Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 45 of 218
Found at i:14023052 original size:23 final size:26
Alignment explanation
Indices: 14022729--14023059 Score: 275
Period size: 29 Copynumber: 12.5 Consensus size: 26
14022719 CATTATTAAC
*
14022729 TTAGTTTAGGGTTTTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATT--G
14022757 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTA-GGTTAGGGTTTTTAATTAAATT--G
*
14022786 TTAAGGTTAGGGTTTTCAAGTT-AA--G
1 TT-AGGTTAGGGTTTTTAA-TTAAATTG
14022811 ---GGTTTAGGGTTTTTAATTAAA---
1 TTAGG-TTAGGGTTTTTAATTAAATTG
14022832 TTAGGTTAGGGTTTTTAATTAAA---
1 TTAGGTTAGGGTTTTTAATTAAATTG
*
14022855 TTATGTTAGGGTTTTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATT--G
*
14022883 TTAGGGTTGGGGTTTTTAATTAAA---
1 TTA-GGTTAGGGTTTTTAATTAAATTG
**
14022907 TTAGGTTAGATTTTTTAATTAAATTAGG
1 TTAGGTTAGGGTTTTTAATTAAATT--G
14022935 TTAAGGTTAGGGTTTTTAATTAAATTAGG
1 TT-AGGTTAGGGTTTTTAATTAAATT--G
14022964 TTAAGGTTAGGGTTTTTAATTAAATTAGG
1 TT-AGGTTAGGGTTTTTAATTAAATT--G
14022993 TTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTA-GGTTAGGGTTTTTAATTAAATT--G
14023022 TTAGGGTTAGGGTTTTTAATT-AA-T-
1 TTA-GGTTAGGGTTTTTAATTAAATTG
14023046 TTAGGTTAGGGTTT
1 TTAGGTTAGGGTTT
14023060 AGTGTTAAAT
Statistics
Matches: 271, Mismatches: 11, Indels: 47
0.82 0.03 0.14
Matches are distributed among these distances:
21 4 0.01
22 14 0.05
23 68 0.25
24 8 0.03
25 1 0.00
27 1 0.00
28 11 0.04
29 161 0.59
30 3 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (26 bp):
TTAGGTTAGGGTTTTTAATTAAATTG
Found at i:14023059 original size:52 final size:52
Alignment explanation
Indices: 14022809--14023078 Score: 225
Period size: 52 Copynumber: 5.1 Consensus size: 52
14022799 TTTCAAGTTA
* *
14022809 AGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTATGTT
1 AGGG-TTAGGGTTTTTAATTAATTTAGGTTAGGGTTTTTAATTAAATTAGGTT
** *
14022862 AGGGTT----TTTAATTAAATTAGGTTAGGGTTGGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTT--TT-AATTAATTTA-GGTTAGGGTTTTTAATTAAATTAGGTT
* * * *
14022914 A-GATT---TTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTT--TT-AATTA-ATTTAGGTTAGGGTTTTTAATTAAATTAGGTT
*
14022966 AAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATT-AA-T---TTA-GGTTAGGGTTTTTAATTAAATTAGGTT
* *
14023024 AGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTTAGT-GTTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTT-TTAATTAAATTAGGTT
14023076 AGG
1 AGG
14023079 ATTTTTATTA
Statistics
Matches: 185, Mismatches: 15, Indels: 35
0.79 0.06 0.15
Matches are distributed among these distances:
48 3 0.02
50 2 0.01
51 11 0.06
52 94 0.51
53 18 0.10
54 4 0.02
56 4 0.02
57 4 0.02
58 45 0.24
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (52 bp):
AGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:14023158 original size:70 final size:69
Alignment explanation
Indices: 14023081--14023212 Score: 219
Period size: 70 Copynumber: 1.9 Consensus size: 69
14023071 AGGTTAGGAT
* * *
14023081 TTTTATTACATCAAATAATATCAAAATAACTCGAAAAATTTTTTATTTTATTACATCAAATAAAC
1 TTTTATTACATCAAATAATATCAAAATAACTC-AAAAAATTTCTATTTTATTACATAAAATAAAC
14023146 TTCTA
65 TTCTA
*
14023151 TTTTATTACATCAAATAATATCAAAATAACTCAAAAAATTTCTATTTTTTTACATAAAATAA
1 TTTTATTACATCAAATAATATCAAAATAACTCAAAAAATTTCTATTTTATTACATAAAATAA
14023213 TATCAAAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 26 0.45
70 32 0.55
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.41
Consensus pattern (69 bp):
TTTTATTACATCAAATAATATCAAAATAACTCAAAAAATTTCTATTTTATTACATAAAATAAACT
TCTA
Found at i:14023204 original size:44 final size:45
Alignment explanation
Indices: 14023136--14023222 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
14023126 TTTTATTACA
*
14023136 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
* *
14023181 TCAAA-AAATTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
14023223 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:14024493 original size:22 final size:22
Alignment explanation
Indices: 14024468--14024541 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
14024458 AAATATGGAT
*
14024468 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGAAAGGAAA
14024490 TTGAGAGAATTTTGAAAGGAAA
1 TTGAGAGAATTTTGAAAGGAAA
*
14024512 TTGAGAAGAA--TTGAGAGGAAA
1 TTGAG-AGAATTTTGAAAGGAAA
14024533 TATGAGAGA
1 T-TGAGAGA
14024542 GGATTTGTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.29
22 30 0.62
23 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (22 bp):
TTGAGAGAATTTTGAAAGGAAA
Found at i:14031559 original size:15 final size:15
Alignment explanation
Indices: 14031539--14031569 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14031529 AGCTTGAAGT
14031539 GAAGATCAAGATAAA
1 GAAGATCAAGATAAA
*
14031554 GAAGATGAAGATAAA
1 GAAGATCAAGATAAA
14031569 G
1 G
14031570 TAGTGGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.26, T:0.13
Consensus pattern (15 bp):
GAAGATCAAGATAAA
Found at i:14032924 original size:28 final size:28
Alignment explanation
Indices: 14032883--14032971 Score: 115
Period size: 28 Copynumber: 3.2 Consensus size: 28
14032873 TTGCACTGAG
**
14032883 GCAAAGCTTAACAGAGAGCTCACACAAA
1 GCAAAGCCAAACAGAGAGCTCACACAAA
* * **
14032911 GCAGAGCCAAACAGAGAGTTCGTACAAA
1 GCAAAGCCAAACAGAGAGCTCACACAAA
*
14032939 GCAAAGCCAAAAAGAGAGCTCACACAAA
1 GCAAAGCCAAACAGAGAGCTCACACAAA
14032967 GCAAA
1 GCAAA
14032972 CTTAGCAGAA
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.48, C:0.24, G:0.20, T:0.08
Consensus pattern (28 bp):
GCAAAGCCAAACAGAGAGCTCACACAAA
Found at i:14036495 original size:16 final size:15
Alignment explanation
Indices: 14036474--14036516 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
14036464 AATTTCTAAC
14036474 CCTAAACCTTAAAAA
1 CCTAAACCTTAAAAA
*
14036489 CCATAAACATTTAAAAA
1 CC-TAAAC-CTTAAAAA
14036506 CTCTAAACCTT
1 C-CTAAACCTT
14036517 TTAAAAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 2 0.09
16 7 0.30
17 13 0.57
18 1 0.04
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (15 bp):
CCTAAACCTTAAAAA
Found at i:14036512 original size:17 final size:18
Alignment explanation
Indices: 14036482--14036523 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
14036472 ACCCTAAACC
14036482 TTAAAAACCATAAA-CAT
1 TTAAAAACCATAAACCAT
*
14036499 TTAAAAACTC-TAAACCTT
1 TTAAAAAC-CATAAACCAT
14036517 TTAAAAA
1 TTAAAAA
14036524 GGGTCGAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAACCATAAACCAT
Found at i:14039089 original size:33 final size:33
Alignment explanation
Indices: 14039052--14039166 Score: 103
Period size: 33 Copynumber: 3.5 Consensus size: 33
14039042 AGATTAATTT
14039052 ATATTTTATGTATCATTATATTAAATTATTTAA
1 ATATTTTATGTATCATTATATTAAATTATTTAA
* * * * *
14039085 ATATTTCATATCTCAATACATTAAATTATTTAA
1 ATATTTTATGTATCATTATATTAAATTATTTAA
* * *
14039118 ATATATTTAT-TATTA-TAT-TTAAGTT-TTCAAA
1 ATAT-TTTATGTATCATTATATTAAATTATT-TAA
*
14039149 ATATTTTATGTATTATTA
1 ATATTTTATGTATCATTA
14039167 ATTTTACAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
30 7 0.10
31 17 0.25
32 4 0.06
33 35 0.52
34 4 0.06
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (33 bp):
ATATTTTATGTATCATTATATTAAATTATTTAA
Found at i:14040056 original size:16 final size:17
Alignment explanation
Indices: 14040037--14040073 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14040027 ATGACACATA
14040037 AAAAAATTGA-CCCACC
1 AAAAAATTGACCCCACC
*
14040053 AAAAATTTGACCCCACC
1 AAAAAATTGACCCCACC
14040070 AAAA
1 AAAA
14040074 TTTTTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.51, C:0.30, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAAATTGACCCCACC
Found at i:14042216 original size:27 final size:27
Alignment explanation
Indices: 14042156--14042215 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 27
14042146 ATAAAAAATA
14042156 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
14042183 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
14042209 ACCAAAA
1 ACCAAAA
14042216 AATACAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 18 0.55
27 15 0.45
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:14042237 original size:20 final size:20
Alignment explanation
Indices: 14042212--14042250 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14042202 TTTATTTACC
*
14042212 AAAAAATACAAAAAAAAAAT
1 AAAAAACACAAAAAAAAAAT
*
14042232 AAAAAACAGAAAAAAAAAA
1 AAAAAACACAAAAAAAAAA
14042251 CCTGACACAG
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:0.87, C:0.05, G:0.03, T:0.05
Consensus pattern (20 bp):
AAAAAACACAAAAAAAAAAT
Found at i:14042244 original size:18 final size:19
Alignment explanation
Indices: 14042213--14042249 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14042203 TTATTTACCA
14042213 AAAAATACAAAAAAAAAAT
1 AAAAATACAAAAAAAAAAT
14042232 AAAAA-ACAGAAAAAAAAA
1 AAAAATACA-AAAAAAAAA
14042250 ACCTGACACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.86, C:0.05, G:0.03, T:0.05
Consensus pattern (19 bp):
AAAAATACAAAAAAAAAAT
Found at i:14042664 original size:19 final size:19
Alignment explanation
Indices: 14042640--14042705 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
14042630 ATTAAAATAG
14042640 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
14042659 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
14042677 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
14042696 TTTAATTTAA
1 TTTAATTTAA
14042706 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:14042970 original size:18 final size:19
Alignment explanation
Indices: 14042931--14042989 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
14042921 ATTTTATATT
14042931 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
14042950 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
14042968 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
14042987 TTA
1 TTA
14042990 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:14044853 original size:45 final size:45
Alignment explanation
Indices: 14044802--14044892 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
14044792 CTTTTTATAT
14044802 GTACACTTATATTTGTGTGCTAAGTATGTGCCCACTCGTATTTTC
1 GTACACTTATATTTGTGTGCTAAGTATGTGCCCACTCGTATTTTC
