Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 47 of 208
Found at i:13008932 original size:44 final size:40
Alignment explanation
Indices: 13008827--13008950 Score: 115
Period size: 44 Copynumber: 2.9 Consensus size: 40
13008817 GTTATCAAAT
* * *
13008827 ATCGATGCC-ACTATCCCAGACAGGGTCTTACACGAAATTAT
1 ATCGATGCCAAC-GTCCCAGACA-GGTCTTACACAAAATTAA
* *
13008868 ATACAATGCCAATGTCCCAGACATGGTCTTACACATAAATATTAA
1 AT-CGATGCCAACGTCCCAGACA-GGTCTTACAC--AAA-ATTAA
*
13008913 ATCGATGCCAACGTCCCAGACGAGGTCTTACACGAAAT
1 ATCGATGCCAACGTCCCAGAC-AGGTCTTACACAAAAT
13008951 CACATATCAG
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
41 4 0.06
42 27 0.40
43 1 0.01
44 29 0.43
45 7 0.10
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
ATCGATGCCAACGTCCCAGACAGGTCTTACACAAAATTAA
Found at i:13022369 original size:43 final size:43
Alignment explanation
Indices: 13022295--13022627 Score: 273
Period size: 43 Copynumber: 7.8 Consensus size: 43
13022285 GAACCGATGT
* * * *
13022295 AAATATACAAGTACAC--AGTGCATCGTCGGATACATCGAAGA
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
* * *
13022336 AAATATACTAGCACACATAATGCATCATCGGATAAACCGAAGC
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
** * *
13022379 ATCTATACT-GACACACATAGTGCATCATCGGATACATCAAAGA
1 AAATATACTAG-CACACATAGTGCATCATCGGATAAATCGAAGA
* *
13022422 AAATATACT-GACACACATAGTGTATCATCAGATAAA-CTGAAGA
1 AAATATACTAG-CACACATAGTGCATCATCGGATAAATC-GAAGA
* * * * * * **
13022465 AAATATACTAGCACACACAATCCATCATCGAATAAACCAAATC
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
** * * * * * *
13022508 ATCTACACTGGCACTCACAGTGCATCATCAGATAAATCAAAGA
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
* * * * *
13022551 AAATATATTGGCACACATAGTGAATCTTCGAATAAA-CTGAAGA
1 AAATATACTAGCACACATAGTGCATCATCGGATAAATC-GAAGA
*
13022594 AAATATACTAGCACACATAGTGCATCATTGGATA
1 AAATATACTAGCACACATAGTGCATCATCGGATA
13022628 TACCAAAGGA
Statistics
Matches: 227, Mismatches: 58, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
41 14 0.06
42 3 0.01
43 208 0.92
44 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (43 bp):
AAATATACTAGCACACATAGTGCATCATCGGATAAATCGAAGA
Found at i:13022620 original size:129 final size:129
Alignment explanation
Indices: 13022331--13022635 Score: 423
Period size: 129 Copynumber: 2.4 Consensus size: 129
13022321 CGGATACATC
* * *
13022331 GAAGAAAATATACTAGCACACATAATGCATCATCGGATAAACCGAAGCATCTATACTGACACACA
1 GAAGAAAATATACTAGCACACATAATGCATCATCGAATAAACCAAAGCATCTACACTGACACACA
* * * *
13022396 TAGTGCATCATCGGATACATCAAAGAAAATATACTGACACACATAGTGTATCATCAGATAAACT
66 CAGTGCATCATCAGATAAATCAAAGAAAATATACTGACACACATAGTGAATCATCAGATAAACT
* * * * *
13022460 GAAGAAAATATACTAGCACACACAATCCATCATCGAATAAACCAAATCATCTACACTGGCACTCA
1 GAAGAAAATATACTAGCACACATAATGCATCATCGAATAAACCAAAGCATCTACACTGACACACA
* * *
13022525 CAGTGCATCATCAGATAAATCAAAGAAAATATATTGGCACACATAGTGAATCTTC-GAATAAACT
66 CAGTGCATCATCAGATAAATCAAAGAAAATATACTGACACACATAGTGAATCATCAG-ATAAACT
* * * *
13022589 GAAGAAAATATACTAGCACACATAGTGCATCATTGGATATACCAAAG
1 GAAGAAAATATACTAGCACACATAATGCATCATCGAATAAACCAAAG
13022636 GATCACCTAT
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
128 1 0.01
129 152 0.99
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.22
Consensus pattern (129 bp):
GAAGAAAATATACTAGCACACATAATGCATCATCGAATAAACCAAAGCATCTACACTGACACACA
CAGTGCATCATCAGATAAATCAAAGAAAATATACTGACACACATAGTGAATCATCAGATAAACT
Found at i:13023248 original size:55 final size:55
Alignment explanation
Indices: 13023164--13023276 Score: 199
Period size: 55 Copynumber: 2.1 Consensus size: 55
13023154 TAATCTACAA
*
13023164 CATAGCTCAACTCATCATACATTTTCGAATATAAAACAATATAGTTAACTATCAG
1 CATAGCTCAACTCATCATACATTTTCGAATATAAAACAATATAGCTAACTATCAG
* *
13023219 CATAGCTCAATTCATCATACATTTTCGAATATAAAATAATATAGCTAACTATCAG
1 CATAGCTCAACTCATCATACATTTTCGAATATAAAACAATATAGCTAACTATCAG
13023274 CAT
1 CAT
13023277 CCAAATCCTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (55 bp):
CATAGCTCAACTCATCATACATTTTCGAATATAAAACAATATAGCTAACTATCAG
Found at i:13029685 original size:43 final size:43
Alignment explanation
Indices: 13029587--13029879 Score: 396
Period size: 43 Copynumber: 6.9 Consensus size: 43
13029577 TTTTAAAAAT
* *
13029587 AAACGCCGCTATAGA-CTATGACCTTTAGCGGCGTTTTTC-CAC
1 AAACGCCGCTATAGATC-AAGACCTTTAGCGGCGCTTTTCTCAC
* * *
13029629 AAACGCCACTATAGATCAAGACCTATAGCAGCGCTTTTC-CTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTC-AC
** *
13029672 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCAAAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
* * * * *
13029715 AAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCTAAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
13029758 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
