Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 37 of 93
Found at i:14399147 original size:15 final size:15
Alignment explanation
Indices: 14399101--14399148 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
14399091 ATAAAAAATT
14399101 AAAAAATT-AAAAACA
1 AAAAAATTGAAAAA-A
* **
14399116 AAAAAACTGAATGAA
1 AAAAAATTGAAAAAA
14399131 AAAAAATTGAAAAAA
1 AAAAAATTGAAAAAA
14399146 AAA
1 AAA
14399149 GAGAAAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 23 0.88
16 3 0.12
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAAAATTGAAAAAA
Found at i:14401661 original size:22 final size:20
Alignment explanation
Indices: 14401623--14401687 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 20
14401613 GCAAAGAAGA
**
14401623 AAGAAAATCAATTCTACAAG
1 AAGAAAATTGATTCTACAAG
14401643 AAGAAATAATTGATTCTACAAG
1 AAG-AA-AATTGATTCTACAAG
14401665 AAG--AATTGATTCTACAAG
1 AAGAAAATTGATTCTACAAG
14401683 AAGAA
1 AAGAA
14401688 GAAGTCAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 18 0.46
20 3 0.08
21 2 0.05
22 16 0.41
ACGTcount: A:0.52, C:0.11, G:0.14, T:0.23
Consensus pattern (20 bp):
AAGAAAATTGATTCTACAAG
Found at i:14404412 original size:6 final size:6
Alignment explanation
Indices: 14404401--14404483 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
14404391 TGCAATGTTT
*
14404401 AATTAA AATTAA AA-T-- AATTAA AA-TAA AATATATA ATATAAGA AATT-A
1 AATTAA AATTAA AATTAA AATTAA AATTAA AAT-TA-A A-ATTA-A AATTAA
* *
14404448 TATTAA AATTAA AATTAA ACATAAGA AATTAA AATT
1 AATTAA AATTAA AATTAA A-ATTA-A AATTAA AATT
14404484 TATTTAATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 10 0.17
6 28 0.47
7 10 0.17
8 7 0.12
9 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:14404420 original size:15 final size:15
Alignment explanation
Indices: 14404400--14404462 Score: 58
Period size: 14 Copynumber: 4.1 Consensus size: 15
14404390 TTGCAATGTT
14404400 TAATTAAAATTAAAA
1 TAATTAAAATTAAAA
14404415 TAATTAAAA-TAAAA
1 TAATTAAAATTAAAA
* *
14404429 T-ATATAATATAAGAAA
1 TAAT-TAAAATTA-AAA
14404445 TTATATTAAAATTAAAA
1 -TA-ATTAAAATTAAAA
14404462 T
1 T
14404463 TAAACATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
13 2 0.05
14 10 0.26
15 10 0.26
16 4 0.11
17 4 0.11
18 6 0.16
19 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
TAATTAAAATTAAAA
Found at i:14404440 original size:14 final size:14
Alignment explanation
Indices: 14404400--14404430 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
14404390 TTGCAATGTT
14404400 TAATTAAAATTAAAA
1 TAATTAAAA-TAAAA
14404415 TAATTAAAATAAAA
1 TAATTAAAATAAAA
14404429 TA
1 TA
14404431 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAATTAAAATAAAA
Found at i:14404475 original size:31 final size:32
Alignment explanation
Indices: 14404417--14404478 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
14404407 AATTAAAATA
*
14404417 ATTAAAATAAAATATATAATATAAGAAATTAT
1 ATTAAAATAAAATATATAACATAAGAAATTAT
14404449 ATTAAAATTAAAAT-TA-AACATAAGAAATTA
1 ATTAAAA-TAAAATATATAACATAAGAAATTA
14404479 AAATTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.46
32 9 0.32
33 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (32 bp):
ATTAAAATAAAATATATAACATAAGAAATTAT
Found at i:14404554 original size:39 final size:39
Alignment explanation
Indices: 14404500--14404621 Score: 114
Period size: 39 Copynumber: 3.2 Consensus size: 39
14404490 ATATAGGTAA
*
14404500 AAGAAATTAAAATAAATATATAATATAAAAATTATATTT
1 AAGAAATGAAAATAAATATATAATATAAAAATTATATTT
* * *
14404539 AAGAAATGAAAATAAA-AAAT-ATAT-AATATTATA-AT
1 AAGAAATGAAAATAAATATATAATATAAAAATTATATTT
*
14404574 AA-AAATAAAAATAAAATATATGACAT-TAAAAA-TATATTT
1 AAGAAATGAAAAT-AAATATAT-A-ATATAAAAATTATATTT
*
14404613 AAGAGATGA
1 AAGAAATGA
14404622 TATTATAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
34 9 0.14
35 6 0.09
36 11 0.17
37 4 0.06
38 8 0.12
39 23 0.35
40 4 0.06
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (39 bp):
AAGAAATGAAAATAAATATATAATATAAAAATTATATTT
Found at i:14414427 original size:2 final size:2
Alignment explanation
Indices: 14414420--14414459 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14414410 ACCGAGGTAC
14414420 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
14414460 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14427899 original size:14 final size:14
Alignment explanation
Indices: 14427877--14427912 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
14427867 CTCCTTTTTT
*
14427877 TTTCTATTTTTGTC
1 TTTCCATTTTTGTC
14427891 TTTCCATTTTTGTC
1 TTTCCATTTTTGTC
*
14427905 TTTTCATT
1 TTTCCATT
14427913 ATTCATCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.08, C:0.17, G:0.06, T:0.69
Consensus pattern (14 bp):
TTTCCATTTTTGTC
Found at i:14428029 original size:26 final size:26
Alignment explanation
Indices: 14428000--14428101 Score: 98
Period size: 26 Copynumber: 4.0 Consensus size: 26
14427990 TTACAGCATT
* *
14428000 CATCCACTTCTTGTGGTAACATTATC
1 CATCCACTTCTGGTGGTAAAATTATC
* * *
14428026 CATCCACTTCTGGTGGCAAACTTATT
1 CATCCACTTCTGGTGGTAAAATTATC
* ** ** *
14428052 CTTAGA-TTCTTATGTTAAAATTATC
1 CATCCACTTCTGGTGGTAAAATTATC
14428077 CATCCACTTCTGGTGGTAAAATTAT
1 CATCCACTTCTGGTGGTAAAATTAT
14428102 TTTAGAATTA
Statistics
Matches: 55, Mismatches: 20, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
25 16 0.29
26 39 0.71
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (26 bp):
CATCCACTTCTGGTGGTAAAATTATC
Found at i:14428219 original size:14 final size:14
Alignment explanation
Indices: 14428200--14428227 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14428190 TTCAGGGAAT
14428200 AGATAGATTCATGA
1 AGATAGATTCATGA
14428214 AGATAGATTCATGA
1 AGATAGATTCATGA
14428228 CCATGACCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (14 bp):
AGATAGATTCATGA
Found at i:14430715 original size:13 final size:13
Alignment explanation
Indices: 14430697--14430721 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14430687 TGGGTAGTGT
14430697 AAATCACAAAATA
1 AAATCACAAAATA
14430710 AAATCACAAAAT
1 AAATCACAAAAT
14430722 TTTACCTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATCACAAAATA
Found at i:14432038 original size:98 final size:99
Alignment explanation
Indices: 14431921--14432100 Score: 299
Period size: 98 Copynumber: 1.8 Consensus size: 99
14431911 CATATTTATT
*
14431921 CATAACAAAATGTAATAAATTAAAAAATATGAAAGAATATTTGACCTTTCAACTATT-AAAATCA
1 CATAACAAAATGTAATAAATTAAAAAATATGAAAAAATATTTGACCTTTCAACTATTAAAAATCA
14431985 TAATTAATATCGAGATATGACTATTAATTATAGA
66 TAATTAATATCGAGATATGACTATTAATTATAGA
* * *
14432019 CATAATAAAATGTAATAAATTAAAAAATATGAAAAAATATTTGACCTTTCGATTATTAAAAATCA
1 CATAACAAAATGTAATAAATTAAAAAATATGAAAAAATATTTGACCTTTCAACTATTAAAAATCA
* *
14432084 TATTTAATATTGAGATA
66 TAATTAATATCGAGATA
14432101 ATATCAAGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
98 53 0.71
99 22 0.29
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.34
Consensus pattern (99 bp):
CATAACAAAATGTAATAAATTAAAAAATATGAAAAAATATTTGACCTTTCAACTATTAAAAATCA
TAATTAATATCGAGATATGACTATTAATTATAGA
Found at i:14432759 original size:19 final size:17
Alignment explanation
Indices: 14432735--14432769 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
14432725 AATATTAATT
14432735 ATAAATGTAATAAAATATA
1 ATAAAT-TAA-AAAATATA
14432754 ATAAATTAAAAAATAT
1 ATAAATTAAAAAATAT
14432770 GAAAAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAAATTAAAAAATATA
Found at i:14433722 original size:22 final size:22
Alignment explanation
Indices: 14433695--14433760 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 22
14433685 CACATCATAT
14433695 TTTATATATGTATAAAATAATA
1 TTTATATATGTATAAAATAATA
* * * *
14433717 TTTATAGATAATCATAATATATTA
1 TTTATATAT-GT-ATAAAATAATA
14433741 TTTAT-TAATGTATAAAATAA
1 TTTATAT-ATGTATAAAATAA
14433761 AATATGTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 15 0.45
23 2 0.06
24 16 0.48
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (22 bp):
TTTATATATGTATAAAATAATA
Found at i:14433934 original size:17 final size:16
Alignment explanation
Indices: 14433904--14433941 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 16
14433894 ATGAAATTAA
14433904 TATATGTTATAGTTT-
1 TATATGTTATAGTTTG
14433919 TATATGTTATAAAGTTTG
1 TATATGTTAT--AGTTTG
14433937 TATAT
1 TATAT
14433942 ATAATAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.50
17 5 0.25
18 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (16 bp):
TATATGTTATAGTTTG
Found at i:14437400 original size:15 final size:15
Alignment explanation
Indices: 14437380--14437409 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14437370 ATTTACCATA
14437380 ATATAGTATCATTTT
1 ATATAGTATCATTTT
*
14437395 ATATAGTATCGTTTT
1 ATATAGTATCATTTT
14437410 GTTATCTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (15 bp):
ATATAGTATCATTTT
Found at i:14445996 original size:52 final size:51
Alignment explanation
Indices: 14445940--14446092 Score: 126
Period size: 52 Copynumber: 3.1 Consensus size: 51
14445930 AATTATAAAA
14445940 ATATGAAAAAATATTTGACCTTTCAACTATTAAAATTATATTTAATATCAAG
1 ATATGAAAAAATATTTGACCTTT-AACTATTAAAATTATATTTAATATCAAG
* * * *
14445992 ATATG----AATA-TT-A-ATTATAGACATAATAAAATGTA-A-TAAATATAAAG
1 ATATGAAAAAATATTTGACCTT-TA-AC-TATTAAAAT-TATATTTAATATCAAG
* * *
14446038 ATATGAAAAGATATTTGACCTTTTAATTATTAAAATCATATTTAATATCAAG
1 ATATGAAAAAATATTTGACC-TTTAACTATTAAAATTATATTTAATATCAAG
14446090 ATA
1 ATA
14446093 ATATCAAAGT
Statistics
Matches: 76, Mismatches: 11, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
45 3 0.04
46 18 0.24
47 11 0.14
48 6 0.08
50 4 0.05
51 11 0.14
52 19 0.25
53 2 0.03
54 2 0.03
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (51 bp):
ATATGAAAAAATATTTGACCTTTAACTATTAAAATTATATTTAATATCAAG
Found at i:14447924 original size:141 final size:140
Alignment explanation
Indices: 14447650--14447925 Score: 315
Period size: 141 Copynumber: 1.9 Consensus size: 140
14447640 TGATTTCTTT
* * **
14447650 TTGGCCGTTTTTGGGGGATTGTTTATCAAAGAATTAGTACAAGAAATCGAAGTTTAATTAATTAA
1 TTGGCCCTTTTTGGGGGATTCTTTATCAAAGAATTAGTACAAGAAATCGAAGAGTAATTAATTAA
* * * * * *
14447715 CATGGGTTGGAATTTGGATGTTGAAAATTTTAAATATTTGAGATTTTATCTGATAATTTATTTAT