14044847 GTACACTTATATTTGTGTGCTAAGTATGTGCCCACTCGTATTTTC
1 GTACACTTATATTTGTGTGCTAAGTATGTGCCCACTCGTATTTTC
14044892 G
1 G
14044893 AATTTGCTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.42
Consensus pattern (45 bp):
GTACACTTATATTTGTGTGCTAAGTATGTGCCCACTCGTATTTTC
Found at i:14048467 original size:20 final size:20
Alignment explanation
Indices: 14048439--14048478 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14048429 TTCACCTCAT
14048439 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
*
14048459 GCATTGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
14048479 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:14056803 original size:50 final size:50
Alignment explanation
Indices: 14056646--14056923 Score: 204
Period size: 50 Copynumber: 5.6 Consensus size: 50
14056636 ATTGCAAGTA
* **
14056646 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGG
* * * *** * * * * **
14056696 AACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCT-GATATTACAATTA
1 AAAAGATTGAAGCTACAACGGCGGATCTTACTTCCTTAG-CAGTGCAATGG
*
14056746 AAAAGATTGAAGCTACAACGGCGGATCTTACTTCCTTAGCAGCGCAATGG
1 AAAAGATTGAAGCTACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGG
* * * * * * * **
14056796 AATAGATTGAAACTACGACGGTGGATC-TAGTTTTCC-TAACATTGCAATTA
1 AAAAGATTGAAGCTACAACGGCGGATCTTA--CTTCCTTAGCAGTGCAATGG
* * **
14056846 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTT-GACGGTGCGGTGG
1 AAAAGATTGAAGCTACAACGGCGGATCTTACTTCCTTAG-CAGTGCAATGG
* * *
14056896 AATAGATTGAAGCTACGACGACGGATCT
1 AAAAGATTGAAGCTACAACGGCGGATCT
14056924 AGTTTCCCCA
Statistics
Matches: 166, Mismatches: 55, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
49 7 0.04
50 152 0.92
51 7 0.04
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGGATCTTACTTCCTTAGCAGTGCAATGG
Found at i:14056922 original size:100 final size:100
Alignment explanation
Indices: 14056544--14056931 Score: 503
Period size: 100 Copynumber: 3.9 Consensus size: 100
14056534 GGTTGAAAAG
* * *
14056544 TAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCTTAGCAGTGCAGCAGAACAGATTAAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
* * *
14056609 TACGAC-A-GTAGCTCTGGTTTCCCTGATATTGCAAG
66 TACGACGACG--GATCTAGTTTCCCTGATATTGCAAT
14056644 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
* * * *
14056709 TACGACGGCAGATCTGGTTTCCCTGATATTACAAT
66 TACGACGACGGATCTAGTTTCCCTGATATTGCAAT
* * ** * *
14056744 TAAAAAGATTGAAGCTACAACGGCGGATCTTACTTCCTTAGCAGCGCAATGGAATAGATTGAAAC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
** * * *
14056809 TACGACGGTGGATCTAGTTTTCCTAACATTGCAAT
66 TACGACGACGGATCTAGTTTCCCTGATATTGCAAT
* * * *
14056844 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTT-GACGGTGCGGTGGAATAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAGCGGAACAGATTGAAG
14056908 CTACGACGACGGATCTAGTTTCCC
65 CTACGACGACGGATCTAGTTTCCC
14056932 CAACACAACA
Statistics
Matches: 255, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
99 1 0.00
100 254 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
TACGACGACGGATCTAGTTTCCCTGATATTGCAAT
Found at i:14057002 original size:44 final size:44
Alignment explanation
Indices: 14056941--14057417 Score: 258
Period size: 44 Copynumber: 10.8 Consensus size: 44
14056931 CCAACACAAC
*
14056941 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
* * ** * * * ** *
14056985 AGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCT-AAGCAGT
* * **
14057030 AGTGGAGTATATTGAAGCCAGTAAC---TC-TATCTCCCTGGGCAGT
1 AGTGGAGTAGATTAAAG--A-TAACAGATCTTATCTCCCTAAGCAGT
*
14057073 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
* ** * * * ** *
14057117 AGTGGAGTAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTGC
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCT-AAGCAGT
* * ** * *
14057162 AGTGGAGTATATTGAAGCCAGTAAC---TC-TATCTCCCTGGGTAGC
1 AGTGGAGTAGATTAAAG--A-TAACAGATCTTATCTCCCTAAGCAGT
*
14057205 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
* * *** * * *
14057249 AGTGGAGAAGATCAAAGATGGTAGATTTTACCTCCCTGAG--GTT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAG-T
* * ** ** ** *
14057292 ACAGTGGAGTATATTGAAGCCAGTA-AT-TCTATCTCCCTGGGCAGC
1 --AGTGGAGTAGATTAAAGATAACAGATCT-TATCTCCCTAAGCAGT
*
14057337 AGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
* * ** * *
14057381 AGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCT
1 AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCT
14057418 GAGGTTGCAG
Statistics
Matches: 319, Mismatches: 90, Indels: 48
0.70 0.20 0.11
Matches are distributed among these distances:
40 8 0.03
41 2 0.01
42 1 0.00
43 58 0.18
44 191 0.60
45 52 0.16
46 1 0.00
47 2 0.01
48 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (44 bp):
AGTGGAGTAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGT
Found at i:14057476 original size:132 final size:132
Alignment explanation
Indices: 14056940--14057460 Score: 961
Period size: 132 Copynumber: 3.9 Consensus size: 132
14056930 CCCAACACAA
14056940 CAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
1 CAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
14057005 GCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGC
66 GCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGC
14057070 AG
131 AG
* *
14057072 TAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATG
1 CAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
*
14057137 GCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGT
66 GCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGC
14057202 AG
131 AG
*
14057204 CAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCAAAGATG
1 CAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* * *
14057269 GTAGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGGC
66 GCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGC
14057334 AG
131 AG
14057336 CAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
1 CAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* *
14057401 GCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAATTCTACCTCCC
66 GCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCC
14057461 CAGTCGGCAG
Statistics
Matches: 376, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 376 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
CAGTGGAATAGATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
GCAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGC
AG
Found at i:14060759 original size:27 final size:27
Alignment explanation
Indices: 14060674--14060750 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
14060664 TTTTAGTCCT
* * *
14060674 TTGGCGCCATTTGTGCTGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
14060701 TTGGCACCATTGGTGCCGCCAATCACA
1 TTGGCACCATTGGTGCCGCCAATCACA
* *
14060728 TTGGCACCTTTGGTGTCGCCAAT
1 TTGGCACCATTGGTGCCGCCAAT
14060751 GTAATTGGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.18, C:0.30, G:0.23, T:0.29
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCACA
Found at i:14060844 original size:28 final size:28
Alignment explanation
Indices: 14060812--14060877 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
14060802 TTTTTTTGGT
*
14060812 ATATTTTGGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
14060840 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
14060868 ATATTTTGGT
1 ATATTTTGGT
14060878 TATTTTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:14061300 original size:19 final size:20
Alignment explanation
Indices: 14061266--14061305 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
14061256 AATAATTTGA
14061266 TTTAGTTTTATTTTAAATTT
1 TTTAGTTTTATTTTAAATTT
14061286 TTTAGTTTT-TTTTAAATTT
1 TTTAGTTTTATTTTAAATTT
14061305 T
1 T
14061306 AAATTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (20 bp):
TTTAGTTTTATTTTAAATTT
Found at i:14061316 original size:19 final size:20
Alignment explanation
Indices: 14061272--14061316 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
14061262 TTGATTTAGT
* *
14061272 TTTA-TTTTAAATTTTTTAG
1 TTTATTTTTAAATTTTTAAA
14061291 TTT-TTTTTAAA-TTTTAAA
1 TTTATTTTTAAATTTTTAAA
14061309 TTTATTTT
1 TTTATTTT
14061317 GACCAAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTATTTTTAAATTTTTAAA
Found at i:14065013 original size:2 final size:2
Alignment explanation
Indices: 14065008--14065034 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14064998 AAAAAAAAAA
14065008 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
14065035 ATACTACTAG
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:14070163 original size:39 final size:39
Alignment explanation
Indices: 14070081--14070180 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
14070071 GAAATCCTTG
*
14070081 TTATAATTATTGTAATTATAA-TTTACGATCAAATATTA
1 TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
* * *
14070119 TTATAATTATTGTAATTGTAATTTTTCGGTCAAACATTA
1 TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
* *
14070158 TTATAACTATGGTAATTATAATT
1 TTATAATTATTGTAATTATAATT
14070181 ATTATATTCG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 20 0.37
39 34 0.63
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTTACGATCAAACATTA
Found at i:14074944 original size:16 final size:15
Alignment explanation
Indices: 14074917--14074946 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14074907 AAATTCACAT
14074917 TTATACTATATATAA
1 TTATACTATATATAA
14074932 TTATACATATATATA
1 TTATAC-TATATATA
14074947 TTTTCAACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATACTATATATAA
Found at i:14086406 original size:26 final size:26
Alignment explanation
Indices: 14086351--14086406 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
14086341 GAATTTTCTC
*
14086351 AAAATTTTATCGAGGATAAAATCGTT
1 AAAATTTTATCGAGGATAAAATCGTA
* *
14086377 AAAATTTTATC-AGGGGTAAAATTGTA
1 AAAATTTTATCGA-GGATAAAATCGTA
14086403 AAAA
1 AAAA
14086407 AAAGTTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (26 bp):
AAAATTTTATCGAGGATAAAATCGTA
Found at i:14094540 original size:89 final size:89
Alignment explanation
Indices: 14094272--14095019 Score: 1091
Period size: 89 Copynumber: 8.4 Consensus size: 89
14094262 TCTGCTGCGC
