTTCAAATCT
* * * *
85269 TATACTCTCTGAATGAATAGAGAGCAGACACGTTTTATGAAGATTGTTCGAGTCT
1 TATACTCTCTGAAGGAATAGAGAGCAGACACGTATTATGAAGATTGTTCAAATCT
* * * *
85324 TATACT-TCCTGAAGGAATAGGGAGCAGGCTCGTCATT-TGAAGATTTTTCAA
1 TATACTCT-CTGAAGGAATAGAGAGCAGACACGT-ATTATGAAGATTGTTCAA
85375 GTATTTATCC
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
54 1 0.01
55 54 0.60
56 35 0.39
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (55 bp):
TATACTCTCTGAAGGAATAGAGAGCAGACACGTATTATGAAGATTGTTCAAATCT
Found at i:98358 original size:5 final size:5
Alignment explanation
Indices: 98348--98391 Score: 70
Period size: 5 Copynumber: 8.4 Consensus size: 5
98338 GGATCGAATG
98348 GACTC GACTC GACTC GAGCTC GACTC GACTC GAGCTC GACTC GA
1 GACTC GACTC GACTC GA-CTC GACTC GACTC GA-CTC GACTC GA
98392 GTTCTTAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 27 0.73
6 10 0.27
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.18
Consensus pattern (5 bp):
GACTC
Found at i:98371 original size:16 final size:16
Alignment explanation
Indices: 98350--98391 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
98340 ATCGAATGGA
98350 CTCGACTCGACTCGAG
1 CTCGACTCGACTCGAG
98366 CTCGACTCGACTCGAG
1 CTCGACTCGACTCGAG
98382 CTCGACTCGA
1 CTCGACTCGA
98392 GTTCTTAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.19, C:0.38, G:0.24, T:0.19
Consensus pattern (16 bp):
CTCGACTCGACTCGAG
Found at i:98392 original size:11 final size:10
Alignment explanation
Indices: 98348--98391 Score: 70
Period size: 11 Copynumber: 4.2 Consensus size: 10
98338 GGATCGAATG
98348 GACTCGACTC
1 GACTCGACTC
98358 GACTCGAGCTC
1 GACTCGA-CTC
98369 GACTCGACTC
1 GACTCGACTC
98379 GAGCTCGACTC
1 GA-CTCGACTC
98390 GA
1 GA
98392 GTTCTTAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 12 0.38
11 20 0.62
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.18
Consensus pattern (10 bp):
GACTCGACTC
Found at i:112063 original size:159 final size:158
Alignment explanation
Indices: 111843--112165 Score: 459
Period size: 159 Copynumber: 2.0 Consensus size: 158
111833 CTGGATACAG
* *
111843 AAATATTGACCTTTTATGAAATGACAAGAGTGATGTCATTACTTGACTTTTGAGCTTTGAATT-A
1 AAATATTGACCTTTTATGAAATCACAAGAGTAATGTCATTACTTGACTTTTGAGCTTTGAATTCA
* *
111907 TTCTACTTGTAGGAAGAACTTGCTGCTGTCAAATCCTAATGTGACAAAAGAAAAGTTGGATGCCA
66 -TCTACTTGTAGGAAGAACCTGCTGCTGTCAAATCCTAATATGACAAAAGAAAAGTTGGAT-CCA
*
111972 GGAAGGTGAAGTCGGTACGTTTCTTTCACC
129 GGAAGGTGAAGGCGGTACGTTTCTTTCACC
* * * *
112002 AAATATTGACCTTTTATGAATTCATAAGAGTAATGTCATTACTTGACTTTTGGGTTTTGAATTCA
1 AAATATTGACCTTTTATGAAATCACAAGAGTAATGTCATTACTTGACTTTTGAGCTTTGAATTCA
* * * * * *
112067 TCTGCTTGTAGGAAGAACCTGCTGTTGTCAAGTCCTACTATGGCAAAAGAAAAGTTGGATCCCGG
66 TCTACTTGTAGGAAGAACCTGCTGCTGTCAAATCCTAATATGACAAAAGAAAAGTTGGATCCAGG
* * *
112132 GAGGTGAAGGCGGTATGTTTCTTTCATC
131 AAGGTGAAGGCGGTACGTTTCTTTCACC
112160 AAATAT
1 AAATAT
112166 CTGTTTCTTC
Statistics
Matches: 145, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
158 34 0.23
159 110 0.76
160 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (158 bp):
AAATATTGACCTTTTATGAAATCACAAGAGTAATGTCATTACTTGACTTTTGAGCTTTGAATTCA
TCTACTTGTAGGAAGAACCTGCTGCTGTCAAATCCTAATATGACAAAAGAAAAGTTGGATCCAGG
AAGGTGAAGGCGGTACGTTTCTTTCACC
Found at i:122540 original size:22 final size:22
Alignment explanation
Indices: 122515--122558 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
122505 TTTATGGCAC
122515 GTTTTAACT-TAAAATATTACAT
1 GTTTT-ACTCTAAAATATTACAT
*
122537 GTTTTACTCTAAAATTTTACAT
1 GTTTTACTCTAAAATATTACAT
122559 CATTGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (22 bp):
GTTTTACTCTAAAATATTACAT
Found at i:124073 original size:22 final size:22
Alignment explanation
Indices: 124046--124098 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
124036 AGCTTTGATT
124046 TCTCTGCATATTTGAAGGGTTC
1 TCTCTGCATATTTGAAGGGTTC
124068 TCTCTGCATATTTGAAGGGTTC
1 TCTCTGCATATTTGAAGGGTTC
124090 TCTCTGCAT
1 TCTCTGCAT
124099 TTTAGTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.42
Consensus pattern (22 bp):
TCTCTGCATATTTGAAGGGTTC
Found at i:132629 original size:15 final size:16
Alignment explanation
Indices: 132609--132646 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
132599 TTTGATTTTT
*
132609 TTTAAAA-TACAAATA
1 TTTAAAATTAAAAATA
132624 TTTAAAATTAAAAATA
1 TTTAAAATTAAAAATA
132640 TTTAAAA
1 TTTAAAA
132647 AAAATTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TTTAAAATTAAAAATA
Found at i:140260 original size:22 final size:22
Alignment explanation
Indices: 140235--140278 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
140225 TTTATGACGC
140235 GTTTTAACT-TAAAA-TATTACAT
1 GTTTT-ACTCTAAAACT-TTACAT
140257 GTTTTACTCTAAAACTTTACAT
1 GTTTTACTCTAAAACTTTACAT
140279 CATTGGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.15
22 16 0.80
23 1 0.05
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (22 bp):
GTTTTACTCTAAAACTTTACAT
Found at i:145570 original size:122 final size:121
Alignment explanation
Indices: 145393--146318 Score: 1069
Period size: 122 Copynumber: 7.6 Consensus size: 121
145383 ACCTAAACTA
* * * *
145393 TAAACTTTTAA-TTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGT
1 TAAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TCGT
* * * * * * *
145457 CGTTAAAAAATTAACGCATTTAGTGCCTAAATTATCATTTGTGATTTGTCTTGGTACC
65 CGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCATTT-TGGTCTGTTTTAGTACC
* * *
145515 TAAAATTTCAATTTTTTTCAAAATCATACCTAACTTTTAG-TTTCATTTCATTTTAGTAACT-GT
1 TAAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGT-ACTCGT
* *
145578 TGTTAAAAACTT-ACTGCGTTTAGTACCTAAACTATCAATTTTGGTCTGTTTTAGTACC
65 CGTTAAAAAATTAAC-GCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACC
* * * *
145636 TAAACTTTTAA-GTTTTTCAAAATCATATCTAACGTTTAGTTTTCA-TTCTATTTTAGTAC-CAT
1 TAAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTC-ATTTTAGTACTC--
*
145698 GTCGTTAAAACATTAACGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACC
63 GTCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACC
* *
145758 TAAACTTCCAA-TTTTTTCAAAATCATACCTAACGTTTAG---T--TTTCATTTTAGTACTCGTC
1 TAAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTC
* * * * *
145817 GTTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCAGTTTTAGTATC
66 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACC
* * *
145874 TAAACTTTCAATTTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGT
1 TAAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TCGT
* * *
145939 CGTT-AAAAATTAACGCATTTAGTACCTAAACTATCATTTGTGATTTGTTTT-GATACC
65 CGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCATTT-TGGTCTGTTTTAG-TACC
* *
145996 TAAACTTTCATTTTTTTTTCAAAACCATATCC-AACGTTTAGTTTTCATTTCATTTTAGTACCCG
1 TAAACTTTCA-ATTTTTTTCAAAACCATA-CCTAACGTTTAGTTTTCATTTCATTTTAGTACTCG
* * ** *
146060 TCTTTAAAAATTTATTGCGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTACC
64 TCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACC
* * * *
146119 TAAACTTTCATTTTTTTTCCAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCACG-
1 TAAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-CTCGT
* * * *
146183 CTGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCAATTGTGATTTGTTTTGGTACC
65 C-GTTAAAAAATTAACGCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACC
* * * *
146242 TAAACATTC-ATTTTTTCCAAAACCATACCTAACGTTTAGTTTTTATTTCATTTTAGTACCCGTC
1 TAAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTC
*
146306 GTTAAAAACTTAA
66 GTTAAAAAATTAA
146319 TGGGAGAATG
Statistics
Matches: 694, Mismatches: 78, Indels: 65
0.83 0.09 0.08
Matches are distributed among these distances:
116 64 0.09
117 35 0.05
118 4 0.01
119 1 0.00
120 33 0.05
121 87 0.13
122 276 0.40
123 188 0.27
124 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (121 bp):
TAAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTC
GTTAAAAAATTAACGCGTTTAGTACCTAAACTATCATTTTGGTCTGTTTTAGTACC
Found at i:156818 original size:122 final size:120
Alignment explanation
Indices: 156375--158195 Score: 1118
Period size: 122 Copynumber: 15.2 Consensus size: 120
156365 AAAAATTCAT
* * * * * * * *
156375 TACCTAAATTATTAGTTTTAGTCTGTTTTAGTACTTAAACTTTTAATTTTTTCAAAATCATACAT
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
* * * * * *
156440 AATGTTTAGTTTTCATTTCATTTTAATAC-C-ACTGATAAATAATTAACACGTTTGG
66 AACGTTTAGTTTTCATTTCATTTTAGTACTCGTC-GTTAAA-AATTAACACATTTAG
* *
156495 TACCTAAACTATTAGTTGTAGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
* * *
156560 AACATTTAG---T--TTTCATTTTAGTACATTGTCGTTAAAAAATTAACGCATTTAG
66 AACGTTTAGTTTTCATTTCATTTTAGTAC-TCGTCGTT-AAAAATTAACACATTTAG
* * * * *
156612 TACCCAAACTATCAATTGTGATTTGTTTTGGTACCT-AACTATCAATTTTTTTCAAAATCATACC
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAA-TTTTTTCAAAATCATACC
* * * *
156676 TAATGTTCAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAATTAA-ATGCGTTTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGTTAAAAATTAACA--CATTTAG
* * * * * * *
156733 TACCTAAATTATCAGTTTTGGTCTGTTTTAGTATCTAAACTTTCATTTTTTTTCAAAACCATATC
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCA-ATTTTTTCAAAATCATACC
* *
156798 TAACATTTAGTTTTCATTTCATTTTAGTACATCGTCGTTAAAAAATTAACACAATTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTAC-TCGTCGTT-AAAAATTAACACATTTAG
* * *
156856 TACCTAACCTATCAGTTGTGATTTGTTTTGGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
** * * **
156921 AACGTTTAG-TTTCATTTCATTTTTTTACTCGTCGTTAAAAACTTAATGGGAGAATGAAG
66 AACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGTTAAAAA-TTAA---CA-CATTTAG
* * * ** * *** * * * * * * *
156980 CCACTCGAAA-T-GCTTTTATGCCATCTTTTCA--AGC--AA--TT--GTTTATT-GAAGTGA-A
1 -TAC-CTAAACTATCAGTTGTGGTTTGTTTT-AGTACCTAAACTTTCAATTTTTTCAAAATCATA
* * ** * * ** ** * * ** * ** * *
157033 AC-AATGTCAAATTTTTGA-AACA--AAAATATTTTTCCTTAAATCGTCTCATCCCTATTTTTAT
63 CCTAACGT-TTAGTTTTCATTTCATTTTAGTACTCGTCGTTAAA-AAT-T-AACAC-A--TTTA-
*
157094 T
120 G
** * * * * ** * ** **
157095 TAGTGTAAACAATAT-A-TATAT-ATATATATAACTTATGTATTTGAACTTGAAATTTAGTCAAA
1 TA-CCTAAAC--TATCAGT-TGTGGT-T-TGT--TTTA-GTACCTAAACTTTCAATTTTTTCAAA
** * * * * * * * * *
157157 TTATCAATA-CT-ATTTTTA--TTTGACTT-A-ATTAGT--T-TTTG-GATAAATTAA-AAATTC