66 CATGGATTGGAATCTGGATCTT-AAAATTTTAAATATTTGAAATTATATATGATAATTTATTTAT
14447780 TTTTATATTTA
130 TTTTATATTTA
* * * * *
14447791 TTGGCCCTTTTTGGGGGATTCTTTATGAAAGAATTA-TGACAGGAAATTGAGGAGTGATTAATTA
1 TTGGCCCTTTTTGGGGGATTCTTTATCAAAGAATTAGT-ACAAGAAATCGAAGAGTAATTAATTA
* *
14447855 ACTTGGATTGGAATCTGGATC-TATTAATTTTAAATATTTGAAAATTATATAT-ATATATATTAT
65 ACATGGATTGGAATCTGGATCTTA-AAATTTTAAATATTTG-AAATTATATATGATA-AT-TTAT
*
14447918 TTTTTTTT
126 TTATTTTT
14447926 GGTGTGTAAT
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
139 1 0.01
140 20 0.18
141 80 0.71
142 11 0.10
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (140 bp):
TTGGCCCTTTTTGGGGGATTCTTTATCAAAGAATTAGTACAAGAAATCGAAGAGTAATTAATTAA
CATGGATTGGAATCTGGATCTTAAAATTTTAAATATTTGAAATTATATATGATAATTTATTTATT
TTTATATTTA
Found at i:14448440 original size:15 final size:15
Alignment explanation
Indices: 14448420--14448452 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14448410 ATGGGAACTC
14448420 TGGAATGTACGGTGG
1 TGGAATGTACGGTGG
*
14448435 TGGAATGTATGGTGG
1 TGGAATGTACGGTGG
14448450 TGG
1 TGG
14448453 TCTTGGTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.48, T:0.30
Consensus pattern (15 bp):
TGGAATGTACGGTGG
Found at i:14453954 original size:41 final size:42
Alignment explanation
Indices: 14453853--14453945 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
14453843 ATAATAATAG
* * *
14453853 TTAAATTATAAATAAAATATTAATATTTTAAAATGTTAATTA
1 TTAAATTATGAATAAAATATTAATATTTTAAAATATCAATTA
**
14453895 TTAAATTATGAATAAAATATTAATA-TTTAACTTATCAATTA
1 TTAAATTATGAATAAAATATTAATATTTTAAAATATCAATTA
14453936 TTAATATTAT
1 TTAA-ATTAT
14453946 TCTAAAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 16 0.36
42 29 0.64
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (42 bp):
TTAAATTATGAATAAAATATTAATATTTTAAAATATCAATTA
Found at i:14455725 original size:2 final size:2
Alignment explanation
Indices: 14455718--14455761 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
14455708 GTACAATACN
14455718 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
14455760 AT
1 AT
14455762 CAACATATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14456768 original size:23 final size:24
Alignment explanation
Indices: 14456742--14456790 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
14456732 TCATTATTTC
*
14456742 TATTTTCTTCA-TCACTTTAT-CCT
1 TATTTTCATCATTCA-TTTATGCCT
14456765 TATTTTCATCATTCATTTATGCCT
1 TATTTTCATCATTCATTTATGCCT
14456789 TA
1 TA
14456791 GGCCTACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTTTCATCATTCATTTATGCCT
Found at i:14457516 original size:18 final size:18
Alignment explanation
Indices: 14457462--14457525 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
14457452 AAAGTATTCC
* * *
14457462 TCCACTTTTAGTGGGTAA
1 TCCACTTCTAGTGGATTA
* *
14457480 TCCACTTAT-GATGGTTTA
1 TCCACTTCTAG-TGGATTA
14457498 TCCACTTCTAGTGGATTA
1 TCCACTTCTAGTGGATTA
*
14457516 TCCATTTCTA
1 TCCACTTCTA
14457526 TTGAGTTAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
17 1 0.03
18 36 0.95
19 1 0.03
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (18 bp):
TCCACTTCTAGTGGATTA
Found at i:14457617 original size:26 final size:25
Alignment explanation
Indices: 14457546--14457623 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 25
14457536 GGGTTAAGGC
14457546 ATCCATCCACTTCTGGTGGTAAAATT
1 ATCCATCCACTTCT-GTGGTAAAATT
* * **
14457572 ATTCTTAGA-TTCTGATGGTAAAATT
1 ATCCATCCACTTCTG-TGGTAAAATT
14457597 ATCCATCCACTTCTAGTGGTAAAATT
1 ATCCATCCACTTCT-GTGGTAAAATT
14457623 A
1 A
14457624 AAATTAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
24 1 0.02
25 19 0.46
26 20 0.49
27 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (25 bp):
ATCCATCCACTTCTGTGGTAAAATT
Found at i:14459126 original size:59 final size:59
Alignment explanation
Indices: 14459034--14459150 Score: 198
Period size: 59 Copynumber: 2.0 Consensus size: 59
14459024 CTAAAATCCC
* *
14459034 ATGCTATTATAATTTATTCATTGTGAAAATTACATGATATGATCTCCTTTTTATTTCAG
1 ATGCTATTATAATTTATTCATTGTGAAAATTACATCATATGATCTCCTTTTTACTTCAG
* *
14459093 ATGCTATTATAATTTATTGATTGTGAAAATTACATCATATGATCTCTTTTTTACTTCA
1 ATGCTATTATAATTTATTCATTGTGAAAATTACATCATATGATCTCCTTTTTACTTCA
14459151 ATAATCCTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.48
Consensus pattern (59 bp):
ATGCTATTATAATTTATTCATTGTGAAAATTACATCATATGATCTCCTTTTTACTTCAG
Found at i:14464952 original size:24 final size:24
Alignment explanation
Indices: 14464897--14464945 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
14464887 GCATATACAT
*
14464897 GCAATACAGTTAGAGATTCAGCGA
1 GCAATGCAGTTAGAGATTCAGCGA
*
14464921 GCAATGCAGTTGGAGATTCAGCGA
1 GCAATGCAGTTAGAGATTCAGCGA
14464945 G
1 G
14464946 TGATGCAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (24 bp):
GCAATGCAGTTAGAGATTCAGCGA
Found at i:14466619 original size:26 final size:26
Alignment explanation
Indices: 14466590--14466645 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
14466580 TCAATATGTA
*
14466590 AAATAACATTGTT-TTGTATCATTTCC
1 AAATAA-ATTGTTGTTGTATCATTTAC
* * *
14466616 AAATTATTTTTTGTTGTATCATTTAC
1 AAATAAATTGTTGTTGTATCATTTAC
14466642 AAAT
1 AAAT
14466646 TTTTCTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (26 bp):
AAATAAATTGTTGTTGTATCATTTAC
Found at i:14466646 original size:26 final size:26
Alignment explanation
Indices: 14466603--14466671 Score: 95
Period size: 26 Copynumber: 2.6 Consensus size: 26
14466593 TAACATTGTT
*
14466603 TTGTATCATTTCCAAATTATTT-TTTG
1 TTGTATCATTTACAAATT-TTTCTTTG
*
14466629 TTGTATCATTTACAAATTTTTCTTTT
1 TTGTATCATTTACAAATTTTTCTTTG
14466655 TTGTATCATTTAACAAA
1 TTGTATCATTT-ACAAA
14466672 GAGAATGGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
25 3 0.08
26 31 0.79
27 5 0.13
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.55
Consensus pattern (26 bp):
TTGTATCATTTACAAATTTTTCTTTG
Found at i:14466998 original size:23 final size:23
Alignment explanation
Indices: 14466972--14467104 Score: 97
Period size: 23 Copynumber: 5.8 Consensus size: 23
14466962 GAATCGCGCA
* *
14466972 ACTACTAAATTTGGAATCACATG
1 ACTAGTAAATATGGAATCACATG
* *
14466995 ACTAGTTAATATGGAATCGCATG
1 ACTAGTAAATATGGAATCACATG
* ** * *
14467018 ACTAATCGATTTGGAATCGCATG
1 ACTAGTAAATATGGAATCACATG
** * * *
14467041 ACATA-TCGATTTGGAATCACGTA
1 AC-TAGTAAATATGGAATCACATG
** *
14467064 ACTAGTTGATATGGAATCACGTG
1 ACTAGTAAATATGGAATCACATG
14467087 ACTAGTAAATATGGAATC
1 ACTAGTAAATATGGAATC
14467105 GTCTGAACAG
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
22 2 0.02
23 88 0.96
24 2 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (23 bp):
ACTAGTAAATATGGAATCACATG
Found at i:14467009 original size:46 final size:46
Alignment explanation
Indices: 14466959--14467105 Score: 134
Period size: 46 Copynumber: 3.2 Consensus size: 46
14466949 AGTATTTGAC
* * * *
14466959 ATGGAATCGCGCAACTACTAAATTTGGAATCACATGACTAGTTAAT
1 ATGGAATCGCGTAACTAATAGATTTGGAATCACATGACTAGTAAAT
* * * * **
14467005 ATGGAATCGCATGACTAATCGATTTGGAATCGCATGACATA-TCGAT
1 ATGGAATCGCGTAACTAATAGATTTGGAATCACATGAC-TAGTAAAT
* * * * * *
14467051 TTGGAATCACGTAACTAGTTGATATGGAATCACGTGACTAGTAAAT
1 ATGGAATCGCGTAACTAATAGATTTGGAATCACATGACTAGTAAAT
14467097 ATGGAATCG
1 ATGGAATCG
14467106 TCTGAACAGT
Statistics
Matches: 77, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
45 2 0.03
46 73 0.95
47 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.29
Consensus pattern (46 bp):
ATGGAATCGCGTAACTAATAGATTTGGAATCACATGACTAGTAAAT
Found at i:14467034 original size:69 final size:69
Alignment explanation
Indices: 14466960--14467090 Score: 156
Period size: 69 Copynumber: 1.9 Consensus size: 69
14466950 GTATTTGACA
* * *
14466960 TGGAATCGCGCAAC-TACTAAATTTGGAATCACATGACTAGTTAATATGGAATCGCATGACTAAT
1 TGGAATCGCACAACATA-TAAATTTGGAATCACATAACTAGTTAATATGGAATCACATGACTAAT
14467024 CGATT
65 CGATT
** ** * * *
14467029 TGGAATCGCATGACATATCGATTTGGAATCACGTAACTAGTTGATATGGAATCACGTGACTA
1 TGGAATCGCACAACATATAAATTTGGAATCACATAACTAGTTAATATGGAATCACATGACTA
14467091 GTAAATATGG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
69 49 0.96
70 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (69 bp):
TGGAATCGCACAACATATAAATTTGGAATCACATAACTAGTTAATATGGAATCACATGACTAATC
GATT
Found at i:14467253 original size:23 final size:23
Alignment explanation
Indices: 14467227--14467683 Score: 207
Period size: 23 Copynumber: 20.1 Consensus size: 23
14467217 GAGTTACGCT
14467227 ACTAGTTATTATGGAATCGCATG
1 ACTAGTTATTATGGAATCGCATG
* * *
14467250 ACTAGTTGA-TATTGAATCACGTG
1 ACTAGTT-ATTATGGAATCGCATG
* * * * * *
14467273 AGTAGTAAATATGGAGTGGCATT
1 ACTAGTTATTATGGAATCGCATG
* **
14467296 ACTAGTTATTTTGGAATCGTGTG
1 ACTAGTTATTATGGAATCGCATG
*
14467319 ACTAGTTATTATAGAATCGCATG
1 ACTAGTTATTATGGAATCGCATG
* * * * * *
14467342 AATAGTAAATATGGAGTCGCGTT
1 ACTAGTTATTATGGAATCGCATG
*
14467365 ACTAATTATTATGGAATCGCATG
1 ACTAGTTATTATGGAATCGCATG
* * * *
14467388 AGTAATTATTATGAAATCACATG
1 ACTAGTTATTATGGAATCGCATG
* ***
14467411 ACTAGTTATTATAGAATCATGTG
1 ACTAGTTATTATGGAATCGCATG
* * * * * * * ** *
14467434 AGTAATAAATATAGAGTTGTGTT
1 ACTAGTTATTATGGAATCGCATG
* *
14467457 ACTAGTTATTATGGAATCACGTG
1 ACTAGTTATTATGGAATCGCATG
**
14467480 ACTAGTTGA-TATGGAATCGTGTG
1 ACTAGTT-ATTATGGAATCGCATG
* * * * * *
14467503 AGTAGTAAATATGGAGTTG-AGTT
1 ACTAGTTATTATGGAATCGCA-TG
*
14467526 ACTAGTTATTATCGAATCGCATG
1 ACTAGTTATTATGGAATCGCATG
* *
14467549 ACTAGTTGA-TACGGAATCGCTTG
1 ACTAGTT-ATTATGGAATCGCATG
* * * * * ** *
14467572 AGTAGTAAATATAGAGTTACATT
1 ACTAGTTATTATGGAATCGCATG
*
14467595 ACTAGTTAGTATGGAAT--C--G
1 ACTAGTTATTATGGAATCGCATG
**
14467614 -C-AGTTATTATGGAATCGGGTG
1 ACTAGTTATTATGGAATCGCATG
*
14467635 ACTAGTTATTATGGAATCGCATT
1 ACTAGTTATTATGGAATCGCATG
* *
14467658 ACTAGTTGA-TATGGGATCGCGTG
1 ACTAGTT-ATTATGGAATCGCATG
14467681 ACT
1 ACT
14467684 TTTTGATATG
Statistics
Matches: 313, Mismatches: 106, Indels: 30
0.70 0.24 0.07
Matches are distributed among these distances:
17 13 0.04
18 1 0.00
21 2 0.01
22 4 0.01
23 288 0.92
24 5 0.02
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (23 bp):
ACTAGTTATTATGGAATCGCATG
Found at i:14467297 original size:115 final size:114