* * * *
14094272 TTGATCTACTTCACGCC---A-ATGAAGACAATG-TCT-ATTCTCTTCGATCTACTCCACCACCA
1 TTGATCTACTTCACGCCAGTACATGAAGACAA-GATCTGCTT-TCTTCGATCTGCTTCGCCACCA
*
14094331 GTATAGGGAA-ACAAGATCTGTTGTCT
64 GTAT-GGGAAGACAAGATCTGTTATCT
* * *
14094357 TTGATCTACTTCACGTCAATACATGAAGACAAGATCTGCTTTTTCCTTCGATCTACTTCGCCACC
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACC
*
14094422 AGTATGGGAAGACAAGATCTGTTACCT
63 AGTATGGGAAGACAAGATCTGTTATCT
* *
14094449 TTGATCTACTTCACGCCAGTACATGAAGATAAGATCTGCTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
14094514 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
** *
14094538 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTCTTCGATCTGCTTCGCCACTAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
14094603 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
14094627 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGTTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
*
14094692 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
14094716 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCGGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
14094781 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
14094805 CTT-ATTTACTTCACGCCAGTACATGAAGACAAGATTTGCTTTCTTCGATCTGTTTCGCCACCAG
1 -TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAG
*
14094869 TATGGGAAGA-AAGATTTGTTATCT
65 TATGGGAAGACAAGATCTGTTATCT
* *
14094893 TTGATCTACTTCACGCCAGTACATGAAGACAAAATCTGCTTTCTTTGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
* * * *
14094958 ATGGGAAGGCAATATTTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
14094982 CTGATCTACTTCACACCAGTACATGAAGACAAGATCTG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG
14095020 TTATCTTTCC
Statistics
Matches: 609, Mismatches: 41, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
85 16 0.03
87 2 0.00
88 80 0.13
89 425 0.70
90 5 0.01
91 6 0.01
92 75 0.12
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:14110164 original size:3 final size:3
Alignment explanation
Indices: 14110158--14110183 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14110148 TGATAGAATA
14110158 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
14110184 AGAAGACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:14114816 original size:5 final size:5
Alignment explanation
Indices: 14114806--14114833 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
14114796 ATAACCACAA
14114806 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
14114834 TATATTCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:14117544 original size:63 final size:63
Alignment explanation
Indices: 14117465--14117614 Score: 160
Period size: 63 Copynumber: 2.4 Consensus size: 63
14117455 TCAGAAGCCT
* * * * * *
14117465 AAAGA-CTGAACAGAAGCTCATGAGAACTAAACGGAAACCTATAAGGGTTGAAC-GAAAGCTCG
1 AAAGAGCTGAACGGAAGCTCATAAGAACTAAACGGAAACCCATAAAGGTTAAACTG-AAGCTCA
* * * *
14117527 TAAGAGCTGAACGGAAGCTCGTAAGAGCTGAACGGAAACCCATAAAGGTTAAACTGAAGCTCA
1 AAAGAGCTGAACGGAAGCTCATAAGAACTAAACGGAAACCCATAAAGGTTAAACTGAAGCTCA
* * *
14117590 AAAGAGCTGAATGGAAACCCATAAG
1 AAAGAGCTGAACGGAAGCTCATAAG
14117615 GGTTAAACTG
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
62 4 0.06
63 66 0.93
64 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.15
Consensus pattern (63 bp):
AAAGAGCTGAACGGAAGCTCATAAGAACTAAACGGAAACCCATAAAGGTTAAACTGAAGCTCA
Found at i:14117561 original size:21 final size:21
Alignment explanation
Indices: 14117513--14117563 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
14117503 CTATAAGGGT
*
14117513 TGAACGAAAGCTCGTAAGAGC
1 TGAACGGAAGCTCGTAAGAGC
14117534 TGAACGGAAGCTCGTAAGAGC
1 TGAACGGAAGCTCGTAAGAGC
14117555 TGAACGGAA
1 TGAACGGAA
14117564 ACCCATAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.31, T:0.14
Consensus pattern (21 bp):
TGAACGGAAGCTCGTAAGAGC
Found at i:14117659 original size:42 final size:42
Alignment explanation
Indices: 14117540--14117660 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 42
14117530 GAGCTGAACG
** *
14117540 GAAGCTCGTAAGAGCTGAACGGAAACCCATAAAGGTTAAACT
1 GAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
*
14117582 GAAGCTCAAAAGAGCTGAATGGAAACCCATAAGGGTTAAACT
1 GAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
* ** *
14117624 GAAGCTTAAAAGAGCTGAACAAAAACCCATTAGGGTT
1 GAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTT
14117661 GAACAGAAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
GAAGCTCAAAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
Found at i:14121334 original size:17 final size:18
Alignment explanation
Indices: 14121294--14121334 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
14121284 ATGACCTTTC
*
14121294 TTGT-TGCGAAGCCCGTA
1 TTGTATGCGAAGCCCATA
*
14121311 TTATATGCGAA-CCCATA
1 TTGTATGCGAAGCCCATA
14121328 TTGTATG
1 TTGTATG
14121335 TTATTATGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (18 bp):
TTGTATGCGAAGCCCATA
Found at i:14121354 original size:18 final size:18
Alignment explanation
Indices: 14121331--14121367 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14121321 ACCCATATTG
14121331 TATGTTATTATGCGAACC
1 TATGTTATTATGCGAACC
* *
14121349 TATGTTGTTGTGCGAACC
1 TATGTTATTATGCGAACC
14121367 T
1 T
14121368 TAATATTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (18 bp):
TATGTTATTATGCGAACC
Found at i:14122208 original size:83 final size:83
Alignment explanation
Indices: 14122069--14122234 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
14122059 ATGTTTAGAG
14122069 TTAGTGAGAATGCCTCCACGAAGAGTGAATACGAATCGTGTGAATGAAGTTGCAAACCTCTCTGA
1 TTAGTGAGAATGCCTCCACGAAGAGTGAATACGAATCGTGTGAATGAAGTTGCAAACCTCTCTGA
14122134 AAGTGATGGGACCTCGGT
66 AAGTGATGGGACCTCGGT
14122152 TTAGTGAGAATGCCTCCACGAAGAGTGAATACGAATCGTGTGAATGAAGTTGCAAACCTCTCTGA
1 TTAGTGAGAATGCCTCCACGAAGAGTGAATACGAATCGTGTGAATGAAGTTGCAAACCTCTCTGA
14122217 AAGTGATGGGACCTCGGT
66 AAGTGATGGGACCTCGGT
14122235 AACACATGAG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (83 bp):
TTAGTGAGAATGCCTCCACGAAGAGTGAATACGAATCGTGTGAATGAAGTTGCAAACCTCTCTGA
AAGTGATGGGACCTCGGT
Found at i:14125564 original size:23 final size:24
Alignment explanation
Indices: 14125534--14125585 Score: 97
Period size: 23 Copynumber: 2.2 Consensus size: 24
14125524 CTAGAATGAC
14125534 TAAAGCTCCAGCTTCACTCTTTG-
1 TAAAGCTCCAGCTTCACTCTTTGT
14125557 TAAAGCTCCAGCTTCACTCTTTGT
1 TAAAGCTCCAGCTTCACTCTTTGT
14125581 TAAAG
1 TAAAG
14125586 AGAAATACGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 23 0.82
24 5 0.18
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (24 bp):
TAAAGCTCCAGCTTCACTCTTTGT
Found at i:14126484 original size:28 final size:27
Alignment explanation
Indices: 14126419--14126492 Score: 69
Period size: 28 Copynumber: 2.7 Consensus size: 27
14126409 ACAGAAAGAG
* * *
14126419 AGAG-ACAAAAAAAAAGAGTTAGTTAAA
1 AGAGTACACAAAAAAA-AGCTAGCTAAA
*
14126446 AGAGTACACAAAAAAAAGCTAGCTAGA
1 AGAGTACACAAAAAAAAGCTAGCTAAA
*
14126473 AGAGTTAGACAAAATAAAAG
1 AGAG-TACACAAAA-AAAAG
14126493 ATAGTCATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 16 0.41
28 18 0.46
29 5 0.13
ACGTcount: A:0.59, C:0.08, G:0.19, T:0.14
Consensus pattern (27 bp):
AGAGTACACAAAAAAAAGCTAGCTAAA
Found at i:14128276 original size:19 final size:19
Alignment explanation
Indices: 14128252--14128291 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
14128242 GACCCACGTC
14128252 AAGCTAAGGTTCTTTTTAT
1 AAGCTAAGGTTCTTTTTAT
14128271 AAGCTAAGGTTCTTTTTAT
1 AAGCTAAGGTTCTTTTTAT
14128290 AA
1 AA
14128292 CTTTAACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (19 bp):
AAGCTAAGGTTCTTTTTAT
Found at i:14129591 original size:65 final size:65
Alignment explanation
Indices: 14129515--14129643 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 65
14129505 ATTTGAAATT
*
14129515 GCCTTAAATATAATTTAGCCATAAATTTAATGTTAGTGGATGAGGTTGATCATTTCCATTGAATG
1 GCCTTAAATATAATTTAGCCATAAATTAAATGTTAGTGGATGAGGTTGATCATTTCCATTGAATG
*
14129580 GCCTTAAATATAATTTAGCCATAAATTAAATGTTAGTGGATGAGGTTGCTCATTTCCATTGAAT
1 GCCTTAAATATAATTTAGCCATAAATTAAATGTTAGTGGATGAGGTTGATCATTTCCATTGAAT
14129644 TCCACTTGGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.38
Consensus pattern (65 bp):
GCCTTAAATATAATTTAGCCATAAATTAAATGTTAGTGGATGAGGTTGATCATTTCCATTGAATG
Found at i:14132940 original size:16 final size:16
Alignment explanation
Indices: 14132914--14132962 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 16
14132904 ATAAATAGGA
14132914 TATTTTT-ATTTCTTT
1 TATTTTTAATTTCTTT
*
14132929 TATTTTTAATTTTTTT
1 TATTTTTAATTTCTTT
14132945 TATTTGTTTAATTTCTTT
1 TA-TT-TTTAATTTCTTT
14132963 CTAGTTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 9 0.31
17 2 0.07
18 11 0.38
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (16 bp):
TATTTTTAATTTCTTT
Found at i:14144131 original size:7 final size:7
Alignment explanation
Indices: 14144119--14144147 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
14144109 ATTAAAAATA
14144119 TTTCTTT
1 TTTCTTT
14144126 TTTCTTT
1 TTTCTTT
14144133 TTTCTTT
1 TTTCTTT
14144140 TTTCTTT
1 TTTCTTT
14144147 T
1 T
14144148 GAAGGAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTCTTT
Found at i:14144811 original size:30 final size:30
Alignment explanation
Indices: 14144775--14144837 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
14144765 ACTTATTTTA
14144775 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
14144805 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
14144835 TTG
1 TTG
14144838 CTTGTTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:14145351 original size:25 final size:22
Alignment explanation
Indices: 14145316--14145363 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 22
14145306 TTATGTGTCG
14145316 TTTTTAAAATTTATTAAACAATATA
1 TTTTTAAAA-TT-TTAAA-AATATA
*
14145341 TTTTTATAATTTTAAAAATATA
1 TTTTTAAAATTTTAAAAATATA
14145363 T
1 T
14145364 AATTAAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 2 0.09
25 8 0.36
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTTTAAAATTTTAAAAATATA
Found at i:14148588 original size:46 final size:46
Alignment explanation
Indices: 14148465--14148589 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 46
