Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003208.1 Hibiscus syriacus cultivar Beakdansim tig00006753_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1278004
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:395220 original size:20 final size:20
Alignment explanation
Indices: 395191--395229 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
395181 ATTCTACCAT
*
395191 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
395211 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
395230 TATGAGCTTT
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:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:395388 original size:35 final size:35
Alignment explanation
Indices: 395348--395415 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
395338 AGTCCGTAAG
*
395348 GAATTACTAGCTCGATC-AGTCTGAACCTATATAAA
1 GAATTACTAGCTCGACCGAG-CTGAACCTATATAAA
* *
395383 GAATTACTAGTTTGACCGAGCTGAACCTATATA
1 GAATTACTAGCTCGACCGAGCTGAACCTATATA
395416 CTCCAGCCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.93
36 2 0.07
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (35 bp):
GAATTACTAGCTCGACCGAGCTGAACCTATATAAA
Found at i:397672 original size:19 final size:19
Alignment explanation
Indices: 397648--397712 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
397638 GTCAACTCTA
* * *
397648 GTCAAAATCAATGTGTCGG
1 GTCAAAGTCAATGGGTCAG
397667 GTCAAAGTCAATGGGTCAG
1 GTCAAAGTCAATGGGTCAG
* *
397686 GTCAAAGTCAACGGGTTAG
1 GTCAAAGTCAATGGGTCAG
*
397705 GTTAAAGT
1 GTCAAAGT
397713 TTACGAGTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (19 bp):
GTCAAAGTCAATGGGTCAG
Found at i:397730 original size:19 final size:19
Alignment explanation
Indices: 397684--397734 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
397674 TCAATGGGTC
* *
397684 AGGTCAAAGTCAACGGGTT
1 AGGTCAAAGTTAACGAGTT
* *
397703 AGGTTAAAGTTTACGAGTT
1 AGGTCAAAGTTAACGAGTT
*
397722 GGGTCAAAGTTAA
1 AGGTCAAAGTTAA
397735 TGGTTCAAGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (19 bp):
AGGTCAAAGTTAACGAGTT
Found at i:402200 original size:75 final size:75
Alignment explanation
Indices: 402105--402253 Score: 228
Period size: 75 Copynumber: 2.0 Consensus size: 75
402095 TCTTAAAATT
* * * *
402105 CAATATTGATTCGAGTGAAAATGATAATATCTAA-TGATTTCCAATCGAGAATAAATGACCTCTC
1 CAATATTAATTCGAGAGAAAACGATAATATC-AAGTGATTTCCAATCGAGAATAAATGACCGCTC
402169 ATACCTTAAAC
65 ATACCTTAAAC
*
402180 CAATATTAATTCGAGAGAAAACGATAATATCAAGTTATTTCCAATCGAGAATAAATGACCGCTCA
1 CAATATTAATTCGAGAGAAAACGATAATATCAAGTGATTTCCAATCGAGAATAAATGACCGCTCA
*
402245 TGCCTTAAA
66 TACCTTAAA
402254 GTAGTCATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 2 0.03
75 65 0.97
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (75 bp):
CAATATTAATTCGAGAGAAAACGATAATATCAAGTGATTTCCAATCGAGAATAAATGACCGCTCA
TACCTTAAAC
Found at i:404294 original size:12 final size:12
Alignment explanation
Indices: 404277--404326 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
404267 AAAAATGTAT
*
404277 TAATATTAATGA
1 TAATATTAATAA
*
404289 TAATATTAGTAA
1 TAATATTAATAA
*
404301 TAATAATAATAAA
1 TAATATTAAT-AA
404314 TAATA-TAATAA
1 TAATATTAATAA
404325 TA
1 TA
404327 GTGGGATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 4 0.12
12 22 0.67
13 7 0.21
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:404742 original size:134 final size:134
Alignment explanation
Indices: 404516--405074 Score: 680
Period size: 134 Copynumber: 4.2 Consensus size: 134
404506 CCACTGTTCT
* * * * * *
404516 TCAGGGGAGATTAAATCAAGGTAGACTTGTTCCACTATTACTCTA-GGAAGATCAAATATTGAAA
1 TCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTC-AGGGAATATCAAATCTTGAAA
* * *
404580 GTGAGGGA--TATGCTCTACTT-TTTCTTGAGGGAAAATCATATCTGGGGACGTTGATTCATTCC
65 GAGAGGGATCTAT-TTC-ACTTCTTT-TTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCC
*
404642 ACTTTTAC
127 ACTATTAC
404650 TCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAG
1 TCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAG
* * * *
404715 AGAGGGATCTGTTTCGCTTCTTTTTGAGGGAAAATCAGATCTAGGGACGTTGATTCATTTCACTA
66 AGAGGGATCTATTTCACTTCTTTTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTA
404780 TTAC
131 TTAC
** * * * *
404784 TCAAAGAAGATTGAATCGAGGCATACTCGTTCCACTGTTACTCAGGGAATATCAAATCTTGAATG
1 TCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAG
* * * * *
404849 AGATGGATCTATTTCGCTTCTTGTTT-AAGGAAAATCAGATATGGGGATGTTGATTCATTCCACT
66 AGAGGGATCTATTTCACTTCTT-TTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACT
404913 ATTAC
130 ATTAC
* ** * *
404918 TCAGAGAAGATTGAATCGAGGCAGACTTGTTCCACTGCTACTCAAGGAATATCAAATCTTAAAAG
1 TCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAG
* * * * **
404983 AGAGGGATCTATTCCACTTATTCTTGAGGGAAAATCAAATCTGGGGATTTTGATTCATTCCACTA
66 AGAGGGATCTATTTCACTTCTTTTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTA
405048 TT-C
131 TTAC
* *
405051 GTTAGGGGAGATTGAATCGAGGCA
1 -TCAGGGAAGATTGAATCGAGGCA
405075 AATTTGTTTT
Statistics
Matches: 372, Mismatches: 46, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
133 4 0.01
134 358 0.96
135 8 0.02
136 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (134 bp):
TCAGGGAAGATTGAATCGAGGCAGACTTGTTCCACTATTACTCAGGGAATATCAAATCTTGAAAG
AGAGGGATCTATTTCACTTCTTTTTGAGGGAAAATCAGATCTGGGGACGTTGATTCATTCCACTA
TTAC
Found at i:406274 original size:12 final size:11
Alignment explanation
Indices: 406244--406344 Score: 59
Period size: 11 Copynumber: 9.1 Consensus size: 11
406234 CTATTTATTC
*
406244 TCTTTTTGTTT
1 TCTTTTTCTTT
406255 TCTTTTTC--T
1 TCTTTTTCTTT
406264 TC-TTTTC-TT
1 TCTTTTTCTTT
406273 TCTTTTTCACTTT
1 TCTTTTT--CTTT
*
406286 TATTTTAT-TTT
1 TCTTTT-TCTTT
*
406297 TCATTTTCTTT
1 TCTTTTTCTTT
*
406308 CTTTTTTTCATTT
1 -TCTTTTTC-TTT
*
406321 TCTTTTTTTTT
1 TCTTTTTCTTT
*
406332 TGTTTTTCATTT
1 TCTTTTTC-TTT
406344 T
1 T
406345 TCATTCTTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
8 5 0.07
9 6 0.09
10 5 0.07
11 26 0.37
12 17 0.24
13 10 0.14
14 1 0.01
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:406276 original size:18 final size:18
Alignment explanation
Indices: 406253--406332 Score: 89
Period size: 18 Copynumber: 4.6 Consensus size: 18
406243 CTCTTTTTGT
406253 TTTCTTTTTCTTC-TTTTC
1 TTTCTTTTT-TTCATTTTC
*
406271 TTTC--TTTTTCACTTTTA
1 TTTCTTTTTTTCA-TTTTC
*
406288 TTT-TATTTTTCATTTTC
1 TTTCTTTTTTTCATTTTC
406305 TTTCTTTTTTTCATTTTC
1 TTTCTTTTTTTCATTTTC
406323 TTT-TTTTTTT
1 TTTCTTTTTTT
406333 GTTTTTCATT
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
15 3 0.06
16 3 0.06
17 21 0.39
18 27 0.50
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTTTTCATTTTC
Found at i:406304 original size:42 final size:41
Alignment explanation
Indices: 406252--406344 Score: 116
Period size: 41 Copynumber: 2.2 Consensus size: 41
406242 TCTCTTTTTG
* *
406252 TTTTCTTTTTC-TTCTTTTCTTTCTTTTTCACTTTTATTTTAT
1 TTTTCATTTTCTTTCTTTT-TTTCATTTTC-CTTTTATTTTAT
* * *
406294 TTTTCATTTTCTTTCTTTTTTTCATTTTCTTTTTTTTTTGT
1 TTTTCATTTTCTTTCTTTTTTTCATTTTCCTTTTATTTTAT
406335 TTTTCATTTT
1 TTTTCATTTT
406345 TCATTCTTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 19 0.42
42 19 0.42
43 7 0.16
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.78
Consensus pattern (41 bp):
TTTTCATTTTCTTTCTTTTTTTCATTTTCCTTTTATTTTAT
Found at i:406346 original size:42 final size:43
Alignment explanation
Indices: 406246--406352 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 43
406236 ATTTATTCTC
*
406246 TTTTTG-TTTTC-TTTTTCTTCTTTTCTTTCTTTTTCACTTTT
1 TTTTTGTTTTTCATTTTTCTTCTTTTCTTTCATTTTCACTTTT
* * *
406287 ATTTTATTTTTCA-TTTTCTTTCTTTT-TTTCATTTTC-TTTTT
1 TTTTTGTTTTTCATTTTTC-TTCTTTTCTTTCATTTTCACTTTT
406328 TTTTTGTTTTTCATTTTTCATTCTT
1 TTTTTGTTTTTCATTTTTC-TTCTT
406353 CAGGTGAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
41 19 0.35
42 29 0.53
43 7 0.13
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.78
Consensus pattern (43 bp):
TTTTTGTTTTTCATTTTTCTTCTTTTCTTTCATTTTCACTTTT
Found at i:406348 original size:48 final size:50
Alignment explanation
Indices: 406253--406349 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 50
406243 CTCTTTTTGT
*
406253 TTTCTTTTTCTTCTTTTCTTTCTTTTTCACTTTTATTTTATTTTTCATTTTC
1 TTTCTTTTTCTTCTTTTCTTTCTTTTT--CTTTTATTTCATTTTTCATTTTC
406305 TTTCTTTTT-TTCATTTTCTTT-TTTTT-TTGTT-TTTCATTTTTCATT
1 TTTCTTTTTCTTC-TTTTCTTTCTTTTTCTT-TTATTTCATTTTTCATT
406350 CTTCAGGTGA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
48 15 0.36
49 2 0.05
51 8 0.19
52 17 0.40
ACGTcount: A:0.07, C:0.14, G:0.01, T:0.77
Consensus pattern (50 bp):
TTTCTTTTTCTTCTTTTCTTTCTTTTTCTTTTATTTCATTTTTCATTTTC
Found at i:410204 original size:24 final size:24
Alignment explanation
Indices: 410160--410209 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
410150 ATAAAGAACC
*
410160 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
410184 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
410208 AA
1 AA
410210 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:418913 original size:24 final size:24
Alignment explanation
Indices: 418869--418918 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
418859 ATAAAGAACC
*
418869 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
418893 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
418917 AA
1 AA
418919 TCAATCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:428402 original size:18 final size:18
Alignment explanation
Indices: 428379--428484 Score: 140
Period size: 18 Copynumber: 5.7 Consensus size: 18
428369 GGGTCTACGC
*
428379 GGTCCTTCGGGACACAGT
1 GGTCCTTCGGGACATAGT
428397 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
*
428415 GGTCCTTTGGGACATAGT
1 GGTCCTTCGGGACATAGT
428433 GGTCCTTCGGGACATATACAGT
1 GGTCCTTCGGGAC--AT--AGT
*
428455 GGTCCTTCAGGACATAGT
1 GGTCCTTCGGGACATAGT
*
428473 GGTCCTACGGGA
1 GGTCCTTCGGGA
428485 TAAATTCTAC
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
18 59 0.76
20 4 0.05
22 15 0.19
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (18 bp):
GGTCCTTCGGGACATAGT
Found at i:428427 original size:36 final size:38
Alignment explanation
Indices: 428379--428484 Score: 144
Period size: 40 Copynumber: 2.8 Consensus size: 38
428369 GGGTCTACGC
*
428379 GGTCCTTCGGGACACAGTGGTCCTTCGGGAC-AT-AGT
1 GGTCCTTCGGGACATAGTGGTCCTTCGGGACAATAAGT
*
428415 GGTCCTTTGGGACATAGTGGTCCTTCGGGACATATACAGT
1 GGTCCTTCGGGACATAGTGGTCCTTCGGGACA-ATA-AGT
* *
428455 GGTCCTTCAGGACATAGTGGTCCTACGGGA
1 GGTCCTTCGGGACATAGTGGTCCTTCGGGA
428485 TAAATTCTAC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
36 29 0.48
38 2 0.03
40 30 0.49
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (38 bp):
GGTCCTTCGGGACATAGTGGTCCTTCGGGACAATAAGT
Found at i:432627 original size:18 final size:18
Alignment explanation
Indices: 432577--432664 Score: 86
Period size: 18 Copynumber: 4.7 Consensus size: 18
432567 TGGTCTACGC
* *
432577 GGTCCTTCGAGACACAGT
1 GGTCCTTCGGGACATAGT
*
432595 GGTCCTTCGGAACATAGT
1 GGTCCTTCGGGACATAGT
432613 GGTCCTTCGGGACATATACAGT
1 GGTCCTTCGGGAC--AT--AGT
* *
432635 GGTCCTTCAGGACATAAT
1 GGTCCTTCGGGACATAGT
*
432653 GGTCCTACGGGA
1 GGTCCTTCGGGA
432665 TAAATTCTAC
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
18 39 0.67
20 4 0.07
22 15 0.26
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (18 bp):
GGTCCTTCGGGACATAGT
Found at i:432638 original size:22 final size:21
Alignment explanation
Indices: 432590--432650 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
432580 CCTTCGAGAC
*
432590 ACAGTGGTCCTTCGGA-ACAT
1 ACAGTGGTCCTTCGGACATAT
432610 --AGTGGTCCTTCGGGACATAT
1 ACAGTGGTCCTTC-GGACATAT
432630 ACAGTGGTCCTTCAGGACATA
1 ACAGTGGTCCTTC-GGACATA
432651 ATGGTCCTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 11 0.31
19 3 0.09
20 3 0.09
22 18 0.51
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (21 bp):
ACAGTGGTCCTTCGGACATAT
Found at i:438266 original size:132 final size:132
Alignment explanation
Indices: 438022--438384 Score: 480
Period size: 132 Copynumber: 2.8 Consensus size: 132
438012 ATAATTTTAA
* * * *
438022 GAGAGAAAACGATGATATCTAATTATTTCTAATCGAGAATAAATGACCTCTCGTACTTTAAAACA
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACATTAAAACA
* * * *
438087 ATCATTTATTACTCCAATCGAAATGAAGAGATGTCACTAATCTATCTTA-AA-ATTCAATATCAA
66 ATCATTTATTACTCCAATCGAAATGAAAAGATATCACTAATCCATCTTAGAACA-TCAAAATCAA
438150 TTC
130 TTC
* * *
438153 GAGTGAAAACGATAATATCTAATGATTTCCAAATCGAGAATAAATGACCTCTCATACCTTAAAAC
1 GAGAGAAAACGATAATATCTAATTATTTCC-AATCGAGAATAAATGACCTCTCATACATTAAAAC