57 --ATC-ATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGTTAAAAATTAACACATTT
*
157211 AT
119 AG
* * * * * * * * *
157213 TACCTAAATTATTAGTTTTAGTCTGTTTTAGTACTTAAACTTTTAAATTTTTCAAAATCATACAT
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
* * * * * * *
157278 AATGTTTAGTTTTGATTTCATTTTAATAC-C-ACTGATAAATAATTAACACGTTTGG
66 AACGTTTAGTTTTCATTTCATTTTAGTACTCGTC-GTTAAA-AATTAACACATTTAG
* * *
157333 TACCTAAACTATTAGTTGTAGTTTGTTTTAGTACCTAAACTTTCAATATTTTCAAAATCATACCT
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
* ** *
157398 AACATTTAG---T--TTTCATTTTAGTACATTATCGTTAAAAAATTAACGCATTTAG
66 AACGTTTAGTTTTCATTTCATTTTAGTAC-TCGTCGTT-AAAAATTAACACATTTAG
* * *
157450 TACCTAAACTATCAATTGTGATTTGTTTTGGTACCT-AACTTTCAATTTTTTTCAAAATCATACC
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAA-TTTTTTCAAAATCATACC
* * ** *
157514 TAATGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAACTTAATGCGTTTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGTTAAAAA-TTAACACATTTAG
* * * * * * *
157571 TACCTAAACTATCAATTTTGGTCTGTTTTAGTACCTACACTTTTAAGTTTTTCAAAA-CTATATC
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATC-ATACC
* * * * *
157635 TAACGTTTAGTTTTCATTTTATTTTTGTACCCTGCCGTTAAAAAATTAACACGTTTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTACTC-GTCGTT-AAAAATTAACACATTTAG
* *
157693 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACATTCAATTTATTTCAAAACCATACC
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTT-TTTCAAAATCATACC
* ****
157758 TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAATTTAATGTGTTTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGTTAAAAA-TTAACACATTTAG
* * *
157815 TACCTAAACTATCAGTTTTGGTCTATTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
* * *
157880 AACGTTTAGTTTTCATTTCATTTTAGTAC-C--CATTAAAAAATTAACGCGTTTAG
66 AACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGTT-AAAAATTAACACATTTAG
* *
157933 TACCTAAACTATCAGTTGTGATTTGTTTTGGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAA-TTTTTTCAAAATCATACC
* * * **
157998 TAACGTTTAGTTTTGATTTCATTTTAGTACCCGTCTTTAAAAACTTAATGCATTTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGTTAAAAA-TTAACACATTTAG
* * ** * *
158055 TACCTAAACTATTAGTTTTGGCCTGTTTTAGTACTTAAACTTTCATTTTTTTCAAAATCATACCT
1 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
* * * * ** ****
158120 AATGTTTAGTTTTCATTTTATTTTAGAACCCCACCGTTAAAAAATTAATGTGTTTAG
66 AACGTTTAGTTTTCATTTCATTTTAGTA-CTCGTCGTT-AAAAATTAACACATTTAG
158177 TACCTAAACTATCAGTTGT
1 TACCTAAACTATCAGTTGT
158196 ACCCGTCGTT
Statistics
Matches: 1330, Mismatches: 268, Indels: 204
0.74 0.15 0.11
Matches are distributed among these distances:
109 3 0.00
110 4 0.00
111 6 0.00
112 20 0.02
113 21 0.02
114 12 0.01
115 41 0.03
116 29 0.02
117 157 0.12
118 70 0.05
119 69 0.05
120 166 0.12
121 248 0.19
122 315 0.24
123 106 0.08
124 26 0.02
125 5 0.00
126 6 0.00
127 2 0.00
128 6 0.00
129 8 0.01
130 2 0.00
131 2 0.00
132 5 0.00
133 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (120 bp):
TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
AACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGTTAAAAATTAACACATTTAG
Found at i:157605 original size:121 final size:121
Alignment explanation
Indices: 157213--158195 Score: 1180
Period size: 122 Copynumber: 8.2 Consensus size: 121
157203 AAAAATTCAT
* * * * * * * *
157213 TACCTAAATTATTAGTTTTAGTCTGTTTTAGTACTTAAACTTTTAAATTTTTCAAAATCATACAT
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
* * * * * * *
157278 AATGTTTAGTTTTGATTTCATTTTAATACCAC-T-GATAAATAATTAACACGTTTGG
66 AACGTTTAGTTTTCATTTCATTTTAGTACC-CGTCGTTAAAAAATTAACGCGTTTAG
* * * *
157333 TACCTAAACTATTAGTTGTAGTTTGTTTTAGTACCTAAACTTTCAATATTTTCAAAATCATACCT
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
* *** *
157398 AACATTTAG---T--TTTCATTTTAGTACATTATCGTTAAAAAATTAACGCATTTAG
66 AACGTTTAGTTTTCATTTCATTTTAGTAC-CCGTCGTTAAAAAATTAACGCGTTTAG
* * * *
157450 TACCTAAACTATCAATTGTGATTTGTTTTGGTACCT-AACTTTCAATTTTTTTCAAAATCATACC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAA-TTTTTTCAAAATCATACC
* * *
157514 TAATGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAACTTAATGCGTTTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAACGCGTTTAG
* * * * * *
157571 TACCTAAACTATCAATTTTGGTCTGTTTTAGTACCTACACTTTTAAGTTTTTCAAAA-CTATATC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATC-ATACC
* * * *
157635 TAACGTTTAGTTTTCATTTTATTTTTGTACCCTGCCGTTAAAAAATTAACACGTTTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTACCC-GTCGTTAAAAAATTAACGCGTTTAG
* * *
157693 TACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACATTCAATTTATTTCAAAACCATACC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTT-TTTCAAAATCATACC
* * *
157758 TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAATTTAATGTGTTTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAACGCGTTTAG
* *
157815 TACCTAAACTATCAGTTTTGGTCTATTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
*
157880 AACGTTTAGTTTTCATTTCATTTTAGTA-CC--CATTAAAAAATTAACGCGTTTAG
66 AACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAACGCGTTTAG
* * *
157933 TACCTAAACTATCAGTTGTGATTTGTTTTGGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAA-TTTTTTCAAAATCATACC
* * * * *
157998 TAACGTTTAGTTTTGATTTCATTTTAGTACCCGTCTTTAAAAACTTAATGCATTTAG
65 TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAACGCGTTTAG
* * * * *
158055 TACCTAAACTATTAGTTTTGGCCTGTTTTAGTACTTAAACTTTCATTTTTTTCAAAATCATACCT
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
* * * ** * *
158120 AATGTTTAGTTTTCATTTTATTTTAGAACCCCACCGTTAAAAAATTAATGTGTTTAG
66 AACGTTTAGTTTTCATTTCATTTTAGTA-CCCGTCGTTAAAAAATTAACGCGTTTAG
158177 TACCTAAACTATCAGTTGT
1 TACCTAAACTATCAGTTGT
158196 ACCCGTCGTT
Statistics
Matches: 743, Mismatches: 101, Indels: 36
0.84 0.11 0.04
Matches are distributed among these distances:
115 13 0.02
116 10 0.01
117 74 0.10
118 60 0.08
119 46 0.06
120 70 0.09
121 182 0.24
122 245 0.33
123 42 0.06
124 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (121 bp):
TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCT
AACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAACGCGTTTAG
Found at i:157786 original size:61 final size:60
Alignment explanation
Indices: 157718--157909 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
157708 TTGTGGTTTG
157718 TTTTAGTACCTAAACATTCAATTTATTTCAAAACCATACCTAACGTTTAGTTTTCATTTCA
1 TTTTAGTACCTAAACATTCAATTT-TTTCAAAACCATACCTAACGTTTAGTTTTCATTTCA
* * * ** * ** *
157779 TTTTAGTACCCGTCGTTAAAAATTTAATGTGTTT-AGTACC-TA---AAC-TATCAGTTTTGGTC
1 TTTTAGTA--C--C--TAAACATTCAAT-TTTTTCAAAACCATACCTAACGT-TTAGTTTTCATT
157838 T-A
58 TCA
* *
157840 TTTTAGTACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCA
1 TTTTAGTACCTAAACATTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCA
157900 TTTTAGTACC
1 TTTTAGTACC
157910 CATTAAAAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
54 4 0.04
55 12 0.12
56 2 0.02
57 1 0.01
59 13 0.14
60 12 0.12
61 18 0.19
62 12 0.12
63 1 0.01
65 3 0.03
66 4 0.04
67 13 0.14
68 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (60 bp):
TTTTAGTACCTAAACATTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCA
Found at i:157788 original size:244 final size:244
Alignment explanation
Indices: 157236--158195 Score: 1311
Period size: 240 Copynumber: 4.0 Consensus size: 244
157226 AGTTTTAGTC
* * * * * *
157236 TGTTTTAGTACTTAAACTTTTAA-ATTTTTCAAAATCATACATAATGTTTAGTTTTGATTTCATT
1 TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATT
* * ** * * * * *
157300 TTAATACCAC-T-GATAAATAA-TTAACACGTTTGGTACCTAAACTATTAGTTGTAGTTTGTTTT
66 TTAGTACC-CGTCGTTAAA-AACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTT
* *
157362 AGTACCTAAACTTTCAATATTTTCAAAATCATACCTAACATTTAGTTTTC-----ATTTTAGTAC
129 AGTACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTTATTTTAGTAC
** * * *
157422 ATTATCGTTAAAAAATTAACGCATTTAGTACCTAAACTATCAATTGTGATT
194 CCTACCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGTGATT
* *
157473 TGTTTTGGTACCT-AACTTTCAATTTTTTTCAAAATCATACCTAATGTTTAGTTTTCATTTCATT
1 TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATT
*
157537 TTAGTACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAATTTTGGTCTGTTTTAG
66 TTAGTACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
* * * * *
157602 TACCTACACTTTTAAGTTTTTCAAAA-CTATATCTAACGTTTAGTTTTCATTTTATTTTTGTACC
131 TACCTAAACTTTCAATTTTTTCAAAATC-ATACCTAACGTTTAGTTTTCATTTTATTTTAGTACC
* * *
157666 CTGCCGTTAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGGTT
195 CTACCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGTGATT
* * *
157716 TGTTTTAGTACCTAAACATTCAATTTATTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATT
1 TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATT
* * *
157781 TTAGTACCCGTCGTTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAG
66 TTAGTACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
*
157846 TACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCC
131 TACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTTATTTTAGTACCC
157911 -A---TTAAAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGTGATT
196 TACCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGTGATT
* *
157956 TGTTTTGGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTGATTTCATT
1 TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATT
* * * *
158021 TTAGTACCCGTCTTTAAAAACTTAATGCATTTAGTACCTAAACTATTAGTTTTGGCCTGTTTTAG
66 TTAGTACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
* * * *
158086 TACTTAAACTTTCATTTTTTTCAAAATCATACCTAATGTTTAGTTTTCATTTTATTTTAGAACCC
131 TACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTTATTTTAGTACCC
* * *
158151 CACCGTTAAAAAATTAATGTGTTTAGTACCTAAACTATCAGTTGT
196 TACCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGT
158196 ACCCGTCGTT
Statistics
Matches: 639, Mismatches: 68, Indels: 25
0.87 0.09 0.03
Matches are distributed among these distances:
236 9 0.01
237 60 0.09
238 81 0.13
240 220 0.34
241 1 0.00
243 64 0.10
244 203 0.32
245 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (244 bp):
TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATT
TTAGTACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
TACCTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTTATTTTAGTACCC
TACCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGTGATT
Found at i:158283 original size:410 final size:412
Alignment explanation
Indices: 157784--158545 Score: 1447
Period size: 411 Copynumber: 1.9 Consensus size: 412
157774 TTTCATTTTA
157784 GTACCCGTCGTTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTAC
1 GTACCCGTCGTTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTAC
157849 CTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-CCCAT
66 CTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCCAT
*
157913 TAAAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGGTACCTAAACTTTCA
131 TAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGGTACCTAAACTTTCA
*
157978 ATTTTTTTCAAAATCATACCTAACGTTTAGTTTTGATTTCATTTTAGTACCCGTCTTTAAAAACT
196 ATTTTTTTCAAAATCATACCTAACGTTTAGTTTTGATTTAATTTTAGTACCCGTCTTTAAAAACT
*
158043 TAATGCATTTAGTACCTAAACTATTAGTTTTGGCCTGTTTTAGTACTTAAACTTTC-ATTTTTTT
261 TAATGCATTTAGTACCTAAACTATTAGTTTTGGCCTGTTTTAGTACCTAAACTTTCAATTTTTTT
158107 CAAAATCATACCTAATGTTTAGTTTTCATTTTATTTTAGAACCCCACCGTTAAAAAATTAATGTG
326 CAAAATCATACCTAATGTTTAGTTTTCATTTTATTTTAGAACCCCACCGTTAAAAAATTAATGTG
158172 TTTAGTACCTAAACTATCAGTT
391 TTTAGTACCTAAACTATCAGTT
158194 GTACCCGTCGTTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTAC
1 GTACCCGTCGTTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTAC
* *
158259 CTAAACTTTCAATTTTTTCAAAATCATACCTAACTTTTAGTTTTCATTTCATTTTAGTACCCCGT
66 CTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCCAT
158324 TAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGGTACCTAAACTTTCA
131 TAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGGTACCTAAACTTTCA
*
158389 ATTTTTTTCAAAATCATGCCTAACGTTTAGTTTTGATTTAATTTTAGTACCCGTCTTTAAAAACT
196 ATTTTTTTCAAAATCATACCTAACGTTTAGTTTTGATTTAATTTTAGTACCCGTCTTTAAAAACT
*
158454 TAATGCATTTAGTACCTAAACTATTAGTTTTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTT
261 TAATGCATTTAGTACCTAAACTATTAGTTTTGGCCTGTTTTAGTACCTAAACTTTCAATTTTTTT
158519 CAAAATCATACCTAATGTTTAGTTTTC
326 CAAAATCATACCTAATGTTTAGTTTTC
158546 TTCACCATCA
Statistics
Matches: 343, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
410 123 0.36
411 185 0.54
412 35 0.10
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.44
Consensus pattern (412 bp):
GTACCCGTCGTTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTAC
CTAAACTTTCAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCCAT
TAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGGTACCTAAACTTTCA
ATTTTTTTCAAAATCATACCTAACGTTTAGTTTTGATTTAATTTTAGTACCCGTCTTTAAAAACT
TAATGCATTTAGTACCTAAACTATTAGTTTTGGCCTGTTTTAGTACCTAAACTTTCAATTTTTTT
CAAAATCATACCTAATGTTTAGTTTTCATTTTATTTTAGAACCCCACCGTTAAAAAATTAATGTG
TTTAGTACCTAAACTATCAGTT
Found at i:158306 original size:170 final size:167
Alignment explanation
Indices: 158024--158362 Score: 509
Period size: 170 Copynumber: 2.0 Consensus size: 167
158014 TTTCATTTTA
* * *
158024 GTACCCGTCTTTAAAAACTTAATGCATTTAGTACCTAAACTATTAGTTTTGGCCTGTTTTAGTAC
1 GTACCCGTCGTTAAAAACTTAATGCATTTAGTACCTAAACTATCAGTTTTGGCCTATTTTAGTAC
* * *
158089 TTAAACTTTCATTTTTTTCAAAATCATACCTAATGTTTAGTTTTCATTTTATTTTAGAACCCCAC
66 CTAAACTTTCAATTTTTTCAAAATCATACCTAATGTTTAGTTTTCATTTCATTTTAGAA--CC-C
***
158154 CGTTAAAAAATTAATGTGTTTAGTACCTAAACTATCAGTT
128 CGTTAAAAAATTAACACGTTTAGTACCTAAACTATCAGTT
* ** *
158194 GTACCCGTCGTTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTAC
1 GTACCCGTCGTTAAAAACTTAATGCATTTAGTACCTAAACTATCAGTTTTGGCCTATTTTAGTAC
*
158259 CTAAACTTTCAATTTTTTCAAAATCATACCTAACT-TTTAGTTTTCATTTCATTTTAGTACCCCG
66 CTAAACTTTCAATTTTTTCAAAATCATACCTAA-TGTTTAGTTTTCATTTCATTTTAGAACCCCG
158323 TTAAAAAATTAACACGTTTAGTACCTAAACTATCAGTT
130 TTAAAAAATTAACACGTTTAGTACCTAAACTATCAGTT
158361 GT
1 GT
158363 GATTTGTTTT
Statistics
Matches: 154, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
167 40 0.26
168 2 0.01
170 111 0.72
171 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (167 bp):
GTACCCGTCGTTAAAAACTTAATGCATTTAGTACCTAAACTATCAGTTTTGGCCTATTTTAGTAC
CTAAACTTTCAATTTTTTCAAAATCATACCTAATGTTTAGTTTTCATTTCATTTTAGAACCCCGT
TAAAAAATTAACACGTTTAGTACCTAAACTATCAGTT
Found at i:158507 original size:122 final size:122
Alignment explanation
Indices: 158194--158545 Score: 521
Period size: 122 Copynumber: 2.9 Consensus size: 122
158184 ACTATCAGTT
* * *
158194 GTACCCGTCGTTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTAC
1 GTACCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTAC
* *
158259 CTAAACTTTCAA-TTTTTTCAAAATCATACCTAACTTTTAGTTTTCATTTCATTTTA
66 CTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTAATTTTA
** * * * *
158315 GTACCC--CGTTAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGGTAC
1 GTACCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTAC
* *
158378 CTAAACTTTCAATTTTTTTCAAAATCATGCCTAACGTTTAGTTTTGATTTAATTTTA
66 CTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTAATTTTA
* * * *
158435 GTACCCGTCTTTAAAAACTTAATGCATTTAGTACCTAAACTATTAGTTTTGGTCTGTTTTAGTAC
1 GTACCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTAC
*
158500 CTAAACTTTCAATTTTTTTCAAAATCATACCTAATGTTTAGTTTTC
66 CTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTC
158546 TTCACCATCA
Statistics
Matches: 202, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
119 60 0.30
120 46 0.23
121 6 0.03
122 90 0.45
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.44
Consensus pattern (122 bp):
GTACCCGTCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTAC
CTAAACTTTCAATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTAATTTTA
Found at i:159211 original size:214 final size:213
Alignment explanation
Indices: 158830--159260 Score: 569
Period size: 213 Copynumber: 2.0 Consensus size: 213
158820 TTAGTACTTA
* *
158830 AAACTTTTAATTTTTTCAAAACCATATGTAACGTTTAATTTTCATTTCATTTTAATACCAACTGT
1 AAACTTTTAATTTTTTCAAAACCATATCTAACATTTAATTTTCATTTCATTTTAATACCAACTGT
* * * * *
158895 TAAAAAATTAACACGTTTAGTATCTAAACTATTAGTTGTAGTTTGTTTTAGTACCTAAACTTTCA
66 TAAAAAATTAACACATTTAGTACCTAAACTATCAGTTGTAGTTTGTCTTAGTACCTAAAATTTCA
* *
158960 ATTTTTTCAAAATCATATCTAACGTTTAGTTTTCATTTTAGT-ACTCGTCGTTAAAAATTTAATG
131 ATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTTAGTAACT-GTCGTTAAAAACTTAATG
*
159024 TGTTTAGTACCTAAACTAC
195 CGTTTAGTACCTAAACTAC
* * ****
159043 AAACTTTTAATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCG
1 AAACTTTTAATTTTTTCAAAACCATATCTAACATTTAATTTTCATTTCATTTTAATACCAACT-G
* * * * *
159108 TTAAAAAATTAACGCATTTAGTGCCTAAATTATCATTTGT-GATTTGTCTTGGTACCTAAAATTT
65 TTAAAAAATTAACACATTTAGTACCTAAACTATCAGTTGTAG-TTTGTCTTAGTACCTAAAATTT
*
159172 CAATTTTTTTCAAAATCATACCTAACGTTTAGTTTCATTTCATTTTAGTAACTGTTGTTAAAAAC
129 CAA-TTTTTTCAAAATCATACCTAACGTTTAG--T--TTTCATTTTAGTAACTGTCGTTAAAAAC
*
159237 TTACTGCGTTTAGTACCTAAACTA
189 TTAATGCGTTTAGTACCTAAACTA
159261 TCAATTTTGG
Statistics
Matches: 187, Mismatches: 23, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
213 56 0.30
214 56 0.30
215 27 0.14
217 1 0.01
219 44 0.24
220 3 0.02
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (213 bp):
AAACTTTTAATTTTTTCAAAACCATATCTAACATTTAATTTTCATTTCATTTTAATACCAACTGT
TAAAAAATTAACACATTTAGTACCTAAACTATCAGTTGTAGTTTGTCTTAGTACCTAAAATTTCA
ATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTTAGTAACTGTCGTTAAAAACTTAATGC
GTTTAGTACCTAAACTAC
Found at i:159219 original size:122 final size:121
Alignment explanation
Indices: 159043--159966 Score: 1049
Period size: 121 Copynumber: 7.6 Consensus size: 121
159033 CCTAAACTAC
* * * *
159043 AAACTTTTAA-TTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTC
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TCGTC
* * * * * * *
159107 GTTAAAAAATTAACGCATTTAGTGCCTAAATTATCATTTGTGATTTGTCTTGGTACCT
65 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATCATTT-TGGTCTGTTTTAGTACCT
* * *
159165 AAAATTTCAATTTTTTTCAAAATCATACCTAACGTTTAG-TTTCATTTCATTTTAGTAACT-GTT
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGT-ACTCGTC
*
159228 GTTAAAAACTT-ACTGCGTTTAGTACCTAAACTATCAATTTTGGTCTGTTTTAGTACCT
65 GTTAAAAAATTAAC-GCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACCT
* * *
159286 AAACTTTTAA-GTTTTTCAAAACCATATCTAACGTTTAGTTTTCA-TTCTATTTTAGTAC-CATG
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTC-ATTTTAGTACTC--G
* *
159348 TCGTTAAAACATTAACGTGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCT
63 TCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCT
* * *
159408 AAACTTCCAA-TTTTTTCAAAATCATACTTAACGTTTAG---T--TTTCATTTTAGTACTCGTCG
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCG
* * * ** *
159467 TTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCAATTTTAGTATCT
66 TTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCT
* * * *
159524 AAACTTTCAATTTTTTTCAAAACCATATCTAACATTTAGTTTTCAGTTCATTTTAGTACTTTGTC
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TCGTC
* * * *
159589 GTT-AAAAATTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTT-GATACCT
65 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAG-TACCT
* *
159646 AAACTTTCATTTTTTTTTTCAAAACCATATCC-AACGTTTAGTTTTCATTTCATTTTAGTACCCG
1 AAACTTTCA--ATTTTTTTCAAAACCATA-CCTAACGTTTAGTTTTCATTTCATTTTAGTACTCG
* * * *
159710 TCTTTAAAAATTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTACCT
63 TCGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCT
* * *
159770 AAACTTTC-ATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCACGCC
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-CTCGTC
* * * *
159834 GTT-AAAAATTAACGCGTTTAGTACCTAAACTATCAATTGTGATTTGTTTTGGTACCT
65 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACCT
* * * *
159891 AAACATTC-ATTTTTTTCAAAATCATACCTAACATTTAGTTTTCATTTCATTTTAGTACCCGTCG
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCG
*
159955 TTAAAAACTTAA
66 TTAAAAAATTAA
159967 TGGGAGACTG
Statistics
Matches: 689, Mismatches: 83, Indels: 61
0.83 0.10 0.07
Matches are distributed among these distances:
116 64 0.09
117 34 0.05
118 4 0.01
119 1 0.00
120 42 0.06
121 219 0.32
122 185 0.27
123 41 0.06
124 97 0.14