Alignment explanation
Indices: 14467130--14467543 Score: 368
Period size: 115 Copynumber: 3.6 Consensus size: 114
14467120 ATTTAAAATT
* * * * *
14467130 GCGTGACTAGTTGATATTGAATTGCATGAGTCA-TAAAAATAGACTGACATTACTAGTTATTATA
1 GCGTGACTAGTTGATATGGAATCGCATGAGT-AGTAAATATGGAGTGACATTACTAGTTATTATA
* * *
14467194 AAATCAAGTGAGTAGTAAATATGGAGTTACGCTACTAGTTATTATGGAATC
65 GAATCATGTGAGTAGTAAATATAGAGTT-CGCTACTAGTTATTATGGAATC
* * * * * * *
14467245 GCATGACTAGTTGATATTGAATCACGTGAGTAGTAAATATGGAGTGGCATTACTAGTTATTTTGG
1 GCGTGACTAGTTGATATGGAATCGCATGAGTAGTAAATATGGAGTGACATTACTAGTTATTATAG
* * * * * * * * *
14467310 AATCGTGTGACTAGTTATTATAGA-ATCGCATGAATAGTAAATATGGAGTC
66 AATCATGTGAGTAGTAAATATAGAGTTCGC-T-ACTAGTTATTATGGAATC
* * * * * * * * *
14467360 GCGTTACTAATT-ATTATGGAATCGCATGAGTAATTATTATGAAATCACATGACTAGTTATTATA
1 GCGTGACTAGTTGA-TATGGAATCGCATGAGTAGTAAATATGGAGTGACATTACTAGTTATTATA
* * *
14467424 GAATCATGTGAGTAATAAATATAGAGTTGTGTTACTAGTTATTATGGAATC
65 GAATCATGTGAGTAGTAAATATAGAGTT-CGCTACTAGTTATTATGGAATC
* ** * *
14467475 ACGTGACTAGTTGATATGGAATCGTGTGAGTAGTAAATATGGAGTTGA-GTTACTAGTTATTATC
1 GCGTGACTAGTTGATATGGAATCGCATGAGTAGTAAATATGGAG-TGACATTACTAGTTATTATA
14467539 GAATC
65 GAATC
14467544 GCATGACTAG
Statistics
Matches: 227, Mismatches: 64, Indels: 16
0.74 0.21 0.05
Matches are distributed among these distances:
113 3 0.01
114 4 0.02
115 214 0.94
116 5 0.02
117 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (114 bp):
GCGTGACTAGTTGATATGGAATCGCATGAGTAGTAAATATGGAGTGACATTACTAGTTATTATAG
AATCATGTGAGTAGTAAATATAGAGTTCGCTACTAGTTATTATGGAATC
Found at i:14467299 original size:69 final size:69
Alignment explanation
Indices: 14467181--14467416 Score: 269
Period size: 69 Copynumber: 3.4 Consensus size: 69
14467171 GACTGACATT
* * ** *
14467181 ACTAGTTATTATAAAATCAAGTGAGTAGTAAATATGGAGTTACGCTACTAGTTATTATGGAATCG
1 ACTAGTTATTATAGAATCACGTGAGTAGTAAATATGGAGTCGCGTTACTAGTTATTATGGAATCG
14467246 CATG
66 CATG
* * * *
14467250 ACTAGTTGA-TATTGAATCACGTGAGTAGTAAATATGGAGTGGCATTACTAGTTATTTTGGAATC
1 ACTAGTT-ATTATAGAATCACGTGAGTAGTAAATATGGAGTCGCGTTACTAGTTATTATGGAATC
**
14467314 GTGTG
65 GCATG
* * * *
14467319 ACTAGTTATTATAGAATCGCATGAATAGTAAATATGGAGTCGCGTTACTAATTATTATGGAATCG
1 ACTAGTTATTATAGAATCACGTGAGTAGTAAATATGGAGTCGCGTTACTAGTTATTATGGAATCG
14467384 CATG
66 CATG
* * * *
14467388 AGTAATTATTAT-GAAATCACATGACTAGT
1 ACTAGTTATTATAG-AATCACGTGAGTAGT
14467417 TATTATAGAA
Statistics
Matches: 140, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
68 2 0.01
69 137 0.98
70 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (69 bp):
ACTAGTTATTATAGAATCACGTGAGTAGTAAATATGGAGTCGCGTTACTAGTTATTATGGAATCG
CATG
Found at i:14467476 original size:69 final size:69
Alignment explanation
Indices: 14467393--14467612 Score: 275
Period size: 69 Copynumber: 3.2 Consensus size: 69
14467383 GCATGAGTAA
* * * *
14467393 TTATTATGAAATCACATGACTAGTT-ATTATAGAATCATGTGAGTAATAAATATAGAGTTGTGTT
1 TTATTATGGAATCACATGACTAGTTGA-TATGGAATCATGTGAGTAGTAAATATAGAGTTGAGTT
14467457 ACTAG
65 ACTAG
* * *
14467462 TTATTATGGAATCACGTGACTAGTTGATATGGAATCGTGTGAGTAGTAAATATGGAGTTGAGTTA
1 TTATTATGGAATCACATGACTAGTTGATATGGAATCATGTGAGTAGTAAATATAGAGTTGAGTTA
14467527 CTAG
66 CTAG
* * * * *
14467531 TTATTATCGAATCGCATGACTAGTTGATACGGAATCGCT-TGAGTAGTAAATATAGAGTT-ACAT
1 TTATTATGGAATCACATGACTAGTTGATATGGAATC-ATGTGAGTAGTAAATATAGAGTTGA-GT
14467594 TACTAG
64 TACTAG
*
14467600 TTAGTATGGAATC
1 TTATTATGGAATC
14467613 GCAGTTATTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
68 1 0.01
69 129 0.98
70 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (69 bp):
TTATTATGGAATCACATGACTAGTTGATATGGAATCATGTGAGTAGTAAATATAGAGTTGAGTTA
CTAG
Found at i:14467624 original size:17 final size:17
Alignment explanation
Indices: 14467598--14467630 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14467588 TTACATTACT
14467598 AGTTAGTATGGAATCGC
1 AGTTAGTATGGAATCGC
*
14467615 AGTTATTATGGAATCG
1 AGTTAGTATGGAATCG
14467631 GGTGACTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.33
Consensus pattern (17 bp):
AGTTAGTATGGAATCGC
Found at i:14467706 original size:23 final size:23
Alignment explanation
Indices: 14467663--14467706 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
14467653 GCATTACTAG
*
14467663 TTGATATGGGATCGCGTGACTTT
1 TTGATATGGGATCGCGCGACTTT
* *
14467686 TTGATATGGGATTGTGCGACT
1 TTGATATGGGATCGCGCGACT
14467707 CACTTATTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.32, T:0.39
Consensus pattern (23 bp):
TTGATATGGGATCGCGCGACTTT
Found at i:14471962 original size:15 final size:15
Alignment explanation
Indices: 14471939--14472006 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 15
14471929 NNAAATTAAA
*
14471939 TAAAATATTAATATT
1 TAAATTATTAATATT
14471954 TAAATTATTAAT-TAT
1 TAAATTATTAATAT-T
14471969 TAATATT-TTAATTAAATT
1 TAA-ATTATTAA-T--ATT
*
14471987 CTAGATTATTAATATT
1 -TAAATTATTAATATT
14472003 TAAA
1 TAAA
14472007 AAATCTAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
14 1 0.02
15 22 0.52
16 7 0.17
18 5 0.12
19 7 0.17
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (15 bp):
TAAATTATTAATATT
Found at i:14471972 original size:22 final size:26
Alignment explanation
Indices: 14471944--14472006 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 26
14471934 TTAAATAAAA
14471944 TATTAATATTTAAATT-A-T-TA-AT
1 TATTAATATTTAAATTAATTCTAGAT
*
14471966 TATTAATATTTTAATTAAATTCTAGAT
1 TATTAATATTTAAATT-AATTCTAGAT
14471993 TATTAATATTTAAA
1 TATTAATATTTAAA
14472007 AAATCTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 15 0.44
24 1 0.03
25 1 0.03
26 2 0.06
27 15 0.44
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTAATATTTAAATTAATTCTAGAT
Found at i:14472913 original size:22 final size:22
Alignment explanation
Indices: 14472866--14472921 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
14472856 CATAACAACA
* * *
14472866 AGTCACGCAATACATAAAATTC
1 AGTCAAGCAATGCATAAAAGTC
14472888 AGTCAAGCAATGCATAAACAGT-
1 AGTCAAGCAATGCATAAA-AGTC
*
14472910 AGTCAAGAAATG
1 AGTCAAGCAATG
14472922 TCTCAACATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 27 0.93
23 2 0.07
ACGTcount: A:0.46, C:0.18, G:0.16, T:0.20
Consensus pattern (22 bp):
AGTCAAGCAATGCATAAAAGTC
Found at i:14473980 original size:22 final size:22
Alignment explanation
Indices: 14473952--14474000 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
14473942 AAAGCAACGC
*
14473952 AATGCCTACAAACAAGTCACGT
1 AATGCCTACAAACAAGTCACGA
14473974 AATGCCTACAAACAAGTCACGA
1 AATGCCTACAAACAAGTCACGA
14473996 AATGC
1 AATGC
14474001 ACAACTCATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.43, C:0.27, G:0.14, T:0.16
Consensus pattern (22 bp):
AATGCCTACAAACAAGTCACGA
Found at i:14474835 original size:251 final size:250
Alignment explanation
Indices: 14474392--14474892 Score: 966
Period size: 251 Copynumber: 2.0 Consensus size: 250
14474382 CCCCGATAGC
14474392 GTTGGAGAACTAGACGGAGAGATAGCTAAATCGAGATTTAATTTTGAAATTTTTATCTAAATAAC
1 GTTGGAGAACTAGACGGAGAGATAGCTAAATCGAGATTTAATTTTGAAATTTTTATCTAAATAAC
14474457 GAAAGAAGAAAAAAAATCGAAATCACTTAATTTGGATTCAATGATTTAAAAAAGAGTTCTTTTTT
66 GAAAGAAGAAAAAAAATCGAAATCACTTAATTTGGATTCAATGATTTAAAAAAGAGTTCTTTTTT
14474522 TGAATGGATCCCATATAATTTTTTCATTTAAAGGGTATTTTTTTAAGTTATATCAAAATTTATCT
131 TGAATGGATCCCATATAATTTTTTCATTTAAAGGGTATTTTTTTAAGTTATATCAAAATTTATCT
14474587 AAAAATAATTAAAATTATAATAAAAATTATTTTTAAAGTAACTTTATTACGAAAG
196 AAAAATAATTAAAATTATAATAAAAATTATTTTTAAAGTAACTTTATTACGAAAG
* * *
14474642 NGTTGGAGAACTGGACGGAGGGATAGCTAAATCGAGATTTTATTTTGAAATTTTTATCTAAATAA
1 -GTTGGAGAACTAGACGGAGAGATAGCTAAATCGAGATTTAATTTTGAAATTTTTATCTAAATAA
14474707 CGAAAGAAGAAAAAAAATCGAAATCACTTAATTTGGATTCAATGATTTAAAAAAGAGTTCTTTTT
65 CGAAAGAAGAAAAAAAATCGAAATCACTTAATTTGGATTCAATGATTTAAAAAAGAGTTCTTTTT
14474772 TTGAATGGATCCCATATAATTTTTTCATTTAAAGGGTATTTTTTTAAGTTATATCAAAATTTATC
130 TTGAATGGATCCCATATAATTTTTTCATTTAAAGGGTATTTTTTTAAGTTATATCAAAATTTATC
14474837 TAAAAATAATTAAAATTATAATAAAAATTATTTTTAAAGTAACTTTATTACGAAAG
195 TAAAAATAATTAAAATTATAATAAAAATTATTTTTAAAGTAACTTTATTACGAAAG
14474893 TTATTACTCA
Statistics
Matches: 247, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
251 247 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (250 bp):
GTTGGAGAACTAGACGGAGAGATAGCTAAATCGAGATTTAATTTTGAAATTTTTATCTAAATAAC
GAAAGAAGAAAAAAAATCGAAATCACTTAATTTGGATTCAATGATTTAAAAAAGAGTTCTTTTTT
TGAATGGATCCCATATAATTTTTTCATTTAAAGGGTATTTTTTTAAGTTATATCAAAATTTATCT
AAAAATAATTAAAATTATAATAAAAATTATTTTTAAAGTAACTTTATTACGAAAG
Found at i:14477670 original size:63 final size:63
Alignment explanation
Indices: 14477571--14477761 Score: 382
Period size: 63 Copynumber: 3.0 Consensus size: 63
14477561 ATTTCTGCAA
14477571 GTGAAAGAAATAGTTTTGTGCATATTGTGGCAAATTATATGTATGATAAAACGTACTTGTTTT
1 GTGAAAGAAATAGTTTTGTGCATATTGTGGCAAATTATATGTATGATAAAACGTACTTGTTTT
14477634 GTGAAAGAAATAGTTTTGTGCATATTGTGGCAAATTATATGTATGATAAAACGTACTTGTTTT
1 GTGAAAGAAATAGTTTTGTGCATATTGTGGCAAATTATATGTATGATAAAACGTACTTGTTTT
14477697 GTGAAAGAAATAGTTTTGTGCATATTGTGGCAAATTATATGTATGATAAAACGTACTTGTTTT
1 GTGAAAGAAATAGTTTTGTGCATATTGTGGCAAATTATATGTATGATAAAACGTACTTGTTTT
14477760 GT
1 GT
14477762 ACCACAAGAA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 128 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (63 bp):
GTGAAAGAAATAGTTTTGTGCATATTGTGGCAAATTATATGTATGATAAAACGTACTTGTTTT
Found at i:14498497 original size:22 final size:22
Alignment explanation
Indices: 14498472--14498523 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
14498462 GAATCATTGT
14498472 TTGACTTT-ATAGATGTTTTTAC
1 TTGACTTTCATAGAT-TTTTTAC
* * *
14498494 TTGATTTTCATGGATTTTTTCC
1 TTGACTTTCATAGATTTTTTAC
*
14498516 CTGACTTT
1 TTGACTTT
14498524 GGCTACAACA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.17, C:0.13, G:0.13, T:0.56
Consensus pattern (22 bp):
TTGACTTTCATAGATTTTTTAC
Found at i:14512636 original size:13 final size:13
Alignment explanation
Indices: 14512603--14512636 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
14512593 CAATCTCGTA
*
14512603 TGTTACAAGAAAT
1 TGTTATAAGAAAT
14512616 TGTT-TAAGAAAT
1 TGTTATAAGAAAT
14512628 TGTTATAAG
1 TGTTATAAG
