Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 54 of 410
Found at i:14175556 original size:54 final size:53
Alignment explanation
Indices: 14175495--14175873 Score: 274
Period size: 54 Copynumber: 7.0 Consensus size: 53
14175485 AAATTTGCAA
*** * *
14175495 CTGCAAGATTTTTGAAATCTTGTAAGTATAAGTCTGCGATCTTACATCGACGAG
1 CTGCAAGATTTCAAAAATCTTGTAAGTATAAGT-TGCGATATTAAATCGACGAG
* * * * * *
14175549 CTGCAAGA-TTCTGAGAATCTTGTAAGTATAAAGATGCGATCTTAAATTGACAAG
1 CTGCAAGATTTC-AAAAATCTTGTAAGTAT-AAGTTGCGATATTAAATCGACGAG
* * *
14175603 -TGGCAAGATATGAAAAATCTTGTAAGTATAAGGTTGCGATATTAAATC-A-GTAAA
1 CT-GCAAGATTTCAAAAATCTTGTAAGTATAA-GTTGCGATATTAAATCGACG--AG
** * * *
14175657 CCACAAGA-TTCAGAAAATCTTTTAAGTATAAGGCTGCAATATTAAATCAGA-GAG
1 CTGCAAGATTTCA-AAAATCTTGTAAGTATAA-GTTGCGATATTAAATC-GACGAG
* * *
14175711 CTGCAAGA-TTCGAAAAATCTTATAAGTATAAGGTTGTGATATTAAATTGACGAG
1 CTGCAAGATTTC-AAAAATCTTGTAAGTATAA-GTTGCGATATTAAATCGACGAG
* * * * * *
14175765 CCGTAAGA-TACAAAAAATCTTGTAAGTATAAAGCTT-CGATTTTAAATCAACAAG
1 CTGCAAGATTTC-AAAAATCTTGTAAGTAT-AAG-TTGCGATATTAAATCGACGAG
*
14175819 CTGCAAGA-TTCAAAATATCTTGTAAGTATAAGATTGCGATCTTAAATCGACGAG
1 CTGCAAGATTTCAAAA-ATCTTGTAAGTATAAG-TTGCGATATTAAATCGACGAG
14175873 C
1 C
14175874 CGATAAGGTT
Statistics
Matches: 259, Mismatches: 49, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
53 19 0.07
54 229 0.88
55 9 0.03
56 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (53 bp):
CTGCAAGATTTCAAAAATCTTGTAAGTATAAGTTGCGATATTAAATCGACGAG
Found at i:14175783 original size:162 final size:161
Alignment explanation
Indices: 14175509--14175873 Score: 412
Period size: 162 Copynumber: 2.3 Consensus size: 161
14175499 AAGATTTTTG
* * * * * *
14175509 AAATCTTGTAAGTATAAGTCTGCGATCTTACATCGACGAGCTGCAAGATTCTGAGAATCTTGTAA
1 AAATCTTGTAAGTATAAGGCTGCAATATTAAATCGACGAGCTGCAAGATTCTGAAAATCTTATAA
* ** ** *
14175574 GTATAAAGATGCGATCTTAAATTGACAAGTGGCAAGATATGAAAAATCTTGTAAGTAT-AAGGTT
66 GTATAAAGATGCGATATTAAATTGACAAGCCGCAAGATACAAAAAATCTTGTAAGTATAAAGCTT
**
14175638 GCGATATTAAATCAGTAAACCACAAGATTCAGA
131 -CGATATTAAATCAACAAACCACAAGATTCA-A
*
14175671 AAATCTTTTAAGTATAAGGCTGCAATATTAAATCAGA-GAGCTGCAAGATTC-GAAAAATCTTAT
1 AAATCTTGTAAGTATAAGGCTGCAATATTAAATC-GACGAGCTGCAAGATTCTG-AAAATCTTAT
* * * * *
14175734 AAGTATAAGGTTGTGATATTAAATTGACGAGCCGTAAGATACAAAAAATCTTGTAAGTATAAAGC
64 AAGTATAAAGATGCGATATTAAATTGACAAGCCGCAAGATACAAAAAATCTTGTAAGTATAAAGC
* * **
14175799 TTCGATTTTAAATCAACAAGCTGCAAGATTCAA
129 TTCGATATTAAATCAACAAACCACAAGATTCAA
** * *
14175832 AATATCTTGTAAGTATAAGATTGCGATCTTAAATCGACGAGC
1 AA-ATCTTGTAAGTATAAGGCTGCAATATTAAATCGACGAGC
14175874 CGATAAGGTT
Statistics
Matches: 169, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
161 6 0.04
162 156 0.92
163 7 0.04
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (161 bp):
AAATCTTGTAAGTATAAGGCTGCAATATTAAATCGACGAGCTGCAAGATTCTGAAAATCTTATAA
GTATAAAGATGCGATATTAAATTGACAAGCCGCAAGATACAAAAAATCTTGTAAGTATAAAGCTT
CGATATTAAATCAACAAACCACAAGATTCAA
Found at i:14175871 original size:108 final size:107
Alignment explanation
Indices: 14175509--14175875 Score: 393
Period size: 108 Copynumber: 3.4 Consensus size: 107
14175499 AAGATTTTTG
* * * * *
14175509 AAATCTTGTAAGTATAA-GTCTGCGATCTTACATCGACGAGCTGCAAGATTCTGAGAATCTTGTA
1 AAATCTTGTAAGTATAAGGT-TGCGATATTAAATCGACGAGCCGCAAGATTCAGAAAATCTTGTA
* * ** *
14175573 AGTATAAAGATGCGATCTTAAATTGACAAG-TGGCAAGATATGAA
65 AGTATAAAGCTGCGATATTAAATCAACAAGCT-GCAAGAT-TCAA
* * *
14175617 AAATCTTGTAAGTATAAGGTTGCGATATTAAATC-A-GTAAACCACAAGATTCAGAAAATCTTTT
1 AAATCTTGTAAGTATAAGGTTGCGATATTAAATCGACG--AGCCGCAAGATTCAGAAAATCTTGT
* * *
14175680 AAGTATAAGGCTGCAATATTAAATCAGA-GAGCTGCAAGATTCGAA
64 AAGTATAAAGCTGCGATATTAAATCA-ACAAGCTGCAAGATTC-AA
* * * * * *
14175725 AAATCTTATAAGTATAAGGTTGTGATATTAAATTGACGAGCCGTAAGATACAAAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGTTGCGATATTAAATCGACGAGCCGCAAGATTCAGAAAATCTTGTAA
* *
14175790 GTATAAAGCTTCGATTTTAAATCAACAAGCTGCAAGATTCAA
66 GTATAAAGCTGCGATATTAAATCAACAAGCTGCAAGATTCAA
* *
14175832 AATATCTTGTAAGTATAAGATTGCGATCTTAAATCGACGAGCCG
1 AA-ATCTTGTAAGTATAAGGTTGCGATATTAAATCGACGAGCCG
14175876 ATAAGGTTGC
Statistics
Matches: 214, Mismatches: 35, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
106 1 0.00
107 7 0.03
108 200 0.93
109 5 0.02
110 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (107 bp):
AAATCTTGTAAGTATAAGGTTGCGATATTAAATCGACGAGCCGCAAGATTCAGAAAATCTTGTAA
GTATAAAGCTGCGATATTAAATCAACAAGCTGCAAGATTCAA
Found at i:14177704 original size:48 final size:49
Alignment explanation
Indices: 14177652--14177881 Score: 185
Period size: 48 Copynumber: 4.8 Consensus size: 49
14177642 CAGCAGTGAC
* *
14177652 ATGTGATCCCATGTAAGACCATGTCTAGGACATAGCTTTGGCATCGT-T
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGTAT
* * * *
14177700 ATGTGAACCCATGTAAGACCATGTCCGGGACATGGCATTGGCATCATAAT
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGT-AT
* * * * *
14177750 AAGTCAT--CGTGTAAGACCATAGT-TGGG-C-T---ATCGGCTTCGATAT
1 ATGTGATCCCATGTAAGACCAT-GTCTGGGACATAGCATTGGCATCG-TAT
* * *
14177793 GTGTGATCCCATGAAAGATCATGTCTGGGACAT-GACATTGGCATCGT-T
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATAG-CATTGGCATCGTAT
* * * *
14177841 ATGTGGTCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 ATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGG
14177882 TACCCTACCT
Statistics
Matches: 141, Mismatches: 28, Indels: 26
0.72 0.14 0.13
Matches are distributed among these distances:
43 13 0.09
44 3 0.02
45 14 0.10
46 2 0.01
47 2 0.01
48 90 0.64
49 4 0.03
50 13 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
ATGTGATCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGTAT
Found at i:14181445 original size:19 final size:19
Alignment explanation
Indices: 14181407--14181446 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14181397 AAAATATCAT
*
14181407 ATTAATTTTAATTAATTTG
1 ATTAATTTTAATTAACTTG
* *
14181426 ATTAATTTTATTTTACTTG
1 ATTAATTTTAATTAACTTG
14181445 AT
1 AT
14181447 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTAACTTG
Found at i:14184256 original size:51 final size:53
Alignment explanation
Indices: 14184179--14184285 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 53
14184169 GACCACTCTG
*
14184179 ACTGTTCTGGATTCGTTCCGAAGAGGTACTC-CGTACC-TTACTGTTACTGTT
1 ACTGTTCTGGATTCGTTCCGAAGAGGTACTCGCGTACCACTACTGTTACTGTT
* * *
14184230 ACTGTT-TCGGATTTGTTCCGATGAGGTACTCTGTGTACCACTACTGTTACTGTT
1 ACTGTTCT-GGATTCGTTCCGAAGAGGTACTC-GCGTACCACTACTGTTACTGTT
14184284 AC
1 AC
14184286 CTTTACTGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
50 1 0.02
51 27 0.56
53 5 0.10
54 15 0.31
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.38
Consensus pattern (53 bp):
ACTGTTCTGGATTCGTTCCGAAGAGGTACTCGCGTACCACTACTGTTACTGTT
Found at i:14184461 original size:18 final size:18
Alignment explanation
Indices: 14184414--14184471 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
14184404 ATAAAGGTAT
*
14184414 TGAATAATTGACTGTTAC
1 TGAACAATTGACTGTTAC
*
14184432 TGCAAC-ACTGACTGTTAC
1 TG-AACAATTGACTGTTAC
* *
14184450 TGAACAATTGACCGTTAT
1 TGAACAATTGACTGTTAC
14184468 TGAA
1 TGAA
14184472 TAATCGATCG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 3 0.09
18 28 0.85
19 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
TGAACAATTGACTGTTAC
Found at i:14188482 original size:48 final size:47
Alignment explanation
Indices: 14188387--14188495 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 47
14188377 CCCATTTGAT
*
14188387 TTAAACCTACACAAAAATGAATAATAGTGCCTGGTTACCTATCAAGG
1 TTAAACCTACACAAAAATGAATAATAGTGCCTGGTCACCTATCAAGG
* * *
14188434 TTAAACCTATACGAATAATGAATAATAGTGCTTGGTCATCCGT-T-AAGG
1 TTAAACCTACAC-AAAAATGAATAATAGTGCCTGGTCA-CC-TATCAAGG
*
14188482 TTGAACCTACACAA
1 TTAAACCTACACAA
14188496 CAACTAGCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
47 13 0.25
48 36 0.68
49 3 0.06
50 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.28
Consensus pattern (47 bp):
TTAAACCTACACAAAAATGAATAATAGTGCCTGGTCACCTATCAAGG
Found at i:14190061 original size:26 final size:26
Alignment explanation
Indices: 14190032--14190083 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14190022 GATTCACCAA
14190032 GTTAAAACCATTTTCATTTATTAGCT
1 GTTAAAACCATTTTCATTTATTAGCT
*
14190058 GTTAAAATCATTTTCATTTATTAGCT
1 GTTAAAACCATTTTCATTTATTAGCT
14190084 TCTATTTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (26 bp):
GTTAAAACCATTTTCATTTATTAGCT
Found at i:14190595 original size:39 final size:41
Alignment explanation
Indices: 14190543--14190626 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 41
14190533 CTAAGCCCAT
**
14190543 TACAGATTCAGATACAGTTTA-GGCCTTAGCCCAT-TCAGA
1 TACAGATTCAGATACAAATTAGGGCCTTAGCCCATCTCAGA
* * *
14190582 TACAGTTTTAGATATAAATTAGGGCCTTAGCCCATCTCAGA
1 TACAGATTCAGATACAAATTAGGGCCTTAGCCCATCTCAGA
14190623 TACA
1 TACA
14190627 ATATGCATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 16 0.42
40 13 0.34
41 9 0.24
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (41 bp):
TACAGATTCAGATACAAATTAGGGCCTTAGCCCATCTCAGA
Found at i:14196551 original size:40 final size:39
Alignment explanation
Indices: 14196468--14196612 Score: 112
Period size: 40 Copynumber: 3.6 Consensus size: 39
14196458 TCGAATGATG
* * * * *
14196468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAG-CCCGAAGGCATTCGTGC-AAGTTAATAAA
* * *
14196508 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGACTAAG-CCCGAAGGCATTCGTGCAAGTTAATAAA
* * * *
14196548 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAG
1 TCCGGACTAAGCCCGAAGGCATTCGTGCAAGTTAATAAA
* **
14196587 CCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGACTAAG-CCCGAAGGCATTCG
14196613 GCGAGTCACT
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
39 32 0.38
40 46 0.55
41 6 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTCGTGCAAGTTAATAAA
Found at i:14196568 original size:39 final size:40