125 2 0.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (121 bp):
AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCG
TTAAAAAATTAACGCGTTTAGTACCTAAACTATCATTTTGGTCTGTTTTAGTACCT
Found at i:159413 original size:457 final size:466
Alignment explanation
Indices: 158817--159937 Score: 1518
Period size: 457 Copynumber: 2.4 Consensus size: 466
158807 GGGTTACTCC
* * *
158817 GTTTTAGTACTTAAAACTTTTAATTTTTTCAAAACCATATGTAACGTTTAATTTTCATTTCATTT
1 GTTTTAGTACCT-AAACTTTTAATTTTTTCAAAACCATATCTAACGTTTAGTTTTCATTTCATTT
* * * * * *
158882 TAATACCAACT-GTTAAAAAATTAACACGTTTAGTATCTAAACTATTAGTTGTAGTTTGTTTTAG
65 TAGTACCAAGTCGTT-AAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAG
158946 TACCTAAACTTTCAATTTTTTCAAAATCATATCTAACGTTTAGTTTTCATTTTAGTACTCGTCGT
129 TACCTAAACTTTCAATTTTTTCAAAATCATA-CTAACGTTTAGTTTTCATTTTAGTACTCGTCGT
159011 TAAAAATTTAATGTGTTTAGTACCTAAAC-T-A-C-A-A-A-CT-TTT-AA-TTTTTTCAAAACC
193 TAAAAATTTAATGTGTTTAGTACCTAAACATCATCAATAGATCTATTTCAATTTTTTTCAAAACC
* *
159066 ATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCGTTAAAAAATTAACGCATTTAGTG
258 ATATCTAACATTTAGTTTTCAGTTCATTTTAGTACTTTGTCGTT-AAAAATTAACGCATTTAGTA
* * * *
159131 CCTAAATTATCATTTGTGATTTGTCTTGGTACCTAAAATTTCA-ATTTTTTTCAAAATCATA-CC
322 CCTAAACTATCAGTTGTGATTTGTCTTGATACCTAAAATTTCATATTTTTTTCAAAACCATATCC
* *
159194 TAACGTTTAG-TTTCATTTCATTTTAGTAACTGT-TGTTAAAAACTTACTGCGTTTAGTACCTAA
387 -AACGTTTAGTTTTCATTTCATTTTAGTAACCGTCT-TTAAAAACTTAATGCGTTTAGTACCTAA
159257 ACTATCAATTTTGGTCT
450 ACTATCAATTTTGGTCT
*
159274 GTTTTAGTACCTAAACTTTTAAGTTTTTCAAAACCATATCTAACGTTTAGTTTTCA-TTCTATTT
1 GTTTTAGTACCTAAACTTTTAATTTTTTCAAAACCATATCTAACGTTTAGTTTTCATTTC-ATTT
* * * *
159338 TAGTACCATGTCGTTAAAACATTAACGTGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
65 TAGTACCAAGTCGTTAAAA-ATTAACGCGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAG
*
159403 TACCTAAACTTCCAATTTTTTCAAAATCATACTTAACGTTTAGTTTTCATTTTAGTACTCGTCGT
129 TACCTAAACTTTCAATTTTTTCAAAATCATAC-TAACGTTTAGTTTTCATTTTAGTACTCGTCGT
159468 TAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCAATTTTAGTATCTAAACTTTCA
193 TAAAAATTTAATGTGTTTAGTACCTAAAC-ATCA-------TCAA---TAG-ATCT--A-TTTCA
159533 ATTTTTTTCAAAACCATATCTAACATTTAGTTTTCAGTTCATTTTAGTACTTTGTCGTTAAAAAT
243 ATTTTTTTCAAAACCATATCTAACATTTAGTTTTCAGTTCATTTTAGTACTTTGTCGTTAAAAAT
* * *
159598 TAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGATACCTAAACTTTCATTTTTTTT
308 TAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTCTTGATACCTAAAATTTCA-TATTTTT
* *
159663 TTCAAAACCATATCCAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCTTTAAAAATTTAATGC
372 TTCAAAACCATATCCAACGTTTAGTTTTCATTTCATTTTAGTAACCGTCTTTAAAAACTTAATGC
*
159728 GTTTAGTACCTAAACTATCAGTTTTGGTCT
437 GTTTAGTACCTAAACTATCAATTTTGGTCT
* * * * *
159758 ATTTTAGTACCTAAACTTTCATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTT
1 GTTTTAGTACCTAAACTTTTAATTTTTTCAAAACCATATCTAACGTTTAGTTTTCATTTCATTTT
* * * * *
159823 AGTACCACGCCGTTAAAAATTAACGCGTTTAGTACCTAAACTATCAATTGTGATTTGTTTTGGTA
66 AGTACCAAGTCGTTAAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAGTA
* * *
159888 CCTAAACATTCATTTTTTTCAAAATCATACCTAACATTTAGTTTTCATTT
131 CCTAAACTTTCAATTTTTTCAAAATCATA-CTAACGTTTAGTTTTCATTT
159938 CATTTTAGTA
Statistics
Matches: 581, Mismatches: 47, Indels: 46
0.86 0.07 0.07
Matches are distributed among these distances:
455 3 0.01
456 58 0.10
457 143 0.25
459 1 0.00
460 1 0.00
468 1 0.00
469 1 0.00
473 1 0.00
475 1 0.00
476 2 0.00
480 3 0.01
481 59 0.10
482 56 0.10
483 110 0.19
484 137 0.24
485 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.45
Consensus pattern (466 bp):
GTTTTAGTACCTAAACTTTTAATTTTTTCAAAACCATATCTAACGTTTAGTTTTCATTTCATTTT
AGTACCAAGTCGTTAAAAATTAACGCGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAGTA
CCTAAACTTTCAATTTTTTCAAAATCATACTAACGTTTAGTTTTCATTTTAGTACTCGTCGTTAA
AAATTTAATGTGTTTAGTACCTAAACATCATCAATAGATCTATTTCAATTTTTTTCAAAACCATA
TCTAACATTTAGTTTTCAGTTCATTTTAGTACTTTGTCGTTAAAAATTAACGCATTTAGTACCTA
AACTATCAGTTGTGATTTGTCTTGATACCTAAAATTTCATATTTTTTTCAAAACCATATCCAACG
TTTAGTTTTCATTTCATTTTAGTAACCGTCTTTAAAAACTTAATGCGTTTAGTACCTAAACTATC
AATTTTGGTCT
Found at i:160927 original size:122 final size:121
Alignment explanation
Indices: 160636--161572 Score: 1286
Period size: 122 Copynumber: 7.7 Consensus size: 121
160626 ACATACCTCT
* * * * ** * *
160636 TCGTTAAAAAATCAACGCATTTAATATTTAAACTATTC-GTTGTGATTTGTTTTAGTACCTAAAC
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTA-TCAGTTTTGGTTTGTTTTAGTACCTAAAC
* ** *
160700 TTTTAATTTTTTTAAAATCATATTTAACGTTTAGTTTTCATTTCATTTTAGTACTCG
65 TTTTAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCG
** * * *
160757 TCGTTAAAACCTTAATGCATTTAGTACATAAACTATCAGTTTTTGTTTGTTTTAGTACCTAAACT
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACT
* *
160822 TTTAATTTTTTCAAAATCATATCTAACGATTAGTTTTCATTTCATTTTAGTATCCCG
66 TTTAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-CCCG
160879 TCGTTAAAAAATTAATGTC-TTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAAC
1 TCGTTAAAAAATTAATG-CGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAAC
* ****
160943 TTTCAAAAAAAATTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCG
65 TTT--TAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCG
* * ** *
161002 TCGTTAAAAACTTAATGCGTTTAGTACATAAACTATCAGTTTTTATCTGTTTTAGTACCTAAACT
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACT
* *
161067 TTTAATTTTTTCAAAATCATACCAAACGTTTAGTTTTCATTTCATTTTAGTATCCCA
66 TTTAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-CCCG
*
161124 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACT
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACT
* * *
161189 TTCAATTTATTTTCAAAATCATACCTAACGTTTAGTTTTTATTTTATTTTAGTACCCG
66 TTTAA-TT-TTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCG
* * *
161247 TCGTTAAAAACTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTATGTGTTTAGTACCTAAAC
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGT-TTTAGTACCTAAAC
161312 TTTTAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTCCG
65 TTTTAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-CCG
* * * * * *
161370 CCGTTAAAAAATTAACGCTTTTAGTATCTAAACTATCAGTTGTGATTTGTTTTAGTACCTAAACT
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACT
*
161435 TTTATTTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCG
66 TTTA-ATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCG
* * * * *
161492 TCGTTAAAAATTTAATGCGTTTAGTACCTAAACTATTAGTTTTTGTCTGTTTTAATACCTAAACT
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACT
*
161557 TTCAAATTTTTT-AAAA
66 TT-TAATTTTTTCAAAA
161573 CGTAACTTTG
Statistics
Matches: 725, Mismatches: 78, Indels: 26
0.87 0.09 0.03
Matches are distributed among these distances:
120 2 0.00
121 149 0.21
122 259 0.36
123 211 0.29
124 104 0.14
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (121 bp):
TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACT
TTTAATTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCG
Found at i:161064 original size:245 final size:245
Alignment explanation
Indices: 160636--161572 Score: 1377
Period size: 245 Copynumber: 3.8 Consensus size: 245
160626 ACATACCTCT
* * * * ** *
160636 TCGTTAAAAAATCAACGCATTTAATATTTAAACTATTC-GTTGTGATTTGTTTTAGTACCTAAAC
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTA-TCAGTTGTGGTTTGTTTTAGTACCTAAAC
* ** *
160700 TTTTAATTT-TTTT-AAAATCATATTTAACGTTTAGTTTTCATTTCATTTTAGTACTCGTCGTTA
65 TTTCAATTTATTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTA
* * * *
160763 AAACCTTAATGCATTTAGTACATAAACTATCAGTTTTTGTTTGTTTTAGTACCTAAACTTTTAAT
130 AAAACTTAATGCGTTTAGTACATAAACTATCAGTTTTTATCTGTTTTAGTACCTAAACTTTTAAT
* *
160828 TTTTTCAAAATCATATCTAACGATTAGTTTTCATTTCATTTTAGTATCCCG
195 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTATCCCG
*
160879 TCGTTAAAAAATTAATGTC-TTTAGTACCTAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAAC
1 TCGTTAAAAAATTAATG-CGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAAC
*** **
160943 TTTCAAAAAAAATTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTA
65 TTTCAATTTATTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTA
161008 AAAACTTAATGCGTTTAGTACATAAACTATCAGTTTTTATCTGTTTTAGTACCTAAACTTTTAAT
130 AAAACTTAATGCGTTTAGTACATAAACTATCAGTTTTTATCTGTTTTAGTACCTAAACTTTTAAT
* *
161073 TTTTTCAAAATCATACCAAACGTTTAGTTTTCATTTCATTTTAGTATCCCA
195 TTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTATCCCG
161124 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACT
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACT
* *
161189 TTCAATTTATTTTCAAAATCATACCTAACGTTTAGTTTTTATTTTATTTTAGTACCCGTCGTTAA
66 TTCAATTTATTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAA
* * *
161254 AAACTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTATGTG-TTTAGTACCTAAACTTTTAA
131 AAACTTAATGCGTTTAGTACATAAACTATCAGTTTT--TATCTGTTTTAGTACCTAAACTTTTAA
161318 TTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-CTCCG
194 TTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTATC-CCG
* * * * *
161370 CCGTTAAAAAATTAACGCTTTTAGTATCTAAACTATCAGTTGTGATTTGTTTTAGTACCTAAACT
1 TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACT
* *
161435 TT-TATTTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAA
66 TTCAATTTATTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAA
* * * * * *
161499 AAATTTAATGCGTTTAGTACCTAAACTATTAGTTTTTGTCTGTTTTAATACCTAAACTTTCAAAT
131 AAACTTAATGCGTTTAGTACATAAACTATCAGTTTTTATCTGTTTTAGTACCTAAACTTT-TAAT
161564 TTTTT-AAAA
195 TTTTTCAAAA
161573 CGTAACTTTG
Statistics
Matches: 631, Mismatches: 53, Indels: 19
0.90 0.08 0.03
Matches are distributed among these distances:
242 2 0.00
243 61 0.10
244 24 0.04
245 409 0.65
246 130 0.21
247 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (245 bp):
TCGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACT
TTCAATTTATTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAA
AAACTTAATGCGTTTAGTACATAAACTATCAGTTTTTATCTGTTTTAGTACCTAAACTTTTAATT
TTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTATCCCG
Found at i:163898 original size:105 final size:105
Alignment explanation
Indices: 163690--164209 Score: 795