* * * *
438218 AATCATTTATTGCTCCAATCGAAATGAAAAGATATCATTATTCCATCTTAGAACATCAAAATTAA
65 AATCATTTATTACTCCAATCGAAATGAAAAGATATCACTAATCCATCTTAGAACATCAAAATCAA
438283 TTC
130 TTC
* * * **
438286 GAGAGAAAACGATAATATCGAGTTATTTCCAATCGAGAATAAATGACATCTCATGA-ATTAAAGT
1 GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCAT-ACATTAAAAC
* *
438350 AGTCATTTATTACTCCAACCGAAATGAAAAGATAT
65 AATCATTTATTACTCCAATCGAAATGAAAAGATAT
438385 TAATATTCTC
Statistics
Matches: 203, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
131 26 0.13
132 136 0.67
133 40 0.20
134 1 0.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.30
Consensus pattern (132 bp):
GAGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACATTAAAACA
ATCATTTATTACTCCAATCGAAATGAAAAGATATCACTAATCCATCTTAGAACATCAAAATCAAT
TC
Found at i:438934 original size:54 final size:54
Alignment explanation
Indices: 438852--439051 Score: 303
Period size: 54 Copynumber: 3.7 Consensus size: 54
438842 TTTTTGAATG
* * *
438852 ATATGTTGATGAACGACCGTATAGGCACTATGCGTGCAACCCACGGAATTCATC
1 ATATGTTGATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGAAATTCATC
*
438906 ATATGTTGATGAACGACCATATAGGCACTAAGTGTGCAACCCACGAAATTCATC
1 ATATGTTGATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGAAATTCATC
* *
438960 ATATGTTGATGAACGACCGTATTA-GCATTAAGTGTGTAACCCACGAAATTCATC
1 ATATGTTGATGAACGACCGTA-TAGGCACTAAGTGTGCAACCCACGAAATTCATC
** *
439014 ATATGTTGATGAACGACCGTATAACCACTATGTGTGCA
1 ATATGTTGATGAACGACCGTATAGGCACTAAGTGTGCA
439052 TCTCAAAGAA
Statistics
Matches: 133, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
53 2 0.02
54 129 0.97
55 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.27
Consensus pattern (54 bp):
ATATGTTGATGAACGACCGTATAGGCACTAAGTGTGCAACCCACGAAATTCATC
Found at i:443485 original size:54 final size:53
Alignment explanation
Indices: 443400--443789 Score: 281
Period size: 54 Copynumber: 7.2 Consensus size: 53
443390 AAGCCTGATT
* * * *
443400 TTTCTTGATATTTTTAAATAAATTTTGAAAGAAGCTAAGTCCAATTTTTGGGAG
1 TTTCTTGAT-GTTTTAAATGAATTTTCAAAGAAGCTAAGTCCGATTTTTGGGAG
* * * * * ** *
443454 TTTCTTGATGTTTTCAAATGAATTTCCAAAGAAACTACGTCTGGTTTTCAGAAG
1 TTTCTTGATGTTTT-AAATGAATTTTCAAAGAAGCTAAGTCCGATTTTTGGGAG
* * * *
443508 TTTCTTGATGATTTATAAATGAGTTTTCAAAGAAGTTAAGCCCGATTTTCAGGG-G
1 TTTCTTGATG-TTT-TAAATGAATTTTCAAAGAAGCTAAGTCCGATTTT-TGGGAG
* * * * * * *** *
443563 TTTCTTGACGTTTTCAAGTGAATTTTCAAATAAACTAATTCTGA-TTTTCAAACA
1 TTTCTTGATGTTTT-AAATGAATTTTCAAAGAAGCTAAGTCCGATTTTTGGGA-G
* *
443617 TTTCTTGATGATTTATAAATGAGTATTCAAAGAAGCTAA-TCCTGATTTTTAGGG-G
1 TTTCTTGATG-TTT-TAAATGAATTTTCAAAGAAGCTAAGTCC-GATTTTT-GGGAG
* *
443672 TTTCTTGATGTTTTCAAATGAATTTTGAAAGAAGCTAAG-CCTAATTTTTAGGGA-
1 TTTCTTGATGTTTT-AAATGAATTTTCAAAGAAGCTAAGTCC-GATTTTT-GGGAG
* * * *
443726 TTTCTTGATGTCTTTAAATGGATTTTGAAAGAAGCTAAG-CCTGACTTTTAGGAG
1 TTTCTTGATGT-TTTAAATGAATTTTCAAAGAAGCTAAGTCC-GATTTTTGGGAG
443780 TTTCTTGATG
1 TTTCTTGATG
443790 AATTTTTGAA
Statistics
Matches: 263, Mismatches: 56, Indels: 34
0.75 0.16 0.10
Matches are distributed among these distances:
53 12 0.05
54 170 0.65
55 74 0.28
56 7 0.03
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (53 bp):
TTTCTTGATGTTTTAAATGAATTTTCAAAGAAGCTAAGTCCGATTTTTGGGAG
Found at i:443542 original size:109 final size:108
Alignment explanation
Indices: 443400--443789 Score: 389
Period size: 109 Copynumber: 3.6 Consensus size: 108
443390 AAGCCTGATT
* * * * *
443400 TTTCTTGAT-ATTTTTAAATAAATTTTGAAAGAAGCTAAGTCCAATTTTTGGGAGTTTCTTGATG
1 TTTCTTGATGATTTATAAATGAGTTTTCAAAGAAGCTAAGTCCGATTTTTGGG-GTTTCTTGATG
* * *
443464 TTTTCAAATGAATTTCCAAAGAAACTACGTCTGGTTTTCAGAA-G
65 TTTTCAAATGAATTTCCAAAGAAACTAAGTCTGATTTTCA-AACA
* * * *
443508 TTTCTTGATGATTTATAAATGAGTTTTCAAAGAAGTTAAGCCCGATTTTCAGGGGTTTCTTGACG
1 TTTCTTGATGATTTATAAATGAGTTTTCAAAGAAGCTAAGTCCGATTTT-TGGGGTTTCTTGATG
* * * *
443573 TTTTCAAGTGAATTTTCAAATAAACTAATTCTGATTTTCAAACA
65 TTTTCAAATGAATTTCCAAAGAAACTAAGTCTGATTTTCAAACA
*
443617 TTTCTTGATGATTTATAAATGAGTATTCAAAGAAGCTAA-TCCTGATTTTTAGGGGTTTCTTGAT
1 TTTCTTGATGATTTATAAATGAGTTTTCAAAGAAGCTAAGTCC-GATTTTT-GGGGTTTCTTGAT
** * * * * ***
443681 GTTTTCAAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGA
64 GTTTTCAAATGAATTTCCAAAGAAACTAAGTCTGATTTTCAAACA
* * *
443726 TTTCTTGATG-TCTT-TAAATG-GATTTTGAAAGAAGCTAAG-CCTGACTTTTAGGAGTTTCTTG
1 TTTCTTGATGAT-TTATAAATGAG-TTTTCAAAGAAGCTAAGTCC-GA-TTTTTGGGGTTTCTTG
443787 ATG
62 ATG
443790 AATTTTTGAA
Statistics
Matches: 237, Mismatches: 36, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
107 1 0.00
108 52 0.22
109 181 0.76
110 3 0.01
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (108 bp):
TTTCTTGATGATTTATAAATGAGTTTTCAAAGAAGCTAAGTCCGATTTTTGGGGTTTCTTGATGT
TTTCAAATGAATTTCCAAAGAAACTAAGTCTGATTTTCAAACA
Found at i:443786 original size:163 final size:162
Alignment explanation
Indices: 443400--443795 Score: 367
Period size: 163 Copynumber: 2.4 Consensus size: 162
443390 AAGCCTGATT
* * * *
443400 TTTCTTGATATTTTTAAATAAATTTTGAAAGAAGCTAAGTCC-AATTTTTGGGAGTTTCTTGATG
1 TTTCTTGAT-GTTTTAAATGAATTTTGAAAGAAGCTAAG-CCTGA-TTTTAGGAGTTTCTTGATG
* *
443464 -TTTTCAAATGAATTTCCAAAGAAACTACGTCTGGTTTTCAGAAGTTTCTTGATGATTTATAAAT
63 ATTTTCAAATGAATTTCCAAAGAAACTACATCTGATTTTCAGAAGTTTCTTGATGATTTATAAAT
* * * *
443528 GAGTTTTCAAAGAAGTTAAGCCCGATTTTCAGGGG
128 GAATTTTCAAAGAAGCTAAGCCCAATTTTCAGGGA
* * * * * ** * *
443563 TTTCTTGACGTTTTCAAGTGAATTTTCAAATAAACTAATTCTGATTTTCA-AACATTTCTTGATG
1 TTTCTTGATGTTTT-AAATGAATTTTGAAAGAAGCTAAGCCTGATTTT-AGGA-GTTTCTTGATG
* * * **
443627 ATTTAT-AAATGAGTATT-CAAAGAAGCTA-ATCCTGATTTTTAGGGGTTTCTTGATG-TTT-TC
63 ATTT-TCAAATGAAT-TTCCAAAGAAACTACAT-CTGATTTTCAGAAGTTTCTTGATGATTTAT-
* * *
443687 AAATGAATTTTGAAAGAAGCTAAGCCTAATTTTTAGGGA
124 AAATGAATTTTCAAAGAAGCTAAGCCCAATTTTCAGGGA
*
443726 TTTCTTGATGTCTTTAAATGGATTTTGAAAGAAGCTAAGCCTGACTTTTAGGAGTTTCTTGATGA
1 TTTCTTGATGT-TTTAAATGAATTTTGAAAGAAGCTAAGCCTGA-TTTTAGGAGTTTCTTGATG-
443791 ATTTT
63 ATTTT
443796 TGAAGAAGCC
Statistics
Matches: 183, Mismatches: 37, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
162 11 0.06
163 117 0.64
164 52 0.28
165 3 0.02
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (162 bp):
TTTCTTGATGTTTTAAATGAATTTTGAAAGAAGCTAAGCCTGATTTTAGGAGTTTCTTGATGATT
TTCAAATGAATTTCCAAAGAAACTACATCTGATTTTCAGAAGTTTCTTGATGATTTATAAATGAA
TTTTCAAAGAAGCTAAGCCCAATTTTCAGGGA
Found at i:445923 original size:202 final size:201
Alignment explanation
Indices: 445410--446212 Score: 966
Period size: 203 Copynumber: 4.0 Consensus size: 201
445400 AGAACTTGTT
* *
445410 CAAACACTTTG-CTCATCCATCGCATAAGGAGTTGGATCAGCATCATCACTTTGTTCAATTCCAT
1 CAAACAC-TTGACTCATCCATCGCATATGGAGTTAGATCAGCATCATCACTTTGTTCAATTCCAT
* * * * *
445474 CACAGAAGAATGTGGATCAACATTTCCAATGGGAGAGTTCATAATGAGAATAACTCATCTGATGA
65 CACAGAAG-AGGTGGATCAACATTTCCAGT-AGAGAGTTCATAATGAGAA-AAATCATCCGATGA
* * *
445539 AGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTAGCTCATTTCCATCACATAAGGAGT
127 GGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGT
445604 TGGAACAGCA
192 TGGAACAGCA
* * * * * * *
445614 CCAATACTTGACTCATCAATCGCATATGGAGTTGGATTAGCATCACCACTCTGTTCAATTCCATC
1 CAAACACTTGACTCATCCATCGCATATGGAGTTAGATCAGCATCATCACTTTGTTCAATTCCATC
* ** * * * * **
445679 ACTGAAGGAGGTGGATCAGTATTTCTATTAGATAGTTCATAATGAGAATAAATTATTTGATGAGG
66 ACAGAA-GAGGTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAA-AAATCATCCGATGAGG
* *
445744 GAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTACATTAC-TAAGGAGTTG
129 GAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTTG
*
445808 GAACAACA
194 GAACAGCA
* * ** *
445816 CAAACACTTTACTCATCCATTGCATATGGAGTTAGATCAGCATCATCACTTTAATCGATTCCATC
1 CAAACACTTGACTCATCCATCGCATATGGAGTTAGATCAGCATCATCACTTTGTTCAATTCCATC
* *
445881 ACAGAATGAGGTAGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAA-CTAGTCCGATGAG
66 ACAGAA-GAGGTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAAAATC-A-TCCGATGAG
* *
445945 GGAGAAGAATTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTT
128 GGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTT
446010 GGAACAGCA
193 GGAACAGCA
* * * * * * ** *
446019 CCAATACTTGGCTTATCCATCGCATATAGAGTTAGATCAACATCATCACTTTGTTTGATTCTATC
1 CAAACACTTGACTCATCCATCGCATATGGAGTTAGATCAGCATCATCACTTTGTTCAATTCCATC
* * * *
446084 ACAGAAAGAGGTGGATCAACATTTTCTGT-GGGAAGTTCATAATGAGAAAAACTCATCCGATAAG
66 ACAG-AAGAGGTGGATCAACATTTCCAGTAGAG-AGTTCATAATGAGAAAAA-TCATCCGATGAG
* * * **
446148 GGAGAAGAAGTTCATAATTAGAAGAACTTGTTCAACCTTAGCTTGATTCCATCGTATAAGGAGTT
128 GGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTT
446213 AAAATAGAAC
Statistics
Matches: 513, Mismatches: 77, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
201 3 0.01
202 170 0.33
203 260 0.51
204 78 0.15
205 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (201 bp):
CAAACACTTGACTCATCCATCGCATATGGAGTTAGATCAGCATCATCACTTTGTTCAATTCCATC
ACAGAAGAGGTGGATCAACATTTCCAGTAGAGAGTTCATAATGAGAAAAATCATCCGATGAGGGA
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAGTTGGA
ACAGCA
Found at i:446162 original size:405 final size:406
Alignment explanation
Indices: 445410--446190 Score: 1113
Period size: 405 Copynumber: 1.9 Consensus size: 406
445400 AGAACTTGTT
* * **
445410 CAAACACTTTGCTCATCCATCGCATAAGGAGTTGGATCAGCATCATCACTTTGTTCAATTCCATC
1 CAAACACTTTACTCATCCATCGCATAAGGAGTTAGATCAGCATCATCACTTTAATCAATTCCATC
* * * * *
445475 ACAGAAGAATGTGGATCAACATTTCCAATGGGAGAGTTCATAATGAGAATAACTCATCTGATGAA
66 ACAGAAGAAGGTAGATCAACATTTCCAATGAGAGAGTTCATAATGAGAAGAACTCATCCGATGAA
* *
445540 GGAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTAGCTCATTTCCATCACATAAGGAGTT
131 GGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCATTTCCATCACATAAGGAGTT
* * * *
445605 GGAACAGCACCAATACTTGACTCATCAATCGCATATGGAGTTGGATTAGCATCACCACTCTGTTC
196 GGAACAGCACCAATACTTGACTCATCAATCGCATATAGAGTTAGATCAACATCACCACTCTGTTC
* * ** * *
445670 AATTCCATCACTGAAGGAGGTGGATCAGTATTTCTATTAGATAGTTCATAATGAGAATAAATTAT
261 AATTCCATCACAGAAAGAGGTGGATCAACATTTCTATGAGATAGTTCATAATGAGAATAAATCAT
** *
445735 TTGATGAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTACATTACTA
326 CCGATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTACATTACTA
445800 AGGAGTTGGAACAACA
391 AGGAGTTGGAACAACA
* * *
445816 CAAACACTTTACTCATCCATTGCATATGGAGTTAGATCAGCATCATCACTTTAATCGATTCCATC
1 CAAACACTTTACTCATCCATCGCATAAGGAGTTAGATCAGCATCATCACTTTAATCAATTCCATC
*
445881 ACAGAATG-AGGTAGATCAACATTTCCAGT-AGAGAGTTCATAATGAGAAGAACT-AGTCCGATG
66 ACAGAA-GAAGGTAGATCAACATTTCCAATGAGAGAGTTCATAATGAGAAGAACTCA-TCCGATG
* * *
445943 AGGGAGAAGAATTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCGTTTCCATCACATAAGGAG
129 AAGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCATTTCCATCACATAAGGAG
* * * * *
446008 TTGGAACAGCACCAATACTTGGCTTATCCATCGCATATAGAGTTAGATCAACATCATCACTTTGT
194 TTGGAACAGCACCAATACTTGACTCATCAATCGCATATAGAGTTAGATCAACATCACCACTCTGT
** * * *
446073 TTGATTCTATCACAGAAAGAGGTGGATCAACATTTTCTGTGGGA-AGTTCATAATGAGAA-AAAC
259 TCAATTCCATCACAGAAAGAGGTGGATCAACA-TTTCTATGAGATAGTTCATAATGAGAATAAA-
*
446136 TCATCCGATAAGGGAGAAGAAGTTCATAATTAGAAGAACTTGTTCAACCTTAGCT
322 TCATCCGATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCT
446191 TGATTCCATC
Statistics
Matches: 329, Mismatches: 42, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
404 4 0.01
405 234 0.71
406 90 0.27
407 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (406 bp):
CAAACACTTTACTCATCCATCGCATAAGGAGTTAGATCAGCATCATCACTTTAATCAATTCCATC
ACAGAAGAAGGTAGATCAACATTTCCAATGAGAGAGTTCATAATGAGAAGAACTCATCCGATGAA
GGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTAGCTCATTTCCATCACATAAGGAGTT
GGAACAGCACCAATACTTGACTCATCAATCGCATATAGAGTTAGATCAACATCACCACTCTGTTC
AATTCCATCACAGAAAGAGGTGGATCAACATTTCTATGAGATAGTTCATAATGAGAATAAATCAT
CCGATAAGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCGTTTACATTACTA
AGGAGTTGGAACAACA
Found at i:446387 original size:40 final size:40
Alignment explanation
Indices: 446223--446375 Score: 184
Period size: 40 Copynumber: 3.8 Consensus size: 40
446213 AAAATAGAAC
* * * *
446223 CATCA-TTTCACTCGTCTATCACATGAGGAGTTGGATCAA
1 CATCACTTTCGCTCGTCCATCACATAAGGAGTTAGATCAA
* *
446262 CAATCACTTTCGCTCGTCCATCACATAAGGAGCTAGATCAG
1 C-ATCACTTTCGCTCGTCCATCACATAAGGAGTTAGATCAA
* * *
446303 CATCACTTTCGTTCGTCCATGACATAAGGAATTAGATCAA
1 CATCACTTTCGCTCGTCCATCACATAAGGAGTTAGATCAA
*
446343 CATCA-TCTTGGCTCGTCCATCACATAAGGAGTT
1 CATCACT-TTCGCTCGTCCATCACATAAGGAGTT
446376 CGATTAGCAT
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 65 0.68
41 29 0.30
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (40 bp):
CATCACTTTCGCTCGTCCATCACATAAGGAGTTAGATCAA