* *
13029801 AAACGCAGCTATAGACCAAGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
*
13029844 AAACGCCGCTATAGAT-AAGACCTTTAGCGACGCTTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT
13029880 AATTACAAAC
Statistics
Matches: 222, Mismatches: 26, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
42 52 0.23
43 170 0.77
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCTCAC
Found at i:13034940 original size:17 final size:16
Alignment explanation
Indices: 13034918--13034992 Score: 52
Period size: 16 Copynumber: 4.7 Consensus size: 16
13034908 ATTATTTTAA
13034918 AAATTTATTATTAAAAT
1 AAATTTATTATT-AAAT
*
13034935 AAATTTTAAATATTAAAT
1 AAA-TTT-ATTATTAAAT
13034953 -AATTTATTA--AAAT
1 AAATTTATTATTAAAT
*
13034966 AAATTAATT-TTATTAAT
1 AAATTTATTATTA--AAT
13034983 -AATTTATTAT
1 AAATTTATTAT
13034993 ATGATTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
13 4 0.09
14 7 0.15
15 4 0.09
16 10 0.22
17 9 0.20
18 7 0.15
19 5 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAATTTATTATTAAAT
Found at i:13034952 original size:18 final size:18
Alignment explanation
Indices: 13034926--13034977 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
13034916 AAAAATTTAT
13034926 TATTAAAATAAATTTTAAA
1 TATT-AAATAAATTTTAAA
*
13034945 TATTAAATAATTTATTAAA
1 TATTAAATAAATT-TTAAA
*
13034964 -A-TAAATTAATTTTA
1 TATTAAATAAATTTTA
13034978 TTAATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.10
17 8 0.28
18 9 0.31
19 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATTAAATAAATTTTAAA
Found at i:13034962 original size:19 final size:19
Alignment explanation
Indices: 13034926--13034981 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
13034916 AAAAATTTAT
*
13034926 TATTAAAATAAATT-TTAAA
1 TATT-AAATAATTTATTAAA
13034945 TATTAAATAATTTATTAAA
1 TATTAAATAATTTATTAAA
13034964 -A-TAAATTAATTTTATTAA
1 TATTAAA-TAA-TTTATTAA
13034982 TAATTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.12
18 12 0.36
19 17 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTAAATAATTTATTAAA
Found at i:13038506 original size:2 final size:2
Alignment explanation
Indices: 13038499--13038526 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13038489 ATTAAATTGA
13038499 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
13038527 GCCGAGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13040317 original size:19 final size:19
Alignment explanation
Indices: 13040285--13040338 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
13040275 AATCATATCT
*
13040285 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
13040304 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
13040323 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
13040339 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13044874 original size:2 final size:2
Alignment explanation
Indices: 13044867--13044901 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13044857 GAAGGAAGTT
13044867 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13044902 TACACCATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13045291 original size:21 final size:23
Alignment explanation
Indices: 13045248--13045292 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
13045238 TTCTGGCAAT
*
13045248 AAATTCTTAGTTTTGTGTCTTAA
1 AAATTCTTAGTTTTGTATCTTAA
*
13045271 AAATT-TTAGTTTTTTAT-TTAA
1 AAATTCTTAGTTTTGTATCTTAA
13045292 A
1 A
13045293 TTTATTCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.31, C:0.04, G:0.09, T:0.56
Consensus pattern (23 bp):
AAATTCTTAGTTTTGTATCTTAA
Found at i:13067638 original size:56 final size:56
Alignment explanation
Indices: 13067557--13067669 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
13067547 GAGGGGGTGT
*
13067557 TAGGATATTATTATGGGATATTATCTATTAGAAATTTGATTCATAATGAGATGTTA
1 TAGGATATTATTATGGGATATTATCTATTAGAAATTTGATTCATAATGAGATATTA
* * * * *
13067613 TAGGATATTATTATGGGATATTATCTCTTAGTAATTTGGTTCCTAATGGGATATTA
1 TAGGATATTATTATGGGATATTATCTATTAGAAATTTGATTCATAATGAGATATTA
13067669 T
1 T
13067670 TGTTTAGCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATCTATTAGAAATTTGATTCATAATGAGATATTA
Found at i:13067682 original size:33 final size:33
Alignment explanation
Indices: 13067625--13067690 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
13067615 GGATATTATT
* *
13067625 ATGGGATATTATCTCTTAGTAATTTGGTTCCTA
1 ATGGGATATTATCTCTTAGCAATTTGATTCCTA
*
13067658 ATGGGATATTAT-TGTTTAGCAATTTGATTCCTA
1 ATGGGATATTATCT-CTTAGCAATTTGATTCCTA
13067691 CGTATCTACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (33 bp):
ATGGGATATTATCTCTTAGCAATTTGATTCCTA
Found at i:13078433 original size:13 final size:13
Alignment explanation
Indices: 13078415--13078439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13078405 TTCACCAATG