Period size: 105 Copynumber: 5.0 Consensus size: 105
163680 TACAGGTTCA
* *
163690 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGCCTGT---CAACAACTTCTCA
1 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
* *
163752 ATTTCAGAACCAATTTCAACTTCACAATGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
163792 ACTTCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
163857 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
163897 ACTTCAGACAACGCAAGTTCAACTTCACGACAAAGGGACCGCTGCTTGTCAACAACAACTTCCCA
1 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
**
163962 ATCGCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
164002 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGATCGATGCTTGTCAACAACAACTTCCCA
1 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
164067 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
164107 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-
1 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
** * * *
164168 A-TTCAGATTCAATTTCAACTTCACGATGGAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
164207 ACT
1 ACT
164210 CTGAACAATG
Statistics
Matches: 389, Mismatches: 26, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
100 35 0.09
101 1 0.00
102 47 0.12
103 2 0.01
104 2 0.01
105 302 0.78
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:165413 original size:18 final size:17
Alignment explanation
Indices: 165374--165416 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
165364 ATTATATGGA
165374 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
165390 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
165408 TATTATTAT
1 TATTATTAT
165417 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:165931 original size:2 final size:2
Alignment explanation
Indices: 165924--165957 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
165914 TAATACTTTG
*
165924 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
165958 TTTTCCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:167420 original size:25 final size:25
Alignment explanation
Indices: 167394--167440 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
167384 TTAACACTTT
*
167394 TTTTTTATTA-TTTT-ATTAATTAA
1 TTTTTTATTATTTTTGTTTAATTAA
167417 TTTTTTATTATTTTTGTTTAATTA
1 TTTTTTATTATTTTTGTTTAATTA
167441 TATAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 4 0.19
25 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (25 bp):
TTTTTTATTATTTTTGTTTAATTAA
Found at i:181280 original size:15 final size:16
Alignment explanation
Indices: 181260--181297 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
181250 TTTGATTTTT
*
181260 TTTAAAA-TACAAATA
1 TTTAAAATTAAAAATA
181275 TTTAAAATTAAAAATA
1 TTTAAAATTAAAAATA
181291 TTTAAAA
1 TTTAAAA
181298 AAATTAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TTTAAAATTAAAAATA
Found at i:181828 original size:16 final size:16
Alignment explanation
Indices: 181799--181849 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
181789 ATTTGACTTG
* *
181799 AACCAAAAATAACCTA
1 AACCAAAAACAACCCA
* *
181815 AAGCGAAAACAACCCA
1 AACCAAAAACAACCCA
*
181831 AACCAAAAACAATCCA
1 AACCAAAAACAACCCA
181847 AAC
1 AAC
181850 TGAATTTAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.61, C:0.29, G:0.04, T:0.06
Consensus pattern (16 bp):
AACCAAAAACAACCCA
Found at i:194070 original size:122 final size:122
Alignment explanation
Indices: 193803--194654 Score: 1094
Period size: 122 Copynumber: 7.0 Consensus size: 122
193793 ATTTAATATT
* * * * * *
193803 TAAACTATCCGTTGTGATTTATTTTGGTAACTAAACTTTTAATTTTTTCAAAATCATACCTAACG
1 TAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACTTTTAATTTTTTCAAAATCATACCTAACG
* * *
193868 TTTAGTTTTCATTTCATTTTAATA-CTCGTCGTTAAAAACTTAATGT-GTTTAGTACA
66 TTTAGTTTTCATTTCATTTTAGTATC-CGTCGTTAAAAAATTAATGTCGTTTAGTACC
* * * *
193924 TAAACTATCAGTTTTTGTCTGTTTTAGTACCTAAACTTTTGATTTTTTCAAAATCATACCTAACA
1 TAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACTTTTAATTTTTTCAAAATCATACCTAACG
* *
193989 ATTAGTTTTCATTTCATTTTAGTATCCTGCCGTTAAAAAATTAATGTC-TTTAGTACC
66 TTTAGTTTTCATTTCATTTTAGTATCC-GTCGTTAAAAAATTAATGTCGTTTAGTACC
*
194046 TAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAAC
1 TAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACTTTTAA-TTTTTTCAAAATCATACCTAAC
* *
194111 GTTTAGTTTTCATTTCATTTTAGTATCCGTCGTTAAAAACTTAATG-CGTTTAGTACA
65 GTTTAGTTTTCATTTCATTTTAGTATCCGTCGTTAAAAAATTAATGTCGTTTAGTACC
* * ** * *
194168 TAAACTATCAGTTTTTGTGTGTTTTAGTACCTAATTTTTTATTTTTTTCAAAATCATACCAAACG
1 TAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACTTTTAATTTTTTCAAAATCATACCTAACG
194233 TTTAGTTTTCATTTCATTTTAGTATCCCGTCGTTAAAAAATTAATGT-GTTTAGTACC
66 TTTAGTTTTCATTTCATTTTAGTAT-CCGTCGTTAAAAAATTAATGTCGTTTAGTACC
* * ****
194290 TAAACTATCA-TTTGTAGTTTGTTTTAGTACCTAAACTTTCAAAAAAATTCAAAATCATACCTAA
1 TAAACTATCAGTTT-TGGTTTGTTTTAGTACCTAAACTTT-TAATTTTTTCAAAATCATACCTAA
* * * * *
194354 TGTTTAGTTTTTATTTCATTTTAATATTCGTCGTTAAAAACTTAATG-CGTTTAGTACC
64 CGTTTAGTTTTCATTTCATTTTAGTATCCGTCGTTAAAAAATTAATGTCGTTTAGTACC
* * *
194412 TAATCTATCAGTTTTGGTATGTGTTTAGTAACTAAACTTTTAATTTTTTCAAAATCATACCTAAC
1 TAAACTATCAGTTTTGGTTTGT-TTTAGTACCTAAACTTTTAATTTTTTCAAAATCATACCTAAC
* ** *
194477 GTTTAGTTTTCATTTCATTTTAGTACTCCGCCGTTAAAAAATTAA-CACTTTTAGTACC
65 GTTTAGTTTTCATTTCATTTTAGTA-TCCGTCGTTAAAAAATTAATGTCGTTTAGTACC
* *
194535 TAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAA-TTTTCAATTTTTTTTTCAAAATTATACCT
1 TAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACTTTT-AA---TTTTTTCAAAATCATACCT
* * * *
194599 AACGTTTAATTTTCATTTCATTTTAATAACCGTCGTTAAAAATTTAATG-CGTTTAG
62 AACGTTTAGTTTTCATTTCATTTTAGTATCCGTCGTTAAAAAATTAATGTCGTTTAG
194655 GGAGAAGTGG
Statistics
Matches: 634, Mismatches: 78, Indels: 35
0.85 0.10 0.05
Matches are distributed among these distances:
121 133 0.21
122 282 0.44
123 153 0.24
124 22 0.03
125 44 0.07
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (122 bp):
TAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACTTTTAATTTTTTCAAAATCATACCTAACG
TTTAGTTTTCATTTCATTTTAGTATCCGTCGTTAAAAAATTAATGTCGTTTAGTACC
Found at i:194216 original size:244 final size:242
Alignment explanation
Indices: 193803--194654 Score: 1224
Period size: 244 Copynumber: 3.5 Consensus size: 242
193793 ATTTAATATT
* * * * * *
193803 TAAACTATCCGTTGTGATTTATTTTGGTAACTAAACTTTTAA-TTTTTTCAAAATCATACCTAAC
1 TAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAAC
*
193867 GTTTAGTTTTCATTTCATTTTAATA-CTCGTCGTTAAAAACTTAATGTGTTTAGTACATAAACTA
66 GTTTAGTTTTCATTTCATTTTAATATC-CGTCGTTAAAAACTTAATGCGTTTAGTACATAAACTA
* * **
193931 TCAGTTTTTGTCTGTTTTAGTACCTAAACTTTTGATTTTTTCAAAATCATACCTAACAATTAGTT
130 TCAGTTTTTGTATGTTTTAGTACCTAAA-TTTTTATTTTTTCAAAATCATACCTAACGTTTAGTT
193996 TTCATTTCATTTTAGTATCCTGCCGTTAAAAAATTAATGTCTTTAGTACC
194 TTCATTTCATTTTAGTATCC-GCCGTTAAAAAATTAATGTCTTTAGTACC
*
194046 TAAACTATCAGTTTTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAAC
1 TAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAAC
*
194111 GTTTAGTTTTCATTTCATTTTAGTATCCGTCGTTAAAAACTTAATGCGTTTAGTACATAAACTAT
66 GTTTAGTTTTCATTTCATTTTAATATCCGTCGTTAAAAACTTAATGCGTTTAGTACATAAACTAT
* * *
194176 CAGTTTTTGTGTGTTTTAGTACCTAATTTTTTATTTTTTTCAAAATCATACCAAACGTTTAGTTT
131 CAGTTTTTGTATGTTTTAGTACCTAAATTTTTA-TTTTTTCAAAATCATACCTAACGTTTAGTTT
* *
194241 TCATTTCATTTTAGTATCCCGTCGTTAAAAAATTAATGTGTTTAGTACC
195 TCATTTCATTTTAGTAT-CCGCCGTTAAAAAATTAATGTCTTTAGTACC
* * ***** *
194290 TAAACTATCATTTGTAGTTTGTTTTAGTACCTAAACTTTCAAAAAAATTCAAAATCATACCTAAT
1 TAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAAC
* * * *
194355 GTTTAGTTTTTATTTCATTTTAATATTCGTCGTTAAAAACTTAATGCGTTTAGTACCTAATCTAT
66 GTTTAGTTTTCATTTCATTTTAATATCCGTCGTTAAAAACTTAATGCGTTTAGTACATAAACTAT
* * *
194420 CAGTTTTGGTATGTGTTTAGTAACTAAACTTTTAATTTTTTCAAAATCATACCTAACGTTTAGTT
131 CAGTTTTTGTATGT-TTTAGTACCTAAA-TTTTTATTTTTTCAAAATCATACCTAACGTTTAGTT
**
194485 TTCATTTCATTTTAGTACTCCGCCGTTAAAAAATTAA-CACTTTTAGTACC
194 TTCATTTCATTTTAGTA-TCCGCCGTTAAAAAATTAATGTC-TTTAGTACC
* *
194535 TAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAATTTTCAATTTTTTTTTCAAAATTATACCTA
1 TAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAA--TTTTTTTCAAAATCATACCTA
* * *
194600 ACGTTTAATTTTCATTTCATTTTAATAACCGTCGTTAAAAATTTAATGCGTTTAG
64 ACGTTTAGTTTTCATTTCATTTTAATATCCGTCGTTAAAAACTTAATGCGTTTAG
194655 GGAGAAGTGG
Statistics
Matches: 543, Mismatches: 56, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
243 40 0.07
244 308 0.57
245 125 0.23
246 6 0.01
247 64 0.12
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (242 bp):
TAAACTATCAGTTGTGGTTTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAAC
GTTTAGTTTTCATTTCATTTTAATATCCGTCGTTAAAAACTTAATGCGTTTAGTACATAAACTAT
CAGTTTTTGTATGTTTTAGTACCTAAATTTTTATTTTTTCAAAATCATACCTAACGTTTAGTTTT
CATTTCATTTTAGTATCCGCCGTTAAAAAATTAATGTCTTTAGTACC
Found at i:199915 original size:55 final size:56
Alignment explanation
Indices: 199777--199970 Score: 300
Period size: 56 Copynumber: 3.4 Consensus size: 56
199767 ATTACATCAG
* *
199777 ACTAACATAGTGGGCACGCCTGATCCAGAGGGTATGTCTGCTGTTGCTGTTGATTTTTTC
1 ACTAACCTAGTGGGCACGCCTG----AGAGGGTATGTCTTCTGTTGCTGTTGATTTTTTC
199837 ACTAACCTAGTGGGCACGCCTGAGAGGGTATGTCTTCTGTTGCTGTTGA-TTTTTC
1 ACTAACCTAGTGGGCACGCCTGAGAGGGTATGTCTTCTGTTGCTGTTGATTTTTTC
* *
199892 ACTAACCTAGTGGGCACGCCTGAGAAGGTATGTCTTCTGTTGCTATTGATTTTTTC
1 ACTAACCTAGTGGGCACGCCTGAGAGGGTATGTCTTCTGTTGCTGTTGATTTTTTC
*
199948 ACTAACCTAGTGGGCACACCTGA
1 ACTAACCTAGTGGGCACGCCTGA
199971 TCCAGAGTTC
Statistics
Matches: 128, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
55 53 0.41
56 54 0.42
60 21 0.16
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (56 bp):
ACTAACCTAGTGGGCACGCCTGAGAGGGTATGTCTTCTGTTGCTGTTGATTTTTTC
Found at i:209685 original size:22 final size:22
Alignment explanation
Indices: 209632--209689 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 22
209622 ATTTTTAAAT
209632 TATTAATT-TTAAAAAAAATAA
1 TATTAATTATTAAAAAAAATAA
* * *
209653 AATTTATATTATTAAAAAATATTA
1 TA-TTA-ATTATTAAAAAAAATAA
209677 TATTAATTATTAA
1 TATTAATTATTAA
209690 TCATACAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 6 0.20