14148455 CAGGGCTTAA
* * *
14148465 TATTCTTGTATTCTTGAGT-TCGCAACATATGCAAGAGCTCGGAACC
1 TATTCTTGTACTCTTGAGTCT-ACAACATATGCAAGAGCTCAGAACC
** * ** *
14148511 TAAACTTGTACTCTCGAGTCTACAATTTATGCAAGATCTCAGAACC
1 TATTCTTGTACTCTTGAGTCTACAACATATGCAAGAGCTCAGAACC
14148557 TATTCTTGTACTCTTGAGTCTACAACATATGCA
1 TATTCTTGTACTCTTGAGTCTACAACATATGCA
14148590 GGAACTCGAA
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
46 63 0.98
47 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
TATTCTTGTACTCTTGAGTCTACAACATATGCAAGAGCTCAGAACC
Found at i:14148603 original size:46 final size:46
Alignment explanation
Indices: 14148465--14148603 Score: 147
Period size: 46 Copynumber: 3.0 Consensus size: 46
14148455 CAGGGCTTAA
* * * *
14148465 TATTCTTGTATTCTTGAGT-TCGCAACATATGCAAGAGCTCGGAACC
1 TATTCTTGTACTCTTGAGTCT-ACAACATATGCAAGAACTCGAAACC
** * ** *
14148511 TAAACTTGTACTCTCGAGTCTACAATTTATGCAAGATCTC-AGAACC
1 TATTCTTGTACTCTTGAGTCTACAACATATGCAAGAACTCGA-AACC
*
14148557 TATTCTTGTACTCTTGAGTCTACAACATATGCAGGAACTCGAAACC
1 TATTCTTGTACTCTTGAGTCTACAACATATGCAAGAACTCGAAACC
14148603 T
1 T
14148604 GAGCAACACT
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
46 72 0.97
47 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (46 bp):
TATTCTTGTACTCTTGAGTCTACAACATATGCAAGAACTCGAAACC
Found at i:14149518 original size:13 final size:13
Alignment explanation
Indices: 14149500--14149524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14149490 TGGTATATTT
14149500 TCCCTTGAGAATA
1 TCCCTTGAGAATA
14149513 TCCCTTGAGAAT
1 TCCCTTGAGAAT
14149525 CTTTAATCAT
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:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (13 bp):
TCCCTTGAGAATA
Found at i:14150401 original size:115 final size:115
Alignment explanation
Indices: 14150254--14150486 Score: 349
Period size: 115 Copynumber: 2.0 Consensus size: 115
14150244 CTAATTTACC
* * * * * **
14150254 ATTTTTTGAGTATATGGGGCAAAATCCAATCCATTTCCTTCTACAAAGGTCTCCATGGTACTTTT
1 ATTTTTTGAATAAATGAGACAAAATACAATCCAACTCCTTCTACAAAGGTCTCCATGGTACTTTT
* *
14150319 ACCGTCTTCATACATACATAAAATGGAAGGAAGAATGATGGACTTTGAAT
66 ACCGCCTTCATACATACATAAAATGGAAGGAAGAAGGATGGACTTTGAAT
* *
14150369 ATTTTTTGAATAAATGAGACAAAATACAATCCAACTCCTTGTACAAGGGTCTCCATGGTACTTTT
1 ATTTTTTGAATAAATGAGACAAAATACAATCCAACTCCTTCTACAAAGGTCTCCATGGTACTTTT
* *
14150434 ACCGCCTTGATACATGCATAAAATGGAAGGAAGAAGGATGGACTTTGAAT
66 ACCGCCTTCATACATACATAAAATGGAAGGAAGAAGGATGGACTTTGAAT
14150484 ATT
1 ATT
14150487 GAATTTACTT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
115 105 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (115 bp):
ATTTTTTGAATAAATGAGACAAAATACAATCCAACTCCTTCTACAAAGGTCTCCATGGTACTTTT
ACCGCCTTCATACATACATAAAATGGAAGGAAGAAGGATGGACTTTGAAT
Found at i:14154564 original size:20 final size:20
Alignment explanation
Indices: 14154541--14154579 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14154531 CAAATACTAT
14154541 AAAAAATAGAAAAATTAAAG
1 AAAAAATAGAAAAATTAAAG
** *
14154561 AAAAGTTATAAAAATTAAA
1 AAAAAATAGAAAAATTAAA
14154580 AATTATTGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAAAATAGAAAAATTAAAG
Found at i:14154816 original size:21 final size:19
Alignment explanation
Indices: 14154792--14154834 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
14154782 TTCATGTCCC
14154792 TATTTTACAATTTTTAAAACA
1 TATTTT-CAA-TTTTAAAACA
* *
14154813 TATTTTTAATTTTAAAATA
1 TATTTTCAATTTTAAAACA
14154832 TAT
1 TAT
14154835 AAAATAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTCAATTTTAAAACA
Found at i:14154905 original size:41 final size:41
Alignment explanation
Indices: 14154844--14154926 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
14154834 TAAAATAAAC
* * * *
14154844 TTAGTTTTTAGATATTTTTAATTATTGAATAGTGAATTGGA
1 TTAGTTTCTAAATATGTTTAATTATTGAATAGTAAATTGGA
14154885 TTAGTTTCTAAATATGTTTAATTATTGAATAGTAAATTGGA
1 TTAGTTTCTAAATATGTTTAATTATTGAATAGTAAATTGGA
14154926 T
1 T
14154927 CGGTCCATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (41 bp):
TTAGTTTCTAAATATGTTTAATTATTGAATAGTAAATTGGA
Found at i:14155823 original size:16 final size:16
Alignment explanation
Indices: 14155802--14155837 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
14155792 TTTGGTTCGC
14155802 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14155818 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14155834 TGTA
1 TGTA
14155838 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14156078 original size:18 final size:18
Alignment explanation
Indices: 14156057--14156104 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
14156047 TTATTATTAA
14156057 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
14156075 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
14156092 -TAT-TAATAATTAA
1 ATATATTATAATTAA
14156105 TATTCCTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:14156085 original size:14 final size:15
Alignment explanation
Indices: 14156046--14156087 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14156036 TTTAAACGTA
*
14156046 ATTATTATTAAATAT
1 ATTATAATTAAATAT
14156061 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
14156075 A-TATAATTTAATA
1 ATTATAATTAAATA
14156088 AAATTATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:14156196 original size:16 final size:17
Alignment explanation
Indices: 14156175--14156211 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
14156165 GATTAATATT
14156175 AAATATA-G-TTTAATTA
1 AAATATATGATTTAA-TA
14156191 AAATATATGATTTAATA
1 AAATATATGATTTAATA
14156208 AAAT
1 AAAT
14156212 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:14156282 original size:26 final size:28
Alignment explanation
Indices: 14156253--14156313 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
14156243 TATGGATTTG
*
14156253 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
14156279 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
14156307 TAAAATT
1 TATAATT
14156314 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:14156315 original size:91 final size:89
Alignment explanation
Indices: 14156219--14156435 Score: 299
Period size: 91 Copynumber: 2.4 Consensus size: 89
14156209 AATTTAAAAT
* * * * *
14156219 AATTATAACTAATAAATTATCTTATATGGATTTGTATAATTTAAAATAATTATTATTACATATAA
1 AATTATAA-TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
14156284 TTTAATAATAATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
*
14156310 AATTATTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
1 AATTA-TAATAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAA
*
14156375 TTTAATAATGATATATAATTTCATAA
64 TTTAATAATAATATATAATTTCATAA
*
14156401 AATTCTTAATAATAAAATGTTCTTATATGAATTTA
1 AATT-ATAATAAT-AAAT-TTCTTATATGAATTTA
14156436 CTAAAATCAA
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
91 89 0.79
92 23 0.21
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (89 bp):
AATTATAATAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATT
TAATAATAATATATAATTTCATAA
Found at i:14156316 original size:44 final size:43
Alignment explanation
Indices: 14156253--14156395 Score: 130
Period size: 44 Copynumber: 3.2 Consensus size: 43
14156243 TATGGATTTG
14156253 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAATAATA
* **
14156297 TATAATTTCATAA-AATTATTGA-TAATA-AATTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAATATAA-TTTAATA-AT-AA--TA
* * *
14156344 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAATAATA
14156388 TATAATTT
1 TATAATTT
14156396 CATAAAATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
42 2 0.03
43 8 0.10
44 28 0.36
45 6 0.08
46 5 0.06
47 18 0.23
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATAATA
Found at i:14156410 original size:47 final size:47
Alignment explanation
Indices: 14156260--14156416 Score: 137
Period size: 47 Copynumber: 3.4 Consensus size: 47
14156250 TTGTATAATT
* * * * *
14156260 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
* * * *
14156307 TAAAATTATTGATAATAAAT-T--TTCTTAT-ATGAATTTATACAATT--
1 TAAAATTATTAATAATAAATATAATT-TAATAATG-ATATATA-ATTTCA
* *
14156351 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
*
14156398 TAAAATTCTTAATAATAAA
1 TAAAATTATTAATAATAAA
14156417 ATGTTCTTAT
Statistics
Matches: 83, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
44 21 0.25
45 13 0.16
46 13 0.16
47 36 0.43
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
TAAAATTATTAATAATAAATATAATTTAATAATGATATATAATTTCA
Found at i:14159577 original size:40 final size:40
Alignment explanation
Indices: 14159529--14159604 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
14159519 TATTTTGTGG
14159529 ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTTGTCT
1 ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTTGTCT
14159569 ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTT
1 ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTT
14159605 TGACATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (40 bp):
ATAAATAGTTGTTAAATTCAATTTGTAAAGGACTTTGTCT
Found at i:14159917 original size:21 final size:21
Alignment explanation
Indices: 14159891--14159934 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
14159881 CTCTTTAATA
14159891 CCATACCATTTCATACCAATT
1 CCATACCATTTCATACCAATT
**
14159912 CCATACCATTTTGTACCAATT
1 CCATACCATTTCATACCAATT
14159933 CC
1 CC
14159935 CAAATACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.34, G:0.02, T:0.34
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:14162063 original size:15 final size:15
Alignment explanation
Indices: 14162043--14162072 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14162033 TATCCATCCG
14162043 TTTTTTAAATATAAT
1 TTTTTTAAATATAAT
*
14162058 TTTTTTAATTATAAT
1 TTTTTTAAATATAAT
14162073 AATTAACGTA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTAAATATAAT
Found at i:14165693 original size:21 final size:23
Alignment explanation
Indices: 14165669--14165711 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
14165659 TCGACACCAC
14165669 ATTA-AATTTC-TCATACATAGT
1 ATTATAATTTCATCATACATAGT
*
14165690 ATTATTATTTTCATCATACATA
1 ATTA-TAATTTCATCATACATA