Found at i:446393 original size:40 final size:40
Alignment explanation
Indices: 446233--446391 Score: 174
Period size: 40 Copynumber: 4.0 Consensus size: 40
446223 CATCATTTCA
* * * *
446233 CTCGTCTATCACATGAGGAGTTGGATCAACAATCACTTTCG
1 CTCGTCCATCACATAAGGAGTTAGATCAAC-ATCACCTTCG
* * *
446274 CTCGTCCATCACATAAGGAGCTAGATCAGCATCACTTTCG
1 CTCGTCCATCACATAAGGAGTTAGATCAACATCACCTTCG
* * * * *
446314 TTCGTCCATGACATAAGGAATTAGATCAACATCATCTTGG
1 CTCGTCCATCACATAAGGAGTTAGATCAACATCACCTTCG
* * *
446354 CTCGTCCATCACATAAGGAGTTCGATTAGCATCACCTT
1 CTCGTCCATCACATAAGGAGTTAGATCAACATCACCTT
446392 GGGTCAACCA
Statistics
Matches: 98, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
40 73 0.74
41 25 0.26
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (40 bp):
CTCGTCCATCACATAAGGAGTTAGATCAACATCACCTTCG
Found at i:446653 original size:2 final size:2
Alignment explanation
Indices: 446642--446685 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
446632 AATTTTCACC
446642 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
446683 AT A
1 AT A
446686 AGTAGTGATC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:466501 original size:94 final size:95
Alignment explanation
Indices: 466323--466516 Score: 275
Period size: 94 Copynumber: 2.1 Consensus size: 95
466313 TACTGAAGTG
* * *
466323 AGTATCGATACTAAGAGAAAGGTATCGATACCTTAGAATCTAGAAGGTAGAAATGGTATCGATAC
1 AGTATCGATACTAAGAGAAAAGTATCGATACCATAGAATCCAGAAGGTAGAAATGGTATCGATAC
*
466388 TGAAAATGAGTATCAGTACCATAGTATAGA
66 TGAAAAGGAGTATCAGTACCATAGTATAGA
* * * * *
466418 AGTATCGGTACTAGGAGAAAAGTATCGATACCAT-GGATCCAGAATGTAGAAATGTTATCGATAC
1 AGTATCGATACTAAGAGAAAAGTATCGATACCATAGAATCCAGAAGGTAGAAATGGTATCGATAC
*
466482 T-AAAAGGGAGTATCGGTACCATAGTATAGA
66 TGAAAA-GGAGTATCAGTACCATAGTATAGA
466512 AGTAT
1 AGTAT
466517 TAATACCATG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 4 0.05
94 54 0.61
95 30 0.34
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (95 bp):
AGTATCGATACTAAGAGAAAAGTATCGATACCATAGAATCCAGAAGGTAGAAATGGTATCGATAC
TGAAAAGGAGTATCAGTACCATAGTATAGA
Found at i:467389 original size:2 final size:2
Alignment explanation
Indices: 467382--467410 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
467372 TATGCACTAT
467382 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
467411 TCATTTATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:467648 original size:81 final size:81
Alignment explanation
Indices: 467533--468458 Score: 1437
Period size: 81 Copynumber: 11.5 Consensus size: 81
467523 TATTCGTACA
* * * *
467533 TTTCTGTCAAATGCATC-GTTA-GCCATTTAGTCTTTTACCCAAAGGTATTTAACATTTCATCTA
1 TTTCTGTCAAATGCA-CAGCTAGGCCA-TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
*
467596 ATTGGCATAATTGACACC
64 ACTGGCATAATTGACACC
467614 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
467679 TGGCATAATTGACACA
66 TGGCATAATTGACACC
* * * * *
467695 TTTATGTCAAATGCATAGCTAGGTCGTTAATCTTTTACTCAAAGGTATTTAACCTTTCAACTAAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
467760 TGGCATAACTGACACC
66 TGGCATAATTGACACC
* * *
467776 TTTCTGTCAAATGCACAGCTAGGGCATTAATATTTTACTCAAAGGTATTTAATCTTTCATCTAAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
467841 T-TCATAATTGACACC
66 TGGCATAATTGACACC
* *
467856 TTTCTGTCAAATGCACAGCTATGCCATTAATCTTTTACTCAAAGGTACTTAACCTTTCATCTAAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
467921 TGGCATAATTGACACC
66 TGGCATAATTGACACC
* * * * * *
467937 TTTCTATTAAATGCACACCTAGGCTATTAATCTTTTACTTAAAGGTATTTAACCTTTCATCTGAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
468002 TGGCATAATTGACACA
66 TGGCATAATTGACACC
* * *
468018 TTTCTATCAAATGCACAGCTAGGCTATTAATCTTCTACTCAAAGGTATTTAACCTTTCATCTAAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
468083 TGGCATAATTGACACA
66 TGGCATAATTGACACC
468099 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
**
468164 TGGCATAATTGACATA
66 TGGCATAATTGACACC
468180 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
468245 T-GCATAATTGACATC
66 TGGCATAATTGACACC
* * * *
468260 TTTTTGTCAAATGCATAGCAAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATTTAAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* *
468325 TAGAATAATTGACACC
66 TGGCATAATTGACACC
*
468341 TTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
468406 TGGCATAATTGACACC
66 TGGCATAATTGACACC
* *
468422 TTTCTTTCAAATGCACAACTAGGCCATTAATCTTTTA
1 TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTA
468459 TTTTAGAATA
Statistics
Matches: 778, Mismatches: 63, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
80 149 0.19
81 625 0.80
82 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (81 bp):
TTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
TGGCATAATTGACACC
Found at i:468121 original size:323 final size:320
Alignment explanation
Indices: 467500--468458 Score: 1431
Period size: 323 Copynumber: 3.0 Consensus size: 320
467490 GACTAAGCAA
* * *
467500 TTAATCTTTCAT-TCAACTTGCATTATTCGTACATTTCTGTCAAATGCATC-GTTAGCCATTTAG
1 TTAATCTTTCATCT-AACTT-CATAATT-G-ACATTTCTGTCAAATGCA-CAGCTAGCCA-TTAA
* * *
467563 TCTTTTACCCAAAGGTATTTAACATTTCATCTAATTGGCATAATTGACACCTTTCTGTCAAATGC
60 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGC
467628 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
125 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* * * *
467693 CATTTATGTCAAATGCATAGCTAGG-TCGTTAATCTTTTACTCAAAGGTATTTAACCTTTCAACT
190 CATTTCTGTCAAATGCACAGCTAGGCT-ATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCT
* * *
467757 AACTGGCATAACTGACACCTTTCTGTCAAATGCACAGCTAGGGCATTAATATTTTACTCAAAGGT
254 AACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGT
467822 AT
319 AT
467824 TTAATCTTTCATCTAACTTCATAATTGACACCTTTCTGTCAAATGCACAGCTATGCCATTAATCT
1 TTAATCTTTCATCTAACTTCATAATTGACA--TTTCTGTCAAATGCACAGCTA-GCCATTAATCT
* * *
467889 TTTACTCAAAGGTACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATTAAATGCACA
63 TTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACA
* * * *
467954 CCTAGGCTATTAATCTTTTACTTAAAGGTATTTAACCTTTCATCTGACTGGCATAATTGACACAT
128 GCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACAT
* *
468019 TTCTATCAAATGCACAGCTAGGCTATTAATCTTCTACTCAAAGGTATTTAACCTTTCATCTAACT
193 TTCTGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACT
*
468084 GGCATAATTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTAT
258 GGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTAT
* *
468147 TTAACCTTTCATCTAACTGGCATAATTGACATATTTCTGTCAAATGCACAGCTAGGCCATTAATC
1 TTAATCTTTCATCTAACT-TCATAATTGAC--ATTTCTGTCAAATGCACAGCTA-GCCATTAATC
* * *
468212 TTTTACTCAAAGGTATTTAACCTTTCATCTAACT-GCATAATTGACATCTTTTTGTCAAATGCAT
62 TTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
* * * * *
468276 AGCAAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATTTAACTAGAATAATTGACACC
127 AGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACA
* *
468341 TTTCTGTCAAATGCACAGCTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
192 TTTCTGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* *
468406 TGGCATAATTGACACCTTTCTTTCAAATGCACAACTAGGCCATTAATCTTTTA
257 TGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTA
468459 TTTTAGAATA
Statistics
Matches: 578, Mismatches: 48, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
321 3 0.01
322 2 0.00
323 475 0.82
324 96 0.17
325 1 0.00
326 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (320 bp):
TTAATCTTTCATCTAACTTCATAATTGACATTTCTGTCAAATGCACAGCTAGCCATTAATCTTTT
ACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCT
AGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTC
TGTCAAATGCACAGCTAGGCTATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGC
ATAATTGACACCTTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTAT
Found at i:468254 original size:404 final size:404
Alignment explanation
Indices: 467563--468455 Score: 1453
Period size: 404 Copynumber: 2.2 Consensus size: 404
467553 AGCCATTTAG
* * * *
467563 TCTTTTACCCAAAGGTATTTAACATTTCATCTAATTGGCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
*
467628 ACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTCTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* * *
467693 CATTTATGTCAAATGCATAGCTAGGTCGTTAATCTTTTACTCAAAGGTATTTAACCTTTCAACTA
131 CATTTATGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCAACTA
* *
467758 ACTGGCATAACTGACACCTTTCTGTCAAATGCACAGCTAGGGCATTAATATTTTACTCAAAGGTA
196 ACTGGCATAACTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTA
* * * *
467823 TTTAATCTTTCATCTAACTTCATAATTGACACCTTTCTGTCAAATGCACAGCTATGCCATTAATC
261 TTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATGCACAGCAAGGCCATTAATC
* * *
467888 TTTTACTCAAAGGTACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATTAAATGCAC
326 TTTTACTCAAAGGTACTTAACCTTTCATCTAACTAGAATAATTGACACCTTTCTATCAAATGCAC
* *
467953 ACCTAGGCTATTAA
391 ACCTAGACCATTAA
* * *
467967 TCTTTTACTTAAAGGTATTTAACCTTTCATCTGACTGGCATAATTGACACATTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
*
468032 ACAGCTAGGCTATTAATCTTCTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
66 ACAGCTAGGCCATTAATCTTCTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
* *
468097 CATTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
131 CATTTATGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCAACTA
* * *
468162 ACTGGCATAATTGACATATTTCTGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTA
196 ACTGGCATAACTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTA
* * *
468227 TTTAACCTTTCATCTAACTGCATAATTGACATCTTTTTGTCAAATGCATAGCAAGGCCATTAATC
261 TTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATGCACAGCAAGGCCATTAATC
* * *
468292 TTTTACTCAAAGGTATTTAACCTTTCATTTAACTAGAATAATTGACACCTTTCTGTCAAATGCAC
326 TTTTACTCAAAGGTACTTAACCTTTCATCTAACTAGAATAATTGACACCTTTCTATCAAATGCAC
*
468357 AGCTAGACCATTAA
391 ACCTAGACCATTAA
*
468371 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
*
468436 ACAACTAGGCCATTAATCTT
66 ACAGCTAGGCCATTAATCTT
468456 TTATTTTAGA
Statistics
Matches: 448, Mismatches: 41, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
404 448 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (404 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
ACAGCTAGGCCATTAATCTTCTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA
CATTTATGTCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCAACTA
ACTGGCATAACTGACACATTTCTGTCAAATGCACAGCTAGGCCATTAATATTTTACTCAAAGGTA
TTTAACCTTTCATCTAACTGCATAATTGACACCTTTCTGTCAAATGCACAGCAAGGCCATTAATC
TTTTACTCAAAGGTACTTAACCTTTCATCTAACTAGAATAATTGACACCTTTCTATCAAATGCAC
ACCTAGACCATTAA
Found at i:468635 original size:54 final size:55
Alignment explanation
Indices: 468544--468753 Score: 273
Period size: 55 Copynumber: 3.9 Consensus size: 55
468534 TTGCACCTAT
* * * *
468544 AGTGCCAATACGGTAATACATAAACTTATTATGAATTTCTTAGTTTTTCACACAC
1 AGTGCCAATACTGAAATTCATAAACTTATTATAAATTTCTTAGTTTTTCACACAC
* * *
468599 AGTGCCAATACTAAAATTCATAGACTGA-TATAAATTTCTTAGTTTTGT-ACACAC
1 AGTGCCAATACTGAAATTCATAAACTTATTATAAATTTCTTAGTTTT-TCACACAC
* * * *
468653 AATGCCCATACTGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAC
1 AGTGCCAATACTGAAATTCATAAACTTATTATAAATTTCTTAGTTTTTCACACAC
* *
468708 AGTGCCTATACTGAAATGCATAAACTTATTATAAATTTCTTA-TTTT
1 AGTGCCAATACTGAAATTCATAAACTTATTATAAATTTCTTAGTTTT
468754 GCAAGCATAG
Statistics
Matches: 134, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
54 50 0.37
55 84 0.63
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (55 bp):
AGTGCCAATACTGAAATTCATAAACTTATTATAAATTTCTTAGTTTTTCACACAC
Found at i:469818 original size:54 final size:54
Alignment explanation
Indices: 469384--469821 Score: 545
Period size: 54 Copynumber: 8.1 Consensus size: 54
469374 ATTTACCTAC
* ** * *
469384 TTGGCACTATGTGTGCAATATAAGAAATTCATAATAAGTTTATGAATGTCTGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
* * * *
469438 TTGGCACTATATGTGAAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
* * *
469492 TTGGCACTATGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTTCGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
* * * * * *
469546 TAGGCAATGTGTGTGCAACCTAAGAAATTCATGATAAGCTTATGAATTTTCGCA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
* * * * **
469600 TTTGCATTGTGTGTGCAACCTAAGAAATTCATGATACGTTTATGAATTTTTGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
* * *
469654 TTGGCACTGTGTGTGCAACCTAATAAATTCATGATAAGTTTATGAATTTCTGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
* *
469708 TTGGCACTGTGTGTGCAACCTAATAAATTCATGAA-AAGTTTATGAATTTTCGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCAT-AATAAGTTTATGAATTTCCGTA