24 12 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTAATTATTAAAAAAAATAA
Found at i:219210 original size:18 final size:18
Alignment explanation
Indices: 219187--219226 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
219177 GATTTTGTCT
219187 GAAACTGGAAGAGGCTTG
1 GAAACTGGAAGAGGCTTG
219205 GAAACTGGAAGAGGCTTG
1 GAAACTGGAAGAGGCTTG
219223 GAAA
1 GAAA
219227 TTGTTCCAAG
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:0.38, C:0.10, G:0.38, T:0.15
Consensus pattern (18 bp):
GAAACTGGAAGAGGCTTG
Found at i:221024 original size:121 final size:122
Alignment explanation
Indices: 220639--221565 Score: 1112
Period size: 122 Copynumber: 7.7 Consensus size: 122
220629 AAAAATCCAT
* * * * * * *
220639 TACCTAAATTATTAGTTTTAGTCTGTTTTAGTACTTAAACTTTTAA-TTTTTTCAAAATCATACA
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
* * * ** *
220703 TAATGTTTAGTTTTCATTTCATTTTAATACCAC-T-GTTAAATAATTAACACGTTTGG
66 TAACGTTTAGTTTTCATTTCATTTTAGTACC-CGTCGTTAAAAAATTAATGCGTTTAG
* * * *
220759 TACCTAAACTATTAGTTGTAGTTTGTTTTAGTACCTAAACTTTC-ATTTTTTTCAAAATCATATC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
* ** * *
220823 TAACATTTAG---T--TTTCATTTTAGTACATTGTCGTTAAAAAATTAATACATTTAG
66 TAACGTTTAGTTTTCATTTCATTTTAGTAC-CCGTCGTTAAAAAATTAATGCGTTTAG
* * * *
220876 TACCTAAACTATCAATTGTGATTTGTTTTGGTACCT-AACTTTCAATTTTTTTCAAAATCATACC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
* *
220940 TAATGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAACTTAATGCGTTTAG
66 TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAATGCGTTTAG
* * * * * *
220997 TACCTAAACTATCAATTTTGGTCTGTTTTAGTATCTAAACTTTTAA-GTTTTTCAAAA-CTATAT
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATC-ATAC
* * * **
221060 CTAACGTTTAGTTTTCATTTTATTTTAGTACCTGCCGTTAAAAAATTAACACGTTTAG
65 CTAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAATGCGTTTAG
* * * * *
221118 TACCTAAATTATCAGTTGTGGTTTGTTTTAGTACCTAAACATTCAATTTTTTTCAAAACCATATC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
* * * *
221183 TAACATTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAATTTATTGTGTTTAG
66 TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAATGCGTTTAG
* * *
221240 TACCTAAACTATCAGTTTTGGTCTATTTTAGTACCTAAACTTTCAA-TTTTTTCAAAATCATAAC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
* *
221304 TAACGTTTAGTTTTCA-TTCATTTTAGTACCC--CGTTAAAAAATTAACGTGTTTAG
66 TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAATGCGTTTAG
* * *
221358 TACCTAAACTATCAGTTGTGATTTGTTTTGGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
* * * * * *
221423 TAACATTTAGTTTTGATTTCATTTTAGTACACGTCTTTAAAAACTTAATGCATTTAG
66 TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAATGCGTTTAG
*
221480 TACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
1 TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
* *
221545 TAATGCATTTAGTTTTGATTT
66 TAA--CGTTTAGTTTTCATTT
221566 TTTTCAAAAT
Statistics
Matches: 697, Mismatches: 90, Indels: 36
0.85 0.11 0.04
Matches are distributed among these distances:
115 13 0.02
116 8 0.01
117 77 0.11
118 61 0.09
119 32 0.05
120 94 0.13
121 187 0.27
122 208 0.30
123 1 0.00
124 16 0.02
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (122 bp):
TACCTAAACTATCAGTTGTGGTCTGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACC
TAACGTTTAGTTTTCATTTCATTTTAGTACCCGTCGTTAAAAAATTAATGCGTTTAG
Found at i:221465 original size:240 final size:240
Alignment explanation
Indices: 220662--221547 Score: 1189
Period size: 240 Copynumber: 3.7 Consensus size: 240
220652 AGTTTTAGTC
* * * **
220662 TGTTTTAGTACTTAAACTTTTAA-TTTTTTCAAAATCATACATAATGTTTAGTTTTCATTTCATT
1 TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACATTTAGTTTTCATTTCATT
* ** * * * * *
220726 TTAATACCAC-T-GTTAAATAA-TTAACACGTTTGGTACCTAAACTATTAGTTGTAGTTTGTTTT
66 TTAGTA-CACGTCGTTAAA-AACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTT
* *
220788 AGTACCTAAACTTTCATTTTTTTCAAAATCATATCTAACATTTAG--TT--TTCATTTTAGTACA
129 AGTACCTAAACTTTCAATTTTTTCAAAATCATATCTAACGTTTAGTTTTCATTCATTTTAGTAC-
** * * *
220849 TTGTCGTTAAAAAATTAATACATTTAGTACCTAAACTATCAATTGTGATT
193 --CCCGTTAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGATT
* **
220899 TGTTTTGGTACCT-AACTTTCAATTTTTTTCAAAATCATACCTAATGTTTAGTTTTCATTTCATT
1 TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACATTTAGTTTTCATTTCATT
* *
220963 TTAGTACCCGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAATTTTGGTCTGTTTTAG
66 TTAGTACACGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
* * * *
221028 TATCTAAACTTTTAAGTTTTTCAAAA-CTATATCTAACGTTTAGTTTTCATTTTATTTTAGTACC
131 TACCTAAACTTTCAATTTTTTCAAAATC-ATATCTAACGTTTAGTTTTCA-TTCATTTTAGTACC
* *
221092 TGCCGTTAAAAAATTAACACGTTTAGTACCTAAATTATCAGTTGTGGTT
194 --CCGTTAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGATT
* * *
221141 TGTTTTAGTACCTAAACATTCAATTTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATT
1 TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACATTTAGTTTTCATTTCATT
* * * * *
221206 TTAGTACCCGTCGTTAAAAATTTATTGTGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAG
66 TTAGTACACGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
*
221271 TACCTAAACTTTCAATTTTTTCAAAATCATAACTAACGTTTAGTTTTCATTCATTTTAGTACCCC
131 TACCTAAACTTTCAATTTTTTCAAAATCATATCTAACGTTTAGTTTTCATTCATTTTAGTACCCC
**
221336 GTTAAAAAATTAACGTGTTTAGTACCTAAACTATCAGTTGTGATT
196 GTTAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGATT
* *
221381 TGTTTTGGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACATTTAGTTTTGATTTCATT
1 TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACATTTAGTTTTCATTTCATT
* *
221446 TTAGTACACGTCTTTAAAAACTTAATGCATTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
66 TTAGTACACGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
*
221511 TACCTAAACTTTCAATTTTTTTCAAAATCATACCTAA
131 TACCTAAACTTTCAA-TTTTTTCAAAATCATATCTAA
221548 TGCATTTAGT
Statistics
Matches: 574, Mismatches: 60, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
236 10 0.02
237 60 0.10
238 78 0.14
240 178 0.31
241 20 0.03
242 66 0.11
243 161 0.28
244 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.45
Consensus pattern (240 bp):
TGTTTTAGTACCTAAACTTTCAATTTTTTTCAAAATCATACCTAACATTTAGTTTTCATTTCATT
TTAGTACACGTCGTTAAAAACTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAG
TACCTAAACTTTCAATTTTTTCAAAATCATATCTAACGTTTAGTTTTCATTCATTTTAGTACCCC
GTTAAAAAATTAACACGTTTAGTACCTAAACTATCAGTTGTGATT
Found at i:222263 original size:122 final size:120
Alignment explanation
Indices: 222110--223035 Score: 1021
Period size: 122 Copynumber: 7.7 Consensus size: 120
222100 CCTAAACTAC
* * *
222110 AAACTTTTAATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCG
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TTGTCG
* * * * * *
222175 TTAAAAAATTAACGCATTTAGTACCTAAATTATCATTTGTGATTTGTCTTGGTACCT
65 TTAAAAAATTAATGCATTTAGTACCTAAACTATCATTT-TGGTCTGTTTTAGTACCT
* * * *
222232 AAAATTTCAATTTTTTCAAAATCATACCTAACATTTAG-TTTCATTTCATTTTAGTAAC-TGTTG
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGT-ACTTGTCG
* * *
222295 TTAAAAACTTAATGCGTTTAGTACCTAAACTATCAATTTTGGTATGTTTTAGTACCT
65 TTAAAAAATTAATGCATTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACCT
* * * * * *
222352 AAACTTTTAAGTGTTTCAAAATCATATCTAACGTTTAGTTTTCA-TTCTATTTTAGTACAATGTC
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTC-ATTTTAGTAC-TTGTC
* *
222416 GTTAAAACATTAACG-AGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCT
64 GTTAAAAAATTAATGCA-TTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCT
* * *
222474 AAACTTCCAATTTTTTCAAAATCATACCTAACGTTTAG---T--TTTCATTTTAGTACTCGTCGT
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTTGTCGT
* ** * *
222534 TAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCAGTTTTAGTATCT
66 TAAAAAATTAATGCATTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCT
* * *
222590 AAACTTTCAATTTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTATC
1 AAACTTTCAA-TTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TTGTC
* * * * * *
222655 GTT-AAAAACTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTT-GATATCT
64 GTTAAAAAATTAATGCATTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAG-TACCT
* **
222712 AAACTTTCATTTTTTTTCAAAACCATATCC-AACGTTTAGTTTTCATTTCATTTTAGTACCCGTC
1 AAACTTTCA-ATTTTTTCAAAACCATA-CCTAACGTTTAGTTTTCATTTCATTTTAGTACTTGTC
* * * *
222776 TTTAAAAATTTAATGCCTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTACCT
64 GTTAAAAAATTAATGCATTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCT
* * ** *
222834 AAACTTTCATATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTGCCACGC
1 AAACTTTCA-A-TTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGT-ACTTGT
* * * * * *
222899 CGTTAAAAAATTAATGCGTTTAGTACCTAAACTATCAATTGTGATTTATTTTGGTACCT
63 CGTTAAAAAATTAATGCATTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACCT
* * *
222958 AAACATTCATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCTGTCGT
1 AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTTGTCGT
*
223023 TAAAAACTTAATG
66 TAAAAAATTAATG
223036 GGAGAATGAA
Statistics
Matches: 689, Mismatches: 89, Indels: 53
0.83 0.11 0.06
Matches are distributed among these distances:
116 63 0.09
117 35 0.05
118 3 0.00
119 1 0.00
120 86 0.12
121 57 0.08
122 332 0.48
123 50 0.07
124 61 0.09
125 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (120 bp):
AAACTTTCAATTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTTGTCGT
TAAAAAATTAATGCATTTAGTACCTAAACTATCATTTTGGTCTGTTTTAGTACCT
Found at i:222271 original size:214 final size:215
Alignment explanation
Indices: 221897--222326 Score: 550
Period size: 214 Copynumber: 2.0 Consensus size: 215
221887 TTAGTACTTA
* * *
221897 AAACTTTTAATTTTTTTAAAATCATACTTAACGTTTAATTTTCATTTCATTTTAATATCCACTGT
1 AAACTTTTAATTTTTTCAAAACCATACTTAACATTTAATTTTCATTTCATTTTAATATCCACTGT
* * * *
221962 TAAAAAATTAACACGTTTAGTACCTAAACTATTAGTTGTAGTTTGTTTCAGTATCTAAACTTTCA
66 TAAAAAATTAACACATTTAGTACCTAAACTATCAGTTGTAGTTTGTTTCAGTACCTAAAATTTCA
* * *
222027 ATTTTTTCAAAATCATACCTATCGTTTAG-T-TTTCATTTTAGT-ACTCGTCGTTAAAAATTTAA
131 ATTTTTTCAAAATCATACCTAACATTTAGTTATTTCATTTTAGTAACT-GTCGTTAAAAACTTAA
*
222089 TGTGTTTAGTACCTAAACTAC