14512637 TTAAATGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (13 bp):
TGTTATAAGAAAT
Found at i:14517375 original size:207 final size:207
Alignment explanation
Indices: 14517013--14517425 Score: 709
Period size: 207 Copynumber: 2.0 Consensus size: 207
14517003 TCAACTTCTA
14517013 CTTCACCTGATAGAAACGTGGCAAACAATCTAAGTAAATTCCCGAGAATGGTGAATGATATGGGT
1 CTTCACCTGATAGAAACGTGGCAAACAATCTAAGTAAATTCCCGAGAATGGTGAATGATATGGGT
14517078 CGAAATGTAGTACGGTCTCCTTTACTGACGTCAGCCTCTACATCCCCAGACAGAGCTTTGAACGA
66 CGAAATGTAGTACGGTCTCCTTTACTGACGTCAGCCTCTACATCCCCAGACAGAGCTTTGAACGA
*
14517143 GAGTGAACAGTCTCCTTTACTATCATCGGCTTCGTCATCACCAGACAGAGCTTTCGAGAAAAGCC
131 GAATGAACAGTCTCCTTTACTATCATCGGCTTCGTCATCACCAGACAGAGCTTTCGAGAAAAGCC
14517208 CAGAGATGTCTT
196 CAGAGATGTCTT
* * * * *
14517220 CTTCACCTGATAGAAACGTGGTAAACAATCTGAGTGAATTCCCGGGAATGGTTAATGATATGGGT
1 CTTCACCTGATAGAAACGTGGCAAACAATCTAAGTAAATTCCCGAGAATGGTGAATGATATGGGT
* * * *
14517285 CGAAATGTTGTACGGTCTCCTTTACTGTCGTCAGCTTCTACATCCCCAGGCAGAGCTTTGAACGA
66 CGAAATGTAGTACGGTCTCCTTTACTGACGTCAGCCTCTACATCCCCAGACAGAGCTTTGAACGA
* * *
14517350 GAATGAGCGGTCTCCTTTGCTATCATCGGCTTCGTCATCACCAGACAGAGCTTTCGAGAAAAGCC
131 GAATGAACAGTCTCCTTTACTATCATCGGCTTCGTCATCACCAGACAGAGCTTTCGAGAAAAGCC
14517415 CAGAGATGTCT
196 CAGAGATGTCT
14517426 CCCTTGATGG
Statistics
Matches: 193, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
207 193 1.00
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (207 bp):
CTTCACCTGATAGAAACGTGGCAAACAATCTAAGTAAATTCCCGAGAATGGTGAATGATATGGGT
CGAAATGTAGTACGGTCTCCTTTACTGACGTCAGCCTCTACATCCCCAGACAGAGCTTTGAACGA
GAATGAACAGTCTCCTTTACTATCATCGGCTTCGTCATCACCAGACAGAGCTTTCGAGAAAAGCC
CAGAGATGTCTT
Found at i:14518789 original size:31 final size:31
Alignment explanation
Indices: 14518754--14518826 Score: 146
Period size: 31 Copynumber: 2.4 Consensus size: 31
14518744 GCTTATTTGT
14518754 AACTTTATATTGTGCAAGACAATAAGCAGAC
1 AACTTTATATTGTGCAAGACAATAAGCAGAC
14518785 AACTTTATATTGTGCAAGACAATAAGCAGAC
1 AACTTTATATTGTGCAAGACAATAAGCAGAC
14518816 AACTTTATATT
1 AACTTTATATT
14518827 TTTGGCAACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (31 bp):
AACTTTATATTGTGCAAGACAATAAGCAGAC
Found at i:14520542 original size:36 final size:36
Alignment explanation
Indices: 14520469--14520542 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
14520459 TCATAAATTC
* **
14520469 CCAGTTCCAGTGAATCCAATGATGCCACAAGTTTTT
1 CCAGTTCCAGTGAATCCAATGATGCAACAAGCATTT
* * *
14520505 CCAGTTCCCGTGAATCCGATGCTGCAACAAGCATTT
1 CCAGTTCCAGTGAATCCAATGATGCAACAAGCATTT
14520541 CC
1 CC
14520543 CGGATTACAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (36 bp):
CCAGTTCCAGTGAATCCAATGATGCAACAAGCATTT
Found at i:14525324 original size:16 final size:16
Alignment explanation
Indices: 14525303--14525334 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14525293 TTACTGTCGT
14525303 ATCATATGATAAGATA
1 ATCATATGATAAGATA
14525319 ATCATATGATAAGATA
1 ATCATATGATAAGATA
14525335 TGATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.31
Consensus pattern (16 bp):
ATCATATGATAAGATA
Found at i:14525415 original size:33 final size:35
Alignment explanation
Indices: 14525356--14525437 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 35
14525346 TTTAAAATTC
*
14525356 ATTATAAATAATAATATATATATATAAAA-TAAAA
1 ATTATAAAAAATAATATATATATATAAAATTAAAA
* * * *
14525390 ATT-TAAAAAATATTATATTTTTATAAAATTGAAA
1 ATTATAAAAAATAATATATATATATAAAATTAAAA
*
14525424 ATTATAAAACATAA
1 ATTATAAAAAATAA
14525438 ATTGAAAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
33 21 0.54
34 10 0.26
35 8 0.21
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (35 bp):
ATTATAAAAAATAATATATATATATAAAATTAAAA
Found at i:14525500 original size:41 final size:41
Alignment explanation
Indices: 14525455--14525583 Score: 104
Period size: 41 Copynumber: 3.1 Consensus size: 41
14525445 AGATGATTAT
14525455 TTTTTAATTTAAATTTTCAATATATTCCGTAATAATATACA
1 TTTTTAATTTAAATTTTCAATATATTCCGTAATAATATACA
* * *** * * **
14525496 TTTTTAA-ATAANTATAAAACATAAATT--G-AAAAGATGATTATT
1 TTTTTAATTTAAAT-TTTCA-ATATATTCCGTAATA-AT-A-TACA
14525538 TTTTTAATTTAAATTTTCAATATATTCCGTAATAATATACA
1 TTTTTAATTTAAATTTTCAATATATTCCGTAATAATATACA
14525579 TTTTT
1 TTTTT
14525584 TAAATAAACT
Statistics
Matches: 61, Mismatches: 18, Indels: 18
0.63 0.19 0.19
Matches are distributed among these distances:
39 3 0.05
40 7 0.11
41 23 0.38
42 18 0.30
43 7 0.11
44 3 0.05
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.47
Consensus pattern (41 bp):
TTTTTAATTTAAATTTTCAATATATTCCGTAATAATATACA
Found at i:14525500 original size:42 final size:42
Alignment explanation
Indices: 14525453--14525586 Score: 109
Period size: 42 Copynumber: 3.2 Consensus size: 42
14525443 AAAGATGATT
14525453 ATTTTTTAATTTAAATTTTCAATATATTCCGTAATAATATAC
1 ATTTTTTAATTTAAATTTTCAATATATTCCGTAATAATATAC
* * *** * *
14525495 A-TTTTTAA-ATAANTATAAAACATAAATT--G-AAAAGATGATTA-
1 ATTTTTTAATTTAAAT-TTTCA-ATATATTCCGTAATA-AT-A-TAC
*
14525536 TTTTTTTAATTTAAATTTTCAATATATTCCGTAATAATATAC
1 ATTTTTTAATTTAAATTTTCAATATATTCCGTAATAATATAC
14525578 ATTTTTTAA
1 ATTTTTTAA
14525587 ATAAACTATA
Statistics
Matches: 65, Mismatches: 16, Indels: 22
0.63 0.16 0.21
Matches are distributed among these distances:
39 3 0.05
40 7 0.11
41 18 0.28
42 27 0.42
43 7 0.11
44 3 0.05
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (42 bp):
ATTTTTTAATTTAAATTTTCAATATATTCCGTAATAATATAC
Found at i:14525526 original size:82 final size:83
Alignment explanation
Indices: 14525426--14525590 Score: 307
Period size: 83 Copynumber: 2.0 Consensus size: 83
14525416 AATTGAAAAT
14525426 TATAAAACATAAATTGAAAAGATGATTA-TTTTTTAATTTAAATTTTCAATATATTCCGTAATAA
1 TATAAAACATAAATTGAAAAGATGATTATTTTTTTAATTTAAATTTTCAATATATTCCGTAATAA
14525490 TATACA-TTTTTAAATAA
66 TATACATTTTTTAAATAA
14525507 NTATAAAACATAAATTGAAAAGATGATTATTTTTTTAATTTAAATTTTCAATATATTCCGTAATA
1 -TATAAAACATAAATTGAAAAGATGATTATTTTTTTAATTTAAATTTTCAATATATTCCGTAATA
14525572 ATATACATTTTTTAAATAA
65 ATATACATTTTTTAAATAA
14525591 ACTATATTAT
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
82 28 0.35
83 42 0.52
84 11 0.14
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.44
Consensus pattern (83 bp):
TATAAAACATAAATTGAAAAGATGATTATTTTTTTAATTTAAATTTTCAATATATTCCGTAATAA
TATACATTTTTTAAATAA
Found at i:14530445 original size:12 final size:12
Alignment explanation
Indices: 14530428--14530454 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14530418 AAGAAAATAA
14530428 AATATTTTATTT
1 AATATTTTATTT
14530440 AATATTTTATTT
1 AATATTTTATTT
14530452 AAT
1 AAT
14530455 TTGAATAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AATATTTTATTT
Found at i:14531360 original size:27 final size:27
Alignment explanation
Indices: 14531328--14531451 Score: 105
Period size: 27 Copynumber: 4.5 Consensus size: 27
14531318 GACTTCAAAA
**
14531328 TGCTAAATGTTAGGGATTTCAAATTTG
1 TGCTAAATGTTAAAGATTTCAAATTTG
14531355 TGCTAAATGTTAAAGATTTCAAATTTG
1 TGCTAAATGTTAAAGATTTCAAATTTG
*
14531382 TGC--AA-GTTAAAAGGTTT-AGTATAGTTAT-
1 TGCTAAATGTT-AAAGATTTCA--A-A-TT-TG
*
14531410 TAGGCTAAATGTTAAGGATTTCAAATTTG
1 T--GCTAAATGTTAAAGATTTCAAATTTG
14531439 TGCTAAATGTTAA
1 TGCTAAATGTTAA
14531452 CAATAAGTTA
Statistics
Matches: 79, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
24 4 0.05
25 9 0.11
26 1 0.01
27 41 0.52
28 4 0.05
29 4 0.05
30 3 0.04
31 1 0.01
32 8 0.10
33 4 0.05
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (27 bp):
TGCTAAATGTTAAAGATTTCAAATTTG
Found at i:14533847 original size:49 final size:49
Alignment explanation
Indices: 14533596--14533835 Score: 304
Period size: 49 Copynumber: 4.9 Consensus size: 49
14533586 TTCCACGAAC
* * * *
14533596 GAACATACATACCTCACATCATATCATCATCTTGAATCATCCATGGATG
1 GAACATACATACCTCACATCATATCATCGTCTGGAATCATCTACGGATG
* * *
14533645 GAACATACATACCTCACATCATATCATCGTCCGGAATCATCTTCGGACG
1 GAACATACATACCTCACATCATATCATCGTCTGGAATCATCTACGGATG
* * * **
14533694 GATCATATATA-ATCCACATCATATCATCGTCTGGAATCATCTATAGATG
1 GAACATACATACCT-CACATCATATCATCGTCTGGAATCATCTACGGATG
* * *
14533743 GAACATGCATA-ATCCACATCATATCATTGTCTGGAATCATCTACGGATG
1 GAACATACATACCT-CACATCATATCATCGTCTGGAATCATCTACGGATG
*
14533792 GAACATACATACCTCACATCATATCATCGTCTGGAATTATCTAC
1 GAACATACATACCTCACATCATATCATCGTCTGGAATCATCTAC
14533836 AAACAGAACA
Statistics
Matches: 164, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
48 1 0.01
49 162 0.99
50 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (49 bp):
GAACATACATACCTCACATCATATCATCGTCTGGAATCATCTACGGATG
Found at i:14535994 original size:27 final size:27
Alignment explanation
Indices: 14535964--14536017 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
14535954 GCTATTTAGG
14535964 CTAAATGTAAGGGATTTCAAAATTTTC
1 CTAAATGTAAGGGATTTCAAAATTTTC
* *
14535991 CTAAATGTTAGGGATTTCAATATTTTC
1 CTAAATGTAAGGGATTTCAAAATTTTC
14536018 ATGATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (27 bp):
CTAAATGTAAGGGATTTCAAAATTTTC
Found at i:14536887 original size:183 final size:184
Alignment explanation
Indices: 14536550--14537126 Score: 676
Period size: 206 Copynumber: 3.0 Consensus size: 184
14536540 ATTTTCTTTT
* * * * *
14536550 AAAAAATATTTGTTTCATTTCAATTGCTTTCAAGCTACTTTCATTTCAGCCATGAATGTTCAATT
1 AAAAAATATTTGTGTCATGTCAATTACTTTCAAGCTACTTTAATTTCAGCCATGAATGCTCAATT
* * * * * *
14536615 GTGACCCGATCGTTGGATTATGATAATTATTTAAACTTGCTTTTTAGTAATCAATGTTATTCTTC
66 GTGACCCGATCGTTAGATTATGATAAATATCTAAACTTGCTTTATAGTAACCAATATTATTCTTC
14536680 TTTTATTTTTTGTTTATATATATATATATATAAACAAGATATAAAACACATCTA
131 TTTTATTTTTTGTTTATATATATATATATATAAACAAGATATAAAACACATCTA
* *
14536734 AAAAAATA-TTGTGTCATGTCAATTACTTTCAAGCTGCTTTAATTTCAGCCATGACTGCTCAATT
1 AAAAAATATTTGTGTCATGTCAATTACTTTCAAGCTACTTTAATTTCAGCCATGAATGCTCAATT
*
14536798 GTGACCCCGGTCGTTAGATTATGATAAATATCTAAACTTGCTTTATAGTAACCAATATTATTCTT
66 GTGA-CCCGATCGTTAGATTATGATAAATATCTAAACTTGCTTTATAGTAACCAATATTATTC--
*
14536863 TTTTTTTTATTTTTAGTGTATATATATATATATATATATATAAACAA-ATAAAANAAACAAGATA
128 -TTCTTTTATTTTT--TG--T-T-TATATATATATATATATAAACAAGAT------------ATA
14536927 TAAAACACATCTA
174 -AAA-CACATCTA
* *
14536940 AAAAAATA-TTGTGTCATGTCAATTACTTTCAAGCTGCTTTAATTTCAGCCATGACTGCTCAATT