* ** * * *
469762 TTGGCACTGTGTGTTCAACCTAAGAAAAACATAATGAGTTTCTGAATTTCCATA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
469816 TTGGCA
1 TTGGCA
469822 TTAGATGTGC
Statistics
Matches: 344, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 2 0.01
54 341 0.99
55 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (54 bp):
TTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
Found at i:470894 original size:54 final size:54
Alignment explanation
Indices: 470812--471249 Score: 610
Period size: 54 Copynumber: 8.1 Consensus size: 54
470802 ATTTACCTAC
* ** * * *
470812 TTGGCACTATGTGTGCAATATAAGAAATTCATAATAAGTTTATGAATGTATGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCTGTA
* * *
470866 TTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCTGTA
*
470920 TTGGCACTATGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTT-TCGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCT-GTA
* * * *
470974 TAGGCAATGTGTGTGCAACCTAAGAAATTCATGATAAGCTTATGAATTT-TCGCA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCT-GTA
* * *
471028 TTTGCATTGTGTGTGCAACCTAAGAAATTCATGATACGTTTATGAATTTCTGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCTGTA
*
471082 TTGGCACTGTGTGTGCAACCTAATAAATTCATGATAAGTTTATGAATTTCTGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCTGTA
* *
471136 TTGGCACTGTGTGTGCAACCTAATAAATTCATGATAAGTTTATGAATTTCCGTA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCTGTA
* * * * **
471190 TTGGCACTGTGTGTGCAACCTAAGAAAATCATAATGAGTTTCTGAATTTCCATA
1 TTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCTGTA
471244 TTGGCA
1 TTGGCA
471250 TTAGATGTGC
Statistics
Matches: 353, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
54 352 1.00
55 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (54 bp):
TTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCTGTA
Found at i:477404 original size:20 final size:19
Alignment explanation
Indices: 477360--477408 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
477350 TCAGTTGAAC
**
477360 GGTATCGATACTAAAGTGA
1 GGTATCGATACTAAAGAAA
477379 -GTATCGATACTAAGAGAAA
1 GGTATCGATACTAA-AGAAA
477398 GGTATCGATAC
1 GGTATCGATAC
477409 CTTATAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 13 0.50
19 3 0.12
20 10 0.38
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (19 bp):
GGTATCGATACTAAAGAAA
Found at i:477986 original size:54 final size:54
Alignment explanation
Indices: 477917--478571 Score: 925
Period size: 54 Copynumber: 12.1 Consensus size: 54
477907 CATTTACCCA
** * *
477917 ATTGGCACTGCATGTGCAACCTAATAAATCCATAATAAGTTTATGAATTTCCGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* * * * *
477971 ATTGGCACTATATGTGCAACCTAAGAAATTCGTAATATGTTTATGAATTTCTGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* *
478025 ATTGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* * * **
478079 ATTGCCACTATGTGTGCAACCTAATAAATTCA-AGATAAGTTTATGAATTTTTGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATA-ATAAGTTTATGAATTTCCGT
* *
478133 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTTCGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* * **
478187 ATTGGAACTGTGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTTTGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
**
478241 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* * *
478295 ATTGGCTCTATGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTCCGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* * * * *
478349 ATTGGCACTGTGTGTGCATCCTAAAAAATTAATGATAAGTTTATGAATTTCTGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* * * *
478403 ATTGGAACTGTGTGTGCAACCTAAGAAATTCTTGATAAGTTTATGAATTTTCGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
*
478457 ATTGGCACTGTGTGTGCAACCTAATAAATTCATAATAAGTTTATGAATTTCCGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* * * *
478511 ATTGGCACTGTGTGTACAACCTAATAAATTCATAGTAAGTTTATGAATTTTCGT
1 ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
478565 ATTGGCA
1 ATTGGCA
478572 TTAGATGTGC
Statistics
Matches: 551, Mismatches: 48, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
53 1 0.00
54 550 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (54 bp):
ATTGGCACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
Found at i:480122 original size:19 final size:19
Alignment explanation
Indices: 480107--480154 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
480097 TGGTATGTAC
*
480107 AAATGAGAATGTTATGCCA
1 AAATGAGAATGTTATGACA
*
480126 AAATGAGAATGTTATGCCA
1 AAATGAGAATGTTATGACA
480145 AAATGA-AATG
1 AAATGAGAATG
480155 GATGTTGATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (19 bp):
AAATGAGAATGTTATGACA
Found at i:480827 original size:21 final size:20
Alignment explanation
Indices: 480802--480840 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
480792 TAAGGCATTA
480802 AACATCATAAACAAAACAAAC
1 AACATCATAAA-AAAACAAAC
*
480823 AACATCATATAAAAACAA
1 AACATCATAAAAAAACAA
480841 CCATCCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.21, G:0.00, T:0.13
Consensus pattern (20 bp):
AACATCATAAAAAAACAAAC
Found at i:489949 original size:9 final size:9
Alignment explanation
Indices: 489935--489970 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
489925 ATACATGTTT
489935 GCACGTTGA
1 GCACGTTGA
489944 GCACGTTGA
1 GCACGTTGA
489953 GCACGTTGA
1 GCACGTTGA
*
489962 GCAAGTTGA
1 GCACGTTGA
489971 CCAAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (9 bp):
GCACGTTGA
Found at i:494645 original size:26 final size:25
Alignment explanation
Indices: 494625--494686 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 25
494615 AAAATATATG
* *
494625 AAATTTAAACATAGATTAAATTGAAT
1 AAATTCAAAAATAGATTAAATT-AAT
494651 AAATTCAAAAATAGATTAAATTGAAT
1 AAATTCAAAAATAGATTAAATT-AAT
494677 AAATTCAAAA
1 AAATTCAAAA
494687 TTCAAGGGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (25 bp):
AAATTCAAAAATAGATTAAATTAAT
Found at i:495617 original size:12 final size:12
Alignment explanation
Indices: 495610--495634 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
495600 ATATAATATA
495610 ATAAATAATAAT
1 ATAAATAATAAT
495622 ATAAATAATAAT
1 ATAAATAATAAT
495634 A
1 A
495635 AAAACTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:495622 original size:15 final size:15
Alignment explanation
Indices: 495598--495635 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
495588 ATAAATTATC
495598 TAAT-ATAATAT-AA
1 TAATAATAATATAAA
495611 TAAATAATAATATAAA
1 T-AATAATAATATAAA
495627 TAATAATAA
1 TAATAATAA
495636 AAACTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.05
14 3 0.14
15 15 0.68
16 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATAATAATATAAA
Found at i:495687 original size:43 final size:42
Alignment explanation
Indices: 495634--495759 Score: 138
Period size: 41 Copynumber: 3.1 Consensus size: 42
495624 AAATAATAAT
495634 AAAAACTATATAACATATATTATATTTTCAAAAATATGTTTTC
1 AAAAACTATAT-ACATATATTATATTTTCAAAAATATGTTTTC
* * * ** *
495677 AAAAATTATATATAT-TATATATGTTTTCAAAAA-CCGTTTTT
1 AAAAACTATATACATATAT-TATATTTTCAAAAATATGTTTTC
495718 AAAAACTATATACATATA-TATA--TTC-AAAATATGTTTTC
1 AAAAACTATATACATATATTATATTTTCAAAAATATGTTTTC
495756 AAAA
1 AAAA
495760 TTATATTATA
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
37 4 0.06
38 12 0.18
40 3 0.04
41 21 0.31
42 18 0.26
43 10 0.15
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (42 bp):
AAAAACTATATACATATATTATATTTTCAAAAATATGTTTTC
Found at i:495691 original size:38 final size:38
Alignment explanation
Indices: 495648--495908 Score: 166
Period size: 38 Copynumber: 6.9 Consensus size: 38
495638 ACTATATAAC
495648 ATATAT-TATATTTTCAAAAATATGTTTTCAAAAATTAT
1 ATATATATATATTTTCAAAAATATGTTTTCAAAAA-TAT
** *
495686 ATATATTATATATGTTTTCAAAAA-CCGTTTTTAAAAACTAT
1 ATATA-TATATA--TTTTCAAAAATATGTTTTCAAAAA-TAT
* * *
495727 ATACATATATATATTC-AAAATATGTTTTCAAAATTAT
1 ATATATATATATTTTCAAAAATATGTTTTCAAAAATAT
* * ** *
495764 AT-TATATACATTTTCAAAAA-ACCGTTTTTTTAAACTAT
1 ATATATATATATTTTCAAAAATA-TG-TTTTCAAAAATAT
* * * **
495802 ATAT-TATATGTTTTTAAAAATGTGTTTTCAAAACCAT
1 ATATATATATATTTTCAAAAATATGTTTTCAAAAATAT
* ** *
495839 AT-TATATATGTTTTCAAAACCGAT-TTTT-AAAAAAACT
1 ATATATATATATTTTCAAAA-ATATGTTTTCAAAAATA-T
*
495876 ATATATTATATTTTTTCAAAAATA--TTTTCAAAA
1 ATATA-TATATATTTTCAAAAATATGTTTTCAAAA
495909 TAAGTCCCGG
Statistics
Matches: 173, Mismatches: 34, Indels: 32
0.72 0.14 0.13
Matches are distributed among these distances:
36 17 0.10
37 51 0.29
38 52 0.30
39 16 0.09
40 10 0.06
41 17 0.10
42 10 0.06
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.45
Consensus pattern (38 bp):
ATATATATATATTTTCAAAAATATGTTTTCAAAAATAT
Found at i:495738 original size:42 final size:43
Alignment explanation
Indices: 495633--495740 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 43
495623 TAAATAATAA
*
495633 TAAAAACTATATAACATATAT-TATATTTTCAAAAATATGTTTT
1 TAAAAACTATAT-ACATATATATATATTTTCAAAAATACGTTTT
* * * * *
495676 CAAAAATTATATATAT-TATATATGTTTTCAAAAA-CCGTTTT
1 TAAAAACTATATACATATATATATATTTTCAAAAATACGTTTT
495717 TAAAAACTATATACATATATATAT
1 TAAAAACTATATACATATATATAT
495741 TCAAAATATG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
41 21 0.39
42 23 0.43
43 10 0.19
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (43 bp):
TAAAAACTATATACATATATATATATTTTCAAAAATACGTTTT
Found at i:495799 original size:75 final size:75
Alignment explanation
Indices: 495633--495909 Score: 251
Period size: 75 Copynumber: 3.6 Consensus size: 75
495623 TAAATAATAA
495633 TAAAAACTATATAACATATATTATATTTTCAAAAATATGTTTTCAAAAATTATATATATTATATA
1 TAAAAACTATAT-ACATATA-TATA--TTC-AAAATATGTTTTC-AAAATTATAT-TA-TATATA
495698 TGTTTTC-AAAAACCGTTTT
58 --TTTTCAAAAAACCGTTTT
*
495717 TAAAAACTATATACATATATATATTCAAAATATGTTTTCAAAATTATATTATATACATTTTCAAA
1 TAAAAACTATATACATATATATATTCAAAATATGTTTTCAAAATTATATTATATATATTTTCAAA
495782 AAACCGTTTT
66 AAACCGTTTT
** * * * * * ** *
495792 TTTAAACTATATA-TTATATGTTTTTAAAAATGTGTTTTCAAAACCATATTATATATGTTTTC--
1 TAAAAACTATATACATATAT-ATATTCAAAATATGTTTTCAAAATTATATTATATATATTTTCAA
495854 AAAACCGATTTT
65 AAAACCG-TTTT
* * * *
495866 TAAAAAAACTATATA-TTATATTTTTTCAAAA-ATATTTTCAAAAT
1 T--AAAAACTATATACATATATATATTCAAAATATGTTTTCAAAAT
495910 AAGTCCCGGA
Statistics
Matches: 170, Mismatches: 18, Indels: 20
0.82 0.09 0.10
Matches are distributed among these distances:
73 7 0.04
74 25 0.15
75 66 0.39
76 21 0.12
77 2 0.01
78 10 0.06
79 13 0.08
80 3 0.02
82 4 0.02
83 7 0.04
84 12 0.07
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (75 bp):
TAAAAACTATATACATATATATATTCAAAATATGTTTTCAAAATTATATTATATATATTTTCAAA
AAACCGTTTT
Found at i:495886 original size:39 final size:37
Alignment explanation
Indices: 495648--495897 Score: 142
Period size: 37 Copynumber: 6.6 Consensus size: 37
495638 ACTATATAAC
** *
495648 ATATATTATA--TTTTCAAAAATATGTTTTCAAAAATTAT
1 ATATATTATATGTTTTCAAAAACGTGTTTT-AAAAA--CT
495686 ATATATTATATATGTTTTCAAAAACCGT-TTTTAAAAACT
1 ATATA-T-TATATGTTTTCAAAAA-CGTGTTTTAAAAACT
* * * *
495725 ATATACATATATATATTCAAAATA--TGTTTTCAAAA-T
1 ATATA-TTATATGTTTTCAAAA-ACGTGTTTTAAAAACT
* **
495761 -TATATTATATACATTTTCAAAAAACCGT-TTTTTTAAACT
1 ATATATTATAT--GTTTTC-AAAAA-CGTGTTTTAAAAACT
* * * *
495800 ATATATTATATGTTTTTAAAAATGTGTTTTCAAAACC
1 ATATATTATATGTTTTCAAAAACGTGTTTTAAAAACT
*
495837 ATAT-TATATATGTTTTCAAAACCGAT-TTTTAAAAAAACT
1 ATATAT-TATATGTTTTCAAAAACG-TGTTTT--AAAAACT
*
495876 ATATATTATATTTTTTCAAAAA
1 ATATATTATATGTTTTCAAAAA
495898 TATTTTCAAA
Statistics
Matches: 166, Mismatches: 25, Indels: 41
0.72 0.11 0.18
Matches are distributed among these distances:
34 5 0.03
35 4 0.02
36 11 0.07
37 48 0.29
38 30 0.18
39 33 0.20
40 15 0.09
41 5 0.03
42 14 0.08
43 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTATATGTTTTCAAAAACGTGTTTTAAAAACT
Found at i:500278 original size:27 final size:28
Alignment explanation
Indices: 500229--500289 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
500219 ATGTTTTTTG
500229 TAATTTTACCCCATAAGGGTA-TTTTCA
1 TAATTTTACCCCATAAGGGTATTTTTCA
* *
500256 TAATTTTACCCCAT-AGTGTTATTTTTGA
1 TAATTTTACCCCATAAG-GGTATTTTTCA
500284 TAATTT
1 TAATTT
500290 CTTATCCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 17 0.57
28 11 0.37
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.48
Consensus pattern (28 bp):
TAATTTTACCCCATAAGGGTATTTTTCA
Found at i:504081 original size:22 final size:22
Alignment explanation
Indices: 504055--504131 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
504045 GTATTATAAT