Alignment explanation
Indices: 14196468--14196658 Score: 176
Period size: 39 Copynumber: 4.8 Consensus size: 40
14196458 TCGAATGATG
* * *
14196468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
14196508 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
14196548 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
14196587 CCCGGGTTAAGTCCCGAAGGCATTCG-GCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** *
14196627 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
14196659 CGTTATATCC
Statistics
Matches: 122, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
39 62 0.51
40 53 0.43
41 7 0.06
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:14196608 original size:79 final size:81
Alignment explanation
Indices: 14196468--14196651 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
14196458 TCGAATGATG
* *
14196468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATACCCGGACTAAGATCCGAAGGCATT
*
14196532 CGTGCGAGTTAATA-AA
66 CG-GCGAGTCAATATAA
* **
14196548 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTA-AGCCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATA-CCCGGACTAAGAT-CCGAAGGCA
*
14196609 TTCGGCGAGTCACTATAA
64 TTCGGCGAGTCAATATAA
**
14196627 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
14196652 AGCGAGTCGT
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
78 19 0.21
79 53 0.59
80 18 0.20
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATACCCGGACTAAGATCCGAAGGCATT
CGGCGAGTCAATATAA
Found at i:14204182 original size:29 final size:29
Alignment explanation
Indices: 14204143--14204221 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
14204133 CTTAATAATC
*
14204143 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
14204173 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
14204202 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
14204222 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:14211308 original size:20 final size:20
Alignment explanation
Indices: 14211279--14211317 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14211269 TACAGGTTTG
*
14211279 CACTTTGGTGCCTCTATTTA
1 CACTTCGGTGCCTCTATTTA
*
14211299 CACTTCGGTGTCTCTATTT
1 CACTTCGGTGCCTCTATTT
14211318 TCAATCTGGT
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:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (20 bp):
CACTTCGGTGCCTCTATTTA
Found at i:14211426 original size:17 final size:18
Alignment explanation
Indices: 14211404--14211445 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
14211394 TTTTTATAAC
14211404 TATAAACTATTTTAT-TT
1 TATAAACTATTTTATATT
*
14211421 TATAAATTATTTTATAGTT
1 TATAAACTATTTTATA-TT
14211440 TATAAA
1 TATAAA
14211446 AGAAAGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (18 bp):
TATAAACTATTTTATATT
Found at i:14213351 original size:40 final size:40
Alignment explanation
Indices: 14213314--14213499 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
14213304 GCTACTCGTT
* * * *
14213314 CAAATGTCTTCGAGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
14213354 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
14213394 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
14213434 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
14213475 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14213500 CATCATTCGA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14220745 original size:17 final size:16
Alignment explanation
Indices: 14220716--14220749 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14220706 TTCATTTGTT
14220716 TGTATTTCCTTATTTA
1 TGTATTTCCTTATTTA
*
14220732 TGTATTTTCGTTATTTA
1 TGTA-TTTCCTTATTTA
14220749 T
1 T
14220750 TTTTAATCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (16 bp):
TGTATTTCCTTATTTA
Found at i:14222035 original size:188 final size:188
Alignment explanation
Indices: 14221718--14222091 Score: 712
Period size: 188 Copynumber: 2.0 Consensus size: 188
14221708 GGAACTTGCG
*
14221718 ATTGATGGTTTTTAAATTTTTTTTGGTGTTAAATGATGAATTCGTAAACTTGGTTGTAAATTAGG
1 ATTGATGGTTTTTAAAATTTTTTTGGTGTTAAATGATGAATTCGTAAACTTGGTTGTAAATTAGG
14221783 ACTACTTTATAAAGGAATTTTTGTTAGTTTTGAGTTTAGGGACTAATATGAAAATATGAAAAATT
66 ACTACTTTATAAAGGAATTTTTGTTAGTTTTGAGTTTAGGGACTAATATGAAAATATGAAAAATT
*
14221848 TAGCAAGTACATTTTTAAAAATTCCAGGTTTTTGAATGTTTACTAAGGATGATGTTCC
131 TAGCAAGTACATTTTTAAAAATTCCAAGTTTTTGAATGTTTACTAAGGATGATGTTCC
14221906 ATTGATGGTTTTTAAAATTTTTTTGGTGTTAAATGATGAATTCGTAAACTTGGTTGTAAATTAGG
1 ATTGATGGTTTTTAAAATTTTTTTGGTGTTAAATGATGAATTCGTAAACTTGGTTGTAAATTAGG
*
14221971 ACTACTTTATAAATGAATTTTTGTTAGTTTTGAGTTTAGGGACTAATATGAAAATATGAAAAATT
66 ACTACTTTATAAAGGAATTTTTGTTAGTTTTGAGTTTAGGGACTAATATGAAAATATGAAAAATT
*
14222036 TAGCAAGTATATTTTTAAAAATTCCAAGTTTTTGAATGTTTACTAAGGATGATGTT
131 TAGCAAGTACATTTTTAAAAATTCCAAGTTTTTGAATGTTTACTAAGGATGATGTT
14222092 AGAATCGGTT
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 182 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (188 bp):
ATTGATGGTTTTTAAAATTTTTTTGGTGTTAAATGATGAATTCGTAAACTTGGTTGTAAATTAGG
ACTACTTTATAAAGGAATTTTTGTTAGTTTTGAGTTTAGGGACTAATATGAAAATATGAAAAATT
TAGCAAGTACATTTTTAAAAATTCCAAGTTTTTGAATGTTTACTAAGGATGATGTTCC
Found at i:14226358 original size:30 final size:30
Alignment explanation
Indices: 14226312--14226371 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
14226302 TTCCAGAGCC
14226312 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
14226342 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
14226372 CGCATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:14228912 original size:21 final size:21
Alignment explanation
Indices: 14228886--14228983 Score: 124
Period size: 21 Copynumber: 4.7 Consensus size: 21
14228876 CACACCAATG
* *
14228886 GAAGCTCACAAGAACTGAACA
1 GAAGCTCATAAGAGCTGAACA
* *
14228907 GAAGCTCAAAAGAGCTTAACA
1 GAAGCTCATAAGAGCTGAACA
*
14228928 GAAGCTCATAAGAGCTTAACA
1 GAAGCTCATAAGAGCTGAACA
14228949 GAAGCTCATAAGAGCTGAACA
1 GAAGCTCATAAGAGCTGAACA
* * *
14228970 AAATCTCAAAAGAG
1 GAAGCTCATAAGAG
14228984 TTTATCCCGA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.14
Consensus pattern (21 bp):
GAAGCTCATAAGAGCTGAACA
Found at i:14229420 original size:27 final size:27
Alignment explanation
Indices: 14229387--14229440 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
14229377 TAATTTCATT
14229387 CAATCTATTAAATTAGACATTAAAAAA
1 CAATCTATTAAATTAGACATTAAAAAA
14229414 CAATCTATTAAATTAGACATTAAAAAA
1 CAATCTATTAAATTAGACATTAAAAAA
14229441 ATGTATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.11, G:0.04, T:0.30
Consensus pattern (27 bp):
CAATCTATTAAATTAGACATTAAAAAA
Found at i:14237132 original size:25 final size:24
Alignment explanation
Indices: 14237104--14237150 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
14237094 TTTGGTGTTT
14237104 TTTTTATATAAATTTTTTTAAAATC
1 TTTTTAT-TAAATTTTTTTAAAATC
* *
14237129 TTTTTCTTTAATTTTTTTAAAA
1 TTTTTATTAAATTTTTTTAAAA
14237151 ATGATTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTTATTAAATTTTTTTAAAATC
Found at i:14237765 original size:3 final size:3
Alignment explanation
Indices: 14237759--14237791 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14237749 TGTTTGGTAA
14237759 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14237792 AAATTGATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14238343 original size:23 final size:23
Alignment explanation
Indices: 14238317--14238360 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
14238307 ATAACTAAAT
*
14238317 AAAATAATAA-TAATCCAATAACC
1 AAAAT-ATAACTAATACAATAACC
14238340 AAAATATAACTAATACAATAA
1 AAAATATAACTAATACAATAA
14238361 TTTAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAATATAACTAATACAATAACC
Found at i:14238808 original size:13 final size:13
Alignment explanation
Indices: 14238790--14238814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14238780 CAACTAATAA
14238790 TAATTAATTAATT
1 TAATTAATTAATT
14238803 TAATTAATTAAT
1 TAATTAATTAAT
14238815 GGAGGAGAAA
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):
TAATTAATTAATT
Found at i:14242760 original size:40 final size:41
Alignment explanation
Indices: 14242666--14242915 Score: 291
Period size: 40 Copynumber: 6.3 Consensus size: 41
14242656 ACCCAATTAT
* *** *
14242666 CTTCGGGATTTAG-CCGGATA-TAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * * * *
14242704 CGTCGGGTCTTAGCCCGGATA-TGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
14242744 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
*
14242784 CTTTGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
*
14242824 CTTCGGGACTTAGCCC-GAAATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
* * * * *
14242864 CTTCGGGACTTAGCTCGGA-ATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
14242904 CTTCGGGACTTA
1 CTTCGGGACTTA
14242916 ACCCCGTTAG
Statistics
Matches: 187, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
38 10 0.05
39 19 0.10
40 156 0.83
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (41 bp):
CTTCGGGACTTAGCCCGGATATTAGTAACTCGCACAAATGC
Found at i:14245382 original size:16 final size:18
Alignment explanation
Indices: 14245361--14245396 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
14245351 TTTTTTATTT
14245361 TTTAAAAA-TA-ATAAAA
1 TTTAAAAACTATATAAAA
14245377 TTTAAAAACTATATAAAA
1 TTTAAAAACTATATAAAA
14245395 TT
1 TT
14245397 CTTATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TTTAAAAACTATATAAAA
Found at i:14245972 original size:28 final size:27
Alignment explanation
Indices: 14245881--14245970 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 27
14245871 TTTCTTTTTT
* *
14245881 GTCACCCAACTAAGATTTTTTTAAATTG
1 GTCACCCAACTATGA-ATTTTTAAATTG
* * *
14245909 GTCACCCAACTATGGATTTTT--TTTA
1 GTCACCCAACTATGAATTTTTAAATTG
* *
14245934 GTCACCAAATTATGAATATTTTAAATTG
1 GTCACCCAACTATGAAT-TTTTAAATTG
14245962 GTCACCCAA
1 GTCACCCAA