1 AAAAAATATTTGTGTCATGTCAATTACTTTCAAGCTACTTTAATTTCAGCCATGAATGCTCAATT
*
14537004 GTGACCCCGGTCGTTAGATTATGATAAATATCTAAACTTGCTTTATAGTAACC-ATATTATTCTT
66 GTGA-CCCGATCGTTAGATTATGATAAATATCTAAACTTGCTTTATAGTAACCAATATTATTC-T
* * * *
14537068 TTTTTTATTTTATTACTATATATATATATATATATAAACAAAATATAAAACACATCTA
129 TCTTTTATTTT-TT-GTTTATATATATATATATATAAACAAGATATAAAACACATCTA
14537126 A
1 A
14537127 GTCATGAAAA
Statistics
Matches: 349, Mismatches: 17, Indels: 52
0.83 0.04 0.12
Matches are distributed among these distances:
183 53 0.15
184 59 0.17
186 9 0.03
187 15 0.04
188 3 0.01
189 2 0.01
191 1 0.00
192 3 0.01
193 23 0.07
199 23 0.07
200 2 0.01
201 1 0.00
202 1 0.00
203 13 0.04
204 4 0.01
205 12 0.03
206 125 0.36
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (184 bp):
AAAAAATATTTGTGTCATGTCAATTACTTTCAAGCTACTTTAATTTCAGCCATGAATGCTCAATT
GTGACCCGATCGTTAGATTATGATAAATATCTAAACTTGCTTTATAGTAACCAATATTATTCTTC
TTTTATTTTTTGTTTATATATATATATATATAAACAAGATATAAAACACATCTA
Found at i:14537073 original size:206 final size:204
Alignment explanation
Indices: 14536711--14537103 Score: 716
Period size: 206 Copynumber: 1.9 Consensus size: 204
14536701 ATATATATAT
14536711 AAACAAGATATAAAACACATCTAAAAAAATATTGTGTCATGTCAATTACTTTCAAGCTGCTTTAA
1 AAACAAGATATAAAACACATCTAAAAAAATATTGTGTCATGTCAATTACTTTCAAGCTGCTTTAA
14536776 TTTCAGCCATGACTGCTCAATTGTGACCCCGGTCGTTAGATTATGATAAATATCTAAACTTGCTT
66 TTTCAGCCATGACTGCTCAATTGTGACCCCGGTCGTTAGATTATGATAAATATCTAAACTTGCTT
* * * *
14536841 TATAGTAACCAATATTATTCTTTTTTTTTTATTTTTAGTGTATATATATATATATATATATATAA
131 TATAGTAACCAATATTATTCTTTTTTTATT-TTATTACTATATATATATATATATATATATATAA
14536906 ACAAATAAAA
195 ACAAATAAAA
14536916 NAAACAAGATATAAAACACATCTAAAAAAATATTGTGTCATGTCAATTACTTTCAAGCTGCTTTA
1 -AAACAAGATATAAAACACATCTAAAAAAATATTGTGTCATGTCAATTACTTTCAAGCTGCTTTA
14536981 ATTTCAGCCATGACTGCTCAATTGTGACCCCGGTCGTTAGATTATGATAAATATCTAAACTTGCT
65 ATTTCAGCCATGACTGCTCAATTGTGACCCCGGTCGTTAGATTATGATAAATATCTAAACTTGCT
14537046 TTATAGTAACC-ATATTATTCTTTTTTTTATTTTATTACTATATATATATATATATATA
130 TTATAGTAACCAATATTATTC-TTTTTTTATTTTATTACTATATATATATATATATATA
14537104 AACAAAATAT
Statistics
Matches: 182, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
205 33 0.18
206 149 0.82
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (204 bp):
AAACAAGATATAAAACACATCTAAAAAAATATTGTGTCATGTCAATTACTTTCAAGCTGCTTTAA
TTTCAGCCATGACTGCTCAATTGTGACCCCGGTCGTTAGATTATGATAAATATCTAAACTTGCTT
TATAGTAACCAATATTATTCTTTTTTTATTTTATTACTATATATATATATATATATATATATAAA
CAAATAAAA
Found at i:14539228 original size:15 final size:15
Alignment explanation
Indices: 14539204--14539233 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14539194 TGGAACTTGG
14539204 TAACTCTATTATATA
1 TAACTCTATTATATA
*
14539219 TAACTTTATTATATA
1 TAACTCTATTATATA
14539234 GAGTCATTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAACTCTATTATATA
Found at i:14542121 original size:13 final size:13
Alignment explanation
Indices: 14542103--14542127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14542093 ATTTTCAAAA
14542103 ATTTTATAAAATT
1 ATTTTATAAAATT
14542116 ATTTTATAAAAT
1 ATTTTATAAAAT
14542128 CTCATTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTATAAAATT
Found at i:14543342 original size:29 final size:29
Alignment explanation
Indices: 14543281--14543344 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
14543271 GTAAATTTTT
** *
14543281 AAAAATTACACTTTTACCCCCGTAAAGTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
*
14543310 AAAAATTACATTTTTA-CCCCAAAAACTG
1 AAAAATTACACTTTTACCCCCAAAAACTG
14543338 AAAAATT
1 AAAAATT
14543345 GCCCATAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.28
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCCCAAAAACTG
Found at i:14559003 original size:32 final size:32
Alignment explanation
Indices: 14558967--14559045 Score: 131
Period size: 32 Copynumber: 2.5 Consensus size: 32
14558957 CCCAATGGAC
*
14558967 TTATACTAAAACACACCAACTTCTTAATAGAG
1 TTATACTAAAACACACCAACTTCCTAATAGAG
*
14558999 TTATACTAAAACATACCAACTTCCTAATAGAG
1 TTATACTAAAACACACCAACTTCCTAATAGAG
*
14559031 TTATACCAAAACACA
1 TTATACTAAAACACA
14559046 TAAACAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.46, C:0.23, G:0.05, T:0.27
Consensus pattern (32 bp):
TTATACTAAAACACACCAACTTCCTAATAGAG
Found at i:14572180 original size:19 final size:20
Alignment explanation
Indices: 14572149--14572188 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14572139 ATTGAGAGTT
14572149 TAAATTAAAAAAAAT-ATAA
1 TAAATTAAAAAAAATAATAA
14572168 TNAAATT-AAAAAAATAATAA
1 T-AAATTAAAAAAAATAATAA
14572188 T
1 T
14572189 CTTTTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAATTAAAAAAAATAATAA
Found at i:14572820 original size:15 final size:16
Alignment explanation
Indices: 14572800--14572831 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
14572790 ATAGAAAAGC
14572800 TTAGGCAA-AAATCCT
1 TTAGGCAAGAAATCCT
14572815 TTAGGCAAGAAATCCT
1 TTAGGCAAGAAATCCT
14572831 T
1 T
14572832 ATGAAAGACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (16 bp):
TTAGGCAAGAAATCCT
Found at i:14577450 original size:20 final size:20
Alignment explanation
Indices: 14577425--14577463 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14577415 CTATAAATAT
*
14577425 CTCATTTCTCCAGTAGCTTC
1 CTCATTTCTCCAGCAGCTTC
*
14577445 CTCATTTTTCCAGCAGCTT
1 CTCATTTCTCCAGCAGCTT
14577464 TTTGTTCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.33, G:0.10, T:0.41
Consensus pattern (20 bp):
CTCATTTCTCCAGCAGCTTC
Found at i:14577642 original size:104 final size:103
Alignment explanation
Indices: 14577532--14577738 Score: 396
Period size: 104 Copynumber: 2.0 Consensus size: 103
14577522 GCTTCCATAA
*
14577532 CTCTCTCTCTCTCTCTCTAGTTTTAATTTTCATGTTTTTGAGCACTTTTTCATAGAACCTTTTGT
1 CTCTCTCTCTCTCTCTCTAGCTTTAATTTTCATGTTTTTGAGCACTTTTTCATAGAACCTTTTGT
14577597 ACTCTTTCACTCTCTCACCTTAAAACCCTCAAAAGTCC
66 ACTCTTTCACTCTCTCACCTTAAAACCCTCAAAAGTCC
14577635 NCTCTCTCTCTCTCTCTCTAGCTTTAATTTTCATGTTTTTGAGCACTTTTTCATAGAACCTTTTG
1 -CTCTCTCTCTCTCTCTCTAGCTTTAATTTTCATGTTTTTGAGCACTTTTTCATAGAACCTTTTG
14577700 TACTCTTTCACTCTCTCACCTTAAAACCCTCAAAAGTCC
65 TACTCTTTCACTCTCTCACCTTAAAACCCTCAAAAGTCC
14577739 TTCCTCAACA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.43
Consensus pattern (103 bp):
CTCTCTCTCTCTCTCTCTAGCTTTAATTTTCATGTTTTTGAGCACTTTTTCATAGAACCTTTTGT
ACTCTTTCACTCTCTCACCTTAAAACCCTCAAAAGTCC
Found at i:14578578 original size:2 final size:2
Alignment explanation
Indices: 14578571--14578596 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14578561 GTAAATACAA
14578571 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
14578597 GTTATAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14584702 original size:2 final size:2
Alignment explanation
Indices: 14584695--14584725 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
14584685 TGGACATTTT
*
14584695 AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14584726 CTTTCCATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14585278 original size:2 final size:2
Alignment explanation
Indices: 14585271--14585307 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
14585261 TGTTATGTTG
14585271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
14585308 GTATTGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14585568 original size:2 final size:2
Alignment explanation
Indices: 14585561--14585598 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14585551 GTAAATACAA
14585561 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
14585599 NNNNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14585647 original size:2 final size:2
Alignment explanation
Indices: 14585636--14585675 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
14585626 NNNNNNNNNN
*
14585636 TA TA TA -A TA TA T- TA TA TA TA TA TA TT TA -A 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
14585675 T
1 T
14585676 GTTATAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:14585681 original size:13 final size:13
Alignment explanation
Indices: 14585636--14585675 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 13
14585626 NNNNNNNNNN
14585636 TATATA-ATATAT
1 TATATATATATAT
14585648 TATATATATATATT
1 TATATATATATA-T
14585662 TAATATATATATAT
1 T-ATATATATATAT
14585676 GTTATAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 3 0.12
15 11 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TATATATATATAT
Found at i:14590352 original size:13 final size:13
Alignment explanation
Indices: 14590318--14590356 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14590308 ACCTTATTAA
*
14590318 AAATTACATTATT
1 AAATTATATTATT
*
14590331 TAATATATATTATT
1 AAAT-TATATTATT
14590345 AAATTATATTAT
1 AAATTATATTAT
14590357 ATAATATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTATATTATT
Found at i:14590359 original size:20 final size:20
Alignment explanation
Indices: 14590334--14590371 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14590324 CATTATTTAA
* *
14590334 TATATATTATTAAATTATAT
1 TATATAATATAAAATTATAT
14590354 TATATAATATAAAATTAT
1 TATATAATATAAAATTAT
14590372 TTAGTAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATAATATAAAATTATAT
Found at i:14590483 original size:20 final size:20
Alignment explanation
Indices: 14590460--14590499 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14590450 TAAATTATGT
14590460 AATATAAAATAAGAT-TAATA
1 AATAT-AAATAAGATATAATA
*
14590480 AATATTAATAAGATATAATA
1 AATATAAATAAGATATAATA
14590500 TTAGTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AATATAAATAAGATATAATA
Found at i:14590586 original size:15 final size:15
Alignment explanation
Indices: 14590566--14590607 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
14590556 GTTCTTAAAT
14590566 TAATATTAAATTATA
1 TAATATTAAATTATA
*
14590581 TAATATT-AA-TAAA
1 TAATATTAAATTATA
*
14590594 TAATATTAATTTAT
1 TAATATTAAATTAT
14590608 TTTATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
13 10 0.45
14 3 0.14
15 9 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATATTAAATTATA
Found at i:14590598 original size:13 final size:13
Alignment explanation