504055 GGAGTATCGATACCATAGTATA
1 GGAGTATCGATACCATAGTATA
504077 GGAGTATCGATACCATAGTATA
1 GGAGTATCGATACCATAGTATA
* *
504099 GTAGTATCGATACCATGGTA-A
1 GGAGTATCGATACCATAGTATA
*
504120 GG-GTACCGATAC
1 GGAGTATCGATAC
504132 TAGTGAGCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.18
21 2 0.04
22 40 0.78
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (22 bp):
GGAGTATCGATACCATAGTATA
Found at i:504534 original size:54 final size:54
Alignment explanation
Indices: 504458--505225 Score: 1013
Period size: 54 Copynumber: 14.2 Consensus size: 54
504448 CAAATGGTAG
* *
504458 TATGTGTGCAACTCATGGAATTCATCATATGTTGATGAACAACTC-TACAGACAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAAC-CGTACAGGCAC
* * * * * *
504512 TATGTGTGAAACCCACGCAATTCATCATATGTTTATGAATAACCATACAGGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
* * *
504566 TATGTGAGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTACATGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
* * * * *
504620 TATGTGTGCAACCCACGAAATTCATCATATGTTAATGAA-AACCCATACAAGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAA-CCGTACAGGCAC
*
504674 TATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCGTACAGGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
* * *
504728 TATGTGTGCAACCCAC-GAAGTTCATCATATGTTGATGAACAATCGTACAAGCAC
1 TATGTGTGCAACTCACGGAA-TTCATCATATGTTGATGAACAACCGTACAGGCAC
* ** *
504782 TATGTGTGCAACCCACAAAATTCATCATATGTTGATGAACAACCGTGCAGGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
* *
504836 TATGTGTGCAACCCACGGAATTCATCATATAG-TGATGAACAACCATACAGGCAC
1 TATGTGTGCAACTCACGGAATTCATCATAT-GTTGATGAACAACCGTACAGGCAC
* * * *
504890 AATGTGTGCAACTCACAGAATTTATCATATGTTGATGAAAAACCGTACAGGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
* * * * *
504944 TATGTGTGCAACTCACAGAATTTATCATATGTTAATGAAAAACTGTACAGGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
** * *
504998 TATGTGTGCAACTCACATAATTCATCATATGTTGATGAACTATCGTACAGGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
* * *
505052 TATGTGTGCAACCCATGGAATTCATCATATGTTGATGAACAATCGTACAGGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
* * * * *
505106 TATATGTGGAACTAACGGAATTCATCATATGTTGATGAACAACTGTACATGCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
* * *
505160 TATGTGTGCAACTCAGGGAATTCATCATATATTGATGAACAACCGTACAGCCAC
1 TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
*
505214 TATGTATGCAAC
1 TATGTGTGCAAC
505226 CCAAGGAAGA
Statistics
Matches: 630, Mismatches: 77, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
53 6 0.01
54 619 0.98
55 5 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (54 bp):
TATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTACAGGCAC
Found at i:507376 original size:2 final size:2
Alignment explanation
Indices: 507369--507453 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
507359 TGTCAGAAAG
507369 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
507411 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
507453 A
1 A
507454 GCTTTTTTTG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:512364 original size:28 final size:28
Alignment explanation
Indices: 512333--512400 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
512323 CTCAATGATG
* *
512333 TTTTCGTAATTTTA-CCCCATAAG-GGTA
1 TTTTTGTAATTTTACCCCCAT-AGTGCTA
512360 TTTTTGTAATTTTACCCCCATAGTGCTA
1 TTTTTGTAATTTTACCCCCATAGTGCTA
512388 TTTTTGGTAATTT
1 TTTTT-GTAATTT
512401 CTTATCCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 15 0.42
28 14 0.39
29 7 0.19
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (28 bp):
TTTTTGTAATTTTACCCCCATAGTGCTA
Found at i:512391 original size:27 final size:28
Alignment explanation
Indices: 512333--512400 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
512323 CTCAATGATG
*
512333 TTTTCGTAATTTTACCCCATAAGGGTAT
1 TTTTCGTAATTTTACCCCATAAGGCTAT
512361 TTTT-GTAATTTTACCCCCAT-AGTGCTAT
1 TTTTCGTAATTTTA-CCCCATAAG-GCTAT
*
512389 TTTTGGTAATTT
1 TTTTCGTAATTT
512401 CTTATCCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 11 0.31
28 18 0.50
29 7 0.19
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (28 bp):
TTTTCGTAATTTTACCCCATAAGGCTAT
Found at i:526586 original size:20 final size:19
Alignment explanation
Indices: 526543--526602 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
526533 GATAAACTGA
* *
526543 TATCTATACTAAAGATTAGG
1 TATCTATACTAAAGGTT-GT
526563 TATCTATACTAAAGGCTTGT
1 TATCTATACTAAAGG-TTGT
526583 TATC-ATTACTAAAGGTTGT
1 TATCTA-TACTAAAGGTTGT
526602 T
1 T
526603 TAATGAACTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 6 0.17
20 28 0.78
21 2 0.06
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (19 bp):
TATCTATACTAAAGGTTGT
Found at i:530742 original size:2 final size:2
Alignment explanation
Indices: 530730--530758 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
530720 CACGTATACC
530730 AT AT A- 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
530759 CATGTTATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:531093 original size:30 final size:30
Alignment explanation
Indices: 531057--531146 Score: 171
Period size: 30 Copynumber: 3.0 Consensus size: 30
531047 CCTGAATGAC
*
531057 CTATCCAGAGGTCACAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
531087 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
531117 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
531147 ACTGTCCATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 59 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:531506 original size:17 final size:19
Alignment explanation
Indices: 531471--531507 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
531461 TCATGTTATT
*
531471 TCACATATACACTTTTATA
1 TCACATATACACTTATATA
531490 TCACATA-A-ACTTATATA
1 TCACATATACACTTATATA
531507 T
1 T
531508 ATCATGTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 1 0.06
19 7 0.41
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (19 bp):
TCACATATACACTTATATA
Found at i:532928 original size:64 final size:63
Alignment explanation
Indices: 532854--532994 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
532844 TCTTTAACAT
* *
532854 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTT-TCATTTTAAAGG
1 GTGCATCGATGCACT-CCTCATGCATCGATACACAAATTACATTCGATGTTTCT-ATTTTAAAGA
* * * * * *
532917 GATGCATCGATGCACTCCTTATGCATCGATGCACCATTTGCATTCGATGTTTCTTTTTTAAAGA
1 G-TGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCTATTTTAAAGA
532981 GTGCATCGATGCAC
1 GTGCATCGATGCAC
532995 ATTGAATGTG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 16 0.24
64 50 0.75
65 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTCATGCATCGATACACAAATTACATTCGATGTTTCTATTTTAAAGA
Found at i:535402 original size:23 final size:23
Alignment explanation
Indices: 535354--535403 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
535344 TATCGACTAT
* **
535354 ATAA-ATTTTAAATTAGAATTAA
1 ATAATATTTTAAATTAAAACCAA
*
535376 ATAATATTTTAAATTAAAACCAG
1 ATAATATTTTAAATTAAAACCAA
535399 ATAAT
1 ATAAT
535404 TGTTAAACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAATATTTTAAATTAAAACCAA
Found at i:537751 original size:15 final size:15
Alignment explanation
Indices: 537733--537785 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 15
537723 TAACTAGTTT
537733 CGGTTTTTAAAAAAC
1 CGGTTTTTAAAAAAC
*
537748 CGGTTTTTTTAAAAAAA
1 CGG--TTTTTAAAAAAC
*
537765 CGG-TTATAAAAAAC
1 CGGTTTTTAAAAAAC
*
537779 CGATTTT
1 CGGTTTT
537786 AATATTATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 11 0.37
15 5 0.17
17 14 0.47
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (15 bp):
CGGTTTTTAAAAAAC
Found at i:537758 original size:17 final size:17
Alignment explanation
Indices: 537736--537769 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
537726 CTAGTTTCGG
*
537736 TTTTTAAAAAACCGGTT
1 TTTTTAAAAAAACGGTT
537753 TTTTTAAAAAAACGGTT
1 TTTTTAAAAAAACGGTT
537770 ATAAAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (17 bp):
TTTTTAAAAAAACGGTT
Found at i:537876 original size:33 final size:33
Alignment explanation
Indices: 537829--537937 Score: 161
Period size: 33 Copynumber: 3.4 Consensus size: 33
537819 ACAAAGTTTA
*
537829 CGAT-AATTGAAATACTTAAATACTTCCAAGTT
1 CGATAAATTGAAATACTTAAAAACTTCCAAGTT
* * *
537861 TGATAAATTCAAATACTTAAAAACTTCTAAGTT
1 CGATAAATTGAAATACTTAAAAACTTCCAAGTT
537894 CGATAAATTGAAATACTTAAAAACTT-CAAGTT
1 CGATAAATTGAAATACTTAAAAACTTCCAAGTT
537926 CGAT-AATTGAAA
1 CGATAAATTGAAA
537938 CAAAGTTTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
31 8 0.12
32 12 0.17
33 49 0.71
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (33 bp):
CGATAAATTGAAATACTTAAAAACTTCCAAGTT
Found at i:537950 original size:21 final size:21
Alignment explanation
Indices: 537926--537967 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
537916 ACTTCAAGTT
537926 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
537947 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
537968 AAAACTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:546208 original size:57 final size:57
Alignment explanation
Indices: 546138--546248 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
546128 AAACTAGATT
* * *
546138 TGTTTCAGGCTATAACTTCTCCAATAGGAATATATCCACTTTTCCATGTGCCCTTTG
1 TGTTTCAAGCTATAACATCTCCAATAGGAATATATCCACTTTTCCATGAGCCCTTTG
* * * *
546195 TGTTTCAATCTATAACATCTCCCATAGGAATATATTCACTTTTCCTTGAGCCCT
1 TGTTTCAAGCTATAACATCTCCAATAGGAATATATCCACTTTTCCATGAGCCCT
546249 CTTGAGAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (57 bp):
TGTTTCAAGCTATAACATCTCCAATAGGAATATATCCACTTTTCCATGAGCCCTTTG
Found at i:546996 original size:14 final size:14
Alignment explanation
Indices: 546977--547003 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
546967 TTTTGATAAG
546977 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
546991 TGTAGAAAACAGA
1 TGTAGAAAACAGA
547004 ATAGTCTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (14 bp):
TGTAGAAAACAGAC
Found at i:551709 original size:14 final size:14
Alignment explanation
Indices: 551690--551716 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
551680 CCTGATACCA
551690 TGTAGAAAACAGAC
1 TGTAGAAAACAGAC
551704 TGTAGAAAACAGA
1 TGTAGAAAACAGA
551717 ATAGTCTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (14 bp):
TGTAGAAAACAGAC
Found at i:553895 original size:46 final size:46
Alignment explanation
Indices: 553828--553919 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
553818 GTAGCATTAT
*
553828 GATGAAATTAGTGTTTCATTTATTGCAGAAAATACTTGTATAAACA
1 GATGAAATTAGCGTTTCATTTATTGCAGAAAATACTTGTATAAACA
*
553874 GATGAAATTAGCGTTTCATTTATTGCAGCAAATACTTGTATAAACA
1 GATGAAATTAGCGTTTCATTTATTGCAGAAAATACTTGTATAAACA
553920 AACATTTCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (46 bp):
GATGAAATTAGCGTTTCATTTATTGCAGAAAATACTTGTATAAACA
Found at i:568314 original size:60 final size:59
Alignment explanation
Indices: 568180--568316 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 59
568170 TAAAGTACAC
* * * * ** *
568180 AAATGGTCCCCGACTATAGAGTGTTGTTTTGTTGAGTTCTTCGACTATTAAAAGTTATA
1 AAATGGTCCCCGACTATAGAGCGTTGCTTTGATGAGTCCCCCGACTATTAAAAATTATA
* *
568239 AAATGATCCTTCGACTATATG-GCGTTGCTTTGATGAGTCCCCCGACTATTAAAAATTATA
1 AAATGGTCC-CCGACTATA-GAGCGTTGCTTTGATGAGTCCCCCGACTATTAAAAATTATA
568299 AAATGGTCACCCGACTAT
1 AAATGGTC-CCCGACTAT
568317 TCATATGTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
59 8 0.12
60 54 0.84
61 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (59 bp):
AAATGGTCCCCGACTATAGAGCGTTGCTTTGATGAGTCCCCCGACTATTAAAAATTATA
Found at i:572245 original size:27 final size:27
Alignment explanation
Indices: 572194--572245 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
572184 TTCATTAAAC
* *
572194 ATTTTTATATTTTCAATTTTGTAAATA
1 ATTTTTATAATTTAAATTTTGTAAATA
572221 ATTTTTATGAATTTAAATTTT-TAAA
1 ATTTTTAT-AATTTAAATTTTGTAAA
572246 GAAAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (27 bp):
ATTTTTATAATTTAAATTTTGTAAATA
Found at i:572442 original size:20 final size:20
Alignment explanation
Indices: 572416--572486 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
572406 ATCCTATTCC
572416 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
*
572436 ATGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
* **
572456 CTGATAATCTTACATTCCCA
1 CTGGTAATCTTTTATTCCCA
572476 CTGGTAATCTT
1 CTGGTAATCTT
572487 ACATTCCGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:575214 original size:28 final size:28
Alignment explanation