14165712 CATAGATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
23 5 0.28
24 9 0.50
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTATAATTTCATCATACATAGT
Found at i:14167096 original size:15 final size:15
Alignment explanation
Indices: 14167076--14167108 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
14167066 AGTATGAAAA
14167076 AAAAAT-ACAAACATT
1 AAAAATAACAAA-ATT
14167091 AAAAATAACAAAATT
1 AAAAATAACAAAATT
14167106 AAA
1 AAA
14167109 TTTGTAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAATAACAAAATT
Found at i:14168819 original size:18 final size:18
Alignment explanation
Indices: 14168774--14168819 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
14168764 CTATTTCTTC
14168774 TCTTCTTTCCTTTGTCCTT
1 TCTT-TTTCCTTTGTCCTT
14168793 T-TTTCTTCCTTT-TCCTCT
1 TCTTT-TTCCTTTGTCCT-T
14168811 TCTTTTTCC
1 TCTTTTTCC
14168820 CCTCACTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 5 0.21
18 15 0.62
19 4 0.17
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (18 bp):
TCTTTTTCCTTTGTCCTT
Found at i:14171125 original size:45 final size:45
Alignment explanation
Indices: 14171075--14171234 Score: 203
Period size: 45 Copynumber: 3.6 Consensus size: 45
14171065 ATACGCCAAG
* *
14171075 ATGAGTAAGACCATAGCTGAAAGATGCTATGACGTCATGATAAAA
1 ATGAGTAAGACCATAGCTGAAAGACGCTATGACATCATGATAAAA
* ** * *
14171120 ATGAGTAAGACTATAGCTGAAAGACAATATGGCATCATGACAAAA
1 ATGAGTAAGACCATAGCTGAAAGACGCTATGACATCATGATAAAA
* *
14171165 ATGAGTAATACCATAGCTGAAAGACGCTATGACATCATGGTAAAA
1 ATGAGTAAGACCATAGCTGAAAGACGCTATGACATCATGATAAAA
* * **
14171210 AGGACTAAGAAAATAGCTGAAAGAC
1 ATGAGTAAGACCATAGCTGAAAGAC
14171235 TTTATGGAAT
Statistics
Matches: 96, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 96 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTGAAAGACGCTATGACATCATGATAAAA
Found at i:14180891 original size:17 final size:17
Alignment explanation
Indices: 14180869--14180901 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14180859 AAACACAAAA
14180869 AATTAAACATAGTAAGC
1 AATTAAACATAGTAAGC
*
14180886 AATTAAACTTAGTAAG
1 AATTAAACATAGTAAG
14180902 TTCGTATAAC
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:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (17 bp):
AATTAAACATAGTAAGC
Found at i:14184400 original size:39 final size:40
Alignment explanation
Indices: 14184352--14184462 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
14184342 TTCCAAAAAA
* ***
14184352 CGCCACTAATGCTC-ATTTTTAGCGGC-TCTTTTTTTAAAG
1 CGCCGCTAATGCTCAATTTTTAGCGGCAT-TTTACGTAAAG
* * * * *
14184391 CGCTGCTAATGCTCGATCTTTAGCAGCATTTTACGTAATG
1 CGCCGCTAATGCTCAATTTTTAGCGGCATTTTACGTAAAG
*
14184431 CGCCGCTAATGCTCAATTTTTAGCGGCGTTTT
1 CGCCGCTAATGCTCAATTTTTAGCGGCATTTT
14184463 TTGTTCAAAC
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
39 12 0.21
40 44 0.77
41 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (40 bp):
CGCCGCTAATGCTCAATTTTTAGCGGCATTTTACGTAAAG
Found at i:14186657 original size:40 final size:39
Alignment explanation
Indices: 14186590--14186696 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 39
14186580 GATAAAGCAG
* * * *
14186590 GAAAACGCTTCCTCGAGGTAGCGCTTTGTCTACGTGGAC
1 GAAAACGCTTCCTTGAGGAAGCACTTTGTCCACGTGGAC
**
14186629 AGAAAACGCTTCCTTGAGGGCGCACTTTGTGTCCACGTGGAC
1 -GAAAACGCTTCCTTGAGGAAGCAC-TT-TGTCCACGTGGAC
*
14186671 -AAAGCGCTTCCTTGAGGAAGCACTTT
1 GAAAACGCTTCCTTGAGGAAGCACTTT
14186697 CCCCGTTTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 40 0.70
41 2 0.04
42 12 0.21
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
GAAAACGCTTCCTTGAGGAAGCACTTTGTCCACGTGGAC
Found at i:14187543 original size:98 final size:97
Alignment explanation
Indices: 14187421--14187689 Score: 443
Period size: 98 Copynumber: 2.8 Consensus size: 97
14187411 TAACAACTAG
* *
14187421 ATTTATTTGA-TTTTTCCTTAAAAACCCTAAATACTAAACCCCAATCTAATTTTTTAAAAATTTA
1 ATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTA
*
14187485 TAATTAATTTGCTCAAGTAACCCTAAACCCTA
66 TAATTAATTTACTCAAGTAACCCTAAACCCTA
* * *
14187517 ATTTATTTGATTTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATATAATTTTTAAAAAAATT
1 ATTTATTTGA-TTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTT
14187582 ATAATTAATTTACTCAAGTAACCCTAAACCCTA
65 ATAATTAATTTACTCAAGTAACCCTAAACCCTA
* *
14187615 ATTTATTTGATTTTTTCCTTAAAAACCATAAACATTAAACCCTAATCTAATTTTTT-AAAATTTA
1 ATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTA
14187679 TAATTAATTTA
66 TAATTAATTTA
14187690 ATTAAGAAAC
Statistics
Matches: 160, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
96 28 0.17
97 42 0.26
98 90 0.56
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.41
Consensus pattern (97 bp):
ATTTATTTGATTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAATTTTTTAAAAATTTA
TAATTAATTTACTCAAGTAACCCTAAACCCTA
Found at i:14187910 original size:40 final size:41
Alignment explanation
Indices: 14187853--14187934 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
14187843 GAAAGCGCTT
14187853 TGTCCACGTGGACACAAAGCGCGCCCTCAAGGAAGCGTTTTC
1 TGTCCACGTGGA-ACAAAGCGCGCCCTCAAGGAAGCGTTTTC
** **
14187895 TGTCCACGTGG-ACAAAGCGCTTCCTTGAGGAAGCGTTTTC
1 TGTCCACGTGGAACAAAGCGCGCCCTCAAGGAAGCGTTTTC
14187935 CTGCTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 25 0.69
42 11 0.31
ACGTcount: A:0.22, C:0.28, G:0.27, T:0.23
Consensus pattern (41 bp):
TGTCCACGTGGAACAAAGCGCGCCCTCAAGGAAGCGTTTTC
Found at i:14194038 original size:16 final size:16
Alignment explanation
Indices: 14194017--14194047 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14194007 CATGTTAGAA
14194017 AATATAAATTTGAAAC
1 AATATAAATTTGAAAC
*
14194033 AATATATATTTGAAA
1 AATATAAATTTGAAA
14194048 ACTTTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
AATATAAATTTGAAAC
Found at i:14194219 original size:27 final size:27
Alignment explanation
Indices: 14194177--14194238 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
14194167 TAGATTTTTT
*
14194177 TAAA-TTTATAATTTTTAAAAAAATTA
1 TAAATTTTAGAATTTTTAAAAAAATTA
* * *
14194203 TAAATTTTAGAATTTTTATAAATATTT
1 TAAATTTTAGAATTTTTAAAAAAATTA
*
14194230 TGAATTTTA
1 TAAATTTTA
14194239 AAAATTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.13
27 26 0.87
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
TAAATTTTAGAATTTTTAAAAAAATTA
Found at i:14194238 original size:18 final size:19
Alignment explanation
Indices: 14194200--14194237 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14194190 TTTAAAAAAA
*
14194200 TTATAAAT-TTTAGAATTT
1 TTATAAATATTTTGAATTT
14194218 TTATAAATATTTTGAATTT
1 TTATAAATATTTTGAATTT
14194237 T
1 T
14194238 AAAAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTATAAATATTTTGAATTT
Found at i:14194243 original size:18 final size:21
Alignment explanation
Indices: 14194206--14194249 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
14194196 AAAATTATAA
*
14194206 ATTTTAGAATTTTTATAAA-T
1 ATTTTAGAATTTTTAAAAATT
14194226 ATTTT-GAA-TTTTAAAAATT
1 ATTTTAGAATTTTTAAAAATT
14194245 ATTTT
1 ATTTT
14194250 CAAAATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTAGAATTTTTAAAAATT
Found at i:14196245 original size:69 final size:67
Alignment explanation
Indices: 14196172--14196385 Score: 207
Period size: 69 Copynumber: 3.1 Consensus size: 67
14196162 TTAAACTTAA
* **
14196172 TATTATTTTAGTTTTATTATTAATATTGTTTAATTTATTGTATATTATTATCTTAGATTTATCAT
1 TATTATTTTAATTTTATTATTAATATT-TTTAATTTATCATATATTATTAT-TTAGATTTATCAT
*
14196237 GCAT
64 GTAT
* * * * ** *
14196241 TATTATTTGTAATTTATCAATATTATTATTTTAAATTCATCAT-TAACATTATTTAAATTTATCA
1 TATTATTT-TAATTT-T-ATTATTAATATTTTTAATTTATCATATATTATTATTTAGATTTATCA
14196305 TGTA-
63 TGTAT
* * *
14196309 TATTTATTTTAAATTTATCATTAATATTTTTAAATTTATCATATATTATTATTTTGAATTTATCA
1 TA-TTATTTTAATTTTATTATTAATATTTTT-AATTTATCATATATTATTATTTAG-ATTTATCA
*
14196374 CGTAT
63 TGTAT
14196379 TATTATT
1 TATTATT
14196386 ATTAGAATAA
Statistics
Matches: 115, Mismatches: 22, Indels: 16
0.75 0.14 0.10
Matches are distributed among these distances:
66 11 0.10
67 10 0.09
68 16 0.14
69 44 0.38
70 14 0.12
71 10 0.09
72 10 0.09
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (67 bp):
TATTATTTTAATTTTATTATTAATATTTTTAATTTATCATATATTATTATTTAGATTTATCATGT
AT
Found at i:14196316 original size:46 final size:45
Alignment explanation
Indices: 14196172--14196373 Score: 185
Period size: 45 Copynumber: 4.4 Consensus size: 45
14196162 TTAAACTTAA
** * * **
14196172 TATTATTTTAGTTTTATTATTAATATTGTTT-AATTTATTGTATAT
1 TATTATTTTAAATTTATCATTAACATT-TTTAAATTTATCATATAT
* * * ** *
14196217 TATTATCTTAGATTTATCATGCATTATTATTTGTAATTTATCA-ATAT
1 TATTATTTTAAATTTATCAT-TAACATT-TTT-AAATTTATCATATAT
* *
14196264 TATTATTTTAAATTCATCATTAACATTATTTAAATTTATCATGTA-
1 TATTATTTTAAATTTATCATTAACATT-TTTAAATTTATCATATAT
*
14196309 TATTTATTTTAAATTTATCATTAATATTTTTAAATTTATCATATAT
1 TA-TTATTTTAAATTTATCATTAACATTTTTAAATTTATCATATAT
*
14196355 TATTATTTTGAATTTATCA
1 TATTATTTTAAATTTATCA
14196374 CGTATTATTA
Statistics
Matches: 131, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
45 60 0.46
46 43 0.33
47 21 0.16
48 7 0.05
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.57
Consensus pattern (45 bp):
TATTATTTTAAATTTATCATTAACATTTTTAAATTTATCATATAT
Found at i:14196321 original size:24 final size:25
Alignment explanation
Indices: 14196171--14196385 Score: 155
Period size: 24 Copynumber: 9.3 Consensus size: 25
14196161 TTTAAACTTA
** *
14196171 ATATTATTTTAGTTTTATTAT-TA-
1 ATATTATTTTAAATTTATCATGTAT
*
14196194 ATATT-GTTT-AATTTAT--TGTAT
1 ATATTATTTTAAATTTATCATGTAT
* * *
14196215 ATTATTATCTTAGATTTATCATGCAT
1 A-TATTATTTTAAATTTATCATGTAT
*
14196241 -TATTATTTGT-AATTTATCA-ATAT
1 ATATTATTT-TAAATTTATCATGTAT
*
14196264 -TATTATTTTAAATTCATCAT-TA-
1 ATATTATTTTAAATTTATCATGTAT
*
14196286 ACATTA-TTTAAATTTATCATGTAT
1 ATATTATTTTAAATTTATCATGTAT
14196310 AT-TTATTTTAAATTTATCAT-TA-
1 ATATTATTTTAAATTTATCATGTAT
*
14196332 ATA-T-TTTTAAATTTATCATATAT
1 ATATTATTTTAAATTTATCATGTAT
* *
14196355 -TATTATTTTGAATTTATCACGTAT
1 ATATTATTTTAAATTTATCATGTAT
14196379 -TATTATT
1 ATATTATT
14196386 ATTAGAATAA
Statistics
Matches: 155, Mismatches: 18, Indels: 37
0.74 0.09 0.18
Matches are distributed among these distances:
19 1 0.01
20 2 0.01
21 21 0.14
22 28 0.18