14245971 TTTGTAACAC
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
25 16 0.33
26 4 0.08
27 5 0.10
28 23 0.48
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (27 bp):
GTCACCCAACTATGAATTTTTAAATTG
Found at i:14270034 original size:23 final size:23
Alignment explanation
Indices: 14270008--14270055 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
14269998 AGGAAACATA
14270008 CTCTCAAGCCTTATAACAGGAAG
1 CTCTCAAGCCTTATAACAGGAAG
14270031 CTCTCAAGCCTTATAACAGGAAG
1 CTCTCAAGCCTTATAACAGGAAG
14270054 CT
1 CT
14270056 TACACAGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (23 bp):
CTCTCAAGCCTTATAACAGGAAG
Found at i:14270206 original size:23 final size:24
Alignment explanation
Indices: 14270141--14270211 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 24
14270131 AAGAGCAATA
*
14270141 ATCAGGAAGTTCACAAAGAACCAT
1 ATCAGGAAGCTCACAAAGAACCAT
* *
14270165 ATC-GAGAAGCTCACGAAGATCC-T
1 ATCAG-GAAGCTCACAAAGAACCAT
* *
14270188 ATCAGGAAGCTCAAAAAGAGCCAT
1 ATCAGGAAGCTCACAAAGAACCAT
14270212 CTAACGAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (24 bp):
ATCAGGAAGCTCACAAAGAACCAT
Found at i:14271769 original size:51 final size:52
Alignment explanation
Indices: 14271714--14271824 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 52
14271704 ATTGGTATAA
* * *
14271714 TAAAAAATTTAATCCTC-AACTTTACAAATTATATCAATTT-AGTCATAATTT
1 TAAAAAATTTAACCCTCAAAATTTACAAATGATATCAATTTGA-TCATAATTT
* *
14271765 TAAAAAA-TTAACCCTCAAAATTTACAAATGATCTCAATTTGATCCTAATTT
1 TAAAAAATTTAACCCTCAAAATTTACAAATGATATCAATTTGATCATAATTT
*
14271816 TTAAAAATT
1 TAAAAAATT
14271825 CAATAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
50 8 0.16
51 41 0.80
52 2 0.04
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (52 bp):
TAAAAAATTTAACCCTCAAAATTTACAAATGATATCAATTTGATCATAATTT
Found at i:14271934 original size:22 final size:20
Alignment explanation
Indices: 14271918--14271966 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
14271908 AAAAATAATA
14271918 ATATATAA-ATTTTAAAAAT
1 ATATATAATATTTTAAAAAT
14271937 ATATA-AATATTTTCAAAAAT
1 ATATATAATATTTT-AAAAAT
14271957 ATATATAATA
1 ATATATAATA
14271967 ATAGATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.07
19 10 0.37
20 11 0.41
21 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATATAATATTTTAAAAAT
Found at i:14272498 original size:16 final size:17
Alignment explanation
Indices: 14272458--14272498 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
14272448 TTACTAGCAC
* *
14272458 GCCACCTCCATTAGCTT
1 GCCACCTCCACTAGCTA
14272475 GCCA-CTCC-CTAGCTA
1 GCCACCTCCACTAGCTA
14272490 GCCACCTCC
1 GCCACCTCC
14272499 TTGTTCATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 9 0.43
16 8 0.38
17 4 0.19
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (17 bp):
GCCACCTCCACTAGCTA
Found at i:14277591 original size:39 final size:39
Alignment explanation
Indices: 14277452--14277711 Score: 267
Period size: 40 Copynumber: 6.6 Consensus size: 39
14277442 GTTATTCGAT
* * * *
14277452 TATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAC
* * * *
14277492 TATATCTGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-AC
* ** * * *
14277532 CATATCCGGGCTAAAACCCGAAGGC-CTTCTGCAAGTAGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-C
14277571 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTAC
* *
14277611 TATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TAC
* *
14277651 TATAACCGGGCTAAGTCCCGAAGGCATTTGAGC-AGTAGC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-C
*
14277690 TATATCC-GGCTAA-ACCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGG
14277712 TACTTGGTTG
Statistics
Matches: 185, Mismatches: 29, Indels: 15
0.81 0.13 0.07
Matches are distributed among these distances:
37 8 0.04
38 9 0.05
39 39 0.21
40 124 0.67
41 5 0.03
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAC
Found at i:14277662 original size:119 final size:119
Alignment explanation
Indices: 14277451--14277711 Score: 334
Period size: 119 Copynumber: 2.2 Consensus size: 119
14277441 GGTTATTCGA
* *
14277451 TTATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACTATATCTGGGCTAAGTCCCGAAGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGCGACTATATCTGGGCTAAGTCCCGAAGG
* *
14277516 CATCTGCGCTAGTGACCATATCCGGGCTAAAACCCGAAGGCCTTCTGCAAGTAG
66 CATCTGCGCGAGTGACCATAACCGGGCTAAAACCCGAAGGCCTTCTGCAAGTAG
* *
14277570 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATATCTGGGCTAAGTCCCGAAG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGCGACTATATCTGGGCTAAGTCCCGAAG
* * * * ** *
14277634 GCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT-TG-AGCAGTAG
65 GCATCTGCGCGAGTGACCATAACCGGGCTAAAACCCGAAGGCCTTCTGCA--AGTAG
*
14277689 CTATATCC-GGCTAA-ACCCGAAGG
1 TTATATCCGGGCTAAGACCCGAAGG
14277712 TACTTGGTTG
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
117 9 0.07
118 8 0.06
119 105 0.85
120 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (119 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGCGACTATATCTGGGCTAAGTCCCGAAGG
CATCTGCGCGAGTGACCATAACCGGGCTAAAACCCGAAGGCCTTCTGCAAGTAG
Found at i:14277676 original size:80 final size:79
Alignment explanation
Indices: 14277452--14277711 Score: 280
Period size: 79 Copynumber: 3.3 Consensus size: 79
14277442 GTTATTCGAT
* * * *
14277452 TATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACTATATCTGGGCTAAGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TACTATATCCGGGCTAAGTCCCGAAGGC
* *
14277517 ATCTGCGCTAGTGAC
65 ATTTGCGCAAGTGAC
* * * * *
14277532 CATATCCGGGCTAAAACCCGAAGGC-CTTCTGCAAGTAGTTATATCCGGGCTAAGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTA-CTATATCCGGGCTAAGTCCCGAAGGC
*
14277596 ATTTGTGCGAAGT-AC
65 ATTTGCGC-AAGTGAC
* * * *
14277611 TATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TACTATATCCGGGCTAAGTCCCGAAGGC
*
14277676 ATTTGAGC-AGT-AGC
65 ATTTGCGCAAGTGA-C
14277690 TATATCC-GGCTAA-ACCCGAAGG
1 TATATCCGGGCTAAGACCCGAAGG
14277712 TACTTGGTTG
Statistics
Matches: 151, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
77 8 0.05
78 11 0.07
79 67 0.44
80 63 0.42
81 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGCGCAAGTGAC
Found at i:14285599 original size:40 final size:39
Alignment explanation
Indices: 14285536--14285796 Score: 285
Period size: 40 Copynumber: 6.6 Consensus size: 39
14285526 GTTATTCGAT
* * *
14285536 TATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAC
* * *
14285576 TATATTCGGGTTAAGTCCCGAAGGCATCTGTGCTAGTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-AC
* * * * * * *
14285616 CATATCCGGGCTAAGACTCGAAGGC-CTTCTGCAAGTAGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTA-C
*
14285655 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTAC
14285695 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TAC
* *
14285735 TATAACCGGGCTAAGTCCCGAAGGCATTTGAGC-AGTAGC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTA-C
**
14285774 TATATCC-GGCTAAACCCCGAAGG
1 TATATCCGGGCTAAGTCCCGAAGG
14285797 TACTTGGTTG
Statistics
Matches: 187, Mismatches: 28, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
38 17 0.09
39 40 0.21
40 125 0.67
41 5 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAC
Found at i:14285687 original size:79 final size:80
Alignment explanation
Indices: 14285537--14285801 Score: 256
Period size: 79 Copynumber: 3.4 Consensus size: 80
14285527 TTATTCGATT
* * * * ** * *
14285537 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACTATATTCGGGTTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCACTTCTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* *
14285602 TCTGTGC-TAGTGACC
66 TTTGTGCGAAGT-ACC
* *
14285617 ATATCCGGGCTAAGACTCGAAGGC-CTTCTGCAAG-TAGTTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCACTTCTGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGGC
*
14285680 ATTTGTGCGAAGTACT
65 ATTTGTGCGAAGTACC
* * * * *
14285696 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCACTTCTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* *
14285761 TTTGAGC--AGTAGCT
66 TTTGTGCGAAGTA-CC
*
14285775 ATATCC-GGCTAA-ACCCCGAAGGTACTT
1 ATATCCGGGCTAAGA-CCCGAAGGCACTT
14285802 GGTTGGGAAT
Statistics
Matches: 156, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
78 22 0.14
79 69 0.44
80 63 0.40
81 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCACTTCTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAAGTACC
Found at i:14285746 original size:119 final size:119
Alignment explanation
Indices: 14285535--14285796 Score: 327
Period size: 119 Copynumber: 2.2 Consensus size: 119
14285525 GGTTATTCGA
* * * *
14285535 TTATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACTATATTCGGGTTAAGTCCCGAAGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGG
* *
14285600 CATCTGTGCTAGTGACCATATCCGGGCTAAGACTCGAAGGCCTTCTGCAAGTAG
66 CATCTGTGCTAGTGACCATAACCGGGCTAAGACCCGAAGGCCTTCTGCAAGTAG
* *
14285654 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATATCCGGGCTAAGTCCCGAAG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAGCGACTATATCCGGGCTAAGTCCCGAAG
* * * * *
14285718 GCATTTGTGCTAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT-TG-AGCAGTAG
65 GCATCTGTGCTAGTGACCATAACCGGGCTAAGACCCGAAGGCCTTCTGCA--AGTAG
*
14285773 CTATATCC-GGCTAA-ACCCCGAAGG
1 TTATATCCGGGCTAAGA-CCCGAAGG
14285797 TACTTGGTTG
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
117 1 0.01
118 16 0.13
119 105 0.85
120 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (119 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGCGACTATATCCGGGCTAAGTCCCGAAGG
CATCTGTGCTAGTGACCATAACCGGGCTAAGACCCGAAGGCCTTCTGCAAGTAG
Found at i:14287937 original size:40 final size:40
Alignment explanation
Indices: 14287864--14288071 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
14287854 CAATTGAATG
* * ** *
14287864 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * * **
14287904 ATATCCGGGTTAAGACCTGAAGGCCATT-GTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAAGTAATT
* **
14287944 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * * **
14287984 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
* * **
14288024 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
14288064 ATATCCGG
1 ATATCCGG
14288072 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
39 4 0.03
40 131 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAATT
Found at i:14288006 original size:80 final size:80
Alignment explanation
Indices: 14287866--14288071 Score: 227
Period size: 80 Copynumber: 2.6 Consensus size: 80
14287856 ATTGAATGAT
* * ** * * * *
14287866 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCTGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
14287930 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
14287946 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
14288011 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
14288026 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
14288072 TTGTATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.02
80 102 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:14290865 original size:42 final size:42
Alignment explanation
Indices: 14290801--14290884 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
14290791 AATCCTAATT
* *
14290801 GGGAAAATAGTTCCCTTGTTCTAATAAACTATTAAAACATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
* *
14290843 GGGAAAATAGTTTCCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
14290885 AATAAAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (42 bp):
GGGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:14290938 original size:19 final size:18
Alignment explanation
Indices: 14290916--14290955 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
14290906 TGAATAAAAC
14290916 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
14290935 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
14290953 TTA
1 TTA
14290956 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:14295628 original size:19 final size:18
Alignment explanation
Indices: 14295606--14295645 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
14295596 TGAATAAAAC
14295606 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
*
14295625 TTATCTGCCTAAATAAAT
1 TTATCTACCTAAATAAAT
14295643 TTA
1 TTA
14295646 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:14304516 original size:43 final size:42
Alignment explanation
Indices: 14304468--14304591 Score: 117
Period size: 43 Copynumber: 2.9 Consensus size: 42
14304458 GATTACTGAG
*
14304468 ATATGATTACATGTAAGACTATGTCTGGGACATTGGCATC-ATT
1 ATATGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGA-T
* * * *
14304511 ATATGA-TATCGTGTTAGACCCTGTCTGAGACAGTGGCATCGAT
1 ATATGATTA-CATGTAAGACCATGTCTGGGACA-TGGCATCGAT
* * * *
14304554 ATGTGATAACATGTAAGACCATATCTGGGATATGGCAT
1 ATATGATTACATGTAAGACCATGTCTGGGACATGGCAT
14304592 TGTACGAGCT
Statistics
Matches: 64, Mismatches: 14, Indels: 7
0.75 0.16 0.08
Matches are distributed among these distances:
42 8 0.12
43 54 0.84
44 2 0.03
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (42 bp):
ATATGATTACATGTAAGACCATGTCTGGGACATGGCATCGAT
Found at i:14311566 original size:183 final size:183
Alignment explanation
Indices: 14311256--14311636 Score: 566
Period size: 183 Copynumber: 2.1 Consensus size: 183
14311246 CTGTCACACC
*
14311256 ACACAGCCGTGTGTCAATTAAATTTTAAGTGCAGGATGAACCACACGGTCTCAGAGAGTTACACG
1 ACACAGCCGTGTGTCAATTAAATTTTAAATGCAGGATGAACCACACGGTCTCAGAGAGTTACACG
* * * *
14311321 GCCTGGTGACATGGCTGTGTGACCAAACTTTGAATGCACACAAGTTTTGGCACACGACCTGTGAC
66 GCCTGGTGACATGGCTATGTGACCAAACTTTGAATGCACACAAGGTCTGGCACACAACCTGTGAC
* *
14311386 ACAGCCATATGACCCTATTTTGAATACCCGCACAAGCGGACACAC-AGGCTGGG
131 ACAGCCATATAACCCTATTTTGAATACCCACACAAGCGGACACACGA-GCTGGG
*
14311439 ACACAGCCGTGTGTCAATTAAATTTTAAATGCAGGATGAACCACACGGTCTTAGAGAGTTACACG
1 ACACAGCCGTGTGTCAATTAAATTTTAAATGCAGGATGAACCACACGGTCTCAGAGAGTTACACG
* * *
14311504 GCTTGGTGACATGGCTATGTGACCAAACTTTGAATGCACACATGGTCTGGCATACAACCTGTGAC
66 GCCTGGTGACATGGCTATGTGACCAAACTTTGAATGCACACAAGGTCTGGCACACAACCTGTGAC
** * * * * * * *
14311569 ATTGTCGTGTAACCCTGTTTTGAATACCCATACAGGCGGACACACGAGTTGGG
131 ACAGCCATATAACCCTATTTTGAATACCCACACAAGCGGACACACGAGCTGGG
14311622 ACACAGCCGTGTGTC
1 ACACAGCCGTGTGTC
14311637 CCATACTTCG
Statistics
Matches: 177, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
183 176 0.99
184 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (183 bp):
ACACAGCCGTGTGTCAATTAAATTTTAAATGCAGGATGAACCACACGGTCTCAGAGAGTTACACG
GCCTGGTGACATGGCTATGTGACCAAACTTTGAATGCACACAAGGTCTGGCACACAACCTGTGAC
ACAGCCATATAACCCTATTTTGAATACCCACACAAGCGGACACACGAGCTGGG
Found at i:14311759 original size:20 final size:20
Alignment explanation
Indices: 14311734--14311774 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14311724 ATTTTCGAAT
14311734 TTTTTTATTTT-TTTCCAAAA
1 TTTTTTATTTTGTTT-CAAAA
*
14311754 TTTTTTGTTTTGTTTCAAAA
1 TTTTTTATTTTGTTTCAAAA
14311774 T
1 T
14311775 GATCCCCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTTATTTTGTTTCAAAA
Found at i:14313029 original size:31 final size:31
Alignment explanation
Indices: 14312984--14313044 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
14312974 TATTTTTTAA
* *
14312984 ATGTATATAATTGAATCAAAATTAAAATTTC
1 ATGTATATAATTGAACCAAAATCAAAATTTC
** *
14313015 ATGTATATGTTTGAACCACAATCAAAATTT
1 ATGTATATAATTGAACCAAAATCAAAATTT
14313045 TATATGTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (31 bp):
ATGTATATAATTGAACCAAAATCAAAATTTC
Found at i:14314518 original size:17 final size:19
Alignment explanation
Indices: 14314488--14314528 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
14314478 CTAAAAAGTA
14314488 ATAACAATAATTAT-TTTT
1 ATAACAATAATTATATTTT
*
14314506 ATAA-AATAGTTATATTTT
1 ATAACAATAATTATATTTT
*
14314524 TTAAC
1 ATAAC
14314529 TTTTCAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (19 bp):
ATAACAATAATTATATTTT
Found at i:14317284 original size:15 final size:15
Alignment explanation
Indices: 14317245--14317277 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14317235 CTTTTACATA
*
14317245 TATTATAATATTACT
1 TATTAAAATATTACT
14317260 TATTAAAATATTA-T
1 TATTAAAATATTACT
14317274 TATT
1 TATT
14317278 TTAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTAAAATATTACT
Found at i:14317602 original size:2 final size:2
Alignment explanation
Indices: 14317595--14317621 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14317585 GACTTCTAAC
14317595 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 A
14317622 GATCACTTTG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14319703 original size:47 final size:47
Alignment explanation
Indices: 14319591--14319819 Score: 215
Period size: 47 Copynumber: 4.9 Consensus size: 47
14319581 GGGTTATTGT
*
14319591 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCACATT-ATGA-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGG---CATTGATGACA
* *
14319638 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGA-GACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGATGAC-A
* * * *
14319685 GAGCTAGCGTAAGACATGTCTGAGACAT-GCATCGGCCTCGATGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGATGAC-A
* * *
14319732 TAG-TCAGTGTAAGACAATGTTTGGGACATGGCATCGAC-TTGA-GACA
1 GAGCT-AGTGTAAGAC-ATGTCTGGGACATGGCATCGGCATTGATGACA
14319778 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 -GAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATT
14319820 ATACCCTATG
Statistics
Matches: 152, Mismatches: 16, Indels: 27
0.78 0.08 0.14
Matches are distributed among these distances:
45 6 0.04
46 25 0.16
47 78 0.51
48 36 0.24
49 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTGATGACA
Found at i:14319774 original size:94 final size:94
Alignment explanation
Indices: 14319590--14319816 Score: 296
Period size: 94 Copynumber: 2.4 Consensus size: 94
14319580 TGGGTTATTG
* * * *
14319590 TGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTATGAAAGCCAGTGTAAGACCAT
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAAAGCCAGTGTAAGACAAT
* *
14319655 GTCTGGGACATGGCATTGGCATTGAGACGA
66 GTCTGGGACATGGCATCGACATTGAGAC-A
* * * * *
14319685 -GAGCTAGCGTAAGACATGTCTGAGACATGCATCGGCCTCGATGACGATAGTCAGTGTAAGACAA
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGACGAAAGCCAGTGTAAGACAA
*
14319749 TGTTTGGGACATGGCATCGAC-TTGAGACA
65 TGTCTGGGACATGGCATCGACATTGAGACA
14319778 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
14319817 ATTATACCCT
Statistics
Matches: 114, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
93 1 0.01
94 55 0.48
95 50 0.44
96 8 0.07
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (94 bp):
TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGACGAAAGCCAGTGTAAGACAAT
GTCTGGGACATGGCATCGACATTGAGACA
Found at i:14328684 original size:10 final size:10
Alignment explanation
Indices: 14328663--14328692 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
14328653 TTTGAAATTT
14328663 AAAATTATTAA
1 AAAATTA-TAA
14328674 AAAATTATAA
1 AAAATTATAA
14328684 AAAATTATA
1 AAAATTATA
14328693 CATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTATAA
Found at i:14328706 original size:17 final size:17
Alignment explanation
Indices: 14328684--14328718 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14328674 AAAATTATAA
*
14328684 AAAATTATACATTTTTT
1 AAAATTATAAATTTTTT
14328701 AAAATTATAAATTTTTT
1 AAAATTATAAATTTTTT
14328718 A
1 A
14328719 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAATTATAAATTTTTT
Found at i:14328855 original size:12 final size:11
Alignment explanation
Indices: 14328838--14328887 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 11
14328828 AATTTTAAAA
14328838 TTTTTATAACTT
1 TTTTTATAA-TT
14328850 TTTTTATAAATT
1 TTTTTAT-AATT
*
14328862 TCGTTTATAATT
1 T-TTTTATAATT