Indices: 575182--575236 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
575172 TAAAAAGCTC
575182 ATGATATGAGACAACCTAAAATCAACTT
1 ATGATATGAGACAACCTAAAATCAACTT
*
575210 ATGATATGAGACAACCTAAACTCAACT
1 ATGATATGAGACAACCTAAAATCAACT
575237 CATGTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (28 bp):
ATGATATGAGACAACCTAAAATCAACTT
Found at i:577369 original size:80 final size:79
Alignment explanation
Indices: 577247--577541 Score: 432
Period size: 80 Copynumber: 3.7 Consensus size: 79
577237 CAGCAAAAAG
* * * *
577247 GGGAGCCAACCTAAGGATATACCTT-GGATCTACCCAAGGATATCGTTAGATCCGTAGGGTTACC
1 GGGAACCAACCTAAGGATATACCTTGGGACCTACCCAA-GATATCCTTAGGTCCGTAGGGTTACC
*
577311 TTA-AGCACACAGCTAA
65 TTATA-CACACAAC-AA
*
577327 GGGAACCAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCT
1 GGGAACCAACCTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCT
*
577392 TATACACGCAACAAA
66 TATACACACAAC-AA
*
577407 GGAAACCAACCTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCT
1 GGGAACCAACCTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCT
577472 TATACACACAACAA
66 TATACACACAACAA
* ** *
577486 AGGAACCAACCTAAGGATATGTCTTGGGGCCTACCCAAGATATCCTTAGGTCCGTA
1 GGGAACCAACCTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTA
577542 AGGACTTACA
Statistics
Matches: 197, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
79 53 0.27
80 133 0.68
81 11 0.06
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (79 bp):
GGGAACCAACCTAAGGATATACCTTGGGACCTACCCAAGATATCCTTAGGTCCGTAGGGTTACCT
TATACACACAACAA
Found at i:577463 original size:160 final size:159
Alignment explanation
Indices: 577252--577541 Score: 476
Period size: 159 Copynumber: 1.8 Consensus size: 159
577242 AAAAGGGGAG
* *
577252 CCAACCTAAGGATATACCTTGGATCTACCCAAGGATATCGTTAGATCCGTAGGGTTACCTTA-AG
1 CCAACCTAAGGATATACCTTGGACCTACCCAAGGATATCCTTAGATCCGTAGGGTTACCTTATA-
* *
577316 CACACAGCTAAGGGAACCAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTCCG
65 CACACAAC-AAAGGAACCAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTCCG
577381 TAGGGTTACCTTATACACGCAACAAAGGAAA
129 TAGGGTTACCTTATACACGCAACAAAGGAAA
*
577412 CCAACCTAAGGATATACCTTGGGACCTACCCAA-GATATCCTTAGGTCCGTAGGGTTACCTTATA
1 CCAACCTAAGGATATACCTT-GGACCTACCCAAGGATATCCTTAGATCCGTAGGGTTACCTTATA
**
577476 CACACAACAAAGGAACCAACCTAAGGATATGTCTTGGGGCCTACCCAAGATATCCTTAGGTCCGT
65 CACACAACAAAGGAACCAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTCCGT
577541 A
130 A
577542 AGGACTTACA
Statistics
Matches: 121, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
159 55 0.45
160 54 0.45
161 12 0.10
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (159 bp):
CCAACCTAAGGATATACCTTGGACCTACCCAAGGATATCCTTAGATCCGTAGGGTTACCTTATAC
ACACAACAAAGGAACCAACCTAAGGATATACCTTGGGGCCTACCCAAGATATCCTTAGGTCCGTA
GGGTTACCTTATACACGCAACAAAGGAAA
Found at i:580480 original size:17 final size:17
Alignment explanation
Indices: 580458--580498 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
580448 AGTCAACTGT
580458 GGTCAACGCCGGTCAAC
1 GGTCAACGCCGGTCAAC
*
580475 GGTCAACGTCGGTCAAC
1 GGTCAACGCCGGTCAAC
580492 GGTCAAC
1 GGTCAAC
580499 AGTCGACCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (17 bp):
GGTCAACGCCGGTCAAC
Found at i:580594 original size:22 final size:23
Alignment explanation
Indices: 580562--580612 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
580552 CCACCTTCTG
*
580562 CAAATATTTACGA-AACTAACACC
1 CAAATATTTAC-ACAAATAACACC
*
580585 CAAAT-TTTACACAAATAGCACC
1 CAAATATTTACACAAATAACACC
580607 CAAATA
1 CAAATA
580613 GAAATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.22
Consensus pattern (23 bp):
CAAATATTTACACAAATAACACC
Found at i:583802 original size:45 final size:46
Alignment explanation
Indices: 583714--583804 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
583704 TTGAAAAAGC
* * *
583714 CTGAGTGCATCGATGCATGGTCTTGTGCATTGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
583760 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
583805 TTCGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:592498 original size:45 final size:45
Alignment explanation
Indices: 592412--592496 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
592402 GGTGCACTAA
592412 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAATCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAATCCT
592457 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTGAAAAA
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAA
592497 ATAATTGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 9 0.22
45 31 0.77
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (45 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAATCCT
Found at i:592512 original size:45 final size:45
Alignment explanation
Indices: 592412--592517 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
592402 GGTGCACTAA
* *
592412 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAATCCT
1 GAGTGAATCGATGCATAAAATGCATTCGATGTTTTGAAAAATACT
* *
592457 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTGAAAAAATAATT
1 GAGTGAATCGATGCATAAAATGCATTCGATGTTTTG-AAAAAT-ACT
592503 G-GTGAATCGATGCAT
1 GAGTGAATCGATGCAT
592518 GGATTGGTGC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
44 4 0.07
45 50 0.89
46 2 0.04
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (45 bp):
GAGTGAATCGATGCATAAAATGCATTCGATGTTTTGAAAAATACT
Found at i:592525 original size:20 final size:20
Alignment explanation
Indices: 592500--592537 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
592490 TGAAAAAATA
592500 ATTGGTGAATCGATGCATGG
1 ATTGGTGAATCGATGCATGG
* *
592520 ATTGGTGCATCGGTGCAT
1 ATTGGTGAATCGATGCAT
592538 CACTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.13, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGAATCGATGCATGG
Found at i:601573 original size:63 final size:63
Alignment explanation
Indices: 601469--601599 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
601459 TCGGTTAGTG
*
601469 GGTGTTGATTCTGAAAGGTCAAGAAGCGAATTCTAGGTTTGTCCCAACCAGTCGCCGACAGAA
1 GGTGCTGATTCTGAAAGGTCAAGAAGCGAATTCTAGGTTTGTCCCAACCAGTCGCCGACAGAA
*
601532 GGTGCTGATTCTGAAAGGTCAAGAAGCGAATTCTCGGTTTGTCCCAACCAGTCGCCGACAGAA
1 GGTGCTGATTCTGAAAGGTCAAGAAGCGAATTCTAGGTTTGTCCCAACCAGTCGCCGACAGAA
601595 GGTGC
1 GGTGC
601600 AACAGAATCT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (63 bp):
GGTGCTGATTCTGAAAGGTCAAGAAGCGAATTCTAGGTTTGTCCCAACCAGTCGCCGACAGAA
Found at i:603903 original size:35 final size:35
Alignment explanation
Indices: 603864--603937 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
603854 AAAAAAATCC
603864 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
* * *
603899 TCAATTACATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
603934 TCAA
1 TCAA
603938 AATAATATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATAAT
Found at i:603993 original size:10 final size:10
Alignment explanation
Indices: 603978--604004 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
603968 TAACCAAGAT
603978 TTTTTTTTGA
1 TTTTTTTTGA
603988 TTTTTTTTGA
1 TTTTTTTTGA
603998 TTTTTTT
1 TTTTTTT
604005 AATGTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:605101 original size:81 final size:81
Alignment explanation
Indices: 604962--605278 Score: 481
Period size: 81 Copynumber: 3.9 Consensus size: 81
604952 AACCTTTCAT
* * * * *
604962 TTTTACTCAACCGTGTTTAACCGTTCATCTAACTGGCATATTTGGCACCTTTCTACCAATTGCAC
1 TTTTACTCAACGGTATTAAACCGTTCATCTAATTGGCATAATTGGCACCTTTCTACCAATTGCAC
605027 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* * * *
605043 CTTAACTCAACGGTATTAAACCGTTCATCTAATTGGCATAATTGGTACCTTTCTACCAATTGTAC
1 TTTTACTCAACGGTATTAAACCGTTCATCTAATTGGCATAATTGGCACCTTTCTACCAATTGCAC
* *
605108 AGTTAGACTATTATTC
66 AGTTAGGCCATTATTC
* * *
605124 TTTTACTCAACGGTATTAAACCTTTCATCTAATTGGTATAATTGGCACATTTCTACCAATTGCAC
1 TTTTACTCAACGGTATTAAACCGTTCATCTAATTGGCATAATTGGCACCTTTCTACCAATTGCAC
*
605189 AGTTAGGCTATTATTC
66 AGTTAGGCCATTATTC
* *
605205 TTTTACTCAACGGTATTAAACCGTTCATCTAATGGGCATAATTGGTACCTTTCTACCAATTGCAC
1 TTTTACTCAACGGTATTAAACCGTTCATCTAATTGGCATAATTGGCACCTTTCTACCAATTGCAC
605270 AGTTAGGCC
66 AGTTAGGCC
605279 TCAAAGGCAC
Statistics
Matches: 211, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 211 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (81 bp):
TTTTACTCAACGGTATTAAACCGTTCATCTAATTGGCATAATTGGCACCTTTCTACCAATTGCAC
AGTTAGGCCATTATTC
Found at i:605439 original size:68 final size:68
Alignment explanation
Indices: 605266--605756 Score: 723
Period size: 68 Copynumber: 7.2 Consensus size: 68
605256 TCTACCAATT
** * *
605266 GCACAGTTAGGCCTCAAAGGCACCTAGCCTTTCATCTAACAGGCTTATATGACACATTTCTGTCA
1 GCACAGTTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
605331 TAA
66 TAA
* * * *
605334 GCAAAG-TAAGCCTTAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTATGTCA
1 GCACAGTTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
605398 TAA
66 TAA
*
605401 GCACAGTTAGGCCTTAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
1 GCACAGTTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
*
605466 GAA
66 TAA
* * *
605469 GCACAATTAGGCCTTAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACATTTCTGTCA
1 GCACAGTTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
605534 TAA
66 TAA
*
605537 GCACAATTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
1 GCACAGTTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
*
605602 CAA
66 TAA
* * * *
605605 GCACAATTAAGCCTCAAAGACACTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
1 GCACAGTTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
605670 TAA
66 TAA
* * * * * * **
605673 GTACAGTTAGGCCTCAAAGACAGTTAGCCTTTCATCTAATTGGTTTATATGTCACAATTCTGTCA
1 GCACAGTTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
605738 TAA
66 TAA
*
605741 GCATAGTTAGGCCTCA
1 GCACAGTTAGGCCTCA
605757 TAATCCTTTA
Statistics
Matches: 389, Mismatches: 33, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
67 59 0.15
68 330 0.85
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (68 bp):
GCACAGTTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCTTATATGACACCTTTCTGTCA
TAA
Found at i:606538 original size:76 final size:77
Alignment explanation
Indices: 606447--606592 Score: 224
Period size: 76 Copynumber: 1.9 Consensus size: 77
606437 TACCCCTTCG
* * * *
606447 GGTATCGATACCAAAAATT-GGTTCGATGTTTCTTGGTATCGATA-CCCTTACCATGGTATTGAT
1 GGTACCGATACC-AAAATTAGATTCGATGTTTCATGGTATCGATACCCCTTACCATGGTATCGAT
606510 ACTACCCTATTAT
65 ACTACCCTATTAT
*
606523 GGTACCGATACCAAAATTAGATTCGATGTTTCATGGTATCGATACCCCTTATCATGGTATCGATA
1 GGTACCGATACCAAAATTAGATTCGATGTTTCATGGTATCGATACCCCTTACCATGGTATCGATA
606588 CTACC
66 CTACC
606593 TCATCGGTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 6 0.10
76 34 0.54
77 23 0.37
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (77 bp):
GGTACCGATACCAAAATTAGATTCGATGTTTCATGGTATCGATACCCCTTACCATGGTATCGATA
CTACCCTATTAT
Found at i:610503 original size:23 final size:23
Alignment explanation
Indices: 610473--610519 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
610463 TCCCGAAAGA
610473 CCACATAGGTTTGCACGGAAGTG
1 CCACATAGGTTTGCACGGAAGTG
*
610496 CCACATAGGTTTGCACTGAAGTG
1 CCACATAGGTTTGCACGGAAGTG
610519 C
1 C
610520 GCCGAAGGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (23 bp):
CCACATAGGTTTGCACGGAAGTG
Found at i:611156 original size:53 final size:53
Alignment explanation
Indices: 611093--611216 Score: 153
Period size: 53 Copynumber: 2.3 Consensus size: 53
611083 GATACTTTCC
*
611093 TTCAAGGGTATCGATACTTCCTCATGGTACCGATACCGAA-ATAGCATTCGATG-
1 TTCAAGGGTATCGATACTT-CTCAAGGTACCGATACC-AATATAGCATTCGATGT
* * * *
611146 TTCAAGGGTATTGATACCTTCTCAAGGTACTGATACCAATCTGGCATTCGATGT
1 TTCAAGGGTATCGATA-CTTCTCAAGGTACCGATACCAATATAGCATTCGATGT
*
611200 TTCAAAGGTATCGATAC
1 TTCAAGGGTATCGATAC
611217 CATCCTTCAG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
52 2 0.03
53 42 0.69
54 17 0.28
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (53 bp):
TTCAAGGGTATCGATACTTCTCAAGGTACCGATACCAATATAGCATTCGATGT
Found at i:611230 original size:20 final size:21
Alignment explanation
Indices: 611205--611296 Score: 77
Period size: 20 Copynumber: 4.5 Consensus size: 21
611195 GATGTTTCAA
*
611205 AGGTATCGATACCATCCTT-C
1 AGGTATCGATACCACCCTTAC
* *
611225 AGGTATCAATACTACCCTTAC
1 AGGTATCGATACCACCCTTAC
*
611246 A-GTATCGATA-C-CTCTTCAAC
1 AGGTATCGATACCACCCTT--AC
*
611266 AGGTATCGATACTACCCTTAC
1 AGGTATCGATACCACCCTTAC
*
611287 A-GTATTGATA
1 AGGTATCGATA
611297 TCTCTTCATC