23 39 0.25
24 59 0.38
25 1 0.01
26 4 0.03
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (25 bp):
ATATTATTTTAAATTTATCATGTAT
Found at i:14196350 original size:114 final size:114
Alignment explanation
Indices: 14196228--14196440 Score: 274
Period size: 114 Copynumber: 1.9 Consensus size: 114
14196218 ATTATCTTAG
* * *
14196228 ATTTATCATGCATTATTA-TTTGTAATTTATCA-ATATTATTATT-TTA-AATTCATCATTAACA
1 ATTTATCATACATTATTATTTTG-AATTTATCACATATTATTATTATTAGAA-TAATCATCAA-A
*
14196289 TTATTTAAATTTATCATGTA-TATTTATTTTAAATTTATCATTAATATTTTTAA
63 TT-TTTAAATTTATCATGTATTA-TTATTTCAAATTTATCATTAATATTTTTAA
* * *
14196342 ATTTATCATATATTATTATTTTGAATTTATCACGTATTATTATTATTAGAATAATCATCCAATTT
1 ATTTATCATACATTATTATTTTGAATTTATCACATATTATTATTATTAGAATAATCATCAAATTT
*
14196407 TTAAATTTATTATGTATTATTATTTCAAATTTAT
66 TTAAATTTATCATGTATTATTATTTCAAATTTAT
14196441 TATATATTGT
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
114 55 0.64
115 19 0.22
116 10 0.12
117 2 0.02
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (114 bp):
ATTTATCATACATTATTATTTTGAATTTATCACATATTATTATTATTAGAATAATCATCAAATTT
TTAAATTTATCATGTATTATTATTTCAAATTTATCATTAATATTTTTAA
Found at i:14196436 original size:24 final size:23
Alignment explanation
Indices: 14196195--14196462 Score: 162
Period size: 24 Copynumber: 11.6 Consensus size: 23
14196185 TTATTATTAA
* **
14196195 TATTGTTT-AATTTATTGTATAT
1 TATTATTTAAATTTATCATATAT
* **
14196217 TATTATCTTAGATTTATCATGCAT
1 TATTAT-TTAAATTTATCATATAT
*
14196241 TATTATTTGTAATTTATCA-ATAT
1 TATTATTT-AAATTTATCATATAT
* *
14196264 TATTATTTTAAATTCATCAT-TAA
1 TATTA-TTTAAATTTATCATATAT
* *
14196287 CATTATTTAAATTTATCATGTA-
1 TATTATTTAAATTTATCATATAT
*
14196309 TATTTATTTTAAATTTATCAT-TAA
1 TA-TTA-TTTAAATTTATCATATAT
14196333 TATT-TTTAAATTTATCATATAT
1 TATTATTTAAATTTATCATATAT
*
14196355 TATTATTTTGAATTTATCACGTATTAT
1 TATTA-TTTAAATTTATCA--TA-TAT
* **
14196382 TATTA-TTAGAA-TAATCATCCA-
1 TATTATTTA-AATTTATCATATAT
* *
14196403 -ATT-TTTAAATTTATTATGTAT
1 TATTATTTAAATTTATCATATAT
*
14196424 TATTATTTCAAATTTATTATATAT
1 TATTATTT-AAATTTATCATATAT
*
14196448 TGTTTATTGTAAATT
1 T-ATTATT-TAAATT
14196463 ACTCTATTCA
Statistics
Matches: 194, Mismatches: 28, Indels: 45
0.73 0.10 0.17
Matches are distributed among these distances:
19 2 0.01
20 12 0.06
21 14 0.07
22 29 0.15
23 38 0.20
24 69 0.36
25 17 0.09
26 5 0.03
27 8 0.04
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (23 bp):
TATTATTTAAATTTATCATATAT
Found at i:14200318 original size:19 final size:18
Alignment explanation
Indices: 14200263--14200325 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 18
14200253 TAATAATGAT
14200263 TAAAT-TATTTTATTATA
1 TAAATATATTTTATTATA
*
14200280 TAAAAATATTTTA--A-A
1 TAAATATATTTTATTATA
14200295 T--ATATATTTTATTAGTA
1 TAAATATATTTTATTA-TA
14200312 TAAATATAATTTTA
1 TAAATAT-ATTTTA
14200326 ATTCTTACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
13 9 0.25
15 3 0.08
16 1 0.03
17 6 0.17
18 7 0.19
19 4 0.11
20 6 0.17
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TAAATATATTTTATTATA
Found at i:14200576 original size:13 final size:13
Alignment explanation
Indices: 14200558--14200582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14200548 TTAAACTCGT
14200558 ATACACATTTTTC
1 ATACACATTTTTC
14200571 ATACACATTTTT
1 ATACACATTTTT
14200583 AATTGAGTTT
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:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (13 bp):
ATACACATTTTTC
Found at i:14211303 original size:42 final size:42
Alignment explanation
Indices: 14211251--14211344 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
14211241 TGCACAGTTG
* * *
14211251 GCAGAAAAGCGCGTCCAGCTGAATGCGTTTTCCTTTGAGTAT
1 GCAGGAAAGCGCATCCAGCTGAATGCGTTTTCCTTTGAGCAT
*
14211293 GCAGGAAAGCGTATCCAGCTGAATGCGTTTTCCTTTGAGCAT
1 GCAGGAAAGCGCATCCAGCTGAATGCGTTTTCCTTTGAGCAT
14211335 GCAGGAAAGC
1 GCAGGAAAGC
14211345 CTATCCAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (42 bp):
GCAGGAAAGCGCATCCAGCTGAATGCGTTTTCCTTTGAGCAT
Found at i:14211350 original size:42 final size:42
Alignment explanation
Indices: 14211264--14211351 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
14211254 GAAAAGCGCG
* *
14211264 TCCAGCTGAATGCGTTTTCCTTTGAGTATGCAGGAAAGCGTA
1 TCCAGCTGAATGCGTTTTCCTTTGAGCATGCAGGAAAGCCTA
14211306 TCCAGCTGAATGCGTTTTCCTTTGAGCATGCAGGAAAGCCTA
1 TCCAGCTGAATGCGTTTTCCTTTGAGCATGCAGGAAAGCCTA
14211348 TCCA
1 TCCA
14211352 ACTGGATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.30
Consensus pattern (42 bp):
TCCAGCTGAATGCGTTTTCCTTTGAGCATGCAGGAAAGCCTA
Found at i:14214951 original size:18 final size:18
Alignment explanation
Indices: 14214923--14214957 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
14214913 TATGAATGAC
14214923 ATTTGAATTTGAATTTTTT
1 ATTTGAATTTG-ATTTTTT
14214942 ATTT-AATTTGATTTTT
1 ATTTGAATTTGATTTTT
14214958 GAATGGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (18 bp):
ATTTGAATTTGATTTTTT
Found at i:14217614 original size:18 final size:18
Alignment explanation
Indices: 14217591--14217626 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
14217581 GTCGATGGTA
14217591 GGTTGTAT-TTTTGTAATG
1 GGTTGTATGTTTTG-AATG
14217609 GGTTGTATGTTTTGAATG
1 GGTTGTATGTTTTGAATG
14217627 ATTTGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.53
Consensus pattern (18 bp):
GGTTGTATGTTTTGAATG
Found at i:14219213 original size:201 final size:201
Alignment explanation
Indices: 14218868--14219229 Score: 564
Period size: 201 Copynumber: 1.8 Consensus size: 201
14218858 AGTAAGCCCG
** *
14218868 TATTAATTATTATTTAATTCATATGAGTTGATTATATTATTATAGTAAATTTTTATTAGATAAAT
1 TATTAATTATTATTTAATTCATACAAGTTGATTATATTATTATAGTAAATTTTGATTAGATAAAT
* * ** *
14218933 TGTAGTTTATTGAACAAATAGATTAGTATAGTGGTTTTTTTCGTAAGTCAAGTGATTTTTTGAAA
66 TGTAATTTATTGAACAAATAGATTAGTATAGTGGTTTGTCCCGTAAGTCAAGTGATTTTTCGAAA
*
14218998 TGAGGTATTGAGACCTCGTTTATGTAAACTGAGGTCGTAAATAATTTTATTAAATAGTTTTTTTA
131 TGAGGTATTGAGACCTCATTTATGTAAACTGAGGTCGTAAATAATTTTATTAAATAGTTTTTTTA
14219063 AGTCGA
196 AGTCGA
* * * *
14219069 TATTAATTATTATTTAATTCATACAAGTTGGTTATATTTTTATATTTAATTTTGATTAGATAAAT
1 TATTAATTATTATTTAATTCATACAAGTTGATTATATTATTATAGTAAATTTTGATTAGATAAAT
* *
14219134 TTTAATTTATTGAACAAATAGTTTAGTATAGTGGTTTGTCCCGTAAGTCAAGT-AGTTTTTCGAA
66 TGTAATTTATTGAACAAATAGATTAGTATAGTGGTTTGTCCCGTAAGTCAAGTGA-TTTTTCGAA
*
14219198 ATGAGGTATTGAGACCTCATTTCTGTAAACTG
130 ATGAGGTATTGAGACCTCATTTATGTAAACTG
14219230 GGACCATAAA
Statistics
Matches: 144, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
200 1 0.01
201 143 0.99
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (201 bp):
TATTAATTATTATTTAATTCATACAAGTTGATTATATTATTATAGTAAATTTTGATTAGATAAAT
TGTAATTTATTGAACAAATAGATTAGTATAGTGGTTTGTCCCGTAAGTCAAGTGATTTTTCGAAA
TGAGGTATTGAGACCTCATTTATGTAAACTGAGGTCGTAAATAATTTTATTAAATAGTTTTTTTA
AGTCGA
Found at i:14222585 original size:16 final size:16
Alignment explanation
Indices: 14222539--14222589 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
14222529 CTATAGAAAG
* *
14222539 TTCCATCCTTCTAGTT
1 TTCCATCCTTCCAATT
*
14222555 TTCTATACCTT-CAATT
1 TTCCAT-CCTTCCAATT
14222571 TTCCATCCTTCCAATT
1 TTCCATCCTTCCAATT
14222587 TTC
1 TTC
14222590 TTTCCACTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.18, C:0.31, G:0.02, T:0.49
Consensus pattern (16 bp):
TTCCATCCTTCCAATT
Found at i:14224528 original size:21 final size:21
Alignment explanation
Indices: 14224498--14224586 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
14224488 CTCACAAAGA
*
14224498 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTGACTTAGAC
* * *
14224518 AAAAAGAGAAGCGACTTGGGC
1 AAAAAGAGAAGTGACTTAGAC
* *
14224539 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTGACTTAGAC
14224560 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTGACTTAGAC
14224584 AAA
1 AAA
14224587 TCTTTTTTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 6 0.11
21 34 0.61
23 1 0.02
24 15 0.27
ACGTcount: A:0.52, C:0.10, G:0.26, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTGACTTAGAC
Found at i:14229569 original size:26 final size:26
Alignment explanation
Indices: 14229540--14229623 Score: 98
Period size: 26 Copynumber: 3.2 Consensus size: 26
14229530 GCCAACACAC
14229540 CAGTATCGCAGTAAAGCTGCCAGTAA
1 CAGTATCGCAGTAAAGCTGCCAGTAA
* * *
14229566 CAGTATCGCAGCAAAGTTGCCAATAA
1 CAGTATCGCAGTAAAGCTGCCAGTAA
* * *
14229592 CAGTATTGCA-TCAAAGCTTCTAGTAA
1 CAGTATCGCAGT-AAAGCTGCCAGTAA
14229618 CAGTAT
1 CAGTAT
14229624 ACTTCCTCAT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (26 bp):
CAGTATCGCAGTAAAGCTGCCAGTAA
Found at i:14232745 original size:271 final size:269
Alignment explanation
Indices: 14232243--14232770 Score: 744
Period size: 271 Copynumber: 2.0 Consensus size: 269
14232233 AAGTATAGGG
*
14232243 AGGTATATTTCCTAACCTTCCACTCAAAAAATCTAAATCTGAGTAGTATTTAGCTTTCAAAGTAC
1 AGGTATATTTCCTAACATTCCACTCAAAAAATCTAAATCTGAGTAGTATTTAGCTTTCAAAGTAC
14232308 GTGCAAGTAATAAATTGGGAAAATTAATCAACCTCCAAACTTATTTTGCAAATAAAGATAAATTG
66 GTGCAAGTAATAAATTGGGAAAATTAATCAACCTCCAAACTTATTTTGCAAATAAAGATAAATTG
* *
14232373 AATTTAGCTAAACTGCAAAAACCCAAACTCCCATTTTCCTTCAATTGACATAACTTCCTCCATTC
131 AATTTAGCTAAACTACAAAAACCCAAACTCCCATTTTCCTTCAATTCACATAACTTCCTCCATTC
* *
14232438 GCACAAATGAATTCCCCTCTTACCATGACATTTTTGCCCATAAAAAATTC-TCACAAATACTCTT
196 ACACAAATGAATTCCCCTC-TACCATGACATTTTTG-CCACAAAAAATTCAT-ACAAATACTCTT
14232502 TCAGGGATAAAA
258 TCAGGGATAAAA
* * *
14232514 AGGTATATTTCCTAACATTGCATTCATAAAATCTAAATCT-AGGTAGTATTTAGCTTTCAAAGTA
1 AGGTATATTTCCTAACATTCCACTCAAAAAATCTAAATCTGA-GTAGTATTTAGCTTTCAAAGTA
* * * * *
14232578 CTTGCAAGTAATGAATTGGGAAAATTAATCAACCTCCTCCAACCTTGTTTTGCAAGTAAAGATAA
65 CGTGCAAGTAATAAATTGGGAAAATTAATCAA---CCTCCAAACTTATTTTGCAAATAAAGATAA
* * *
14232643 ATTGATTTTAGCTAAACTACGAAAACCCAAAC-CCCTATTTTCCTTCAATTCACATAACTTCCTT
127 ATTGAATTTAGCTAAACTACAAAAACCCAAACTCCC-ATTTTCCTTCAATTCACATAACTTCCTC
* * * * *
14232707 CATTCACACCAATGTA-TCCCACTC-A-TATGACCTTTTTGCCACCAAAAATTCATACAAATACT
191 CATTCACACAAATGAATTCCC-CTCTACCATGACATTTTTGCCACAAAAAATTCATACAAATACT
14232769 CT
255 CT
14232771 CCATTTCATG
Statistics
Matches: 229, Mismatches: 21, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