13078415 ATTTATTATTATT
1 ATTTATTATTATT
13078428 ATTTATTATTAT
1 ATTTATTATTAT
13078440 GATTATCGCT
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:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTATTATTATT
Found at i:13081308 original size:15 final size:15
Alignment explanation
Indices: 13081285--13081320 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
13081275 CAATATTTAA
*
13081285 TTAATTTTAAAAATT
1 TTAAATTTAAAAATT
13081300 TTAAATTTAAAAATT
1 TTAAATTTAAAAATT
*
13081315 TAAAAT
1 TTAAAT
13081321 CATTAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAAATTTAAAAATT
Found at i:13081944 original size:21 final size:21
Alignment explanation
Indices: 13081920--13081965 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13081910 AAAAATTACA
*
13081920 AAAAAAATCAAAATAA-TTTT
1 AAAAAAATAAAAATAACTTTT
*
13081940 CAAAAAATTAAAAATAACTTTT
1 -AAAAAAATAAAAATAACTTTT
13081962 AAAA
1 AAAA
13081966 TTCAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAAATAAAAATAACTTTT
Found at i:13082059 original size:20 final size:19
Alignment explanation
Indices: 13081997--13082059 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
13081987 TCAATTTTTT
13081997 TAAAAAATTATAAAAATTTCAA
1 TAAAAAATTA-AAAAA-TT-AA
*
13082019 -AAAAAACTAAAAAA-TATA
1 TAAAAAATTAAAAAATTA-A
13082037 TAAAAAAGTTAAAAAATTAA
1 TAAAAAA-TTAAAAAATTAA
13082057 TAA
1 TAA
13082060 TTTTCTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 6 0.17
20 16 0.46
21 10 0.29
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAAAATTAAAAAATTAA
Found at i:13089598 original size:18 final size:19
Alignment explanation
Indices: 13089571--13089612 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13089561 ACACAATGAG
13089571 AAAG-AAAGAG-AAAGTAA
1 AAAGAAAAGAGCAAAGTAA
13089588 AAAGAAAAGAGCAAAGTAA
1 AAAGAAAAGAGCAAAGTAA
13089607 ACAAGA
1 A-AAGA
13089613 TTGAGTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.18
18 6 0.27
19 8 0.36
20 4 0.18
ACGTcount: A:0.69, C:0.05, G:0.21, T:0.05
Consensus pattern (19 bp):
AAAGAAAAGAGCAAAGTAA
Found at i:13089752 original size:10 final size:10
Alignment explanation
Indices: 13089737--13089761 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13089727 ACAAACACTT
13089737 TTAAAGGAAA
1 TTAAAGGAAA
13089747 TTAAAGGAAA
1 TTAAAGGAAA
13089757 TTAAA
1 TTAAA
13089762 CCCAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (10 bp):
TTAAAGGAAA
Found at i:13091566 original size:8 final size:8
Alignment explanation
Indices: 13091553--13091577 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13091543 CCAAGAGAAT
13091553 AATTAAAC
1 AATTAAAC
13091561 AATTAAAC
1 AATTAAAC
13091569 AATTAAAC
1 AATTAAAC
13091577 A
1 A
13091578 CAACCCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (8 bp):
AATTAAAC
Found at i:13094327 original size:13 final size:13
Alignment explanation
Indices: 13094311--13094335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13094301 ACAAAAATGT
13094311 TTTACTAAAATAC
1 TTTACTAAAATAC
13094324 TTTACTAAAATA
1 TTTACTAAAATA
13094336 ATTATTTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTACTAAAATAC
Found at i:13096512 original size:23 final size:23
Alignment explanation
Indices: 13096477--13096520 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13096467 CCTTTTTCAC
* *
13096477 TTTTGTTTTATTATAAAATAACT
1 TTTTATTTAATTATAAAATAACT
*
13096500 TTTTATTTAATTATAATATAA
1 TTTTATTTAATTATAAAATAA
13096521 AATTAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTTATTTAATTATAAAATAACT
Found at i:13097876 original size:41 final size:40
Alignment explanation
Indices: 13097820--13097965 Score: 147
Period size: 41 Copynumber: 3.6 Consensus size: 40
13097810 TGATTCGATA
13097820 CACCGGC-TTATAGCCTGCTAGACCTATAGTCC-GAAATGTAT
1 CACCGGCATTA-AGCCTGCTAGACCTATAG-CCTGAAAT-TAT
* *
13097861 CACCGGCATTAAGCCTGCTAGACGTAAAGCCTG-AATTAATT
1 CACCGGCATTAAGCCTGCTAGACCTATAGCCTGAAATT-A-T
* *
13097902 CACCGGCATTAAGCCTGCTAGGCAC-ATAGCCTGAATTATAT
1 CACCGGCATTAAGCCTGCTAGAC-CTATAGCCTGAAAT-TAT
**
13097943 CACCGGCATCCAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
13097966 AATAAGTCTG
Statistics
Matches: 89, Mismatches: 9, Indels: 14
0.79 0.08 0.12
Matches are distributed among these distances:
39 1 0.01
40 6 0.07
41 75 0.84
42 6 0.07
43 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACCTATAGCCTGAAATTAT
Found at i:13102215 original size:6 final size:6
Alignment explanation
Indices: 13102204--13102235 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
13102194 TTTCTTAAAC
13102204 AAAATA AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
13102236 TAAAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:13103188 original size:7 final size:6
Alignment explanation