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
18 4 0.07
20 35 0.61
21 14 0.25
23 4 0.07
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (21 bp):
AGGTATCGATACCACCCTTAC
Found at i:611273 original size:21 final size:21
Alignment explanation
Indices: 611247--611318 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
611237 TACCCTTACA
611247 GTATCGATACCTCTTCAACAG
1 GTATCGATACCTCTTCAACAG
*
611268 GTATCGATACTACCCTT--ACA-
1 GTATCGATAC--CTCTTCAACAG
* * *
611288 GTATTGATATCTCTTCATCAG
1 GTATCGATACCTCTTCAACAG
611309 GTATCGATAC
1 GTATCGATAC
611319 TACCCTTTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
18 4 0.10
20 10 0.26
21 21 0.54
23 4 0.10
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (21 bp):
GTATCGATACCTCTTCAACAG
Found at i:611278 original size:41 final size:41
Alignment explanation
Indices: 611224--611325 Score: 168
Period size: 41 Copynumber: 2.5 Consensus size: 41
611214 TACCATCCTT
*
611224 CAGGTATCAATACTACCCTTACAGTATCGATACCTCTTCAA
1 CAGGTATCGATACTACCCTTACAGTATCGATACCTCTTCAA
* * *
611265 CAGGTATCGATACTACCCTTACAGTATTGATATCTCTTCAT
1 CAGGTATCGATACTACCCTTACAGTATCGATACCTCTTCAA
611306 CAGGTATCGATACTACCCTT
1 CAGGTATCGATACTACCCTT
611326 TAATTTTCAC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.32
Consensus pattern (41 bp):
CAGGTATCGATACTACCCTTACAGTATCGATACCTCTTCAA
Found at i:612149 original size:18 final size:18
Alignment explanation
Indices: 612106--612164 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
612096 CATGTACATA
* *
612106 TATCATCATCTATTTC-T
1 TATCATTATCTATATCAT
*
612123 TAGCATTATCATATAT-AT
1 TATCATTATC-TATATCAT
*
612141 TATCATTATCTCTATCAT
1 TATCATTATCTATATCAT
612159 TATCAT
1 TATCAT
612165 CAAATTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 12 0.35
18 22 0.65
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.49
Consensus pattern (18 bp):
TATCATTATCTATATCAT
Found at i:628129 original size:16 final size:17
Alignment explanation
Indices: 628110--628142 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
628100 ATATGATCCT
628110 AATAATTCAT-ATTCTG
1 AATAATTCATGATTCTG
*
628126 AATAATTGATGATTCTG
1 AATAATTCATGATTCTG
628143 TCAGTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (17 bp):
AATAATTCATGATTCTG
Found at i:628334 original size:24 final size:24
Alignment explanation
Indices: 628296--628385 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
628286 ATGTTTTATC
*
628296 TGATTT-TGATTTGAATTAC-GATA
1 TGATTTCTGATCTGAATT-CTGATA
* *
628319 TGATTTCTGATCTGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTGATA
* * * * *
628343 TGATTTCTGATATGGATTTTGTTC
1 TGATTTCTGATCTGAATTCTGATA
*
628367 TGATATCTGATCTGAATTC
1 TGATTTCTGATCTGAATTC
628386 AGTTTTGATT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
23 7 0.13
24 47 0.87
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.50
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTCTGATA
Found at i:628350 original size:12 final size:12
Alignment explanation
Indices: 628319--628396 Score: 50
Period size: 12 Copynumber: 6.5 Consensus size: 12
628309 AATTACGATA
*
628319 TGATTTCTGATC
1 TGATTTCTGTTC
* *
628331 TGAATTCTGTTT
1 TGATTTCTGTTC
* *
628343 TGATTTCTGATA
1 TGATTTCTGTTC
628355 TGGATTT-TGTTC
1 T-GATTTCTGTTC
* *
628367 TGATATCTGATC
1 TGATTTCTGTTC
* * *
628379 TGAATTCAGTTT
1 TGATTTCTGTTC
628391 TGATTT
1 TGATTT
628397 TTGAAATCTC
Statistics
Matches: 48, Mismatches: 16, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
11 4 0.08
12 39 0.81
13 5 0.10
ACGTcount: A:0.19, C:0.10, G:0.18, T:0.53
Consensus pattern (12 bp):
TGATTTCTGTTC
Found at i:628394 original size:24 final size:24
Alignment explanation
Indices: 628319--628396 Score: 102
Period size: 24 Copynumber: 3.2 Consensus size: 24
628309 AATTACGATA
628319 TGATTTCTGATCTGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTGTTT
* * * *
628343 TGATTTCTGATATGGATTTTGTTC
1 TGATTTCTGATCTGAATTCTGTTT
* *
628367 TGATATCTGATCTGAATTCAGTTT
1 TGATTTCTGATCTGAATTCTGTTT
628391 TGATTT
1 TGATTT
628397 TTGAAATCTC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.19, C:0.10, G:0.18, T:0.53
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTCTGTTT
Found at i:629681 original size:29 final size:29
Alignment explanation
Indices: 629639--629797 Score: 232
Period size: 29 Copynumber: 5.5 Consensus size: 29
629629 CGACCCGGTA
629639 ACATTTTGGGAATTATTTTGAAAAAGGTG
1 ACATTTTGGGAATTATTTTGAAAAAGGTG
629668 ACATTTTGGGAATTATTTTGAAAAAGGTG
1 ACATTTTGGGAATTATTTTGAAAAAGGTG
*
629697 ACA-TTTAGGAATTATTTTGAGAAAA-GTG
1 ACATTTTGGGAATTATTTTGA-AAAAGGTG
* * *
629725 AAATTTTGGTAATTATTATGAAAAAGGTG
1 ACATTTTGGGAATTATTTTGAAAAAGGTG
* *
629754 ACATTCTGGGAATTACTTTGAAAAAAGGTG
1 ACATTTTGGGAATTATTTTG-AAAAAGGTG
629784 ACATTTTGGGAATT
1 ACATTTTGGGAATT
629798 TTTGAATGTA
Statistics
Matches: 115, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
28 25 0.22
29 68 0.59
30 22 0.19
ACGTcount: A:0.36, C:0.04, G:0.23, T:0.36
Consensus pattern (29 bp):
ACATTTTGGGAATTATTTTGAAAAAGGTG
Found at i:629731 original size:57 final size:58
Alignment explanation
Indices: 629647--629797 Score: 225
Period size: 57 Copynumber: 2.6 Consensus size: 58
629637 TAACATTTTG
*
629647 GGAATTATTTTGAAAAAGGTGACATTTTGGGAATTATTTTGAAAAAGGTGACATT-TA
1 GGAATTATTTTGAAAAAGGTGACATTTTGGGAATTATTATGAAAAAGGTGACATTCTA
* * *
629704 GGAATTATTTTGAGAAAA-GTGAAATTTTGGTAATTATTATGAAAAAGGTGACATTCTG
1 GGAATTATTTTGA-AAAAGGTGACATTTTGGGAATTATTATGAAAAAGGTGACATTCTA
*
629762 GGAATTACTTTGAAAAAAGGTGACATTTTGGGAATT
1 GGAATTATTTTG-AAAAAGGTGACATTTTGGGAATT
629798 TTTGAATGTA
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
57 47 0.57
58 20 0.24
59 16 0.19
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (58 bp):
GGAATTATTTTGAAAAAGGTGACATTTTGGGAATTATTATGAAAAAGGTGACATTCTA
Found at i:630746 original size:32 final size:31
Alignment explanation
Indices: 630673--630748 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
630663 CTAATGTGAC
* *
630673 TCTTAGGTAGGCTCTGCGACCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
** *
630704 TCTCGGGTAGGCCCTGCGGCCCTAAGAT-ATGT
1 TCTTAGGTAGGCCCTGCGACCCTAAGATCA--T
630736 TCTTAGGTAGGCC
1 TCTTAGGTAGGCC
630749 ACACAGCCCC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
30 1 0.03
31 23 0.64
32 12 0.33
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.28
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
Found at i:630865 original size:25 final size:25
Alignment explanation
Indices: 630813--630865 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
630803 AGGGTAACTC
* *
630813 TTTTATGGGATTTACTGCAGTATAA
1 TTTTATGAGATTTACTGCACTATAA
* *
630838 TTTTATGAGATTTACTGGACTATGA
1 TTTTATGAGATTTACTGCACTATAA
630863 TTT
1 TTT
630866 GTTTAGTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCACTATAA
Found at i:634329 original size:130 final size:131
Alignment explanation
Indices: 634001--634367 Score: 477
Period size: 131 Copynumber: 2.8 Consensus size: 131
633991 AATAATTTTA
* ** *
634001 AGAGAGAACGATAATATCTAATTATTTATAATCGAGAATAAATGACCTCTCATACCTTAAAGCAA
1 AGAGAGAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAG
* * *
634066 CCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCGTCTTAAAATTCAATATCGATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCATCTTAAAATTCAATATCAATTC
634131 G
131 G
* * * * * *
634132 AGTGAAAATGATAATATTTAATGATTTCCCATCGAGAATAAATGACCTATCATACCTTAAAGCAG
1 AGAGAGAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAG
* ** *
634197 TCATTTATTGA-TCCAATTGAAATGAAGCTATATCACTATTCCATCTTAAAA-TCAATATTAATT
66 TCATTTATT-ACTCCAATCGAAATGAAGAGATATCACTATTCCATCTTAAAATTCAATATCAATT
*
634260 TG
130 CG
* * * * *
634262 AGAGAGAATGATAATATCAAATTATTTCCAATCGAGAATAAATAACCTCTCATGCCTTAGAGTAG
1 AGAGAGAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAG
* * *
634327 TCATTTATTACTCCAACCGAAATGAAAAGATATTACTATTC
66 TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTC
634368 TCAATATTGA
Statistics
Matches: 199, Mismatches: 35, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
129 1 0.01
130 98 0.49
131 99 0.50
132 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (131 bp):
AGAGAGAATGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATACCTTAAAGCAG
TCATTTATTACTCCAATCGAAATGAAGAGATATCACTATTCCATCTTAAAATTCAATATCAATTC
G
Found at i:636404 original size:3 final size:3
Alignment explanation
Indices: 636392--636458 Score: 104
Period size: 3 Copynumber: 23.0 Consensus size: 3
636382 AAAAAAGTAT
636392 TAA T-A TAA TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
636437 TAA TAA T-A TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
636459 CGGGACGAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 6 0.10
3 51 0.85
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:638870 original size:24 final size:24
Alignment explanation
Indices: 638853--638974 Score: 124
Period size: 24 Copynumber: 5.1 Consensus size: 24
638843 ATCAAAACAT
* *
638853 AATCCATGTCAAGTATCATATCAA
1 AATCCATGTCAAGTATCAGATCAG
* *
638877 AATTCAGGTCAAGTATTC-GATCAG
1 AATCCATGTCAAGTA-TCAGATCAG
*
638901 AATCCAAGTCAAGTATCAGATCAG
1 AATCCATGTCAAGTATCAGATCAG
* *
638925 AATCCATG--ATAGATATCATACCAG
1 AATCCATGTCA-AG-TATCAGATCAG
*
638949 AATCCATGTCAAGTATCATATCAG
1 AATCCATGTCAAGTATCAGATCAG
638973 AA
1 AA
638975 ATCAAATCAA
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
22 1 0.01
23 4 0.05
24 72 0.88
25 4 0.05
26 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (24 bp):
AATCCATGTCAAGTATCAGATCAG
Found at i:643637 original size:24 final size:24
Alignment explanation
Indices: 643607--643718 Score: 111
Period size: 24 Copynumber: 4.7 Consensus size: 24
643597 AAAATAAAAA
*
643607 CATAATCTAGGTCAAGTATCATAT
1 CATAATCCAGGTCAAGTATCATAT
* * *
643631 CAAAATCTAGGTCAAGTATTC-GAT
1 CATAATCCAGGTCAAGTA-TCATAT
* * *
643655 CAGAATCCAAGTCAAGTATCAAAT
1 CATAATCCAGGTCAAGTATCATAT
*
643679 CATAATCCATGTC-AGATATCATAT
1 CATAATCCAGGTCAAG-TATCATAT
*
643703 CATAATCCATGTCAAG
1 CATAATCCAGGTCAAG
643719 GAGCAGATCA
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.05
24 67 0.89
25 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (24 bp):
CATAATCCAGGTCAAGTATCATAT
Found at i:647553 original size:6 final size:6
Alignment explanation
Indices: 647542--647602 Score: 122
Period size: 6 Copynumber: 10.2 Consensus size: 6
647532 AAATAGAGAA
647542 AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT
1 AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT AAAGAT
647590 AAAGAT AAAGAT A
1 AAAGAT AAAGAT A
647603 GAACTACTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAGAT
Found at i:647677 original size:5 final size:5
Alignment explanation
Indices: 647665--647725 Score: 63
Period size: 5 Copynumber: 12.2 Consensus size: 5
647655 TAAAATTAAA
* *
647665 ATAA- ATAAT ATAAT ATAAT ATAAT ATAAT AGATAAT ATAAA ATAA- ATGAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT --ATAAT ATAAT ATAAT ATAAT
*
647715 TTAAT ATAAT A
1 ATAAT ATAAT A
647726 AGATAATATT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
4 7 0.15
5 36 0.75
7 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:647699 original size:27 final size:27
Alignment explanation
Indices: 647664--647747 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 27
647654 TTAAAATTAA
*
647664 AATAAATAATATAATATAATATAATAT
1 AATAGATAATATAATATAATATAATAT
*
647691 AATAGATAATATAAAATAAATGATTTAATAT
1 AATAGATAATATAATAT-AAT-A--TAATAT
* *
647722 AATAAGATAATAT-TTATGATATAATA
1 AAT-AGATAATATAATATAATATAATA
647748 AAGAAAAGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
27 20 0.43
28 3 0.06
29 2 0.04
30 2 0.04
31 11 0.23
32 9 0.19
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (27 bp):
AATAGATAATATAATATAATATAATAT
Found at i:649383 original size:13 final size:13
Alignment explanation
Indices: 649365--649389 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
649355 TCCGGTGTAT
649365 TTCAATTCTTTCC
1 TTCAATTCTTTCC
649378 TTCAATTCTTTC
1 TTCAATTCTTTC
649390 TTATTATTTA
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:0.16, C:0.28, G:0.00, T:0.56
Consensus pattern (13 bp):
TTCAATTCTTTCC
Found at i:651036 original size:6 final size:6
Alignment explanation
Indices: 651025--652128 Score: 1724
Period size: 6 Copynumber: 189.0 Consensus size: 6
651015 GGGGTGTGAC
651025 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT AC-T-T A-TTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
*