Indices: 14590561--14590603 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
14590551 ATCATGTTCT
14590561 TAAATTAATATTAAA
1 TAAA-TAATATT-AA
*
14590576 TTATATAATATTAA
1 -TAAATAATATTAA
14590590 TAAATAATATTAA
1 TAAATAATATTAA
14590603 T
1 T
14590604 TTATTTTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 13 0.52
14 2 0.08
15 7 0.28
16 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAATAATATTAA
Found at i:14601053 original size:20 final size:20
Alignment explanation
Indices: 14601028--14601073 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
14601018 CTTCTAAACC
14601028 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
14601048 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
14601068 TCAAAT
1 TCAAAT
14601074 GAGGCCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:14603397 original size:120 final size:111
Alignment explanation
Indices: 14603221--14603440 Score: 325
Period size: 120 Copynumber: 1.9 Consensus size: 111
14603211 AAGAATAATT
14603221 TTTTCTTTTTTAATCTTTTAATTTTATTTTCATTAAAATATTAATAATTTATTATTAAATTATTA
1 TTTTCTTTTTTAATCTTTTAATTTTATTTTCATTAAAATATTAATAATTTATTATTAAATTATTA
14603286 ATATGATTTTTTATTTCAATTTCTTTTTA-TTTTTTCTCTATTTGTA
66 ATAT-ATTTTTTATTTCAATTTCTTTTTACTTTTTTCTCTATTTGTA
14603332 TTTTCATTTTTTAATCTTTTAATTTCTATTTTCATTAAAAATTTAAGCATTAATAATTTATTATT
1 TTTTC-TTTTTTAATCTTTTAATTT-TATTTTCATT-AAAA--T----ATTAATAATTTATTATT
* *
14603397 AAATTATTAATCTATTTTTTATTTTAATTTCTTTTTACTTTTTT
57 AAATTATTAATATATTTTTTATTTCAATTTCTTTTTACTTTTTT
14603441 ATTTTCATTT
Statistics
Matches: 97, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
111 5 0.05
112 19 0.20
113 10 0.10
114 4 0.04
116 1 0.01
119 23 0.24
120 35 0.36
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (111 bp):
TTTTCTTTTTTAATCTTTTAATTTTATTTTCATTAAAATATTAATAATTTATTATTAAATTATTA
ATATATTTTTTATTTCAATTTCTTTTTACTTTTTTCTCTATTTGTA
Found at i:14603413 original size:112 final size:110
Alignment explanation
Indices: 14603221--14603454 Score: 255
Period size: 112 Copynumber: 2.1 Consensus size: 110
14603211 AAGAATAATT
* * *
14603221 TTTTC-TTTTTTAATCTTTTAATTTTATTTTCATTAAAATATTAATAATTTATTATTAAATTATT
1 TTTTCATTTTTTAATCTTTTAATTTTATTTTCATTAAAATATTAAGAATTAATAATTAAATTATT
* * * *
14603285 AATATGATTTTTTATTTCAATTTCTTTTTATTT-TTTCT-CTATTTGTA
66 AATATGATTATCTATTT---TTTATTTTAATTTCTTTCTACT-TTTGTA
* *
14603332 TTTTCATTTTTTAATCTTTTAATTTCTATTTTCATTAAAA-ATTTAAGCATTAATAATT-TATTA
1 TTTTCATTTTTTAATCTTTTAATTT-TATTTTCATTAAAATA-TTAAGAATTAATAATTAAATTA
* * *
14603395 TTAA-ATTATTAATCTATTTTTTATTTTAATTTCTTTTTACTTTTTTA
64 TTAATATGATT-ATCTATTTTTTATTTTAATTTCTTTCTACTTTTGTA
14603442 TTTTCATTTTTTA
1 TTTTCATTTTTTA
14603455 TTTGTAGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
109 11 0.10
110 22 0.21
111 12 0.11
112 34 0.32
113 26 0.25
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (110 bp):
TTTTCATTTTTTAATCTTTTAATTTTATTTTCATTAAAATATTAAGAATTAATAATTAAATTATT
AATATGATTATCTATTTTTTATTTTAATTTCTTTCTACTTTTGTA
Found at i:14605878 original size:29 final size:30
Alignment explanation
Indices: 14605804--14605878 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 30
14605794 TAGGCAACAC
*
14605804 AGGAATAATTATATTAAAGAACAAAAAAAG
1 AGGAATAATTATACTAAAGAACAAAAAAAG
*
14605834 AAGGAATAATTATACTAAAGAACAGAAAAAG
1 -AGGAATAATTATACTAAAGAACAAAAAAAG
14605865 -GGAATAATTATACT
1 AGGAATAATTATACT
14605879 TTCAGTCCTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 14 0.33
31 28 0.67
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.21
Consensus pattern (30 bp):
AGGAATAATTATACTAAAGAACAAAAAAAG
Found at i:14617041 original size:35 final size:35
Alignment explanation
Indices: 14617002--14617115 Score: 95
Period size: 35 Copynumber: 3.3 Consensus size: 35
14616992 TTTCATCTAT
* * *
14617002 AACAATTAAAACAAGTGAAATATTACTTCACGA-AG
1 AACAACTAAAACAAATGAAACATTACTTCAC-ACAG
* * *
14617037 AACAAGTAAAACAAATGAAGCATTGCTTCACACAG
1 AACAACTAAAACAAATGAAACATTACTTCACACAG
* * * * ** *
14617072 AACAACTAAAATAAATGGAGCACTACTTCATGCAA
1 AACAACTAAAACAAATGAAACATTACTTCACACAG
14617107 AACAACTAA
1 AACAACTAA
14617116 TATAAGTGGA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 1 0.02
35 64 0.98
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.19
Consensus pattern (35 bp):
AACAACTAAAACAAATGAAACATTACTTCACACAG
Found at i:14617398 original size:30 final size:29
Alignment explanation
Indices: 14617357--14617431 Score: 107
Period size: 30 Copynumber: 2.6 Consensus size: 29
14617347 GTTTAGCTTA
* *
14617357 TTCTCTCGAACTTGTTCACATACAACTTCT
1 TTCTCTTGAACTTGTTCACATACAACGT-T
*
14617387 TTCTCTTGAACTTGTTCACATACACCGTT
1 TTCTCTTGAACTTGTTCACATACAACGTT
14617416 TTCTCTT-AACTTGTTC
1 TTCTCTTGAACTTGTTC
14617432 TTAGATAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 9 0.21
29 8 0.19
30 25 0.60
ACGTcount: A:0.20, C:0.28, G:0.08, T:0.44
Consensus pattern (29 bp):
TTCTCTTGAACTTGTTCACATACAACGTT
Found at i:14618077 original size:32 final size:32
Alignment explanation
Indices: 14618041--14618103 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
14618031 AGAACTAAGT
14618041 TTGGCAACGACCTAATTGTTGGAATATTTGTA
1 TTGGCAACGACCTAATTGTTGGAATATTTGTA
**
14618073 TTGGCATTGACCTAATTGTTGGAATATTTGT
1 TTGGCAACGACCTAATTGTTGGAATATTTGT
14618104 GACAACAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.41
Consensus pattern (32 bp):
TTGGCAACGACCTAATTGTTGGAATATTTGTA
Found at i:14632543 original size:3 final size:3
Alignment explanation
Indices: 14632535--14632559 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14632525 TATTTTGATT
14632535 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
14632560 ATTTGTAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14638294 original size:27 final size:27
Alignment explanation
Indices: 14638264--14638316 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
14638254 TTATGCTTTT
14638264 CTTTCTTTTATTTATCTTTTCTATTAA
1 CTTTCTTTTATTTATCTTTTCTATTAA
14638291 CTTTCTTTTATTTATCTTTTCTATTA
1 CTTTCTTTTATTTATCTTTTCTATTA
14638317 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (27 bp):
CTTTCTTTTATTTATCTTTTCTATTAA
Found at i:14638311 original size:16 final size:16
Alignment explanation
Indices: 14638265--14638319 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
14638255 TATGCTTTTC
14638265 TTTCTTTTATTTATCT
1 TTTCTTTTATTTATCT
*
14638281 TTTC---TA-TTAAC-
1 TTTCTTTTATTTATCT
14638292 TTTCTTTTATTTATCT
1 TTTCTTTTATTTATCT
*
14638308 TTTCTATTATTT
1 TTTCTTTTATTT
14638320 TTATTTTAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
11 4 0.13
12 4 0.13
13 2 0.06
14 2 0.06
15 4 0.13
16 15 0.48
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTCTTTTATTTATCT
Found at i:14638326 original size:27 final size:27
Alignment explanation
Indices: 14638264--14638327 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
14638254 TTATGCTTTT
*
14638264 CTTTCTTTTATTTATCTTTTCTATTAA
1 CTTTATTTTATTTATCTTTTCTATTAA
* *
14638291 CTTTCTTTTATTTATCTTTTCTATTAT
1 CTTTATTTTATTTATCTTTTCTATTAA
*
14638318 TTTTATTTTA
1 CTTTATTTTA
14638328 GGTGTAATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (27 bp):
CTTTATTTTATTTATCTTTTCTATTAA
Found at i:14656565 original size:124 final size:124
Alignment explanation
Indices: 14656344--14656595 Score: 450
Period size: 124 Copynumber: 2.0 Consensus size: 124
14656334 TGCCTTAATA
* *
14656344 GATAATATCGTGTAATAAGTATGACTGTGCGTGTGTGGTGTGGGAGAGCACATGCCGTTAATGAT
1 GATAATATCGTGTAATAAGTATGACCGTGCGTGTGTGGTGTGGGAAAGCACATGCCGTTAATGAT
14656409 GTGGGTGGGAGTGCATGTGATGATATTAAAATGTGCGAGTAGGGAGTGCACATGATGAT
66 GTGGGTGGGAGTGCATGTGATGATATTAAAATGTGCGAGTAGGGAGTGCACATGATGAT
*
14656468 GATAATATTGTGTAATAAGTATGACCGTGCGTGTGTGGTGTGGGAAAGCACATGCCGTTAATGAT
1 GATAATATCGTGTAATAAGTATGACCGTGCGTGTGTGGTGTGGGAAAGCACATGCCGTTAATGAT
* * *
14656533 GTGGGTTGGAGTGCGTGTGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGATGAT
66 GTGGGTGGGAGTGCATGTGATGATATTAAAATGTGCGAGTAGGGAGTGCACATGATGAT
14656592 GATA
1 GATA
14656596 TTGAAATGTG
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
124 122 1.00
ACGTcount: A:0.27, C:0.09, G:0.35, T:0.29
Consensus pattern (124 bp):
GATAATATCGTGTAATAAGTATGACCGTGCGTGTGTGGTGTGGGAAAGCACATGCCGTTAATGAT
GTGGGTGGGAGTGCATGTGATGATATTAAAATGTGCGAGTAGGGAGTGCACATGATGAT
Found at i:14656601 original size:38 final size:38
Alignment explanation
Indices: 14656550--14656661 Score: 170
Period size: 38 Copynumber: 2.9 Consensus size: 38
14656540 GGAGTGCGTG
14656550 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
*
14656588 TGATGATATTGAAATGTGCGAGTAGGGAGTCCACATGA
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
*** * *
14656626 TGATGATATTGCCTTGTGCGTGTAGGGAATGCACAT
1 TGATGATATTGAAATGTGCGAGTAGGGAGTGCACAT
14656662 AAGTTGAGTG
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (38 bp):
TGATGATATTGAAATGTGCGAGTAGGGAGTGCACATGA
Found at i:14656835 original size:2 final size:2
Alignment explanation
Indices: 14656828--14656864 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14656818 NNNNNNNNNN
14656828 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14656865 GTTATAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14659744 original size:56 final size:55
Alignment explanation
Indices: 14659677--14659787 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 55
14659667 GATTATTATG
14659677 CCTTTTCTTCTTTGCGTTACCGTTTAAAC-ACTATATATATATATATATATATATA
1 CCTTTTCTTCTTTGCGTTACCGTTT-AACTACTATATATATATATATATATATATA
14659732 NCCTTTTCTTCTTTGCGTTACCGTTTAACTACTATATATATATATATATATATATA
1 -CCTTTTCTTCTTTGCGTTACCGTTTAACTACTATATATATATATATATATATATA
14659788 TAAATATATA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 3 0.06
56 51 0.94
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.48
Consensus pattern (55 bp):
CCTTTTCTTCTTTGCGTTACCGTTTAACTACTATATATATATATATATATATATA
Found at i:14659771 original size:2 final size:2
Alignment explanation
Indices: 14659764--14659798 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14659754 GTTTAACTAC
*
14659764 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14659799 TAGCTCATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14665933 original size:24 final size:24