14328874 TTTTTAATAATT
1 TTTTT-ATAATT
14328886 TT
1 TT
14328888 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 3 0.09
12 23 0.70
13 7 0.21
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:14333237 original size:22 final size:24
Alignment explanation
Indices: 14333194--14333237 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
14333184 TGATAATATG
14333194 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
14333218 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
14333238 TGAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:14333473 original size:21 final size:21
Alignment explanation
Indices: 14333449--14333489 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14333439 AATCAATTAC
*
14333449 AAAAGTATTGATACATTTTAA
1 AAAAGTATCGATACATTTTAA
*
14333470 AAAAGTATCGATACCTTTTA
1 AAAAGTATCGATACATTTTA
14333490 CCAAGTATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (21 bp):
AAAAGTATCGATACATTTTAA
Found at i:14334295 original size:14 final size:12
Alignment explanation
Indices: 14334258--14334296 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
14334248 TTATGTATAC
*
14334258 TTTTATATATTT
1 TTTTATTTATTT
14334270 TTTTATTTATTT
1 TTTTATTTATTT
14334282 TGTTTATGTTATTT
1 T-TTTAT-TTATTT
14334296 T
1 T
14334297 ATTTTAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 5 0.21
14 7 0.29
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (12 bp):
TTTTATTTATTT
Found at i:14336737 original size:35 final size:35
Alignment explanation
Indices: 14336647--14336737 Score: 92
Period size: 35 Copynumber: 2.6 Consensus size: 35
14336637 TAACACAATG
* * *
14336647 ACATGTTTAACAAGTGATTCAGAATCAAAATAATA
1 ACATGCTTAACATGTGAATCAGAATCAAAATAATA
* * ** * * *
14336682 ACATACTCAACATGCAAATCATAATCAGAATAGTA
1 ACATGCTTAACATGTGAATCAGAATCAAAATAATA
14336717 ACATGCTTAACATGTGAATCA
1 ACATGCTTAACATGTGAATCA
14336738 AAGTATCAGT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.26
Consensus pattern (35 bp):
ACATGCTTAACATGTGAATCAGAATCAAAATAATA
Found at i:14341007 original size:17 final size:18
Alignment explanation
Indices: 14340985--14341081 Score: 56
Period size: 19 Copynumber: 5.3 Consensus size: 18
14340975 ATGGAAATAT
14340985 AATCTT-TAAGGATATGC
1 AATCTTATAAGGATATGC
* *
14341002 AATCTTAGTTATGATATGC
1 AATCTTA-TAAGGATATGC
* *
14341021 AATCTTAGATATGATA--C
1 AATCTTATA-AGGATATGC
* * *
14341038 AGTCTTAGATATGATATGC
1 AATCTTATA-AGGATATGC
* *
14341057 AATCTTAGATATGATATGC
1 AATCTTATA-AGGATATGC
14341076 AATCTT
1 AATCTT
14341082 GAAGATATGA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
17 22 0.32
19 47 0.68
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
AATCTTATAAGGATATGC
Found at i:14341019 original size:19 final size:19
Alignment explanation
Indices: 14340995--14341092 Score: 146
Period size: 19 Copynumber: 5.2 Consensus size: 19
14340985 AATCTTTAAG
*
14340995 GATATGCAATCTTAGTTAT
1 GATATGCAATCTTAGATAT
14341014 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
14341033 GATA--CAGTCTTAGATAT
1 GATATGCAATCTTAGATAT
14341050 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
14341069 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
14341090 GAT
1 GAT
14341093 CTTGTAATCT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
17 16 0.22
19 47 0.65
21 9 0.12
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:14341044 original size:36 final size:36
Alignment explanation
Indices: 14341004--14341072 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
14340994 GGATATGCAA
*
14341004 TCTTAGTTATGATATGCAATCTTAGATATGATACAG
1 TCTTAGATATGATATGCAATCTTAGATATGATACAG
14341040 TCTTAGATATGATATGCAATCTTAGATATGATA
1 TCTTAGATATGATATGCAATCTTAGATATGATA
14341073 TGCAATCTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (36 bp):
TCTTAGATATGATATGCAATCTTAGATATGATACAG
Found at i:14343041 original size:21 final size:21
Alignment explanation
Indices: 14343015--14343057 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
14343005 ATCAAACAGT
14343015 TATGGAATTCAAAAATTGAGG
1 TATGGAATTCAAAAATTGAGG
14343036 TATGGAATTCAAAAATTGAGG
1 TATGGAATTCAAAAATTGAGG
14343057 T
1 T
14343058 CCTTATATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (21 bp):
TATGGAATTCAAAAATTGAGG
Found at i:14360187 original size:120 final size:119
Alignment explanation
Indices: 14359961--14360183 Score: 252
Period size: 122 Copynumber: 1.9 Consensus size: 119
14359951 GAGAATGAGA
* **
14359961 ATAGAAATGTAATGGGTATGAGGTTTTCCTAATCTCAATTTAACACGGAATGTATGATAACTAAC
1 ATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACCAAATGTATGATAACTAAC
* * **** **
14360026 TTAGGAATGCAAATTAAATGATATACATTGGCATGGTAATAGCGTGAGAATAAAC
66 CTAAGAATGCAAATTAAAT-ATATACATAAAAATGAAAATAGCGTGAGAATAAAC
* * ** *
14360081 ATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACACCAAATTTATGATAACTA
1 ATAGAAATGTAATGGGTATGAGGTGTTCCTAAT--CTCAATTTAACACCAAATGTATGATAACTA
*
14360146 ACCTAAGAATGCAAATTAAAT-TATAGA-AAAAATGAAAA
64 ACCTAAGAATGCAAATTAAATATATACATAAAAATGAAAA
14360184 ATAGATCAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
119 5 0.06
120 35 0.42
122 44 0.52
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (119 bp):
ATAGAAATGTAATGGGTATGAGGTGTTCCTAATCTCAATTTAACACCAAATGTATGATAACTAAC
CTAAGAATGCAAATTAAATATATACATAAAAATGAAAATAGCGTGAGAATAAAC
Found at i:14362170 original size:40 final size:40
Alignment explanation
Indices: 14362092--14362315 Score: 285
Period size: 40 Copynumber: 5.5 Consensus size: 40
14362082 ACCCAAGTAT
* *
14362092 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
14362131 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
14362171 CTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
14362211 CTTCGGGACTTAGCCC-GAGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGA-TATAGTC-ACTA---GCACAAATGC
* * *
14362254 CTTCAGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
14362294 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
14362316 CATCCGAATA
Statistics
Matches: 162, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 14 0.09
40 112 0.69
41 1 0.01
43 33 0.20
44 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:14362288 original size:83 final size:80
Alignment explanation
Indices: 14362092--14362315 Score: 292
Period size: 83 Copynumber: 2.8 Consensus size: 80
14362082 ACCCAAGTAT
* * * *
14362092 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
14362156 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
14362171 CTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC-GAGTATAG
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-TATAG
14362235 -CAACTACTCGCACAAATGC
65 TC-ACTA---GCACAAATGC
* *
14362254 CTTCAGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
14362316 CATCCGAATA
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 14 0.11
80 47 0.37
83 63 0.50
84 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:14362915 original size:2 final size:2
Alignment explanation
Indices: 14362910--14362937 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14362900 ATATTCACAC
14362910 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
14362938 GCCATTTACT
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):
AT
Found at i:14377712 original size:41 final size:41
Alignment explanation
Indices: 14377667--14377762 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
14377657 CTGCTTGGCC
* *
14377667 ATCACACGGCCGTGCCCAATACGCACTACCTGGCCTAGTAG
1 ATCACACGGCCGTGCCCAATACGCACGACCTAGCCTAGTAG
* * * * * *
14377708 ATCACACAGCCGTGCCCAGTACTCACGGCCTAGCCTCGTCG
1 ATCACACGGCCGTGCCCAATACGCACGACCTAGCCTAGTAG
*
14377749 ATCACACGCCCGTG
1 ATCACACGGCCGTG
14377763 TTAGGGCATA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.22, C:0.40, G:0.22, T:0.17
Consensus pattern (41 bp):
ATCACACGGCCGTGCCCAATACGCACGACCTAGCCTAGTAG
Found at i:14378394 original size:15 final size:15
Alignment explanation
Indices: 14378376--14378405 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14378366 CTCACACTCC
14378376 CCCACTACACACCAT
1 CCCACTACACACCAT
*
14378391 CCCACTGCACACCAT
1 CCCACTACACACCAT
14378406 TACTCAAAGT
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:0.53, G:0.03, T:0.13
Consensus pattern (15 bp):
CCCACTACACACCAT
Found at i:14392081 original size:12 final size:13
Alignment explanation
Indices: 14392055--14392084 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
14392045 CTCCAAGTGA
14392055 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
14392068 TTTTCTTT-TTTC
1 TTTTCTTTCTTTC
14392080 TTTTC
1 TTTTC
14392085 CATAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:14395646 original size:2 final size:2
Alignment explanation
Indices: 14395589--14395628 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
14395579 TAATATATGC
14395589 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
14395629 CTGAAGTGGC
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:14395954 original size:2 final size:2
Alignment explanation
Indices: 14395947--14395971 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14395937 ACTTGCACAG
14395947 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
14395972 TCTGGTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:14396010 original size:2 final size:2
Alignment explanation
Indices: 14396003--14396034 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14395993 CAATTCCTTT
14396003 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
14396035 AGTGCTGCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14397899 original size:9 final size:9
Alignment explanation
Indices: 14397868--14397919 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
14397858 GAAGTAGAAG
14397868 ATGATGATA
1 ATGATGATA
* *
14397877 ACGATGATG
1 ATGATGATA
*
14397886 TTGATGATA
1 ATGATGATA
* *
14397895 ATGATAATG
1 ATGATGATA
*
14397904 ATGATGACA
1 ATGATGATA
14397913 ATGATGA