Indices: 13103170--13103209 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
13103160 AAAAAAGATG
**
13103170 ATAAAA ATAAAA ATAAAA ATAAATA ATAATT ATAAAA ATA
1 ATAAAA ATAAAA ATAAAA ATAAA-A ATAAAA ATAAAA ATA
13103210 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
ATAAAA
Found at i:13103197 original size:19 final size:18
Alignment explanation
Indices: 13103170--13103209 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
13103160 AAAAAAGATG
13103170 ATAAAAATAAAAATAAAA
1 ATAAAAATAAAAATAAAA
**
13103188 ATAAATAATAATTATAAAA
1 ATAAA-AATAAAAATAAAA
13103207 ATA
1 ATA
13103210 TTAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (18 bp):
ATAAAAATAAAAATAAAA
Found at i:13103244 original size:9 final size:9
Alignment explanation
Indices: 13103182--13103402 Score: 63
Period size: 9 Copynumber: 23.2 Consensus size: 9
13103172 AAAAATAAAA
*
13103182 ATAAAAATAA
1 ATAAAAAT-T
*
13103192 ATAATAATT
1 ATAAAAATT
13103201 ATAAAAA-T
1 ATAAAAATT
*
13103209 AT-TAAATT
1 ATAAAAATT
* *
13103217 TTAATTAAAAT
1 ATAA--AAATT
13103228 ATAAAAATT
1 ATAAAAATT
*
13103237 ACAAAAATCGT
1 ATAAAAAT--T
*
13103248 AAAAAAATTT
1 ATAAAAA-TT
13103258 ATAAAAATT
1 ATAAAAATT
*
13103267 GTAAAAATTT
1 ATAAAAA-TT
13103277 ATAAAAATT
1 ATAAAAATT
* **
13103286 GTAAAATAAA
1 ATAAAA-ATT
*
13103296 ATAAAATTT
1 ATAAAAATT
*
13103305 ATAGAAATAT
1 ATAAAAAT-T
* *
13103315 AGGAAAAAAT
1 A-TAAAAATT
13103325 AT-AAAATT
1 ATAAAAATT
* *
13103333 TTATAAAGTCGT
1 ATA-AAAAT--T
13103345 A-AGAAAATT
1 ATA-AAAATT
*
13103354 ATAAAAAAT
1 ATAAAAATT
* *
13103363 GTAAAGAAAT
1 ATAAA-AATT
*
13103373 ATAAAATTT
1 ATAAAAATT
*
13103382 GTAAAAAATT
1 AT-AAAAATT
*
13103392 ATAAAATTT
1 ATAAAAATT
13103401 AT
1 AT
13103403 TGTACCAAAA
Statistics
Matches: 151, Mismatches: 42, Indels: 37
0.66 0.18 0.16
Matches are distributed among these distances:
7 3 0.02
8 11 0.07
9 60 0.40
10 52 0.34
11 23 0.15
12 2 0.01
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:13103263 original size:10 final size:10
Alignment explanation
Indices: 13103227--13103285 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
13103217 TTAATTAAAA
13103227 TATAAAAA-T
1 TATAAAAATT
* *
13103236 TACAAAAATCG
1 TATAAAAAT-T
*
13103247 TAAAAAAATT
1 TATAAAAATT
13103257 TATAAAAA-T
1 TATAAAAATT
*
13103266 TGTAAAAATT
1 TATAAAAATT
13103276 TATAAAAATT
1 TATAAAAATT
13103286 GTAAAATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
9 15 0.38
10 17 0.43
11 8 0.20
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (10 bp):
TATAAAAATT
Found at i:13103300 original size:29 final size:29
Alignment explanation
Indices: 13103268--13103339 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
13103258 ATAAAAATTG
* *
13103268 TAAAAATTTATAAAA-ATTGTAAAATAAAA
1 TAAAAATTTATAAAATATAGGAAAA-AAAA
*
13103297 T-AAAATTTATAGAAATATAGGAAAAAATA
1 TAAAAATTTATA-AAATATAGGAAAAAAAA
*
13103326 TAAAATTTTATAAA
1 TAAAAATTTATAAA
13103340 GTCGTAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 10 0.28
29 10 0.28
30 16 0.44
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (29 bp):
TAAAAATTTATAAAATATAGGAAAAAAAA
Found at i:13103301 original size:28 final size:28
Alignment explanation
Indices: 13103270--13103339 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
13103260 AAAAATTGTA
* *
13103270 AAAATTTATAAAA-ATTGTAAAATAAAAT
1 AAAATTTATAAAATATAGGAAAA-AAAAT
*
13103298 AAAATTTATAGAAATATAGGAAAAAATAT
1 AAAATTTATA-AAATATAGGAAAAAAAAT
13103327 AAAATTTTATAAA
1 AAAA-TTTATAAA
13103340 GTCGTAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 10 0.28
29 13 0.36
30 13 0.36
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (28 bp):
AAAATTTATAAAATATAGGAAAAAAAAT
Found at i:13103400 original size:19 final size:19
Alignment explanation
Indices: 13103230--13103397 Score: 103
Period size: 19 Copynumber: 8.7 Consensus size: 19
13103220 ATTAAAATAT
* *
13103230 AAAAATTACAAAAATCGTAA
1 AAAAATTATAAAAATTGT-A
13103250 AAAAATTTATAAAAATTGTA
1 AAAAA-TTATAAAAATTGTA
*
13103270 AAAATTTATAAAAATTGTA
1 AAAAATTATAAAAATTGTA
*
13103289 AAATAA-AAT-AAAATT-TA
1 AAA-AATTATAAAAATTGTA
* * * *
13103306 TAGAAATATAGGAAAAAATATA
1 -AAAAAT-TA-TAAAAATTGTA
** * *
13103328 AAATTTTAT-AAAGTCGTA
1 AAAAATTATAAAAATTGTA
*
13103346 AGAAAATTATAAAAAATGTA
1 A-AAAATTATAAAAATTGTA
*
13103366 AAGAAA-TATAAAATTTGTA
1 AA-AAATTATAAAAATTGTA
13103385 AAAAATTATAAAA
1 AAAAATTATAAAA
13103398 TTTATTGTAC
Statistics
Matches: 112, Mismatches: 24, Indels: 25
0.70 0.15 0.16
Matches are distributed among these distances:
17 4 0.04
18 17 0.15
19 47 0.42
20 23 0.21
21 19 0.17
22 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (19 bp):
AAAAATTATAAAAATTGTA
Found at i:13103631 original size:19 final size:19
Alignment explanation
Indices: 13103607--13103724 Score: 77