Alignment explanation
Indices: 14665917--14666057 Score: 74
Period size: 26 Copynumber: 5.5 Consensus size: 24
14665907 TAAGAATTAG
14665917 AAATTAAAATAAAATAAAATATAA
1 AAATTAAAATAAAATAAAATATAA
** *
14665941 AAATTAAAATTTATATAATATAGGTAAAA
1 AAATTAAAA--TA-A-AATA-AAATATAA
*
14665970 GAAATTAAAGTAAAATATATAATATAA
1 -AAATTAAAATAAAATA-A-AATATAA
14665997 AAATTATATTAA-AAAATAAAA-ATAAA
1 AAATTA-A--AATAAAATAAAATAT-AA
* *
14666023 AAATATAATATTATAATAAAA-ATAA
1 AAAT-TAA-AATAAAATAAAATATAA
14666048 AAA-TAAAATA
1 AAATTAAAATA
14666058 TATGACATTA
Statistics
Matches: 93, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
22 3 0.03
23 3 0.03
24 9 0.10
25 9 0.10
26 33 0.35
27 10 0.11
28 12 0.13
29 6 0.06
30 8 0.09
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (24 bp):
AAATTAAAATAAAATAAAATATAA
Found at i:14666013 original size:13 final size:15
Alignment explanation
Indices: 14665981--14666076 Score: 62
Period size: 13 Copynumber: 6.6 Consensus size: 15
14665971 AAATTAAAGT
14665981 AAAATATATAATATA
1 AAAATATATAATATA
*
14665996 AAAAT-TATATTA-A
1 AAAATATATAATATA
*
14666009 AAAATA-AAAATA-A
1 AAAATATATAATATA
*
14666022 AAAATATAATATTATA
1 AAAATAT-ATAATATA
* *
14666038 ATAAAAATA-AAAAT-
1 A-AAATATATAATATA
14666052 AAAATATATGACAT-TA
1 AAAATATAT-A-ATATA
14666068 AAAATATAT
1 AAAATATAT
14666077 TTAAGAGATG
Statistics
Matches: 62, Mismatches: 10, Indels: 17
0.70 0.11 0.19
Matches are distributed among these distances:
13 23 0.37
14 7 0.11
15 14 0.23
16 13 0.21
17 5 0.08
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (15 bp):
AAAATATATAATATA
Found at i:14666019 original size:6 final size:6
Alignment explanation
Indices: 14666008--14666055 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
14665998 AATTATATTA
* * *
14666008 AAAAAT AAAAAT AAAAAAT ATAATAT TATAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT -AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAA
14666056 TATATGACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 24 0.71
7 10 0.29
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:14666023 original size:54 final size:54
Alignment explanation
Indices: 14665915--14666056 Score: 125
Period size: 54 Copynumber: 2.7 Consensus size: 54
14665905 TATAAGAATT
* * * **
14665915 AGAAATTAAAATAAAATAAAATATAAAAATTAAAATTTATATAATATAGGTAAA
1 AGAAATTAAAATAAAATAAAATATAAAAATTAAAATTTAAAAAATAAAAATAAA
* *
14665969 AGAAATTAAAGTAAAATATATAATATAAAAATT-ATA-TTAAAAAATAAAAAT-AA
1 AGAAATTAAAATAAAATA-A-AATATAAAAATTAAAATTTAAAAAATAAAAATAAA
* *
14666022 A-AAATATAATATTATAATAAAA-ATAAAAA-TAAAAT
1 AGAAAT-TAA-AATAAAATAAAATATAAAAATTAAAAT
14666057 ATATGACATT
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
50 1 0.01
51 9 0.12
52 6 0.08
53 7 0.10
54 34 0.47
55 3 0.04
56 12 0.17
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (54 bp):
AGAAATTAAAATAAAATAAAATATAAAAATTAAAATTTAAAAAATAAAAATAAA
Found at i:14666029 original size:25 final size:26
Alignment explanation
Indices: 14665993--14666059 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 26
14665983 AATATATAAT
* *
14665993 ATAAAAATTATATTA-AAAAATAAAA
1 ATAAAAAATATAATATAAAAATAAAA
* *
14666018 ATAAAAAATATAATATTATAATAAAA
1 ATAAAAAATATAATATAAAAATAAAA
*
14666044 AT-AAAAATAAAATATA
1 ATAAAAAATATAATATA
14666060 TGACATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 25 0.71
26 10 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (26 bp):
ATAAAAAATATAATATAAAAATAAAA
Found at i:14666049 original size:32 final size:34
Alignment explanation
Indices: 14665981--14666060 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 34
14665971 AAATTAAAGT
* * *
14665981 AAAATATATAATATAAAAATTATATTAAAAAATA
1 AAAATAAAAAATATAAAAATTATAATAAAAAATA
*
14666015 AAAATAAAAAATAT-AATATTATAAT-AAAAATA
1 AAAATAAAAAATATAAAAATTATAATAAAAAATA
*
14666047 AAAATAAAATATAT
1 AAAATAAAAAATAT
14666061 GACATTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 20 0.49
33 9 0.22
34 12 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (34 bp):
AAAATAAAAAATATAAAAATTATAATAAAAAATA
Found at i:14678050 original size:23 final size:23
Alignment explanation
Indices: 14678020--14678101 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 23
14678010 GTTCAGAGTT
*
14678020 TGTGACACGCCATGGAAGGAAGC
1 TGTGACACGCCATGGAAGAAAGC
*** * *
14678043 TGTGACACGCCA-GAGTTCAGAGT
1 TGTGACACGCCATG-GAAGAAAGC
14678066 TGGTGACACGCCATGGAAGAAAGC
1 T-GTGACACGCCATGGAAGAAAGC
14678090 TGTGACACGCCA
1 TGTGACACGCCA
14678102 AAGTTCAGAG
Statistics
Matches: 45, Mismatches: 11, Indels: 6
0.73 0.18 0.10
Matches are distributed among these distances:
22 1 0.02
23 27 0.60
24 16 0.36
25 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.32, T:0.16
Consensus pattern (23 bp):
TGTGACACGCCATGGAAGAAAGC
Found at i:14678061 original size:141 final size:141
Alignment explanation
Indices: 14677824--14678127 Score: 378
Period size: 141 Copynumber: 2.2 Consensus size: 141
14677814 ACGGCACCAC
* * * *
14677824 TCAGAGTTGGTGAGACGCCATGAAGGGAATTTGTGAGATGCTAGAGTTAGGAGTTGGCAACACGC
1 TCAGAGTTGGTGAGACGCCATGAAGGAAATCTGTGACACGCTAGAGTTAGGAGTTGGCAACACGC
* * ** * * * * * *
14677889 CATGGAGGGAATCTGTGACACGTGAACGTTCAGAGTTGGTGATACGGCATGGAGGGAATCTGTTA
66 CATGGAAGGAAGCTGTGACACGCCAACGTTCAGAGTTGGTGACACGCCATGGAAGAAAGCTGTGA
* * *
14677954 CATGCTAGAGT
131 CACGCCAAAGT
* * **
14677965 TCATAGTTGGTGAGACGCCATGAAGGAAATCTGTGACACGCTAGAGTTCA-GAGTTTGTGACACG
1 TCAGAGTTGGTGAGACGCCATGAAGGAAATCTGTGACACGCTAGAGTT-AGGAGTTGGCAACACG
14678029 CCATGGAAGGAAGCTGTGACACGCCAGA-GTTCAGAGTTGGTGACACGCCATGGAAGAAAGCTGT
65 CCATGGAAGGAAGCTGTGACACGCCA-ACGTTCAGAGTTGGTGACACGCCATGGAAGAAAGCTGT
14678093 GACACGCCAAAGT
129 GACACGCCAAAGT
*
14678106 TCAGAGTTGGTGACACGCCATG
1 TCAGAGTTGGTGAGACGCCATG
14678128 GTCATGGTTT
Statistics
Matches: 138, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
141 136 0.99
142 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (141 bp):
TCAGAGTTGGTGAGACGCCATGAAGGAAATCTGTGACACGCTAGAGTTAGGAGTTGGCAACACGC
CATGGAAGGAAGCTGTGACACGCCAACGTTCAGAGTTGGTGACACGCCATGGAAGAAAGCTGTGA
CACGCCAAAGT
Found at i:14678076 original size:24 final size:23
Alignment explanation
Indices: 14677996--14678125 Score: 88
Period size: 24 Copynumber: 5.5 Consensus size: 23
14677986 GAAGGAAATC
*
14677996 TGTGACACGCTAGAGTTCAGAGTT
1 TGTGACACGCCAGAGTTCAGAG-T
* *
14678020 TGTGACACGCCATG-G--AAGGAAGC
1 TGTGACACGCCA-GAGTTCA-G-AGT
14678043 TGTGACACGCCAGAGTTCAGAGT
1 TGTGACACGCCAGAGTTCAGAGT
*** * *
14678066 TGGTGACACGCCATG-GAAGAAAGC
1 T-GTGACACGCCA-GAGTTCAGAGT
*
14678090 TGTGACACGCCAAAGTTCAGAGT
1 TGTGACACGCCAGAGTTCAGAGT
14678113 TGGTGACACGCCA
1 T-GTGACACGCCA
14678126 TGGTCATGGT
Statistics
Matches: 80, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
22 2 0.03
23 33 0.41
24 42 0.52
25 3 0.04
ACGTcount: A:0.28, C:0.22, G:0.31, T:0.19
Consensus pattern (23 bp):
TGTGACACGCCAGAGTTCAGAGT
Found at i:14678128 original size:47 final size:47
Alignment explanation
Indices: 14677824--14678128 Score: 330
Period size: 47 Copynumber: 6.5 Consensus size: 47
14677814 ACGGCACCAC
* * * * *
14677824 TCAGAGTTGGTGAGACGCCAT-GAAGGGAATTTGTGAGATGCTAGAGT
1 TCAGAGTTGGTGACACGCCATGGAA-GGAATCTGTGACACGCCAGAGT
** * **
14677871 T-AGGAGTTGGCAACACGCCATGGAGGGAATCTGTGACACGTGA-ACGT
1 TCA-GAGTTGGTGACACGCCATGGAAGGAATCTGTGACACGCCAGA-GT
* * * * * *
14677918 TCAGAGTTGGTGATACGGCATGGAGGGAATCTGTTACATGCTAGAGT
1 TCAGAGTTGGTGACACGCCATGGAAGGAATCTGTGACACGCCAGAGT
* * *
14677965 TCATAGTTGGTGAGACGCCAT-GAAGGAAATCTGTGACACGCTAGAGT
1 TCAGAGTTGGTGACACGCCATGGAAGG-AATCTGTGACACGCCAGAGT
* *
14678012 TCAGAGTTTGTGACACGCCATGGAAGGAAGCTGTGACACGCCAGAGT
1 TCAGAGTTGGTGACACGCCATGGAAGGAATCTGTGACACGCCAGAGT
* * *
14678059 TCAGAGTTGGTGACACGCCATGGAAGAAAGCTGTGACACGCCAAAGT
1 TCAGAGTTGGTGACACGCCATGGAAGGAATCTGTGACACGCCAGAGT
14678106 TCAGAGTTGGTGACACGCCATGG
1 TCAGAGTTGGTGACACGCCATGG
14678129 TCATGGTTTA
Statistics
Matches: 220, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
46 6 0.03
47 205 0.93
48 9 0.04
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (47 bp):
TCAGAGTTGGTGACACGCCATGGAAGGAATCTGTGACACGCCAGAGT
Found at i:14678223 original size:53 final size:53
Alignment explanation
Indices: 14678116--14678235 Score: 161
Period size: 53 Copynumber: 2.3 Consensus size: 53
14678106 TCAGAGTTGG
*
14678116 TGACACGCCATGGTCATGGTTTAGAGTGTGTGACACAGCATTGCTTGAAAAGC
1 TGACACGCCATGGTCATGGTTTAGAGTGTGTGACACAGCAGTGCTTGAAAAGC
* * * **
14678169 TGACATGCCATGGTCATGGTTTAGAGTGTGTGACA-TGCCAGTGTTTGAGCAGC
1 TGACACGCCATGGTCATGGTTTAGAGTGTGTGACACAG-CAGTGCTTGAAAAGC
*
14678222 TGACACGTCATGGT
1 TGACACGCCATGGT
14678236 TTGAAATAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
52 1 0.02
53 57 0.98
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (53 bp):
TGACACGCCATGGTCATGGTTTAGAGTGTGTGACACAGCAGTGCTTGAAAAGC
Found at i:14678964 original size:31 final size:31
Alignment explanation
Indices: 14678750--14678973 Score: 277
Period size: 31 Copynumber: 7.2 Consensus size: 31
14678740 GATGTATGAG
* *
14678750 AACATTTTACTTGATATGCATAGCGTGTGAC
1 AACATTTTACTTGATATGCATGGCGTGTCAC
* *
14678781 AGCATTTTACTTGATATGCATGGCGTGTGAC
1 AACATTTTACTTGATATGCATGGCGTGTCAC
* *
14678812 AACGTTTCACTTGATATGCATGGCGTGTCAC
1 AACATTTTACTTGATATGCATGGCGTGTCAC
* * * * *
14678843 AACGTTTTACTTGTTATGCATAGTGTGTCAA
1 AACATTTTACTTGATATGCATGGCGTGTCAC
* *
14678874 AACGTTTTACTTGTTATGCATGGCGTGTCAC
1 AACATTTTACTTGATATGCATGGCGTGTCAC
* * *
14678905 AACATTTAACTTGTTATACATGGCGTGTCAC
1 AACATTTTACTTGATATGCATGGCGTGTCAC
* * *
14678936 AACATTTTGCTTGCTATGCATGGCGTGTCAT
1 AACATTTTACTTGATATGCATGGCGTGTCAC
14678967 AACATTT
1 AACATTT
14678974 ATTCCTTATT
Statistics
Matches: 171, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 171 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (31 bp):
AACATTTTACTTGATATGCATGGCGTGTCAC
Found at i:14680863 original size:156 final size:156
Alignment explanation
Indices: 14680636--14680958 Score: 448
Period size: 156 Copynumber: 2.1 Consensus size: 156
14680626 GTAATTTCTA
* * * *
14680636 TAATTGCAGTTTACGAAAGCGACGACAAGTCCTCAAGCACCAATCGATTCGGCTTAACCGCAGAC
1 TAATTGCAGTTTACGAAAGCAACGACAAGTCCTCAAGCACCAAGCGATCCGGCTCAACCGCAGAC
* * *