1 ATGATGA
14397920 GGGCAACCAT
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (9 bp):
ATGATGATA
Found at i:14397915 original size:18 final size:18
Alignment explanation
Indices: 14397867--14397917 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
14397857 TGAAGTAGAA
* *
14397867 GATGATGATAACGATGAT
1 GATGATGATAATGATAAT
*
14397885 GTTGATGATAATGATAAT
1 GATGATGATAATGATAAT
*
14397903 GATGATGACAATGAT
1 GATGATGATAATGAT
14397918 GAGGGCAACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.31
Consensus pattern (18 bp):
GATGATGATAATGATAAT
Found at i:14400872 original size:6 final size:6
Alignment explanation
Indices: 14400861--14400905 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
14400851 TCACATGTAA
14400861 GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAG
1 GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAG
14400906 TCATTGTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.51, T:0.16
Consensus pattern (6 bp):
GAGAGT
Found at i:14405353 original size:19 final size:18
Alignment explanation
Indices: 14405319--14405356 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14405309 TGGTTTTCTC
*
14405319 AAAATGAAAATGGAAATG
1 AAAAAGAAAATGGAAATG
14405337 AAAAAGAAAATGAGAAATG
1 AAAAAGAAAATG-GAAATG
14405356 A
1 A
14405357 TTCATTCGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.21, T:0.13
Consensus pattern (18 bp):
AAAAAGAAAATGGAAATG
Found at i:14410844 original size:49 final size:49
Alignment explanation
Indices: 14410784--14410892 Score: 139
Period size: 49 Copynumber: 2.2 Consensus size: 49
14410774 CCCAGACATG
* * *
14410784 GTCTTACACTGGCTTTCATATACCAAG-GCCGATGCCGTGTCCCAAACAA
1 GTCTTACACTGGCTCTCATATACC-AGTGCCGATGCCATATCCCAAACAA
* * * *
14410833 GTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATATCCCAAACAG
1 GTCTTACACTGGCTCTCATATACCAGTGCCGATGCCATATCCCAAACAA
14410882 GTCTTACACTG
1 GTCTTACACTG
14410893 ACATACAACA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 2 0.04
49 50 0.96
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (49 bp):
GTCTTACACTGGCTCTCATATACCAGTGCCGATGCCATATCCCAAACAA
Found at i:14410978 original size:48 final size:46
Alignment explanation
Indices: 14410912--14411036 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
14410902 AAGCTGACGC
* * *
14410912 CATGTCCCAGATAGGTCTTACACTAGCT-T-GTATATCACGACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCG--TATCA--ACACCGATG
* *
14410960 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAACACCGATG
14411006 CATGTCCCAGACATGTCTTACACTAGCTCTC
1 CATGTCCCAGACATGTCTTACACTAGCTCTC
14411037 ATGATCTGGC
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
46 38 0.54
48 30 0.43
49 1 0.01
50 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCGTATCAACACCGATG
Found at i:14411056 original size:46 final size:46
Alignment explanation
Indices: 14410956--14411124 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 46
14410946 TCACGACGCC
* * * *
14410956 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAT-ACC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGATC--TGGCT
14411002 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGATCTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGATCTGGCT
** * * * *
14411048 GACACATGTCCCAGACATGTCTTATACTGGCTCTTATGATGTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGATCTGGCT
* *
14411094 GATGCATGTCCTAGACATGTCCTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
14411125 ACACATATCA
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 1 0.01
46 102 0.97
47 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATGATCTGGCT
Found at i:14412558 original size:22 final size:23
Alignment explanation
Indices: 14412516--14412559 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
14412506 GGTATGTAAT
*
14412516 TATGTTAATTGAATCTGTGTTTG
1 TATGTTAATTGAATCTATGTTTG
14412539 TATG-TAATGTGAAT-TATGTTT
1 TATGTTAAT-TGAATCTATGTTT
14412560 ATGTGCTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.25, C:0.02, G:0.20, T:0.52
Consensus pattern (23 bp):
TATGTTAATTGAATCTATGTTTG
Found at i:14415583 original size:12 final size:11
Alignment explanation
Indices: 14415558--14415588 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
14415548 AAAGTGCTTA
14415558 TAAACTAAAAT
1 TAAACTAAAAT
14415569 TAAACTAATAAT
1 TAAACTAA-AAT
14415581 TAAACTAA
1 TAAACTAA
14415589 CCTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAACTAAAAT
Found at i:14418783 original size:18 final size:19
Alignment explanation
Indices: 14418752--14418788 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14418742 TTCCATTAGG
14418752 TTAAGTTAGGTTAATTAAT
1 TTAAGTTAGGTTAATTAAT
*
14418771 TTAA-TTAGTTTAATTAAT
1 TTAAGTTAGGTTAATTAAT
14418789 ATTTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (19 bp):
TTAAGTTAGGTTAATTAAT
Found at i:14420378 original size:44 final size:45
Alignment explanation
Indices: 14420323--14420407 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 45
14420313 TTCATGGATA
*
14420323 CGAACTCATATATGTGAACTCATAAAAGAAAATTCATAAATATAG
1 CGAACTCATATATATGAACTCATAAAAGAAAATTCATAAATATAG
* * *
14420368 CGAAC-CATATATATGAATTCATTAAAGAAACTTCATAAAT
1 CGAACTCATATATATGAACTCATAAAAGAAAATTCATAAAT
14420408 GTGGTGGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 31 0.86
45 5 0.14
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.28
Consensus pattern (45 bp):
CGAACTCATATATATGAACTCATAAAAGAAAATTCATAAATATAG
Found at i:14425258 original size:17 final size:17
Alignment explanation
Indices: 14425223--14425272 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
14425213 TTCAACATTT
* **
14425223 TTTTTGAATTTTTGTTA
1 TTTTTAAATTTTTAATA
14425240 TTTTTAAATTTTTAATA
1 TTTTTAAATTTTTAATA
*
14425257 TTTTTAAAATTTTAAT
1 TTTTTAAATTTTTAAT
14425273 TATTATTACT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTTAAATTTTTAATA
Found at i:14432640 original size:16 final size:17
Alignment explanation
Indices: 14432621--14432653 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14432611 TTTTTGGAAT
*
14432621 TTTTAATTA-ATTTTAG
1 TTTTAAATATATTTTAG
14432637 TTTTAAATATATTTTAG
1 TTTTAAATATATTTTAG
14432654 CTTAAATTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
TTTTAAATATATTTTAG
Found at i:14439186 original size:25 final size:25
Alignment explanation
Indices: 14439124--14439190 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
14439114 ATTCAGTTCA
* * *
14439124 ATTCAGTTCTGCTCTGCTCTATTCC
1 ATTCTGTTCTGTTCTGATCTATTCC
*
14439149 ATTCTGTTATGTTCTGATCTATT-C
1 ATTCTGTTCTGTTCTGATCTATTCC
*
14439173 AGTTTTGTTCTGTT-TGAT
1 A-TTCTGTTCTGTTCTGAT
14439191 TTGTTTCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
24 6 0.17
25 29 0.83
ACGTcount: A:0.13, C:0.19, G:0.15, T:0.52
Consensus pattern (25 bp):
ATTCTGTTCTGTTCTGATCTATTCC
Found at i:14441091 original size:3 final size:3
Alignment explanation
Indices: 14441083--14441829 Score: 203
Period size: 3 Copynumber: 249.0 Consensus size: 3
14441073 TAAAACATAT
* *
14441083 ATA ATA AT- ATG ACA ATA ATA ATA ATA ATA ATAA ATAA ATAA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT-A AT-A ATA
* * * * * *
14441131 ATG AGA ATA AAA ATA ATA GTA A-A GAAA ATA CA-G ATA A-A ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA -ATA ATA ATA A-TA ATA
* * * * * *
14441176 ATG ATA CTA ACGA AT- ATA AGTA ATA GTA GTA A-A AAA ATA A-A A-A
1 ATA ATA ATA A-TA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
14441219 ATA ATA ATA GTA A-A A-A ATA ATA GTA ACA ATA ATG ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* ** * *
14441263 TTA GCA GTA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
14441311 ATA ATA ATA ATA ATA GTA ATA ATA AGA ATA TTA ATA TTA GTA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
14441359 ATA ATG ATA ATA GTA ATA GAAA ATA ATA ATA ATA AT- ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
14441404 ATA ATA A-A AGCA AAA ATA ACA GTA ATA ATA ATG GTA AGA ATAA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * * * *
14441450 GTA ATA ATA ACA ATA ATA CA-A ATA ATAA ATA AT- CTA A-A GT- TTG
1 ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA ATA ATA ATA ATA ATA
* * * * * *
14441493 A-A ATT AT- TTA GA-A AGA TATAA ATA A-A ATAA ATG ATG A-A ATG ATA
1 ATA ATA ATA ATA -ATA ATA -AT-A ATA ATA AT-A ATA ATA ATA ATA ATA
* * * * * * * * *
14441537 AAA ATA AGA GTA ATG ATGT ATAA ATA A-A ATA AGT- GTG CTA AAA ATA
1 ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA A-TA ATA ATA ATA ATA
* * * *
14441583 TATA TTA A-A TTA GTTA AT- ATA AAA ATA ATA ACGT- ATA AGTAA ATGCA
1 -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA A--TA ATA A-T-A AT--A
* * *
14441630 AAA AAA AGA A-A AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
14441676 ATA ATA ATA ATA ATA ATA ATA ATA A-A GGTA ATA ATA AT- ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
* * * *
14441720 GATA GTA A-A A-A AAA ATA ATA ATA ATA ACA GTA ATA A-A A-A ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
14441762 GTA ATA GTG ATA TTA GTA ATA ATA ATA ATA ATA ATA TATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * *
14441808 ATG ACA ATA ATA GAAA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA
14441830 GAAATAAATA
Statistics
Matches: 546, Mismatches: 139, Indels: 118
0.68 0.17 0.15
Matches are distributed among these distances:
2 54 0.10
3 420 0.77
4 66 0.12
5 6 0.01
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:14441111 original size:37 final size:39
Alignment explanation
Indices: 14441070--14441153 Score: 93
Period size: 40 Copynumber: 2.2 Consensus size: 39
14441060 GCACAATTTG
* *
14441070 TAATAAAACATATAT-AAT-AAT-ATGACAATAATAATAA
1 TAATAAAA-ATAAATAAATAAATAATGACAATAAAAATAA
*
14441107 TAATAATAAATAAATAAATAAATAATGAGAATAAAAATAA
1 TAATAA-AAATAAATAAATAAATAATGACAATAAAAATAA
*
14441147 TAGTAAA
1 TAATAAA