270 23 0.10
271 100 0.44
272 1 0.00
273 7 0.03
274 98 0.43
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (269 bp):
AGGTATATTTCCTAACATTCCACTCAAAAAATCTAAATCTGAGTAGTATTTAGCTTTCAAAGTAC
GTGCAAGTAATAAATTGGGAAAATTAATCAACCTCCAAACTTATTTTGCAAATAAAGATAAATTG
AATTTAGCTAAACTACAAAAACCCAAACTCCCATTTTCCTTCAATTCACATAACTTCCTCCATTC
ACACAAATGAATTCCCCTCTACCATGACATTTTTGCCACAAAAAATTCATACAAATACTCTTTCA
GGGATAAAA
Found at i:14239749 original size:28 final size:28
Alignment explanation
Indices: 14239594--14239741 Score: 129
Period size: 28 Copynumber: 5.1 Consensus size: 28
14239584 TTTTATTTGT
* * * *
14239594 TTAGGGTTTATGGTTTTGGAGAAAATAAT
1 TTAGGGTTTATAGTTTT-TAAAAAATAAA
*
14239623 TTAAGGTTTA-AGGTTTTTAAAAAATAAA
1 TTAGGGTTTATA-GTTTTTAAAAAATAAA
** *
14239651 TTAAAGTTTATGGCTTTTCTAAAATAAATTAAA
1 TTAGGGTTTATAG-TTTT-T-AAA-AAA-TAAA
*
14239684 TTAGGGTTTATTGTTTTTAAAAAATAAA
1 TTAGGGTTTATAGTTTTTAAAAAATAAA
14239712 TTAGGGTTTATAGATTTTT-AAAAATAAA
1 TTAGGGTTTATAG-TTTTTAAAAAATAAA
14239740 TT
1 TT
14239742 TGTGTTTAGG
Statistics
Matches: 100, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
28 45 0.45
29 26 0.26
30 4 0.04
31 4 0.04
32 7 0.07
33 14 0.14
ACGTcount: A:0.40, C:0.01, G:0.16, T:0.43
Consensus pattern (28 bp):
TTAGGGTTTATAGTTTTTAAAAAATAAA
Found at i:14240111 original size:25 final size:25
Alignment explanation
Indices: 14240089--14240145 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
14240079 GATAAATTAG
*
14240089 AGAAGTTTAGAAGAATAGAAATTGA
1 AGAAGTTCAGAAGAATAGAAATTGA
*
14240114 AGAAGTTCAGAAGAATATAAATTGA
1 AGAAGTTCAGAAGAATAGAAATTGA
14240139 AGAAGTT
1 AGAAGTT
14240146 GATAAGGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.25
Consensus pattern (25 bp):
AGAAGTTCAGAAGAATAGAAATTGA
Found at i:14243320 original size:59 final size:59
Alignment explanation
Indices: 14243143--14243334 Score: 239
Period size: 61 Copynumber: 3.2 Consensus size: 59
14243133 TCTATTGCCT
* *
14243143 TATTCAAAAGAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAA-TT-TACCATTAAAA
1 TATT-AAAAAAACTTCTATTTTATTAAATA-GACAAAATATAAAAATAATTTGTA-CA--AATA
* *
14243205 TATTAAAACAACTTCTATTTTATTAAATAGGACAAATTATAAAAATAATTTGTACAAATA
1 TATTAAAAAAACTTCTATTTTATTAAATA-GACAAAATATAAAAATAATTTGTACAAATA
*
14243265 TATTCAAAAAAACTTCTATTTTATTAAAT-GA-AACAATATAAAAACAATTTGTACAAATA
1 TATT-AAAAAAACTTCTATTTTATTAAATAGACAA-AATATAAAAATAATTTGTACAAATA
14243324 TATTAAAAAAA
1 TATTAAAAAAA
14243335 TAATGCATGT
Statistics
Matches: 120, Mismatches: 6, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
58 9 0.08
59 29 0.24
60 7 0.06
61 65 0.54
62 8 0.07
63 2 0.02
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (59 bp):
TATTAAAAAAACTTCTATTTTATTAAATAGACAAAATATAAAAATAATTTGTACAAATA
Found at i:14243709 original size:18 final size:18
Alignment explanation
Indices: 14243686--14243723 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14243676 GGAAAAAGAA
*
14243686 ACATATAAGGGTTAGGAT
1 ACATATAAGGGATAGGAT
14243704 ACATATAAGGGATAGGAT
1 ACATATAAGGGATAGGAT
14243722 AC
1 AC
14243724 GCACCTAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGATAGGAT
Found at i:14245552 original size:11 final size:11
Alignment explanation
Indices: 14245490--14245553 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
14245480 AGAGAGCTTT
14245490 AAGAAATTTAG
1 AAGAAATTTAG
14245501 AGAGAAATTT-G
1 A-AGAAATTTAG
***
14245512 AGAGCTTTTTA-
1 A-AGAAATTTAG
14245523 AAGAAATTTAG
1 AAGAAATTTAG
*
14245534 ATAGAAATTTGG
1 A-AGAAATTTAG
14245546 AAGAAATT
1 AAGAAATT
14245554 AAAGGAAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
10 6 0.14
11 18 0.43
12 18 0.43
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (11 bp):
AAGAAATTTAG
Found at i:14250119 original size:42 final size:42
Alignment explanation
Indices: 14250006--14250175 Score: 121
Period size: 43 Copynumber: 4.0 Consensus size: 42
14249996 CAAAAAGCTC
* * * ***
14250006 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
* * * *
14250048 ATAACGATGCCACTGCCCCAGACAGGGTCTTACACAAAATCAT
1 AT-ACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
**
14250091 ATACGATGCCAATGTCCC-GAACATGGTCTTACATGTAAATCGCAA
1 ATACGATGCCAATGTCCCAG-ACATGGTCTTACA-CAAAAT--CAA
* ** *
14250136 AT-TGATGCCAACT-TCCCAGACGCGGTCTTACACAATATCA
1 ATACGATGCCAA-TGTCCCAGACATGGTCTTACACAAAATCA
14250176 CATATCAGAT
Statistics
Matches: 99, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
41 3 0.03
42 28 0.28
43 39 0.39
44 23 0.23
45 6 0.06
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACATGGTCTTACACAAAATCAA
Found at i:14250166 original size:86 final size:84
Alignment explanation
Indices: 14250006--14250175 Score: 195
Period size: 85 Copynumber: 2.0 Consensus size: 84
14249996 CAAAAAGCTC
*
14250006 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACGATGCCACTGCCCCAGAC
1 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAAT-ACGATGCCACTGCCCCAGAC
14250071 AGGGTCTTACACAAAATCAT
65 AGGGTCTTACACAAAATCAT
* * * *
14250091 ATACGATGCCAATGTCCC-GAACATGGTCTTACATGTAAATCGCAAAT-TGATGCCAACT-TCCC
1 ATACAATGCCAACGTCCCAG-ACATGGTCTTACATGT-AAT--CAAATACGATGCC-ACTGCCCC
*
14250153 AGAC-GCGGTCTTACACAATATCA
61 AGACAG-GGTCTTACACAAAATCA
14250176 CATATCAGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
84 1 0.01
85 32 0.44
86 32 0.44
87 3 0.04
88 5 0.07
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (84 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATACGATGCCACTGCCCCAGACA
GGGTCTTACACAAAATCAT
Found at i:14256519 original size:28 final size:28
Alignment explanation
Indices: 14256461--14256520 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
14256451 TACTGCATAA
*
14256461 TGTTACTGTATTGGGCTAAGGCCCACCT
1 TGTTACTGTATTGGGCTAAGGCCCACAT
* *
14256489 TGTTTCTGTATTGGGCTGAA-GCCTACAT
1 TGTTACTGTATTGGGCT-AAGGCCCACAT
14256517 TGTT
1 TGTT
14256521 CTATTCTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 26 0.93
29 2 0.07
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (28 bp):
TGTTACTGTATTGGGCTAAGGCCCACAT
Found at i:14266870 original size:31 final size:32
Alignment explanation
Indices: 14266830--14266892 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
14266820 GTATGCATTT
14266830 AATTAATTTTT-AAAATTAAAAAATTATATAAA
1 AATTAATTTTTAAAAATTAAAAAATTAT-TAAA
14266862 AATT-ATTTTTAAAAATTAAAAAATTATTAAA
1 AATTAATTTTTAAAAATTAAAAAATTATTAAA
14266893 GTCATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 10 0.33
32 20 0.67
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
AATTAATTTTTAAAAATTAAAAAATTATTAAA
Found at i:14268181 original size:23 final size:23
Alignment explanation
Indices: 14268155--14268217 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
14268145 ATTTTTAATT
14268155 TATTAAATAATAGATTTTTACAA
1 TATTAAATAATAGATTTTTACAA
* *
14268178 TATTAAA-AATATGCTTTTTACTA
1 TATTAAATAATA-GATTTTTACAA
*
14268201 -ATTAAATGATA-ATTTTT
1 TATTAAATAATAGATTTTT
14268218 CTAATTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 5 0.15
22 10 0.29
23 19 0.56
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (23 bp):
TATTAAATAATAGATTTTTACAA
Found at i:14268522 original size:63 final size:64
Alignment explanation
Indices: 14268446--14268572 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
14268436 TTATATAATC
* ** * *
14268446 GTCATTGTCATTTGAATATGTCTTGT-GTTTTCTTAAATTATTGCTTTAATGCTTTAATAAAAT
1 GTCATTATCATTTGAATATGAATTGTGGTTTTCTCAAATTATTACTTTAATGCTTTAATAAAAT
*
14268509 GTCATTATTATTTGAATATGAATTGTGGTTTTCTCAAATTATTACTTTAATGCTTTAATAAAAT
1 GTCATTATCATTTGAATATGAATTGTGGTTTTCTCAAATTATTACTTTAATGCTTTAATAAAAT
14268573 ATCTAATCCA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
63 22 0.39
64 35 0.61
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.50
Consensus pattern (64 bp):
GTCATTATCATTTGAATATGAATTGTGGTTTTCTCAAATTATTACTTTAATGCTTTAATAAAAT
Found at i:14268969 original size:26 final size:26
Alignment explanation
Indices: 14268935--14268989 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
14268925 AATATATTTA
14268935 TCATATGGGTTATAAGTTAAATTCAG
1 TCATATGGGTTATAAGTTAAATTCAG
* *
14268961 TCATGTGGGTTATAAGTTAAATTTAG
1 TCATATGGGTTATAAGTTAAATTCAG
14268987 TCA
1 TCA
14268990 ATTAATGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (26 bp):
TCATATGGGTTATAAGTTAAATTCAG
Found at i:14278535 original size:18 final size:17
Alignment explanation
Indices: 14278465--14278539 Score: 59
Period size: 19 Copynumber: 4.3 Consensus size: 17
14278455 TCAAAATATT
14278465 ATAATAAAT--TTATAAA
1 ATAATAAATAATT-TAAA
14278481 ATAATTAAA-AATTTAGAA
1 ATAA-TAAATAATTTA-AA
*
14278499 ATATACAAATAATTTTAAA
1 ATA-ATAAATAA-TTTAAA
14278518 ATACATAAATAATTT-AA
1 ATA-ATAAATAATTTAAA
14278535 ATAAT
1 ATAAT
14278540 TTATTTATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
16 6 0.12
17 11 0.22
18 13 0.27
19 15 0.31
20 4 0.08
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (17 bp):
ATAATAAATAATTTAAA
Found at i:14280627 original size:12 final size:12
Alignment explanation
Indices: 14280604--14280637 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14280594 ACATTTACAA
14280604 AACAACATAAAAT
1 AACAA-ATAAAAT
14280617 AACAAATAAAAT
1 AACAAATAAAAT
*
14280629 AACATATAA
1 AACAAATAA
14280638 CATATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (12 bp):
AACAAATAAAAT
Found at i:14281099 original size:24 final size:24
Alignment explanation
Indices: 14281072--14281123 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14281062 TTAGTAAGTC
*
14281072 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
14281096 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
14281120 AAAT
1 AAAT
14281124 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:14284166 original size:67 final size:67
Alignment explanation
Indices: 14284095--14284315 Score: 309
Period size: 67 Copynumber: 3.3 Consensus size: 67
14284085 AGAGTCCACT
* * *
14284095 AGGACAGTAAACATGGGGTAAAATGTTTAAGACCGTAGCTTAGCTATGGCAACATAAAGAGCTCG
1 AGGACATTAAACATGGGGTAAAATGTATAAGATCGTAGCTTAGCTATGGCAACATAAAGAGCTCG
14284160 CC
66 CC
*
14284162 AGGACATTAAACATGGGGTAAAATGTGTAAGATCGTAGCTTAGCTATGGCAACATAAAGAGCTCG
1 AGGACATTAAACATGGGGTAAAATGTATAAGATCGTAGCTTAGCTATGGCAACATAAAGAGCTCG
14284227 CC
66 CC