195 TGCGTTTAGTACCTAAACTAC
* * ***
222110 AAACTTTTAATTTTTTCAAAACCATA-TCTAACATTTAGTTTTCATTTCATTTTAGTA-CTTTGT
1 AAACTTTTAATTTTTTCAAAACCATACT-TAACATTTAATTTTCATTTCATTTTAATATC-CACT
* * * *
222173 CGTTAAAAAATTAACGCATTTAGTACCTAAATTATCATTTGT-GATTTGTCTT-GGTACCTAAAA
64 -GTTAAAAAATTAACACATTTAGTACCTAAACTATCAGTTGTAG-TTTGT-TTCAGTACCTAAAA
*
222236 TTTCAATTTTTTCAAAATCATACCTAACATTTAGTTTCATTTCATTTTAGTAACTGTTGTTAAAA
126 TTTCAATTTTTTCAAAATCATACCTAACATTTAG-TT-ATTTCATTTTAGTAACTGTCGTTAAAA
222301 ACTTAATGCGTTTAGTACCTAAACTA
189 ACTTAATGCGTTTAGTACCTAAACTA
222327 TCAATTTTGG
Statistics
Matches: 186, Mismatches: 21, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
212 2 0.01
213 52 0.28
214 81 0.44
215 2 0.01
216 1 0.01
218 45 0.24
219 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.45
Consensus pattern (215 bp):
AAACTTTTAATTTTTTCAAAACCATACTTAACATTTAATTTTCATTTCATTTTAATATCCACTGT
TAAAAAATTAACACATTTAGTACCTAAACTATCAGTTGTAGTTTGTTTCAGTACCTAAAATTTCA
ATTTTTTCAAAATCATACCTAACATTTAGTTATTTCATTTTAGTAACTGTCGTTAAAAACTTAAT
GCGTTTAGTACCTAAACTAC
Found at i:232269 original size:38 final size:38
Alignment explanation
Indices: 232218--232296 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
232208 AGGGTGATAT
*
232218 TTTATTGAGTCTCTCGATTATTAAAAATTACAAAATCA
1 TTTATTGAGTCTCTCGATTAATAAAAATTACAAAATCA
*
232256 TTTATTGAGTCTCTCGATTAATAAAAATTACAAAATGA
1 TTTATTGAGTCTCTCGATTAATAAAAATTACAAAATCA
232294 TTT
1 TTT
232297 TCCAATATGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (38 bp):
TTTATTGAGTCTCTCGATTAATAAAAATTACAAAATCA
Found at i:233786 original size:104 final size:103
Alignment explanation
Indices: 233672--233887 Score: 371
Period size: 104 Copynumber: 2.1 Consensus size: 103
233662 AATATACTAA
233672 TTTTATTAACATATTCTTCTATTAATATTAATAATACATGACCTAATTAGCATTACAAAAAAAAA
1 TTTTATTAACATATTCTTCTATTAATATTAATAATACATGACCTAATTAGCATTAC--AAAAAAA
*
233737 ATTAAATAAAATCATCACA-TTTTTTTGAAAAGATCCTAG
64 ATTAAATAAAACCATCACATTTTTTTTGAAAAGATCCTAG
233776 TTTTATTAACATATTCTTCTATTAATATTAATAATACATGACCTAATTAGCATTACAAAAAAAAT
1 TTTTATTAACATATTCTTCTATTAATATTAATAATACATGACCTAATTAGCATTACAAAAAAAAT
** *
233841 TAAATAAAACCATCACATTTTTTTTTTAAAGTTCCTAG
66 TAAATAAAACCATCACATTTTTTTTGAAAAGATCCTAG
233879 TTTTATTAA
1 TTTTATTAA
233888 AATGTAAAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
102 25 0.23
103 26 0.24
104 56 0.52
ACGTcount: A:0.43, C:0.12, G:0.04, T:0.40
Consensus pattern (103 bp):
TTTTATTAACATATTCTTCTATTAATATTAATAATACATGACCTAATTAGCATTACAAAAAAAAT
TAAATAAAACCATCACATTTTTTTTGAAAAGATCCTAG
Found at i:233931 original size:104 final size:103
Alignment explanation
Indices: 233691--233932 Score: 238
Period size: 104 Copynumber: 2.3 Consensus size: 103
233681 CATATTCTTC
* * * * *
233691 TATTAATATTAATAATACATGACCTAATTAGCATTACAAAAAAAAAATTAAATAAAATCATCACA
1 TATTAAAATTAATAATACAGGACATAACTAGCATTAC-AAAAAAAAATTAAATAAAACCATCACA
* *****
233756 TTTTTTTGAAAAGATCCTAGTTTTATTAACATATTCTTC
65 TTTTTTTGAAAAGATCCTAGTTTTATTAAAATATAAAAA
* * * *
233795 TATTAATATTAATAATACATGACCTAATTAGCATTAC-AAAAAAAATTAAATAAAACCATCACAT
1 TATTAAAATTAATAATACAGGACATAACTAGCATTACAAAAAAAAATTAAATAAAACCATCACA-
** * *
233859 TTTTTTTTTAAAGTTCCTAGTTTTATTAAAATGTAAAAA
65 TTTTTTTGAAAAGATCCTAGTTTTATTAAAATATAAAAA
*
233898 TATTCAAAATT-ATAATA-AGGGTCTATAACTAGCAT
1 TATT-AAAATTAATAATACA-GGAC-ATAACTAGCAT
233933 CTTAAATTAA
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
102 26 0.22
103 41 0.35
104 51 0.43
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.37
Consensus pattern (103 bp):
TATTAAAATTAATAATACAGGACATAACTAGCATTACAAAAAAAAATTAAATAAAACCATCACAT
TTTTTTGAAAAGATCCTAGTTTTATTAAAATATAAAAA
Found at i:242191 original size:2 final size:2
Alignment explanation
Indices: 242184--242230 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
242174 TGAACACCCC
242184 TA TA TA TA TA TA TA TA TA TA TA TA 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 TA TA TA
242226 TA TA T
1 TA TA T
242231 GGAGCAAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:245586 original size:15 final size:15
Alignment explanation
Indices: 245566--245601 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
245556 TTAGATGAAA
* *
245566 AAAATTGGGAAGGCT
1 AAAATTGGAAAGACT
245581 AAAATTGGAAAGACT
1 AAAATTGGAAAGACT
245596 AAAATT
1 AAAATT
245602 TGGTGTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (15 bp):
AAAATTGGAAAGACT
Found at i:246625 original size:16 final size:16
Alignment explanation
Indices: 246604--246637 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
246594 CAGATTTCCT
*
246604 CTTGCATACGCATCCC
1 CTTGCATACGCATACC
246620 CTTGCATACGCATACC
1 CTTGCATACGCATACC
246636 CT
1 CT
246638 AGAGAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.41, G:0.12, T:0.26
Consensus pattern (16 bp):
CTTGCATACGCATACC
Found at i:247454 original size:21 final size:21
Alignment explanation
Indices: 247430--247469 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
247420 TTTTCAAAGG
247430 CATGCACCGATGCATCAATAT
1 CATGCACCGATGCATCAATAT
*
247451 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
247470 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAT
Found at i:247584 original size:64 final size:65
Alignment explanation
Indices: 247431--247639 Score: 194
Period size: 64 Copynumber: 3.2 Consensus size: 65
247421 TTTCAAAGGC
* * *
247431 ATGCACCGATGCATCAATATCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGCAT
1 ATGCACCGATGCA-CAATA-CATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGCAT
*
247495 TCA
63 TTA
** * * *
247498 ATGCACCGATGCACTCTCCATGCATCGATACACTC-TGATTTAATTAAAACATCGAATGCATTTG
1 ATGCACCGATGCACAATACATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTTA
* * * * *
247562 ATGCATCGATGCACAAGACATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCACT
1 ATGCACCGATGCACAATACATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCATT
*
247624 TC
64 TA
*
247626 ATGCATCGATGCAC
1 ATGCACCGATGCAC
247640 TCTTAGTGCA
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
63 1 0.01
64 84 0.71
65 13 0.11
66 8 0.07
67 13 0.11
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (65 bp):
ATGCACCGATGCACAATACATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTTA
Found at i:247639 original size:17 final size:19
Alignment explanation
Indices: 247611--247659 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
247601 ATTTTTCAAA
247611 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
247629 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
247648 CACCGATGCACT
1 CATCGATGCACT
247660 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:253470 original size:24 final size:22
Alignment explanation
Indices: 253442--253521 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 22
253432 CACTTAACAA
253442 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
253466 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
253486 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
253510 TGCATCGATGCA
1 TGCATCGATGCA
253522 CAAGACCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
20 4 0.08
21 12 0.25
22 2 0.04
23 13 0.27
24 17 0.35
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:253927 original size:20 final size:21
Alignment explanation
Indices: 253904--253942 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
253894 AAAACTCGCA
253904 AATTTTTCAAA-AAAAAAATT
1 AATTTTTCAAATAAAAAAATT
*
253924 AATTTTTGAAATAAAAAAA
1 AATTTTTCAAATAAAAAAA
253943 ATTCGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
AATTTTTCAAATAAAAAAATT
Found at i:254869 original size:21 final size:21
Alignment explanation
Indices: 254845--254905 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
254835 TTTTCAAAGG
*
254845 CATGCACCGATGCATCAATAC
1 CATGCATCGATGCATCAATAC
254866 CATGCATCGATGCATCAATAC
1 CATGCATCGATGCATCAATAC
254887 CATGCATCGATGCATCAAT
1 CATGCATCGATGCATCAAT
254906 GAATAAATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCATCGATGCATCAATAC
Found at i:255020 original size:64 final size:65
Alignment explanation
Indices: 254867--255075 Score: 203
Period size: 64 Copynumber: 3.2 Consensus size: 65
254857 CATCAATACC
* * *
254867 ATGCATCGATGCATCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGCAT
1 ATGCATCGATGCA-CAATA-CATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGCAT
*
254931 TCA
63 TTA
* ** * * *
254934 ATGCACCGATGCACTCTCCATGCATCGATACACTC-TGATTTAATTAAAACATCGAATGCATTTG
1 ATGCATCGATGCACAATACATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTTA
* * * *
254998 ATGCATCGATGCACAAGACATGCATCGATGCAC-CAGGCTATTT--TTCAAACATCGAATGCACT
1 ATGCATCGATGCACAATACATGCATCGATGCACTCATG--ATTTAATTAAAACATCGAATGCATT
*
255060 TC
64 TA
255062 ATGCATCGATGCAC
1 ATGCATCGATGCAC
255076 TCTTAGTGCA
Statistics
Matches: 118, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
63 1 0.01
64 84 0.71
65 13 0.11
66 8 0.07
67 12 0.10
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (65 bp):
ATGCATCGATGCACAATACATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATTTA
Found at i:255075 original size:17 final size:19
Alignment explanation
Indices: 255047--255095 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
255037 ATTTTTCAAA
255047 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
255065 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
255084 CACCGATGCACT
1 CATCGATGCACT
255096 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:256367 original size:24 final size:24
Alignment explanation
Indices: 256340--256409 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
256330 TCTTATAATT
256340 TGCACCAAAGTGCCACGTAGAATA
1 TGCACCAAAGTGCCACGTAGAATA
* * * *
256364 TGCACCGAGGTGCCACATAG-ATT
1 TGCACCAAAGTGCCACGTAGAATA
256387 TGTC-CCAAAG-GACCACGTAGAAT
1 TG-CACCAAAGTG-CCACGTAGAAT
256410 TTGTCCCGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
22 1 0.03
23 15 0.42
24 20 0.56
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.19
Consensus pattern (24 bp):
TGCACCAAAGTGCCACGTAGAATA
Found at i:256449 original size:25 final size:25
Alignment explanation
Indices: 256384--256474 Score: 130
Period size: 25 Copynumber: 3.7 Consensus size: 25