14441154 GAAAATACAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 11 0.28
38 5 0.13
39 4 0.10
40 19 0.49
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (39 bp):
TAATAAAAATAAATAAATAAATAATGACAATAAAAATAA
Found at i:14441901 original size:25 final size:27
Alignment explanation
Indices: 14441873--14441941 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
14441863 TGAAACAATG
* *
14441873 ATAATGATAAATATAA-TAA-TAGAAA
1 ATAATAATAAAAATAATTAATTAGAAA
*
14441898 ATAATAATAAAAATAATTAATTTGAAA
1 ATAATAATAAAAATAATTAATTAGAAA
*
14441925 ATAA-AATAGCAAATAAT
1 ATAATAATA-AAAATAAT
14441942 GGGAAAGGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.38
26 7 0.19
27 16 0.43
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (27 bp):
ATAATAATAAAAATAATTAATTAGAAA
Found at i:14441903 original size:13 final size:13
Alignment explanation
Indices: 14441885--14441941 Score: 64
Period size: 12 Copynumber: 4.4 Consensus size: 13
14441875 AATGATAAAT
14441885 ATAATAATAGAAA
1 ATAATAATAGAAA
14441898 ATAATAATA-AAA
1 ATAATAATAGAAA
*
14441910 ATAATTAATTTGAAA
1 ATAA-TAA-TAGAAA
*
14441925 ATAA-AATAGCAA
1 ATAATAATAGAAA
14441937 ATAAT
1 ATAAT
14441942 GGGAAAGGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 15 0.41
13 14 0.38
14 1 0.03
15 7 0.19
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (13 bp):
ATAATAATAGAAA
Found at i:14443559 original size:13 final size:15
Alignment explanation
Indices: 14443541--14443579 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
14443531 TTTCAAGCAT
14443541 ATTTAAT-A-AAAAA
1 ATTTAATCATAAAAA
14443554 ATTTAATCATAAAAA
1 ATTTAATCATAAAAA
14443569 ATTTTAATCAT
1 A-TTTAATCAT
14443580 CCAAATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.30
14 1 0.04
15 6 0.26
16 9 0.39
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTTAATCATAAAAA
Found at i:14443565 original size:16 final size:16
Alignment explanation
Indices: 14443546--14443579 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
14443536 AGCATATTTA
14443546 ATAAAAAAATTTAATC
1 ATAAAAAAATTTAATC
*
14443562 ATAAAAAATTTTAATC
1 ATAAAAAAATTTAATC
14443578 AT
1 AT
14443580 CCAAATATCA
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:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAAAAAATTTAATC
Found at i:14445459 original size:130 final size:131
Alignment explanation
Indices: 14445182--14445655 Score: 560
Period size: 132 Copynumber: 3.6 Consensus size: 131
14445172 TGACAAATAG
* * * * *
14445182 GAAATTGCAACCCAGCACGATAGAGCACGATTCTCCTAATTGCCAAACATCAAATATTACCTTCG
1 GAAATTGCAACCCAGCACGATAGGGCACGATTCT-CGAATTGCCAAACATCGAACATCACCTTCG
* * * * *
14445247 TTTTGAAGAGTTTTTAGAAAACGTGAGTGAAA-TTCAAAAGGGACCTTCGATTATTTTGAACCAA
65 TTTTAAAGAATTTTTAGAAAACATGAGTGAAATTTC-AAAGGGACATTCGATTATTTTGAACAAA
14445311 CGA
129 CGA
* * *
14445314 GAAATTGCAGCCCAGCACGATAGGGCACGATTCTACGAATTGCCAAATATCGAACATCGCCTTCG
1 GAAATTGCAACCCAGCACGATAGGGCACGATTCT-CGAATTGCCAAACATCGAACATCACCTTCG
* * * * * * *
14445379 -CTTAAAGAATTTTTA-AAGACATGGGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACGAAC
65 TTTTAAAGAATTTTTAGAAAACATGAGTGAAATTTCAAAGGGACATTCGATTATTTTGAACAAAC
*
14445442 GG
130 GA
* ** *
14445444 GAAATCGCAACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAACATCGAGTATTACCTTCGT
1 GAAATTGCAACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAACATCGAACATCACCTTCGT
* * * *
14445509 TTTAAAGAGTTTTTAGAAAACATGAATGAAATTCCAAAGGGACATTCGATTATTTTGAGCAAACG
66 TTTAAAGAATTTTTAGAAAACATGAGTGAAATTTCAAAGGGACATTCGATTATTTTGAACAAACG
14445574 A
131 A
* * * * * *
14445575 GAAATTGAAACCCAACAC-ATTAGGGCACGATTCTGCGAATTGTCAAATATTGAACATCGCCTTC
1 GAAATTGCAACCCAGCACGA-TAGGGCACGATTCT-CGAATTGCCAAACATCGAACATCACCTTC
14445639 GTTTTAAAGAATTTTTA
64 GTTTTAAAGAATTTTTA
14445656 AATGAACAAT
Statistics
Matches: 286, Mismatches: 51, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
129 25 0.09
130 83 0.29
131 84 0.29
132 94 0.33
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (131 bp):
GAAATTGCAACCCAGCACGATAGGGCACGATTCTCGAATTGCCAAACATCGAACATCACCTTCGT
TTTAAAGAATTTTTAGAAAACATGAGTGAAATTTCAAAGGGACATTCGATTATTTTGAACAAACG
A
Found at i:14445520 original size:261 final size:263
Alignment explanation
Indices: 14445181--14445657 Score: 753
Period size: 261 Copynumber: 1.8 Consensus size: 263
14445171 TTGACAAATA
* *
14445181 GGAAATTGCAACCCAGCACGATAGAGCACGATTCTCCTAATTGCCAAACATCAAATATTACCTTC
1 GGAAATCGCAACCCAGCACGATAGAGCACGATTCTCCGAATTGCCAAACATCAAATATTACCTTC
* * * * *
14445246 GTTTTGAAGAGTTTTTAGAAAACGTGAGTGAAATTCAAAAGGGACCTTCGATTATTTTGAACCAA
66 GTTTTAAAGAGTTTTTAGAAAACATGAATGAAATTCAAAAGGGACATTCGATTATTTTGAACAAA
* * *
14445311 CGAGAAATTGCAGCCCAGCACGA-TAGGGCACGATTCTACGAATTGCCAAATATCGAACATCGCC
131 CGAGAAATTGAAACCCAACAC-ATTAGGGCACGATTCTACGAATTGCCAAATATCGAACATCGCC
14445375 TTCG-CTTAAAGAATTTTTAAAGACATGGGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACG
195 TTCGTCTTAAAGAATTTTTAAAGACATGGGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACG
14445439 AACG
260 AACG
* * *
14445443 GGAAATCGCAACCCAGCACGATAGGGCACGATTCT-CGAATTGCCAAACATCGAGTATTACCTTC
1 GGAAATCGCAACCCAGCACGATAGAGCACGATTCTCCGAATTGCCAAACATCAAATATTACCTTC
* *
14445507 GTTTTAAAGAGTTTTTAGAAAACATGAATGAAATTCCAAAGGGACATTCGATTATTTTGAGCAAA
66 GTTTTAAAGAGTTTTTAGAAAACATGAATGAAATTCAAAAGGGACATTCGATTATTTTGAACAAA
* * *
14445572 CGAGAAATTGAAACCCAACACATTAGGGCACGATTCTGCGAATTGTCAAATATTGAACATCGCCT
131 CGAGAAATTGAAACCCAACACATTAGGGCACGATTCTACGAATTGCCAAATATCGAACATCGCCT
*
14445637 TCGTTTTAAAGAATTTTTAAA
196 TCGTCTTAAAGAATTTTTAAA
14445658 TGAACAATTG
Statistics
Matches: 194, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
260 1 0.01
261 144 0.74
262 49 0.25
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (263 bp):
GGAAATCGCAACCCAGCACGATAGAGCACGATTCTCCGAATTGCCAAACATCAAATATTACCTTC
GTTTTAAAGAGTTTTTAGAAAACATGAATGAAATTCAAAAGGGACATTCGATTATTTTGAACAAA
CGAGAAATTGAAACCCAACACATTAGGGCACGATTCTACGAATTGCCAAATATCGAACATCGCCT
TCGTCTTAAAGAATTTTTAAAGACATGGGTGAAATTTCAAAGGAATATTCGATTGTTTTGAACGA
ACG
Found at i:14446643 original size:2 final size:2
Alignment explanation
Indices: 14446636--14446665 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14446626 AACATGCTTT
14446636 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
14446666 AAAGAAAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14449530 original size:14 final size:15
Alignment explanation
Indices: 14449511--14449539 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14449501 TAAATAGGCC
14449511 TTCTCATTTC-TCAT
1 TTCTCATTTCATCAT
14449525 TTCTCATTTCATCAT
1 TTCTCATTTCATCAT
14449540 CCCAACCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.55
Consensus pattern (15 bp):
TTCTCATTTCATCAT
Found at i:14452208 original size:21 final size:21
Alignment explanation
Indices: 14452182--14452222 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14452172 AGACGAGCGA
* *
14452182 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
14452203 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
14452223 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:14457076 original size:16 final size:16
Alignment explanation
Indices: 14457056--14457109 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
14457046 TTAAATTGTT
* *
14457056 ATTACAGTTCTATTCT
1 ATTACAGTTTTATTCC
*
14457072 ATTACAATTTTATTCC
1 ATTACAGTTTTATTCC
14457088 ATTACAGTTTTATTCC
1 ATTACAGTTTTATTCC
14457104 ATTACA
1 ATTACA
14457110 ATAAATCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTACAGTTTTATTCC
Found at i:14460345 original size:46 final size:47
Alignment explanation
Indices: 14460279--14460375 Score: 187
Period size: 46 Copynumber: 2.1 Consensus size: 47
14460269 TTTTGTAACT
14460279 AAAAAATCCTAAAAATTATTTATGTTGTTTAT-AAAAAAATTATCCA
1 AAAAAATCCTAAAAATTATTTATGTTGTTTATAAAAAAAATTATCCA
14460325 AAAAAATCCTAAAAATTATTTATGTTGTTTATAAAAAAAATTATCCA
1 AAAAAATCCTAAAAATTATTTATGTTGTTTATAAAAAAAATTATCCA
14460372 AAAA
1 AAAA
14460376 GAAATATGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 32 0.64
47 18 0.36
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (47 bp):
AAAAAATCCTAAAAATTATTTATGTTGTTTATAAAAAAAATTATCCA
Found at i:14462463 original size:25 final size:24
Alignment explanation
Indices: 14462429--14462501 Score: 92
Period size: 25 Copynumber: 3.0 Consensus size: 24
14462419 TGACTCACCA
14462429 CAGCTCGTATGAGCTTACCGATTCT
1 CAGCTCGTATGAGCTTACCGATT-T
*
14462454 CAGCTCGTATGAGCTTGCCGTATTT
1 CAGCTCGTATGAGCTTACCG-ATTT
* * *
14462479 CTGCTTGAATGAGCTTACCGATT
1 CAGCTCGTATGAGCTTACCGATT
14462502 ATGACTCGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 3 0.07
25 36 0.86
26 3 0.07
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (24 bp):
CAGCTCGTATGAGCTTACCGATTT
Found at i:14463805 original size:21 final size:21
Alignment explanation
Indices: 14463753--14463805 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
14463743 TATGTGTCGT
14463753 ATTTTAGGCACCTCGTGTGTC
1 ATTTTAGGCACCTCGTGTGTC
* * *
14463774 GTATCAGGCACCTCGTGTGTC
1 ATTTTAGGCACCTCGTGTGTC
*
14463795 ATTTTAAGCAC
1 ATTTTAGGCAC
14463806 TTTATGTGTC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.34
Consensus pattern (21 bp):
ATTTTAGGCACCTCGTGTGTC
Found at i:14465589 original size:5 final size:5
Alignment explanation
Indices: 14465579--14465645 Score: 134
Period size: 5 Copynumber: 13.4 Consensus size: 5
14465569 AAGAAAATAT
14465579 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
14465629 TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TA
14465646 ATTAAAGTAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:14466697 original size:40 final size:42
Alignment explanation
Indices: 14466653--14466760 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
14466643 TTCGGCAAGG
** * * *
14466653 CCGATGAGACACTGGGTGTCA-ACTTAT-TACTTCGAATTTT
1 CCGATGAGGTACTGGGTGCCATACTGATGTACTTCGAATTAT
*
14466693 CCGATGAGGTACTGGGTGCCATACTGGTGTACTTCGAATTAT