* * * * * * *
14284229 AGGACATTAAATATGGGGTAAGATGTATAAGATCATAGCTCAACTATGGAAACATAGAGAG-TCT
1 AGGACATTAAACATGGGGTAAAATGTATAAGATCGTAGCTTAGCTATGGCAACATAAAGAGCTC-
*
14284293 GCT
65 GCC
*
14284296 AAGACATTAAACATGGGGTA
1 AGGACATTAAACATGGGGTA
14284316 TGATGTGTAA
Statistics
Matches: 139, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
66 2 0.01
67 137 0.99
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (67 bp):
AGGACATTAAACATGGGGTAAAATGTATAAGATCGTAGCTTAGCTATGGCAACATAAAGAGCTCG
CC
Found at i:14284321 original size:67 final size:67
Alignment explanation
Indices: 14284053--14284343 Score: 302
Period size: 67 Copynumber: 4.3 Consensus size: 67
14284043 AGGCATAATA
* * *
14284053 TGTAAGACCATAGCTCGACTAT-GACAACATAGAGAG-TC-CACTAGGACAGTAAACATGGGGTA
1 TGTAAGACCATAGCTCAACTATGGA-AACATAAAGAGCTCGC-C-AGGACATTAAACATGGGGTA
14284115 AAATG
63 AAATG
* * * * *
14284120 TTTAAGACCGTAGCTTAGCTATGGCAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAA
1 TGTAAGACCATAGCTCAACTATGGAAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAA
14284185 TG
66 TG
* * * * * * *
14284187 TGTAAGATCGTAGCTTAGCTATGGCAACATAAAGAGCTCGCCAGGACATTAAATATGGGGTAAGA
1 TGTAAGACCATAGCTCAACTATGGAAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAA
14284252 TG
66 TG
* * * * * **
14284254 TATAAGATCATAGCTCAACTATGGAAACATAGAGAG-TCTGCTAAGACATTAAACATGGGGTATG
1 TGTAAGACCATAGCTCAACTATGGAAACATAAAGAGCTC-GCCAGGACATTAAACATGGGGTAAA
14284318 ATG
65 ATG
* *
14284321 TGTAAGACTATAGCTCGACTATG
1 TGTAAGACCATAGCTCAACTATG
14284344 ACAGCATATA
Statistics
Matches: 194, Mismatches: 26, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
66 2 0.01
67 187 0.96
68 4 0.02
69 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.23
Consensus pattern (67 bp):
TGTAAGACCATAGCTCAACTATGGAAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTAAAA
TG
Found at i:14284335 original size:134 final size:135
Alignment explanation
Indices: 14284053--14284361 Score: 335
Period size: 134 Copynumber: 2.3 Consensus size: 135
14284043 AGGCATAATA
* * *
14284053 TGTAAGACCATAGC-TCGACTATGACAACATAGAGAGTCCACTAGGACAGTAAACATGGGGTAAA
1 TGTAAGACTATAGCTTAGACTATGACAACATAAAGAGTCCACTAGGACAGTAAACATGGGGTAAA
* * * * * *
14284117 ATGTTTAAGACCGTAGCTTAGCTATGGCAACATAAAGAGCTCGCCAGGACATTAAACATGGGGTA
66 ATGTATAAGACCATAGCTCAACTATGGAAACATAAAGAGCTCGCCAAGACATTAAACATGGGGTA
14284182 AAATG
131 AAATG
* * * *
14284187 TGTAAGA-TCGTAGCTTAG-CTATGGCAACATAAAGAGCTCGC-C-AGGACATTAAATATGGGGT
1 TGTAAGACT-ATAGCTTAGACTATGACAACATAAAGAG-TC-CACTAGGACAGTAAACATGGGGT
* * * *
14284248 AAGATGTATAAGATCATAGCTCAACTATGGAAACATAGAGAG-TCTGCTAAGACATTAAACATGG
63 AAAATGTATAAGACCATAGCTCAACTATGGAAACATAAAGAGCTC-GCCAAGACATTAAACATGG
**
14284312 GGTATGATG
127 GGTAAAATG
* * *
14284321 TGTAAGACTATAGC-TCGACTATGACAGCATATAGAGTCCAC
1 TGTAAGACTATAGCTTAGACTATGACAACATAAAGAGTCCAC
14284362 CGGGATAATA
Statistics
Matches: 143, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
132 1 0.01
133 7 0.05
134 128 0.90
135 6 0.04
136 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (135 bp):
TGTAAGACTATAGCTTAGACTATGACAACATAAAGAGTCCACTAGGACAGTAAACATGGGGTAAA
ATGTATAAGACCATAGCTCAACTATGGAAACATAAAGAGCTCGCCAAGACATTAAACATGGGGTA
AAATG
Found at i:14288092 original size:23 final size:25
Alignment explanation
Indices: 14288028--14288116 Score: 107
Period size: 24 Copynumber: 3.8 Consensus size: 25
14288018 AATATTGCAA
*
14288028 AAAGTGCCACATTTTGATT-GCATC
1 AAAGTGCCACATTTTCATTCGCATC
* *
14288052 AAAGTGTCACA-TTTCATTCGCACC
1 AAAGTGCCACATTTTCATTCGCATC
14288076 AAAGTG-C-CATTTTCATTCGCATC
1 AAAGTGCCACATTTTCATTCGCATC
*
14288099 AAAGTGCCATA-TTTCATT
1 AAAGTGCCACATTTTCATT
14288117 TGTGCGTATA
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
22 2 0.04
23 25 0.45
24 28 0.50
25 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (25 bp):
AAAGTGCCACATTTTCATTCGCATC
Found at i:14291205 original size:14 final size:14
Alignment explanation
Indices: 14291186--14291219 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
14291176 AAAGATGAAA
14291186 AGGTTATAGAATAC
1 AGGTTATAGAATAC
14291200 AGGTTATAGAATAC
1 AGGTTATAGAATAC
14291214 AGGTTA
1 AGGTTA
14291220 AAGCCCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (14 bp):
AGGTTATAGAATAC
Found at i:14291335 original size:44 final size:45
Alignment explanation
Indices: 14291284--14291525 Score: 298
Period size: 44 Copynumber: 5.5 Consensus size: 45
14291274 TTATATTTAG
* * * *
14291284 CAGGTACTATGTACCGA-TGTTGGCTATTTGTCATTTATACGCAA
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
* * *
14291328 CAAGTACTATGT-GCTAGTGTTGGCTATGTGCCATTTATATGCAA
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
* *
14291372 CAGGTACTATGCATCG-GTGTTGGCTATGTGTCATTTATATGCAA
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
* * *
14291416 CAGGTACTATGTA-CCAGTGTTGGCTATGTGCCATTTATATGTAG
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
* * *
14291460 CAAGTAATATGTATC-AGTGTTGGCTATGTGCCATTTATATGCAG
1 CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
*
14291504 CAGGTACTATGTATTGA-TGTTG
1 CAGGTACTATGTATCGAGTGTTG
14291526 TAGTAGCAGA
Statistics
Matches: 171, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.02
44 165 0.96
45 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (45 bp):
CAGGTACTATGTATCGAGTGTTGGCTATGTGCCATTTATATGCAA
Found at i:14291423 original size:88 final size:88
Alignment explanation
Indices: 14291284--14291516 Score: 331
Period size: 88 Copynumber: 2.6 Consensus size: 88
14291274 TTATATTTAG
* * * * * * *
14291284 CAGGTACTATGTACCGATGTTGGCTATTTGTCATTTATACGCAACAAGTACTATGTGCTAGTGTT
1 CAGGTACTATGTATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTACCAGTGTT
14291349 GGCTATGTGCCATTTATATGCAA
66 GGCTATGTGCCATTTATATGCAA
*
14291372 CAGGTACTATGCATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTACCAGTGTT
1 CAGGTACTATGTATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTACCAGTGTT
* *
14291437 GGCTATGTGCCATTTATATGTAG
66 GGCTATGTGCCATTTATATGCAA
* * * * *
14291460 CAAGTAATATGTATCAGTGTTGGCTATGTGCCATTTATATGCAGCAGGTACTATGTA
1 CAGGTACTATGTATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTA
14291517 TTGATGTTGT
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 129 1.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (88 bp):
CAGGTACTATGTATCGGTGTTGGCTATGTGTCATTTATATGCAACAGGTACTATGTACCAGTGTT
GGCTATGTGCCATTTATATGCAA
Found at i:14291525 original size:132 final size:132
Alignment explanation
Indices: 14291284--14291525 Score: 353
Period size: 132 Copynumber: 1.8 Consensus size: 132
14291274 TTATATTTAG
* * *
14291284 CAGGTACTATGTACCGATGTTGGCTATTTGTCATTTATACGCAACAAGTACTATGTGCTAGTGTT
1 CAGGTACTATGTACCGATGTTGGCTATGTGCCATTTATACGCAACAAGTAATATGTGCTAGTGTT
*
14291349 GGCTATGTGCCATTTATATGCAACAGGTACTATGCATCGGTGTTGGCTATGTGTCATTTATATGC
66 GGCTATGTGCCATTTATATGCAACAGGTACTATGCATCGATGTTGGCTATGTGTCATTTATATGC
14291414 AA
131 AA
* * * *
14291416 CAGGTACTATGTACC-AGTGTTGGCTATGTGCCATTTATATGTAGCAAGTAATATGT-ATCAGTG
1 CAGGTACTATGTACCGA-TGTTGGCTATGTGCCATTTATACGCAACAAGTAATATGTGCT-AGTG
* * *
14291479 TTGGCTATGTGCCATTTATATGCAGCAGGTACTATGTATTGATGTTG
64 TTGGCTATGTGCCATTTATATGCAACAGGTACTATGCATCGATGTTG
14291526 TAGTAGCAGA
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
131 2 0.02
132 95 0.98
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (132 bp):
CAGGTACTATGTACCGATGTTGGCTATGTGCCATTTATACGCAACAAGTAATATGTGCTAGTGTT
GGCTATGTGCCATTTATATGCAACAGGTACTATGCATCGATGTTGGCTATGTGTCATTTATATGC
AA
Found at i:14291577 original size:29 final size:28
Alignment explanation
Indices: 14291502--14291577 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 28
14291492 ATTTATATGC
* * *
14291502 AGCAGGTACTATGTATTGATGTTGTAGT
1 AGCAGGTACTATGTATCGGTGTTATAGT
** * * *
14291530 AGCAGACACTTTGTGTCGGTGTTATATTT
1 AGCAGGTACTATGTATCGGTGTTATA-GT
14291559 AGCAGGTACTATGTATCGG
1 AGCAGGTACTATGTATCGG
14291578 CCATAGATAC
Statistics
Matches: 35, Mismatches: 12, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
28 19 0.54
29 16 0.46
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.37
Consensus pattern (28 bp):
AGCAGGTACTATGTATCGGTGTTATAGT
Found at i:14316198 original size:21 final size:18
Alignment explanation
Indices: 14316159--14316208 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
14316149 TATATTATAA
14316159 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
14316177 TATTAATTATTAAAGTAT
1 TATTAATTAATAAAATAT
14316195 TATT-ATTAATAAAA
1 TATTAATTAATAAAA
14316209 ATATCATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:14318707 original size:227 final size:227
Alignment explanation
Indices: 14318312--14318762 Score: 875
Period size: 227 Copynumber: 2.0 Consensus size: 227
14318302 TATCTTTTCA
*
14318312 AAATTTGCATAGCTTTTATATCATTTGATATATGATGAAATGATTGTATATATACATTTGATTTG
1 AAATTTGCATAGCTTTTATATCATTTGATATATGATGAAATAATTGTATATATACATTTGATTTG
14318377 AGTATCATGGTATAGTTATGCAAATGAACTAACCTTTTTTGGTGTATTGTGAAATTGCACATGAA
66 AGTATCATGGTATAGTTATGCAAATGAACTAACCTTTTTTGGTGTATTGTGAAATTGCACATGAA
14318442 AGCATAAGGATGATAAAGGATATCATGTTAGATACCACTTTATTACAATTGTTTAAATTGTTGTA
131 AGCATAAGGATGATAAAGGATATCATGTTAGATACCACTTTATTACAATTGTTTAAATTGTTGTA
14318507 ATTTCAAGGTAAGTTAAGTAAATTTTATAAGT
196 ATTTCAAGGTAAGTTAAGTAAATTTTATAAGT
* *
14318539 AAATTTGCATAGCTTTTATATTATTTGATATATGATGAAATAATTGTATATATACATTTTATTTG
1 AAATTTGCATAGCTTTTATATCATTTGATATATGATGAAATAATTGTATATATACATTTGATTTG
14318604 AGTATCATGGTATAGTTATGCAAATGAACTAACCTTTTTTGGTGTATTGTGAAATTGCACATGAA
66 AGTATCATGGTATAGTTATGCAAATGAACTAACCTTTTTTGGTGTATTGTGAAATTGCACATGAA
14318669 AGCATAAGGATGATAAAGGATATCATGTTAGATACCACTTTATTACAATTGTTTAAATTGTTGTA
131 AGCATAAGGATGATAAAGGATATCATGTTAGATACCACTTTATTACAATTGTTTAAATTGTTGTA
14318734 ATTTCAAGGTAAGTTAAGTAAATTTTATA
196 ATTTCAAGGTAAGTTAAGTAAATTTTATA
14318763 TAGACTTATT
Statistics
Matches: 221, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 221 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (227 bp):
AAATTTGCATAGCTTTTATATCATTTGATATATGATGAAATAATTGTATATATACATTTGATTTG
AGTATCATGGTATAGTTATGCAAATGAACTAACCTTTTTTGGTGTATTGTGAAATTGCACATGAA
AGCATAAGGATGATAAAGGATATCATGTTAGATACCACTTTATTACAATTGTTTAAATTGTTGTA
ATTTCAAGGTAAGTTAAGTAAATTTTATAAGT
Done.