256374 TGCCACATAG
*
256384 ATTTGTCCCAAAGGACCACGTAG-A
1 ATTTGTCCCGAAGGACCACGTAGAA
*
256408 ATTTGTCCCGAATGACCACGTAGAA
1 ATTTGTCCCGAAGGACCACGTAGAA
** *
256433 ATTTGTCCTTAAGGACCAAGTAGAA
1 ATTTGTCCCGAAGGACCACGTAGAA
256458 ATTTGTCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
256475 GCATAGAACC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
24 21 0.36
25 37 0.64
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (25 bp):
ATTTGTCCCGAAGGACCACGTAGAA
Found at i:256481 original size:25 final size:25
Alignment explanation
Indices: 256376--256482 Score: 114
Period size: 25 Copynumber: 4.4 Consensus size: 25
256366 CACCGAGGTG
*
256376 CCACATAG--ATTTGTCCCAAAGGA
1 CCACATAGAAATTTGTCCCGAAGGA
* *
256399 CCACGTAG-AATTTGTCCCGAATGA
1 CCACATAGAAATTTGTCCCGAAGGA
* **
256423 CCACGTAGAAATTTGTCCTTAAGGA
1 CCACATAGAAATTTGTCCCGAAGGA
256448 CCA-AGTAGAAATTTGTCCCGAAGGA
1 CCACA-TAGAAATTTGTCCCGAAGGA
*
256473 CCGCATAGAA
1 CCACATAGAA
256483 CCCTCGACTC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
23 7 0.10
24 21 0.30
25 41 0.59
26 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (25 bp):
CCACATAGAAATTTGTCCCGAAGGA
Found at i:256660 original size:16 final size:17
Alignment explanation
Indices: 256633--256669 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
256623 AGAACATTTT
256633 CATATAAAACATATTCA
1 CATATAAAACATATTCA
256650 CATAT-AAACATATTCA
1 CATATAAAACATATTCA
256666 CATA
1 CATA
256670 CCAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (17 bp):
CATATAAAACATATTCA
Found at i:263458 original size:2 final size:2
Alignment explanation
Indices: 263451--263481 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
263441 GGGTAAACAA
263451 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
263482 ATTTATGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:263961 original size:122 final size:121
Alignment explanation
Indices: 263787--264706 Score: 1046
Period size: 122 Copynumber: 7.6 Consensus size: 121
263777 CCTAAACTAC
* * *
263787 AAACTTTTAA-TTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTC
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TTGTC
* * * * * * * *
263851 TTTAAAAAATTAACGCATTTAGTGCCTAAATTATCATTTGTGATTTGTCTTGGTACCT
65 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATCATTT-TGGTCTGTTTTAGTACCT
* * * *
263909 AAAATTTTAATTTTTTTCAAAATCATACCTAACGTTTAG-TTTCATTTCATTTTAGTAAC-TGTT
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGT-ACTTGTC
*
263972 GTTAAAAACTT-ACTGCGTTTAGTACCTAAACTATCAATTTTGGTCTGTTTTAGTACCT
65 GTTAAAAAATTAAC-GCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACCT
* * * *
264030 AAACTTTTAA-GTTTTTCAAAACCATATCTAACGTTTAGTTTTCA-TTCTATTTTAGTACCATGT
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTC-ATTTTAGTA-CTTGT
*
264093 CGTTAAAACATTAACGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTTAGTACCT
64 CGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCT
* * *
264152 AAACTTCCAA-TTTTTTCAAAATCATACCTAACGTTTAG---T--TTTCATTTTAGTACTCGTCG
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTTGTCG
* * * * *
264211 TTAAAAATTTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTCAGTTTTAGTATCT
66 TTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCT
* * *
264268 AAACTTTCAATTTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTCAGTACTTTGTC
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTAC-TTGTC
* * * * *
264333 GTT-AAAAATTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTATTTT-GATACCT
65 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAG-TACCT
* **
264390 AAACTTTCATTTTTTTTTCAAAACCATATCC-AACGTTTAGTTTTCATTTCATTTTAGTACCCGT
1 AAACTTTCA-ATTTTTTTCAAAACCATA-CCTAACGTTTAGTTTTCATTTCATTTTAGTACTTGT
* * * *
264454 CTTTAAAAATTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTACCT
64 CGTTAAAAAATTAACGCGTTTAGTACCTAAACTATCA-TTTTGGTCTGTTTTAGTACCT
* * ** *
264513 AAACTTTCATTTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCACGCC
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-CTTGTC
* * * *
264578 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATCAATTGTGATTTGTTTTGGTACCT
65 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATC-ATTTTGGTCTGTTTTAGTACCT
* * * *
264636 GAACATTC-ATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTA-TCCGTC
1 AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACT-TGTC
264699 GTTAAAAA
65 GTTAAAAA
264707 CTAAATGGGA
Statistics
Matches: 692, Mismatches: 79, Indels: 55
0.84 0.10 0.07
Matches are distributed among these distances:
116 65 0.09
117 34 0.05
118 3 0.00
119 1 0.00
120 32 0.05
121 82 0.12
122 279 0.40
123 193 0.28
124 3 0.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.44
Consensus pattern (121 bp):
AAACTTTCAATTTTTTTCAAAACCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACTTGTCG
TTAAAAAATTAACGCGTTTAGTACCTAAACTATCATTTTGGTCTGTTTTAGTACCT
Found at i:264508 original size:245 final size:242
Alignment explanation
Indices: 263787--264706 Score: 1237
Period size: 238 Copynumber: 3.8 Consensus size: 242
263777 CCTAAACTAC
* ** *
263787 AAACTTTTAATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACTTTGTCT
1 AAACTTTCAATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACCATGTCG
* * * * * *
263852 TTAAAAAATTAACGCATTTAGTGCCTAAATTATCATTTGTGATTTGTCTTGGTACCTAAAATTTT
66 TTAAAAAATTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGATACCT-AAACTTT
* * * * *
263917 AATTTTTTTCAAAATCATACCTAACGTTTAGTTTCATTTCATTTTAGTAACTGTTGTTAAAAACT
130 CATTTTTTTCAAAATCATACCTAACGTTTAGTTTCATTTCATTTTAGTACCCGTCGTTAAAAATT
* * *
263982 TACTGCGTTTAGTACCTAAACTATCAATTTTGGTCTGTTTTAGTACCT
195 TAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTACCT
* * *
264030 AAACTTTTAAGTTTTTCAAAACCATATCTAACGTTTAGTTTTCA-TTCTATTTTAGTACCATGTC
1 AAACTTTCAATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTC-ATTTTAGTACCATGTC
* * * * *
264094 GTTAAAACATTAACGCGTTTAGTACCTAAACTATCAGTTTTGGTCTGTTTT-AGTACCTAAACTT
65 GTTAAAAAATTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGA-TACCTAAACTT
* * *
264158 CCAATTTTTTCAAAATCATACCTAACGTTTAG--T--TTTCATTTTAGTACTCGTCGTTAAAAAT
129 TCATTTTTTTCAAAATCATACCTAACGTTTAGTTTCATTTCATTTTAGTACCCGTCGTTAAAAAT
* *
264219 TTAATGTGTTTAGTACCTAAACTATCAGTTTTGGTC-AGTTTTAGTATCT
194 TTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTA-TTTTAGTACCT
* **
264268 AAACTTTCAATTTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTCAGTACTTTGTC
1 AAACTTTCAA-TTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACCATGTC
*
264333 GTT-AAAAATTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTATTTTGATACCTAAACTTT
65 GTTAAAAAATTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGATACCTAAACTTT
* *
264397 CATTTTTTTTTCAAAACCATATCC-AACGTTTAGTTTTCATTTCATTTTAGTACCCGTCTTTAAA
130 CA--TTTTTTTCAAAATCATA-CCTAACGTTTAG-TTTCATTTCATTTTAGTACCCGTCGTTAAA
264461 AATTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTACCT
191 AATTTAATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTACCT
* * * * * *
264513 AAACTTTCATTTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTACCACGCC
1 AAACTTTCA-ATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACCATGTC
* * * * *
264578 GTTAAAAAATTAACGCGTTTAGTACCTAAACTATCAATTGTGATTTGTTTTGGTACCTGAACATT
65 GTTAAAAAATTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGATACCTAAACTTT
*
264643 CATTTTTTTCAAAATCATACCTAACGTTTAGTTTTCATTTCATTTTAGTATCCGTCGTTAAAAA
130 CATTTTTTTCAAAATCATACCTAACGTTTAG-TTTCATTTCATTTTAGTACCCGTCGTTAAAAA
264707 CTAAATGGGA
Statistics
Matches: 593, Mismatches: 66, Indels: 35
0.85 0.10 0.05
Matches are distributed among these distances:
238 129 0.22
239 49 0.08
240 28 0.05
241 2 0.00
242 37 0.06
243 105 0.18
244 56 0.09
245 129 0.22
246 58 0.10
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.44
Consensus pattern (242 bp):
AAACTTTCAATTTTTTCAAAACCATATCTAACATTTAGTTTTCATTTCATTTTAGTACCATGTCG
TTAAAAAATTAACGCATTTAGTACCTAAACTATCAGTTGTGATTTGTTTTGATACCTAAACTTTC
ATTTTTTTCAAAATCATACCTAACGTTTAGTTTCATTTCATTTTAGTACCCGTCGTTAAAAATTT
AATGCGTTTAGTACCTAAACTATCAGTTTTGGTCTATTTTAGTACCT
Found at i:267110 original size:2 final size:2
Alignment explanation
Indices: 267103--267156 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
267093 CTTTTTAGAA
267103 AT AT AT AT 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 AT AT AT AT
267145 AT AT AT AT AT AT
1 AT AT AT AT AT AT
267157 TTTAATAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:280798 original size:20 final size:20
Alignment explanation
Indices: 280773--280814 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
280763 GTAAATAATA
*
280773 AAAATTAAATTTATTAAATT
1 AAAATTAAATTAATTAAATT
*
280793 AAAATTAAATTAATTGAATT
1 AAAATTAAATTAATTAAATT
280813 AA
1 AA
280815 TAAGTGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAATTAAATTAATTAAATT
Found at i:293127 original size:14 final size:14
Alignment explanation
Indices: 293100--293138 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
293090 TTTATTGTCG
293100 TTTTATTTTCTATAT
1 TTTTATTTT-TATAT
293115 CTTTT-TTTTTATAT
1 -TTTTATTTTTATAT
293129 TTTTATTTTT
1 TTTTATTTTT
293139 CAGTACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.18
14 10 0.45
15 4 0.18
16 4 0.18
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTTTATAT
Found at i:299292 original size:21 final size:21
Alignment explanation
Indices: 299259--299318 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
299249 TGGGTAAGAG
* *
299259 TTTTTTTAAATTTGAATTTGA
1 TTTTATTATATTTGAATTTGA
299280 TTTTATTATATTTGAATTTGA
1 TTTTATTATATTTGAATTTGA
*
299301 TTTTATTATATTTAAATT
1 TTTTATTATATTTGAATT
299319 CAAATTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
TTTTATTATATTTGAATTTGA
Found at i:311757 original size:22 final size:22
Alignment explanation
Indices: 311732--311776 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
311722 CTTCGACACC
311732 CCAACCTCCGCCCT-CGCCGCCG
1 CCAA-CTCCGCCCTCCGCCGCCG
*
311754 CCAACTCCGCCCTCCGCCTCCG
1 CCAACTCCGCCCTCCGCCGCCG
311776 C
1 C
311777 TTCTACAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.09, C:0.64, G:0.16, T:0.11
Consensus pattern (22 bp):
CCAACTCCGCCCTCCGCCGCCG
Done.