1 CCGATGAGGTACTGGGTGCCATACTGATGTACTTCGAATTAT
14466735 CCGATGAGGTACTGGGTGCCATACTG
1 CCGATGAGGTACTGGGTGCCATACTG
14466761 GTGTGTTTTG
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 18 0.30
41 4 0.07
42 38 0.63
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (42 bp):
CCGATGAGGTACTGGGTGCCATACTGATGTACTTCGAATTAT
Found at i:14466738 original size:42 final size:42
Alignment explanation
Indices: 14466680--14466764 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
14466670 GTCAACTTAT
*
14466680 TACTTCGAATTTTCCGATGAGGTACTGGGTGCCATACTGGTG
1 TACTTCGAATTATCCGATGAGGTACTGGGTGCCATACTGGTG
14466722 TACTTCGAATTATCCGATGAGGTACTGGGTGCCATACTGGTG
1 TACTTCGAATTATCCGATGAGGTACTGGGTGCCATACTGGTG
14466764 T
1 T
14466765 GTTTTGGTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (42 bp):
TACTTCGAATTATCCGATGAGGTACTGGGTGCCATACTGGTG
Found at i:14466994 original size:16 final size:15
Alignment explanation
Indices: 14466943--14466995 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
14466933 GTTATATACT
14466943 CATGAATTGAGTATGG
1 CATGAATTGAGTAT-G
* * *
14466959 TATGAAATGATGTATT
1 CATGAATTGA-GTATG
14466975 CATGAATTGAGTACTG
1 CATGAATTGAGTA-TG
14466991 CATGA
1 CATGA
14466996 CTGATTCCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 22 0.76
17 4 0.14
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.34
Consensus pattern (15 bp):
CATGAATTGAGTATG
Found at i:14470704 original size:17 final size:17
Alignment explanation
Indices: 14470682--14470715 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14470672 ATTATTTTTA
14470682 AAAAGTACTT-TTAAAAT
1 AAAAGTA-TTATTAAAAT
14470699 AAAAGTATTATTAAAAT
1 AAAAGTATTATTAAAAT
14470716 TTTTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
AAAAGTATTATTAAAAT
Found at i:14473421 original size:13 final size:13
Alignment explanation
Indices: 14473403--14473430 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14473393 GAGATAGAGA
14473403 GGGTGGGGGGTGG
1 GGGTGGGGGGTGG
14473416 GGGTGGGGGGTGG
1 GGGTGGGGGGTGG
14473429 GG
1 GG
14473431 TCCAATTGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.86, T:0.14
Consensus pattern (13 bp):
GGGTGGGGGGTGG
Found at i:14482715 original size:19 final size:19
Alignment explanation
Indices: 14482675--14482715 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
14482665 GCGAGTTGTT
*
14482675 AAGGAAAACAAAAAAAATA
1 AAGGAAAACAAAAAAAAGA
*
14482694 AAGGAAAACAAAACAAAGA
1 AAGGAAAACAAAAAAAAGA
14482713 AAG
1 AAG
14482716 ATTACGCAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.76, C:0.07, G:0.15, T:0.02
Consensus pattern (19 bp):
AAGGAAAACAAAAAAAAGA
Found at i:14484904 original size:93 final size:93
Alignment explanation
Indices: 14484791--14484962 Score: 285
Period size: 93 Copynumber: 1.8 Consensus size: 93
14484781 CGCCCATAAG
*
14484791 CGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
14484855 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
*
14484884 CGAACTC-GAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAG-ACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
14484948 AACGAGTTCGGATGC
65 AACGAGCTCGGATGC
14484963 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 3 0.04
93 71 0.96
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:14484954 original size:46 final size:46
Alignment explanation
Indices: 14484784--14484959 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
14484774 TGTAACCCGC
* *
14484784 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* *
14484830 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
14484880 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
14484923 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
14484960 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:14484978 original size:46 final size:44
Alignment explanation
Indices: 14484835--14484978 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
14484825 CGCATCCATA
*
14484835 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
14484882 CA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
14484928 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
14484974 AGTGA
1 AGTGA
14484979 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.42
47 29 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:14487112 original size:335 final size:339
Alignment explanation
Indices: 14486484--14487158 Score: 964
Period size: 335 Copynumber: 2.0 Consensus size: 339
14486474 CCCACTCGTG
* *
14486484 TGAGAGGGGCAACACGCCCGTGTGACCATTTAGGCATGGTCGTGTTGATGGGCCGTGTGGCTGAC
1 TGAGAGGGGCAACACACCCGTGTGACCATTTAGGCATGGTCGTGCTGATGGGCCG-GTGGCT---
14486549 ACGGTCTAGGCACATTAGGACACACCCGTGTCCCTTACCCATGTGCATTTATTTTTAAATTCGAA
62 A--G--TAGGCACATTAGGACACACCCGTGTCCCTTACCCATGTGCATTTATTTTTAAATTCGAA
* * *
14486614 CCTACAGGGGTTTTACACAGCCTGTCACACGCCCGTGTCCATGAACCGTGTCCTTCACACGGCCA
123 CCTACAGGGGTTTTACACAGCCTATCACACGCCCGTGTCCATGAACCATGTCCTTCACACAGCCA
* **
14486679 TGACACACCTGCGTCTTAGCCCGTGTGCAAAAACTTGGACATTCTGTTTCTGACGTCAGCAATCC
188 TGACACACCCGCGTCTTAGCCCGTAAGCAAAAACTTGGACATTCTGTTTCTGACGTCAGCAATCC
** *
14486744 TTAAGGGCCACATGGCCAAGGCACACACCCGTGTGCAAGGCCGTGCCCTTCACATAGCTGAGACA
253 TTAAGGGCCACACAGCCAAGGCACACACCCGTGTGCAAGGCCGTGCCCTTCACACAGCTGAGACA
*
14486809 CACCGTTGTGTCTCTACCCGTA
318 CACCGTCGTGTCTCTACCCGTA
*
14486831 TGAGAGGGGCAACACACTCGTGTGACCATTTAGGCATGGTCGTGCTGATGGGCC-GT-G-T-G-A
1 TGAGAGGGGCAACACACCCGTGTGACCATTTAGGCATGGTCGTGCTGATGGGCCGGTGGCTAGTA
* * * *
14486891 GGCACATTGGGACACGCCCGTGTCCCTTACCCATGTGGATTTATTTTTAAATTCGAACCTATAGG
66 GGCACATTAGGACACACCCGTGTCCCTTACCCATGTGCATTTATTTTTAAATTCGAACCTACAGG
* * *
14486956 GGTTTTCACACGGCCTATCACACGCTCGTGTCCATGAACCATGTCCTTCACACAGCCATGACACG
131 GGTTTT-ACACAGCCTATCACACGCCCGTGTCCATGAACCATGTCCTTCACACAGCCATGACACA
* * *
14487021 CCCGTGTCTTAGCCCGTAAGCAAAAACTTGGACATTCTGTTTTTGACGTCAGCAATCTTTAAGGG
195 CCCGCGTCTTAGCCCGTAAGCAAAAACTTGGACATTCTGTTTCTGACGTCAGCAATCCTTAAGGG
* ** * * * *
14487086 CCACACAGCTAAGGCACATGCCCGTGTGCTAGGTCGTGCCCTTCACACGGCTGAGACACACGGTC
260 CCACACAGCCAAGGCACACACCCGTGTGCAAGGCCGTGCCCTTCACACAGCTGAGACACACCGTC
14487151 GTGTCTCT
325 GTGTCTCT
14487159 GCCCTTGTGT
Statistics
Matches: 297, Mismatches: 30, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
334 68 0.23
335 173 0.58
337 1 0.00
343 1 0.00
344 1 0.00
345 2 0.01
347 51 0.17
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (339 bp):
TGAGAGGGGCAACACACCCGTGTGACCATTTAGGCATGGTCGTGCTGATGGGCCGGTGGCTAGTA
GGCACATTAGGACACACCCGTGTCCCTTACCCATGTGCATTTATTTTTAAATTCGAACCTACAGG
GGTTTTACACAGCCTATCACACGCCCGTGTCCATGAACCATGTCCTTCACACAGCCATGACACAC
CCGCGTCTTAGCCCGTAAGCAAAAACTTGGACATTCTGTTTCTGACGTCAGCAATCCTTAAGGGC
CACACAGCCAAGGCACACACCCGTGTGCAAGGCCGTGCCCTTCACACAGCTGAGACACACCGTCG
TGTCTCTACCCGTA
Found at i:14489985 original size:25 final size:25
Alignment explanation
Indices: 14489957--14490037 Score: 64
Period size: 25 Copynumber: 3.4 Consensus size: 25
14489947 TTTTAGCATA
14489957 CAAAAACCAACCTTAAAATAATAAG
1 CAAAAACCAACCTTAAAATAATAAG
* ** *
14489982 CAAAAATCAA---TATCATCAT-A-
1 CAAAAACCAACCTTAAAATAATAAG
* *
14490002 CCAAAACCAACCTTAAAACAATAAG
1 CAAAAACCAACCTTAAAATAATAAG
*
14490027 CAAAAATCAAC
1 CAAAAACCAAC
14490038 ACCAACATAC
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
20 8 0.21
21 1 0.03
22 6 0.15
23 5 0.13
24 1 0.03
25 18 0.46
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.16
Consensus pattern (25 bp):
CAAAAACCAACCTTAAAATAATAAG
Found at i:14489987 original size:45 final size:45
Alignment explanation
Indices: 14489938--14490071 Score: 142
Period size: 45 Copynumber: 3.0 Consensus size: 45
14489928 AAAAATTTCT
* * *
14489938 AAAAATAAATTTTAGCATACAAAAACCAACCTTAAAATAATAAGC
1 AAAAATAAATATCAGCATACAAAAACCAACCTTAAAACAATAAGC
* * *
14489983 AAAAATCAATATCATCATACCAAAACCAACCTTAAAACAATAAGC
1 AAAAATAAATATCAGCATACAAAAACCAACCTTAAAACAATAAGC
* * * * * * * *
14490028 AAAAATCAACACCAACATACCAAATCCAACCTAAAAATAATAAG
1 AAAAATAAATATCAGCATACAAAAACCAACCTTAAAACAATAAG
14490072 ATCAACCAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 77 1.00
ACGTcount: A:0.57, C:0.22, G:0.03, T:0.18
Consensus pattern (45 bp):
AAAAATAAATATCAGCATACAAAAACCAACCTTAAAACAATAAGC
Found at i:14490081 original size:30 final size:30
Alignment explanation
Indices: 14490046--14490106 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
14490036 ACACCAACAT
14490046 ACCAAATCCAACCTAAAAATAATAAGATCA
1 ACCAAATCCAACCTAAAAATAATAAGATCA
14490076 ACCAAATCCAACCTAAAAATAATAAGATCA
1 ACCAAATCCAACCTAAAAATAATAAGATCA
14490106 A
1 A
14490107 TAGAATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.23, G:0.03, T:0.16
Consensus pattern (30 bp):
ACCAAATCCAACCTAAAAATAATAAGATCA
Found at i:14492011 original size:28 final size:28
Alignment explanation
Indices: 14491972--14492060 Score: 151
Period size: 28 Copynumber: 3.2 Consensus size: 28
14491962 GTCTCCATGA
*
14491972 CACACCCGTGTTGTCACCCTGTGTGACT
1 CACACCCGTGTTGTCACCCCGTGTGACT
*
14492000 CACACCCATGTTGTCACCCCGTGTGACT
1 CACACCCGTGTTGTCACCCCGTGTGACT
*
14492028 CAAACCCGTGTTGTCACCCCGTGTGACT
1 CACACCCGTGTTGTCACCCCGTGTGACT
14492056 CACAC
1 CACAC
14492061 GGCTTGGACA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.18, C:0.38, G:0.19, T:0.25
Consensus pattern (28 bp):
CACACCCGTGTTGTCACCCCGTGTGACT
Found at i:14492050 original size:13 final size:13
Alignment explanation
Indices: 14491976--14492051 Score: 57
Period size: 13 Copynumber: 5.5 Consensus size: 13
14491966 CCATGACACA
14491976 CCCGTGTTGTCAC
1 CCCGTGTTGTCAC
*
14491989 CCTGTG-TGACTCAC
1 CCCGTGTTG--TCAC
*
14492003 ACCCATGTTGTCAC
1 -CCCGTGTTGTCAC
*
14492017 CCCGTG-TGACTCAAA
1 CCCGTGTTG--TC-AC
14492032 CCCGTGTTGTCAC
1 CCCGTGTTGTCAC
14492045 CCCGTGT
1 CCCGTGT
14492052 GACTCACACG
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
12 4 0.08
13 18 0.37
14 12 0.24
15 11 0.22
16 4 0.08
ACGTcount: A:0.14, C:0.37, G:0.21, T:0.28
Consensus pattern (13 bp):
CCCGTGTTGTCAC
Done.