Period size: 19 Copynumber: 6.3 Consensus size: 19
13103597 TCATTTTATG
*
13103607 ATTTTTATAAATTTTACAA
1 ATTTTTATAAATTTTATAA
*
13103626 ATTTTT-TATAATTGCTATAA
1 ATTTTTATA-AATT-TTATAA
* *
13103646 TTTTTTAT-AATTTT-TAT
1 ATTTTTATAAATTTTATAA
*
13103663 ATTTTTATTAAAATTTA-ATA
1 ATTTTTA-TAAATTTTATA-A
* **
13103683 ATTTTTATAACTTTTATTG
1 ATTTTTATAAATTTTATAA
*
13103702 ATTTTTAT--TTTTTATAA
1 ATTTTTATAAATTTTATAA
13103719 ATTTTT
1 ATTTTT
13103725 TACCACATGT
Statistics
Matches: 76, Mismatches: 15, Indels: 18
0.70 0.14 0.17
Matches are distributed among these distances:
17 20 0.26
18 4 0.05
19 35 0.46
20 16 0.21
21 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTTATAAATTTTATAA
Found at i:13103666 original size:8 final size:9
Alignment explanation
Indices: 13103600--13103724 Score: 85
Period size: 9 Copynumber: 13.4 Consensus size: 9
13103590 TTATAATTCA
*
13103600 TTTTATGAT
1 TTTTATAAT
*
13103609 TTTTATAAA
1 TTTTATAAT
*
13103618 TTTTACAAATT
1 TTTTA-TAA-T
13103629 TTTTATAAT
1 TTTTATAAT
**
13103638 TGCTATAATT
1 TTTTATAA-T
13103648 TTTTATAAT
1 TTTTATAAT
13103657 TTTTAT-AT
1 TTTTATAAT
*
13103665 TTTTATTAAAA
1 TTTTA-T-AAT
*
13103676 TTTAATAAT
1 TTTTATAAT
*
13103685 TTTTATAAC
1 TTTTATAAT
*
13103694 TTTTATTGAT
1 TTTTA-TAAT
13103704 TTTTAT--T
1 TTTTATAAT
13103711 TTTTATAAAT
1 TTTTAT-AAT
13103721 TTTT
1 TTTT
13103725 TACCACATGT
Statistics
Matches: 90, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
7 7 0.08
8 7 0.08
9 42 0.47
10 24 0.27
11 10 0.11
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:13103692 original size:47 final size:48
Alignment explanation
Indices: 13103588--13103720 Score: 123
Period size: 47 Copynumber: 2.8 Consensus size: 48
13103578 TTTTGATGAA
* * *
13103588 TTTTATAATTCATTTTATGATTTTTATAAATTTTA-CAAATTTTTTATAAT
1 TTTTATAATT--TTTTATGATTTTTAT-ATTTTTATCAAATATTTAATAAT
** * *
13103638 TGCTATAATTTTTTATAATTTTTATATTTTTATTAAA-ATTTAATAAT
1 TTTTATAATTTTTTATGATTTTTATATTTTTATCAAATATTTAATAAT
*
13103685 TTTTATAA-CTTTTATTGATTTTTAT-TTTTTAT-AAAT
1 TTTTATAATTTTTTA-TGATTTTTATATTTTTATCAAAT
13103721 TTTTTACCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.04
46 12 0.17
47 29 0.42
48 17 0.25
50 8 0.12
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (48 bp):
TTTTATAATTTTTTATGATTTTTATATTTTTATCAAATATTTAATAAT
Found at i:13103936 original size:93 final size:90
Alignment explanation
Indices: 13103832--13104006 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 90
13103822 TAAAAAGGAC
* * *
13103832 TTTTTAATGCATTTTGACAGTTGAAGTACCCAATTGAGTGCACAAAAAAAGGCAGGGGCATAATT
1 TTTTTAATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGCA-AAAAAAA-GCAGGGGCATAATT
* *
13103897 GTTTTTTTTTGAAAAAGTTTAAAGGTCT
64 G-CTTTTTATGAAAAAGTTTAAAGGTCT
* * * *
13103925 TTTTTTATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAAGTAGGGGCTTAGTTGC
1 TTTTTAATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAAGCAGGGGCATAATTGC
13103990 TTTTTATGAAAAAGTTT
66 TTTTTATGAAAAAGTTT
13104007 GAAGACTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
90 16 0.22
91 12 0.16
92 7 0.10
93 38 0.52
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (90 bp):
TTTTTAATGCATTTTGAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAAGCAGGGGCATAATTGC
TTTTTATGAAAAAGTTTAAAGGTCT
Found at i:13111051 original size:50 final size:50
Alignment explanation
Indices: 13110940--13111286 Score: 329
Period size: 50 Copynumber: 6.8 Consensus size: 50
13110930 ATTTGGGTAA
* * * *
13110940 AGAGATCCCATGTAAGACCATGTCTGGGATATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
* *
13110996 AGAGGTCCCATGTAAGACTATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
13111046 AGAGGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * **
13111096 AGAGGTTCCATGTAAGACCATGCCTGGGACATGGCGTTGGCACTAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
13111146 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * * *
13111196 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
* ** * * *
13111245 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
13111287 TGTTATATTC
Statistics
Matches: 247, Mismatches: 43, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
49 36 0.15
50 170 0.69
53 3 0.01
55 1 0.00
56 37 0.15
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:13113890 original size:16 final size:16
Alignment explanation
Indices: 13113866--13113978 Score: 181
Period size: 16 Copynumber: 7.1 Consensus size: 16
13113856 TTCGCTGTAT
*
13113866 TGGAATAGAGGCGTAA
1 TGGATTAGAGGCGTAA
13113882 TGGATTAGAGGCGTAA
1 TGGATTAGAGGCGTAA
*
13113898 TGGATTAGAGGTGTAA
1 TGGATTAGAGGCGTAA
*
13113914 TGGAATAGAGGCGTAA
1 TGGATTAGAGGCGTAA
13113930 TGGATTAGAGGCGTAA
1 TGGATTAGAGGCGTAA
*
13113946 TGGATTAGAGGTGTAA
1 TGGATTAGAGGCGTAA
*
13113962 TGGAATAGAGGCGTAA