651070 ACTTAT TCTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651118 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651166 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651214 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT AC-T-T ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651260 ACTTAT ACTTAT ACTTAT ACTTAT AC---T ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651305 ACTT-T AC-TAT ACTTAT ACTTAT ACTTAT ACTTAT ACTT-T ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651350 A--TAT ACTTAT ACTT-T AC-T-T A-TTAT ACTTAT ACTTAT ACTT-T
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651391 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT AC-T-T ACTTAT ACTTATAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT AC-T-TAT
651439 ACTTAT ACTTAT AC-T-T ACTTAT ACTATAATT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACT-T-A-T ACTTAT ACTTAT ACTTAT
651488 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTATAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT AC-T-TAT ACTTAT ACTTAT
651538 ACTTAT ACTTAT ACTTAT ACTTAT ACTTTAT ACTTAT ACTTAT AC-TAT
1 ACTTAT ACTTAT ACTTAT ACTTAT AC-TTAT ACTTAT ACTTAT ACTTAT
651586 AC-T-T AC-TAT ACTTAT AC-TAT AC-TAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651629 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651677 ACTTAT ACTTAT ACTTAT AC-TAT ACTTAT ACTTAT ACTTAT ACTTATAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT AC-T-TAT
651726 ACTTAT ACTTAT ACTT-T ACTTAT AC-T-T ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
*
651771 ACTTAT ACTTAT ATTTATAT ACTTAT ACTTAT AC---T ACTTAT ACTTAT
1 ACTTAT ACTTAT A-CT-TAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651818 ACTTAT ACTTACTT ACTT-T ACTTAT ACTTAT ACTTAT AC-TAT ACTTAT
1 ACTTAT ACTTA--T ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651866 ACTTAT ACTTTAT ACTTAT ACTT-T ACTTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT AC-TTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651914 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
651962 ACTTAT ACTTAT AC-TAT AC-TAT AACTTAT ACTTAT AC-TAT AC-T-T
1 ACTTAT ACTTAT ACTTAT ACTTAT -ACTTAT ACTTAT ACTTAT ACTTAT
652006 ACTTAT ACTTAT ACTTAT AC-T-T A-TTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
652051 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
652099 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
652129 TGTAACCCCC
Statistics
Matches: 1038, Mismatches: 4, Indels: 112
0.90 0.00 0.10
Matches are distributed among these distances:
3 6 0.01
4 34 0.03
5 94 0.09
6 849 0.82
7 25 0.02
8 26 0.03
9 4 0.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (6 bp):
ACTTAT
Found at i:661907 original size:6 final size:6
Alignment explanation
Indices: 661896--662063 Score: 266
Period size: 6 Copynumber: 28.0 Consensus size: 6
661886 GGGGTGTGAC
661896 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
*
661944 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT A-TGTAT ACGTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACT-TAT ACTTAT
* * *
661992 ACGTAT ACGTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACGTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT ACTTAT
* *
662040 ACTTAT ACTTGT ACTTAT ATTTAT
1 ACTTAT ACTTAT ACTTAT ACTTAT
662064 TTATGTGGCA
Statistics
Matches: 153, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
5 1 0.01
6 152 0.99
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (6 bp):
ACTTAT
Found at i:665001 original size:15 final size:16
Alignment explanation
Indices: 664976--665005 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
664966 ATTTGAGGCA
664976 AGATCTTTTAAAAATC
1 AGATCTTTTAAAAATC
664992 AGAT-TTTTAAAAAT
1 AGATCTTTTAAAAAT
665006 TAAATTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (16 bp):
AGATCTTTTAAAAATC
Found at i:668843 original size:13 final size:13
Alignment explanation
Indices: 668827--668851 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
668817 TTATTAAACA
668827 TTTTTCAAAATTC
1 TTTTTCAAAATTC
668840 TTTTTCAAAATT
1 TTTTTCAAAATT
668852 TGAAAATAGA
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:0.12, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTCAAAATTC
Found at i:669587 original size:246 final size:248
Alignment explanation
Indices: 669153--669648 Score: 962
Period size: 246 Copynumber: 2.0 Consensus size: 248
669143 ACAACATACA
669153 ATTTCATTATTCGGGTGATTTCCCATGCATTAATGTTGGCAAGCCAAAGCGTCCCACTTATAGTC
1 ATTTCATTATTCGGGTGATTTCCCATGCATTAATGTTGGCAAGCCAAAGCGTCCCACTTATAGTC
669218 CACCGATCTTTATTCTTTTGGTATCCATTGAAACACTATACAAAAGCTTTGAACTCCATGTAAAG
66 CACCGATCTTTATTCTTTTGGTATCCATTGAAACACTATACAAAAGCTTTGAACTCCATGTAAAG
669283 AGCTTCCTGATTGAAAAAATCTAGGCGAAAGGTATAGGAAATGATGAATAAGTTGTCGAATG-TT
131 AGCTTCCTGATTGAAAAAATCTAGGCGAAAGGTATAGGAAATGATGAATAAGTTGTCGAATGTTT
669347 TACAT-CCAATAAATATGGCGTTGAACCAATGTTGCGATCATGTGGTGTTTCT
196 TACATACCAATAAATATGGCGTTGAACCAATGTTGCGATCATGTGGTGTTTCT
669399 ATTTCATTATTCGGGTGATTTCCCATGCATTAATGTTGGCAAGCCAAAGCGTCCCACTTATAGTC
1 ATTTCATTATTCGGGTGATTTCCCATGCATTAATGTTGGCAAGCCAAAGCGTCCCACTTATAGTC
669464 CACCGATCTTTATTCTTTTGGTATCCATTGAAACACTATACAAAAGCTTTGAACTCCATGTAAAG
66 CACCGATCTTTATTCTTTTGGTATCCATTGAAACACTATACAAAAGCTTTGAACTCCATGTAAAG
669529 AGCTTCCCTGATTG-AAAAATCTAGGCGAAAGGTATAGGAAATGATGAATAAGTTGTCGAATGTT
131 AGCTT-CCTGATTGAAAAAATCTAGGCGAAAGGTATAGGAAATGATGAATAAGTTGTCGAATGTT
669593 TTACATACCAATAAATATGGCGTTGAACCAATGTTGCGATCATGTGGTGTTTCT
195 TTACATACCAATAAATATGGCGTTGAACCAATGTTGCGATCATGTGGTGTTTCT
669647 AT
1 AT
669649 AAATTCTAAT
Statistics
Matches: 247, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
246 183 0.74
247 15 0.06
248 49 0.20
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (248 bp):
ATTTCATTATTCGGGTGATTTCCCATGCATTAATGTTGGCAAGCCAAAGCGTCCCACTTATAGTC
CACCGATCTTTATTCTTTTGGTATCCATTGAAACACTATACAAAAGCTTTGAACTCCATGTAAAG
AGCTTCCTGATTGAAAAAATCTAGGCGAAAGGTATAGGAAATGATGAATAAGTTGTCGAATGTTT
TACATACCAATAAATATGGCGTTGAACCAATGTTGCGATCATGTGGTGTTTCT
Found at i:671455 original size:42 final size:41
Alignment explanation
Indices: 671394--671501 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 41
671384 AATTAGTAAG
* * *
671394 TCCTTCGGGCCATTAATAAGTCTTTCAAGCATGATGATTAAA
1 TCCTTCGGGCCATTAATAAGCCTTACAAGCAAGATGA-TAAA
* * * *
671436 TCCTTCGGGTCATTTATAAGCCTTACGAGCAAGATGATAAG
1 TCCTTCGGGCCATTAATAAGCCTTACAAGCAAGATGATAAA
* *
671477 TCCTTTGGGCCATTCATAAGACCTT
1 TCCTTCGGGCCATTAATAAG-CCTT
671502 CGGGAAGGAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 20 0.36
42 35 0.64
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (41 bp):
TCCTTCGGGCCATTAATAAGCCTTACAAGCAAGATGATAAA
Found at i:672309 original size:135 final size:134
Alignment explanation
Indices: 671836--672312 Score: 618
Period size: 135 Copynumber: 3.5 Consensus size: 134
671826 AAAATCAGAT
* * *
671836 TCGATTCAATCTTCCCT-AATGAATAGTGGAATGAATCAATATTTCCATATATGATTTTCCCTGA
1 TCGATTCAATCTTCCCTGAA-GAACAGTGGAATGAATCAATATTTCCATATCTAATTTTCCCTGA
* * * * *
671900 AGAAGCAACG-GATCAGATCCCTCTTTTCTACATATTTGATCTTCCCTGAGGAACAGTGGAACAT
65 AGAAGCAGCGAAAT-AGATCCCTCTTTT-TTCAGATTTGATCTTCCCTGAGGAACAGTGGAACAA
*
671964 GTCTTCC
128 GTCTACC
** * * * * *
671971 TCGATTCAATCTTCATTGAAGAACAATGGAATGAATAAATGTTTCTAGATCTAATTTTCCCTGAA
1 TCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATATTTCCATATCTAATTTTCCCTGAA
** *
672036 GAATAAGC-AGAATAGATCCCTCTTTTTTCCAGATTTGATATTCCCTGAGGAACAGTGGAACAAG
66 GAAGCAGCGA-AATAGATCCCTCTTTTTT-CAGATTTGATCTTCCCTGAGGAACAGTGGAACAAG
672100 TCTACC
129 TCTACC
* * *
672106 TCGATTCAATCTTCCCTGAAGAATAGTGGAATGAGTCAATGTTTCCATATCTAATTTTCCCTGAA
1 TCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATATTTCCATATCTAATTTTCCCTGAA
* *
672171 GAAGCAGCGAAATAGATCCCTCTTTTTTCTAGATTTGATCTTCCCTAAGGAATAGTGGAACAAGT
66 GAAGCAGCGAAATAGATCCCTCTTTTTTC-AGATTTGATCTTCCCTGAGGAACAGTGGAACAAGT
*
672236 CTGCC
130 CTACC
* * * *
672241 TCGATTAAATCTTCCCTGAAGAACAGTGGAATGAATCGACATTTCCATATCTAATTTACCCTGAA
1 TCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATATTTCCATATCTAATTTTCCCTGAA
672306 GAAGCAG
66 GAAGCAG
672313 TGAAGCAAAT
Statistics
Matches: 296, Mismatches: 40, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
134 2 0.01
135 289 0.98
136 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (134 bp):
TCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAATATTTCCATATCTAATTTTCCCTGAA
GAAGCAGCGAAATAGATCCCTCTTTTTTCAGATTTGATCTTCCCTGAGGAACAGTGGAACAAGTC
TACC
Found at i:672794 original size:45 final size:45
Alignment explanation
Indices: 672722--672824 Score: 154
Period size: 45 Copynumber: 2.3 Consensus size: 45
672712 CCTCTCGTGT
* * * *
672722 TGTTGTCG-CCTCTACTACCAACCGAGAAGACCGCATTATTGCCAC
1 TGTT-TCGACCTCTACTACCAACCGAGAACACCACATCATCGCCAC
672767 TGTTTCGACCTCTACTACCAACCGAGAACACCACATCATCGCCAC
1 TGTTTCGACCTCTACTACCAACCGAGAACACCACATCATCGCCAC
672812 TGTTTCGACCTCT
1 TGTTTCGACCTCT
672825 TTCGTTTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 3 0.06
45 50 0.94
ACGTcount: A:0.24, C:0.36, G:0.15, T:0.25
Consensus pattern (45 bp):
TGTTTCGACCTCTACTACCAACCGAGAACACCACATCATCGCCAC
Found at i:673953 original size:5 final size:5
Alignment explanation
Indices: 673943--673969 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
673933 TATCATTCTG
673943 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
673970 CACTGTTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:683578 original size:106 final size:105
Alignment explanation
Indices: 683433--683631 Score: 389
Period size: 106 Copynumber: 1.9 Consensus size: 105
683423 TGCAAGTTGT
683433 AAATTTATAGGACGACTCATAGGGTGAATCACTCGAACACATCTGCCAAGCCGTTAAAGATGAGC
1 AAATTTATAGGACGACTCATAGGGTGAATCACTCGAACACATCTGCCAAGCCGTTAAAGATGAGC
683498 AAAAATGGATAAAGATGGTTGAAAGCATGCAAGTTGTAGA
66 AAAAATGGATAAAGATGGTTGAAAGCATGCAAGTTGTAGA
683538 AAATTTACTAGGACGACTCATAGGGTGAATCACTCGAACACATCTGCCAAGCCGTTAAAGATGAG
1 AAATTTA-TAGGACGACTCATAGGGTGAATCACTCGAACACATCTGCCAAGCCGTTAAAGATGAG
683603 CAAAAATGGATAAAGATGGTTGAAAGCAT
65 CAAAAATGGATAAAGATGGTTGAAAGCAT
683632 TCATATAAGG
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 7 0.08
106 86 0.92
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (105 bp):
AAATTTATAGGACGACTCATAGGGTGAATCACTCGAACACATCTGCCAAGCCGTTAAAGATGAGC
AAAAATGGATAAAGATGGTTGAAAGCATGCAAGTTGTAGA
Found at i:686768 original size:55 final size:55
Alignment explanation
Indices: 686699--687454 Score: 870
Period size: 55 Copynumber: 13.7 Consensus size: 55
686689 TCTTCGAATG
* * * * *
686699 ACGGGTCCGCTCCCTATTCTTTTAGGGAGTATAGAACTTGAACAATCGTC-TGAAA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCAT-AAA
* * * * *
686754 ACGGGTCCGTTCCCT-TTTAGTTCAAGGAGTATAGAACTTGAACAATCTTCATAAA
1 ACGGGTTCGCTCCCTATTCA-TTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
*
686809 ATGGG-TCAGCTCCCTATTCGA-TCAGGGAGTATAGAACTCGAACAATCTTCATAAA
1 ACGGGTTC-GCTCCCTATTC-ATTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
* * * *
686864 ATGAGTTCGTTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
686919 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
** * **
686974 ACAAGTAT-GTTCCCTATT-AGTTCAAGGG-GTATAGAACTCGAACAATCTTCAGCAA
1 ACGGGT-TCGCTCCCTATTCA-TTC-AGGGAGTATAGAACTCGAACAATCTTCATAAA
* * * * *
687029 ACGTGTCCGCTCCCTATTCGTTCAGGGAGTATAGAACTTGAACAATATTCATAAAA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCAT-AAA
* * * * * *
687085 ATGGGTTTGCTCCCTATTCGTTCAGGGAGTATAGAACTCGGATAATCTTC-TGACA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCAT-AAA
* * * *
687140 ATGGGTTCGCTTCCTATTCATTCAGGGTGTATAGAACTCAAACAATCTTC-TAAAA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCAT-AAA
* * * * *
687195 ATGGGTTCGCTCCCTATTCATTTAGCGAGTATAGAACTCGAATAATC-TAATGAAA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCAT-AAA
*
687250 ATGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTC-TGAAA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCAT-AAA
* * *
687305 ATGGGTCCGCTCCCTATT-ATTTAGGGAGTATAGAACTCGAACAATCTTCATAAA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
** * *
687359 ACGGGTTCGCTCCCTATTTGTTCAGGGAGTATAAAACTCGAATAATCTTCATAAA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
* *
687414 ACGGGTTCGCTCCCTATTCATTCAGAGAGTATAGGACTCGA
1 ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGA
687455 TCTTCATAAA
Statistics
Matches: 606, Mismatches: 77, Indels: 36
0.84 0.11 0.05
Matches are distributed among these distances:
54 58 0.10
55 492 0.81
56 55 0.09
57 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (55 bp):
ACGGGTTCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAA
Done.