14680701 AACTAACGAGCCGACGGTAAGGATATTAAAGTTATAACGGTTAATGTTCAACAATTCTATACATG
66 AACTAACGAGCCGACGGTAAGGATATTAAAGTTATAACGGTTAATATTCAACAATTCCATACATA
14680766 ATTATTGAATAACACAGTTATATATG
131 ATTATTGAATAACACAGTTATATATG
** * ** * *
14680792 TAATTGCAGTTTGTGGAAGCAACGACTGGTCCTCAAGCACCGAGCGATCCGGCTCCACCGCAGAC
1 TAATTGCAGTTTACGAAAGCAACGACAAGTCCTCAAGCACCAAGCGATCCGGCTCAACCGCAGAC
** * * * * *
14680857 TGCTAACGAGCCGTCGGTTAGGATATTAAAGTTGTAACGGTTAATATTTAACAATTCCATATATA
66 AACTAACGAGCCGACGGTAAGGATATTAAAGTTATAACGGTTAATATTCAACAATTCCATACATA
14680922 ATTATTGAATAACACAGTTATATATG
131 ATTATTGAATAACACAGTTATATATG
*
14680948 TTATTGCAGTT
1 TAATTGCAGTT
14680959 GACCTAGTCG
Statistics
Matches: 145, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
156 145 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (156 bp):
TAATTGCAGTTTACGAAAGCAACGACAAGTCCTCAAGCACCAAGCGATCCGGCTCAACCGCAGAC
AACTAACGAGCCGACGGTAAGGATATTAAAGTTATAACGGTTAATATTCAACAATTCCATACATA
ATTATTGAATAACACAGTTATATATG
Found at i:14681375 original size:31 final size:31
Alignment explanation
Indices: 14681313--14681642 Score: 311
Period size: 31 Copynumber: 10.6 Consensus size: 31
14681303 GTCAGCCTTA
* * * *
14681313 GCGTGTGACAACATTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
14681344 GCATGTCAAAACATTTAACTTGTTATTCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * * * * *
14681375 GCATGTTAGAACGTTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* ** *
14681406 GCGTGTCAGAACATTTTGGTTGTTAT-CTTTG
1 GCGTGTCACAACATTTTACTTGTTATGC-ATG
* * * *
14681437 GCTTGTCACAACAATTTGCTTGTTATGGATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
14681468 GCATGTCACAACGTTTAACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
14681499 GCGTGTCACAACAATTTACTTGTTATGGATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* *
14681530 GCGTGTCACATCATTTTGCTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * *
14681561 GCGTGTGACAGCATTTTACTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGTTATGCATG
* * * *
14681592 GTGTGTCACAACATTTTACTTGATATGCGTA
1 GCGTGTCACAACATTTTACTTGTTATGCATG
14681623 GCGTGTCACAACATTTTACT
1 GCGTGTCACAACATTTTACT
14681643 CTTTATGGTT
Statistics
Matches: 244, Mismatches: 53, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
30 1 0.00
31 243 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGTTATGCATG
Found at i:14683203 original size:16 final size:15
Alignment explanation
Indices: 14683182--14683256 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 15
14683172 TCTACACAAT
14683182 TTTTTTGTATACAAAA
1 TTTTTT-TATACAAAA
14683198 TTTTTTTTATAC--AA
1 -TTTTTTTATACAAAA
* *
14683212 TTAATTTTATAC-ACA
1 TT-TTTTTATACAAAA
*
14683227 TTTTTTGTATACACAA
1 TTTTTT-TATACAAAA
14683243 TTTATTTTATACAA
1 TTT-TTTTATACAA
14683257 TTCATTGTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
13 2 0.04
14 13 0.28
15 8 0.17
16 15 0.32
17 9 0.19
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTTTTTATACAAAA
Found at i:14683217 original size:18 final size:17
Alignment explanation
Indices: 14683169--14683256 Score: 64
Period size: 17 Copynumber: 5.6 Consensus size: 17
14683159 ATATCGGCCC
* *
14683169 TTGTCTACACAATTTTT
1 TTGTATACAAAATTTTT
14683186 TTGTATACAAAATTTTT
1 TTGTATACAAAATTTTT
**
14683203 TT-TATAC--AATTAAT
1 TTGTATACAAAATTTTT
*
14683217 TT-TATAC-ACA-TTTT
1 TTGTATACAAAATTTTT
* *
14683231 TTGTATACACAATTTAT
1 TTGTATACAAAATTTTT
14683248 TT-TATACAA
1 TTGTATACAA
14683257 TTCATTGTAA
Statistics
Matches: 56, Mismatches: 11, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
14 16 0.29
15 6 0.11
16 12 0.21
17 22 0.39
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.51
Consensus pattern (17 bp):
TTGTATACAAAATTTTT
Found at i:14683231 original size:29 final size:31
Alignment explanation
Indices: 14683169--14683278 Score: 91
Period size: 31 Copynumber: 3.6 Consensus size: 31
14683159 ATATCGGCCC
* ** *
14683169 TTGTCTACACAATTTTTTTGTATACAAAATTTT
1 TTGTATACACAATTAATTT-TATAC-ACATTTT
*
14683202 TT-T-TATACAATTAATTTTATACACATTTT
1 TTGTATACACAATTAATTTTATACACATTTT
* **
14683231 TTGTATACACAATTTATTTTATACA-ATTCA
1 TTGTATACACAATTAATTTTATACACATTTT
* *
14683261 TTGTAAACAGAATTAATT
1 TTGTATACACAATTAATT
14683279 CTTTTTGTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
29 8 0.12
30 24 0.38
31 29 0.45
32 1 0.02
33 2 0.03
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (31 bp):
TTGTATACACAATTAATTTTATACACATTTT
Found at i:14683285 original size:52 final size:50
Alignment explanation
Indices: 14683179--14683358 Score: 165
Period size: 52 Copynumber: 3.6 Consensus size: 50
14683169 TTGTCTACAC
* * * *
14683179 AATTTTTTTGTATACAAAATTTTTTTTATACAATTAATTTTATACAC----
1 AATTTTTTTGTATACACAATTTATTTTATACAATT-ATTGTAAACACAATT
*
14683226 -A-TTTTTTGTATACACAATTTATTTTATACAATTCATTGTAAACAGAATT
1 AATTTTTTTGTATACACAATTTATTTTATACAATT-ATTGTAAACACAATT
* * * *
14683275 AATTCTTTTTGTATACACAATATACTTTATACAATTATTTTATACACAATT
1 AATT-TTTTTGTATACACAATTTATTTTATACAATTATTGTAAACACAATT
* * *
14683326 AATTTTTTTGACTATACATAATTAATTTGATAC
1 AATTTTTTTG--TATACACAATTTATTTTATAC
14683359 TATCGAATTT
Statistics
Matches: 108, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
45 38 0.35
46 1 0.01
50 7 0.06
51 17 0.16
52 45 0.42
ACGTcount: A:0.37, C:0.11, G:0.04, T:0.49
Consensus pattern (50 bp):
AATTTTTTTGTATACACAATTTATTTTATACAATTATTGTAAACACAATT
Found at i:14683483 original size:31 final size:32
Alignment explanation
Indices: 14683434--14683507 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
14683424 CGTGTGATGC
* **
14683434 CATAAATATGCTACCACTCAGCATGTC-CCCA
1 CATAAATTTGCTTGCACTCAGCATGTCACCCA
* * *
14683465 CATACATTTGCTTGCACTCAGCGTGTCACCCT
1 CATAAATTTGCTTGCACTCAGCATGTCACCCA
14683497 CATAAATTTGC
1 CATAAATTTGC
14683508 AAAAAGTCAG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.27, C:0.32, G:0.12, T:0.28
Consensus pattern (32 bp):
CATAAATTTGCTTGCACTCAGCATGTCACCCA
Found at i:14683604 original size:31 final size:31
Alignment explanation
Indices: 14683559--14683658 Score: 137
Period size: 31 Copynumber: 3.2 Consensus size: 31
14683549 CGTGTTAGTA
* *
14683559 GTGTCAGTCGATAAATCTGCTTCCACTCAGC
1 GTGTCAGCCCATAAATCTGCTTCCACTCAGC
14683590 GTGTCAGCCCATAAATCTGCTTCCACTCAGC
1 GTGTCAGCCCATAAATCTGCTTCCACTCAGC
* * * * *
14683621 ATGTTAGCCCATAAATCTGCTTTCACTTAGT
1 GTGTCAGCCCATAAATCTGCTTCCACTCAGC
14683652 GTGTCAG
1 GTGTCAG
14683659 AACAATTAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (31 bp):
GTGTCAGCCCATAAATCTGCTTCCACTCAGC
Found at i:14684070 original size:31 final size:31
Alignment explanation
Indices: 14684032--14684295 Score: 275
Period size: 31 Copynumber: 8.5 Consensus size: 31
14684022 GGTAACCGTT
* *
14684032 GCGTGTCACAACGTTTAACTTCTTATGCATG
1 GCGTGTCACAACATTTAACTTGTTATGCATG
*
14684063 GCGTGTCAGAACAATTT-ACTTGTTATGCATG
1 GCGTGTCACAAC-ATTTAACTTGTTATGCATG
* *
14684094 GCGGGTCAGAACAATTTAA-TTGTTATGCATG
1 GCGTGTCACAAC-ATTTAACTTGTTATGCATG
* *
14684125 GCGTGTCAGAACA-ATATACTTGTTATGCATG
1 GCGTGTCACAACATTTA-ACTTGTTATGCATG
* * *
14684156 GCGTGTCATAACGTTTAACTTCTTATGCATG
1 GCGTGTCACAACATTTAACTTGTTATGCATG
* ** *
14684187 GCGTGTCATAACATTTTGCTTGTTATGCATA
1 GCGTGTCACAACATTTAACTTGTTATGCATG
* * * *
14684218 GCGTGTCACAATATTTTACTTGATATGCACG
1 GCGTGTCACAACATTTAACTTGTTATGCATG
* *
14684249 ACGTGTCACAACATTTAACTTGTTTTGCATG
1 GCGTGTCACAACATTTAACTTGTTATGCATG
* *
14684280 ACGTGTCTC-ACATTTA
1 GCGTGTCACAACATTTA
14684296 TTCCTTATTT
Statistics
Matches: 200, Mismatches: 28, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
29 2 0.01
30 9 0.05
31 183 0.92
32 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (31 bp):
GCGTGTCACAACATTTAACTTGTTATGCATG
Found at i:14688802 original size:31 final size:31
Alignment explanation
Indices: 14688755--14688836 Score: 103
Period size: 31 Copynumber: 2.6 Consensus size: 31
14688745 TTATCAGTTG
*
14688755 TGTTGTTACACGCCATGCATAT-ATAGTAAAA
1 TGTTGTAACACGCCATGCATATCA-AGTAAAA
* *
14688786 TGTTGTAACACACCATGCATATCAAGTCAAA
1 TGTTGTAACACGCCATGCATATCAAGTAAAA
* *
14688817 TGTCGTGACACGCCATGCAT
1 TGTTGTAACACGCCATGCAT
14688837 CAGTATCGTG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (31 bp):
TGTTGTAACACGCCATGCATATCAAGTAAAA
Found at i:14688849 original size:23 final size:23
Alignment explanation
Indices: 14688819--14688900 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
14688809 AAGTCAAATG
*
14688819 TCGTGACACGCCATGCATCAGTA
1 TCGTGACACGCCATGCATCACTA
* *
14688842 TCGTGACATGCCATGCATCACTG
1 TCGTGACACGCCATGCATCACTA
* *
14688865 TTGTGACACGCCATGCATCACTC
1 TCGTGACACGCCATGCATCACTA
*
14688888 TTGTGACACGCCA
1 TCGTGACACGCCA
14688901 ATCATTGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (23 bp):
TCGTGACACGCCATGCATCACTA
Found at i:14689013 original size:55 final size:55
Alignment explanation
Indices: 14688929--14689161 Score: 299
Period size: 55 Copynumber: 4.2 Consensus size: 55
14688919 TCATTACACC
* *
14688929 AACAGCCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACGATATGTCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACGATACGCCAGG
**
14688984 AACAGTTGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACGATACGCCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACGATACGCCAGG
* * * * *
14689039 AACAACCGTGACACG-TCAAAAACCC-ATAAATTCAGTTAACCCACGACACGCCAAG
1 AACAGCCGTGACACGCT-AAAAACCCAAAAAACT-AGTTAACCCACGATACGCCAGG
* * * *
14689094 AACAGCCGTGACACGCTAACAACCCAAAAGACTAGTTAACCCACAACACGCCAGG
1 AACAGCCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACGATACGCCAGG
* *
14689149 AACAACCTTGACA
1 AACAGCCGTGACA
14689162 TACTAAAATA
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
54 6 0.04
55 143 0.93
56 5 0.03
ACGTcount: A:0.42, C:0.30, G:0.15, T:0.13
Consensus pattern (55 bp):
AACAGCCGTGACACGCTAAAAACCCAAAAAACTAGTTAACCCACGATACGCCAGG
Found at i:14689817 original size:21 final size:22
Alignment explanation
Indices: 14689793--14689835 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
14689783 AATACTCTTC
*
14689793 ATTATAATATTTAAT-TTTTAA
1 ATTAAAATATTTAATATTTTAA
*
14689814 ATTAAAATATTTATTATTTTAA
1 ATTAAAATATTTAATATTTTAA
14689836 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTAAAATATTTAATATTTTAA
Done.