1 TGGATTAGAGGCGTAA
13113978 T
1 T
13113979 AGCAAATCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 89 1.00
ACGTcount: A:0.34, C:0.04, G:0.37, T:0.25
Consensus pattern (16 bp):
TGGATTAGAGGCGTAA
Found at i:13113937 original size:48 final size:48
Alignment explanation
Indices: 13113861--13113978 Score: 227
Period size: 48 Copynumber: 2.5 Consensus size: 48
13113851 TTTGGTTCGC
*
13113861 TGTATTGGAATAGAGGCGTAATGGATTAGAGGCGTAATGGATTAGAGG
1 TGTAATGGAATAGAGGCGTAATGGATTAGAGGCGTAATGGATTAGAGG
13113909 TGTAATGGAATAGAGGCGTAATGGATTAGAGGCGTAATGGATTAGAGG
1 TGTAATGGAATAGAGGCGTAATGGATTAGAGGCGTAATGGATTAGAGG
13113957 TGTAATGGAATAGAGGCGTAAT
1 TGTAATGGAATAGAGGCGTAAT
13113979 AGCAAATCAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.33, C:0.04, G:0.36, T:0.26
Consensus pattern (48 bp):
TGTAATGGAATAGAGGCGTAATGGATTAGAGGCGTAATGGATTAGAGG
Found at i:13114021 original size:45 final size:44
Alignment explanation
Indices: 13113957--13114047 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 44
13113947 GGATTAGAGG
13113957 TGTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAA
* *
13114002 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
13114046 TG
1 TG
13114048 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.42
45 24 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAA
Found at i:13114338 original size:15 final size:16
Alignment explanation
Indices: 13114306--13114352 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
13114296 TACTATAAAA
*
13114306 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
13114322 TATTATTAAAA-ATAT
1 TATAATTAAAATATAT
13114337 TATAATTAAAATATAT
1 TATAATTAAAATATAT
13114353 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 17 0.65
16 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:13114340 original size:120 final size:120
Alignment explanation
Indices: 13114189--13114479 Score: 501
Period size: 120 Copynumber: 2.4 Consensus size: 120
13114179 ATTTAATCAT
*
13114189 ATTTAAACATAATTATTATTAAATATTTTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
13114254 ATCAATATTCTTATATGAATTTACTGAAAGCATAATATATGATACTATAAAATATA
65 ATCAATATTCTAATATGAATTTACTCAAAGCATAATATATGATACTATAAAAGATA
*
13114310 ATTTAACATAATTATTATTAAAAATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
13114375 TTAATATTCTAATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTAATATGAATTTACTCAAAGCATAATATATGATACTATAAAAGATA
*
13114430 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
13114480 AATAATTATT
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
120 157 0.98
121 4 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTAATATGAATTTACTCAAAGCATAATATATGATACTATAAAAGATA
Found at i:13114424 original size:61 final size:60
Alignment explanation
Indices: 13114239--13114425 Score: 156
Period size: 61 Copynumber: 3.1 Consensus size: 60
13114229 ATATAATTTA
* * *
13114239 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTGAAAGCATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTAATATGAATTTACT-AAATCATAATATATGATACT
* * * * * *
13114300 ATAAAATATAATTTAACATAATTATTA-T-TAA-A--AATATTA-T-AATTAAAATATATAAT-T
1 ATAAAAT-T--CTT-A-ATAATTAATATTCTAATATGAAT-TTACTAAATCATAATATATGATAC
13114357 T
60 T
13114358 AATAAAATTCTTAATAATTAATATTCTAATATGAATTTACTCAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTAATATGAATTTACT-AAATCATAATATATGATACT
13114420 ATAAAA
1 ATAAAA
13114426 GATAATTTAA
Statistics
Matches: 95, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
54 9 0.09
55 2 0.02
56 5 0.05
57 1 0.01
58 5 0.05
59 23 0.24
61 30 0.32
62 5 0.05
63 1 0.01
64 4 0.04
65 2 0.02
66 8 0.08
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (60 bp):
ATAAAATTCTTAATAATTAATATTCTAATATGAATTTACTAAATCATAATATATGATACT
Found at i:13114477 original size:44 final size:44
Alignment explanation
Indices: 13114427--13114590 Score: 165
Period size: 44 Copynumber: 3.7 Consensus size: 44
13114417 ACTATAAAAG
*
13114427 ATAATTTAACATAATTATTATTAAATATATTTTAATTAAAATAT
1 ATAATTTAAAATAATTATTATTAAATATATTTTAATTAAAATAT
* *
13114471 ATAATTTAAAATAATTATTATTACATATAATTTAA-TAATAATAT
1 ATAATTTAAAATAATTATTATTAAATATATTTTAATTAA-AATAT
* * **
13114515 ATAATTTCATAA-AATTATTGATAATAAAT-T-TTCTTATATGAATTTAT
1 ATAATTT-AAAATAATTATT-AT--TAAATATATT-TTA-ATTAAAATAT
*
13114562 ATAATTTAAAATAATTAATATTAAATATA
1 ATAATTTAAAATAATTATTATTAAATATA
13114591 ATTTCATAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
43 3 0.03
44 56 0.57
45 7 0.07
46 9 0.09
47 21 0.21
48 2 0.02
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.46
Consensus pattern (44 bp):
ATAATTTAAAATAATTATTATTAAATATATTTTAATTAAAATAT
Found at i:13114498 original size:26 final size:28
Alignment explanation
Indices: 13114469--13114530 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
13114459 TAATTAAAAT
*
13114469 ATATAATTTAA-AATAAT-TATTATTAC
1 ATATAATTTAATAATAATATATAATTAC
*
13114495 ATATAATTTAATAATAATATATAATTTC
1 ATATAATTTAATAATAATATATAATTAC
*
13114523 ATAAAATT
1 ATATAATT
13114531 ATTGATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 11 0.35
27 6 0.19
28 14 0.45
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
ATATAATTTAATAATAATATATAATTAC
Found at i:13119119 original size:42 final size:42
Alignment explanation
Indices: 13119022--13119119 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
13119012 AGGAGATTAC
* * **
13119022 ATAAACTACCATAAATATGTGGATAAACCATTAGAATTGCAG
1 ATAAACTGCCAGAAATATGTGGATAAACCACGAGAATTGCAG
* *
13119064 ATAGACTGCCAGAAATATGTGGATGAACCACCGA-AATTGCAG
1 ATAAACTGCCAGAAATATGTGGATAAACCA-CGAGAATTGCAG
* *
13119106 ATAAATTGTCAGAA
1 ATAAACTGCCAGAA
13119120 CTTCCTCCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (42 bp):
ATAAACTGCCAGAAATATGTGGATAAACCACGAGAATTGCAG
Found at i:13119419 original size:17 final size:17
Alignment explanation
Indices: 13119397--13119432 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13119387 GTCAGAGACA
13119397 CTTACATTCAGCCAACC
1 CTTACATTCAGCCAACC
13119414 CTTACATTCAGCCAACC
1 CTTACATTCAGCCAACC
13119431 CT
1 CT
13119433 AGTAAAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.42, G:0.06, T:0.25
Consensus pattern (17 bp):
CTTACATTCAGCCAACC
Found at i:13122535 original size:15 final size:15
Alignment explanation
Indices: 13122497--13122539 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
13122487 TAAATAAAGG
*
13122497 TGAAATATAAAAAAT
1 TGAAATAGAAAAAAT
*
13122512 TGAAA-AGAAACAAT
1 TGAAATAGAAAAAAT
13122526 TGAAATAGAAAAAA
1 TGAAATAGAAAAAA
13122540 AGAATAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (15 bp):
TGAAATAGAAAAAAT
Found at i:13125319 original size:34 final size:34
Alignment explanation
Indices: 13125281--13125347 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
13125271 AACTTGTTTA
* *
13125281 GAAGCTTTATTTTGTAAACAATACATAGTTATTC
1 GAAGCCTTACTTTGTAAACAATACATAGTTATTC
13125315 GAAGCCTTACTTTGTAAACAATACATAGTTATT
1 GAAGCCTTACTTTGTAAACAATACATAGTTATT
13125348 ATTTCTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (34 bp):
GAAGCCTTACTTTGTAAACAATACATAGTTATTC
Found at i:13127519 original size:71 final size:71
Alignment explanation
Indices: 13127424--13127579 Score: 251
Period size: 71 Copynumber: 2.2 Consensus size: 71
13127414 ATGGTTGCTT
* * *
13127424 CCACGTTGCTTTC-TTTTTTGTCTACATCTGGATGTCGTTTTCCCAAGTTGCTTTCTTGGATGTC
1 CCACGTAGCTTCCTTTTTTTGTCTACATCTGGATGTCGTTTTCCCAAGTTGCTTTCTTGGATGTA
13127488 ATTTTC
66 ATTTTC
* * *
13127494 TCACGTAGCTTCCTTTTTTTGTCTACATTTGGATGTCGTTTTCTCAAGTTGCTTTCTTGGATGTA
1 CCACGTAGCTTCCTTTTTTTGTCTACATCTGGATGTCGTTTTCCCAAGTTGCTTTCTTGGATGTA
13127559 ATTTTC
66 ATTTTC
13127565 CCACGTAGCTTCCTT
1 CCACGTAGCTTCCTT
13127580 GATATTTTAA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
70 10 0.13
71 68 0.87
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.48
Consensus pattern (71 bp):
CCACGTAGCTTCCTTTTTTTGTCTACATCTGGATGTCGTTTTCCCAAGTTGCTTTCTTGGATGTA
ATTTTC
Found at i:13128321 original size:16 final size:16
Alignment explanation
Indices: 13128294--13128331 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
13128284 AGATCGTTTG
13128294 TAAAAAACATATACTTC
1 TAAAAAACATATA-TTC
13128311 TAAAAAA-ATATATTC
1 TAAAAAACATATATTC
13128326 TGAAAA
1 T-AAAA
13128332 TGATAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (16 bp):
TAAAAAACATATATTC
Found at i:13135064 original size:21 final size:21
Alignment explanation
Indices: 13135038--13135092 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
13135028 AACAGCGGTG
*
13135038 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
13135059 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
13135080 GCGGTGAGATTAG
1 GCGGTGAGATTAG
13135093 AAACAATGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.09, G:0.40, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:13147602 original size:13 final size:13
Alignment explanation
Indices: 13147586--13147610 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13147576 GGGAATTAAT
13147586 AGGCCAAATATCG
1 AGGCCAAATATCG
13147599 AGGCCAAATATC
1 AGGCCAAATATC
13147611 AAATGCTCAA
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:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (13 bp):
AGGCCAAATATCG
Found at i:13150367 original size:22 final size:22
Alignment explanation
Indices: 13150322--13150368 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
13150312 GTGGTTATAT
*
13150322 TAAGATAGTAACAACTAACAAG
1 TAAGATAGTAACAACTAAAAAG
*
13150344 TAAGA-AGTTACAACTAAAATAG
1 TAAGATAGTAACAACTAAAA-AG
13150366 TAA
1 TAA
13150369 CAAAACTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (22 bp):
TAAGATAGTAACAACTAAAAAG
Found at i:13150521 original size:12 final size:12
Alignment explanation
Indices: 13150484--13150522 Score: 55
Period size: 11 Copynumber: 3.4 Consensus size: 12
13150474 AAACAACAAT
*
13150484 AAAACAACACC-
1 AAAACAGCACCA
13150495 AAAACAGCA-CA
1 AAAACAGCACCA
13150506 AAAACAGCACCA
1 AAAACAGCACCA
13150518 AAAAC
1 AAAAC
13150523 CTACAAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 1 0.04
11 17 0.68
12 7 0.28
ACGTcount: A:0.64, C:0.31, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAACAGCACCA
Found at i:13150528 original size:22 final size:22
Alignment explanation
Indices: 13150484--13150530 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
13150474 AAACAACAAT
*
13150484 AAAACAACACCAAAACAGCACA
1 AAAACAACACCAAAACACCACA
*
13150506 AAAACAGCACCAAAA-ACCTACA
1 AAAACAACACCAAAACACC-ACA
13150528 AAA
1 AAA
13150531 TGTAATCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.64, C:0.30, G:0.04, T:0.02
Consensus pattern (22 bp):
AAAACAACACCAAAACACCACA
Found at i:13152069 original size:33 final size:32
Alignment explanation
Indices: 13152006--13152071 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
13151996 CCATATACGG
* * *
13152006 AATAAAAATCAATTATAAAATTTATGTAATAA
1 AATAAAAATAAATAATAAAATTGATGTAATAA
13152038 AATAAAACATAAATAATAAAATATGAT-TAATAA
1 AATAAAA-ATAAATAATAAAAT-TGATGTAATAA
13152071 A
1 A
13152072 CAAGCTACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 7 0.24
33 19 0.66
34 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (32 bp):
AATAAAAATAAATAATAAAATTGATGTAATAA
Found at i:13154738 original size:44 final size:45
Alignment explanation
Indices: 13154673--13154796 Score: 160
Period size: 44 Copynumber: 2.8 Consensus size: 45
13154663 TACTCCAGAA
*
13154673 ATGAGTAAGACCATAGTTGAAAGATGCTATGGCATC-TGATAAAG
1 ATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAAAG
* * * *
13154717 ATGAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATAATACAT
1 ATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAAAG
* * **
13154762 ACGAGTAAGGCCATAGTTGAAAGAAACTATGGCAT
1 ATGAGTAAGACCATAGTTGAAAGATGCTATGGCAT
13154797 TATATGAATG
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 34 0.50
45 34 0.50
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (45 bp):
ATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAATAAAG
Found at i:13154783 original size:45 final size:44
Alignment explanation
Indices: 13154675--13154796 Score: 154
Period size: 45 Copynumber: 2.8 Consensus size: 44
13154665 CTCCAGAAAT
* *
13154675 GAGTAAGACCATAGTTGAAAGATGCTATGGCATCTGATAAAGAT
1 GAGTAAGACCATAGTTGAAAGATGCTATGGCATCTAATAAAGAC
* * * *
13154719 GAGTAAGACCATAGCTGAAAGATGCTATGGCGTCATAATACATAC
1 GAGTAAGACCATAGTTGAAAGATGCTATGGCATC-TAATAAAGAC
* **
13154764 GAGTAAGGCCATAGTTGAAAGAAACTATGGCAT
1 GAGTAAGACCATAGTTGAAAGATGCTATGGCAT
13154797 TATATGAATG
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 32 0.48
45 34 0.52
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (44 bp):
GAGTAAGACCATAGTTGAAAGATGCTATGGCATCTAATAAAGAC
Found at i:13156213 original size:102 final size:102
Alignment explanation
Indices: 13156037--13156242 Score: 385
Period size: 102 Copynumber: 2.0 Consensus size: 102
13156027 TTGAGAACAT
13156037 GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
1 GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
*
13156102 GTCGGGTACAAGTGTTACAAATCCTTTTCAAATAAAA
66 GTCGGGTACAAGTGTTACAAATCCTTTCCAAATAAAA
13156139 GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
1 GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
* *
13156204 GTTGGGTACAAGTGTTACAAATTCTTTCCAAATAAAA
66 GTCGGGTACAAGTGTTACAAATCCTTTCCAAATAAAA
13156241 GA
1 GA
13156243 AGGTTTGTTA
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (102 bp):
GATTCAAAGGTGTTTGCCATATATTTAGGTTTTTGTATCATTTGGAACCTAGACTCGGAGAGTGG
GTCGGGTACAAGTGTTACAAATCCTTTCCAAATAAAA
Found at i:13159634 original size:38 final size:39
Alignment explanation
Indices: 13159587--13159672 Score: 156
Period size: 38 Copynumber: 2.2 Consensus size: 39
13159577 TTTGCAAATG
*
13159587 ATTCTTTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
1 ATTCATTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
13159626 ATT-ATTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
1 ATTCATTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
13159664 ATTCATTTC
1 ATTCATTTC
13159673 CAAATGATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
38 37 0.82
39 8 0.18
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.49
Consensus pattern (39 bp):
ATTCATTTCTTATTTTCATTTCCATTTTGAGAAAACCAC
Found at i:13159706 original size:45 final size:39
Alignment explanation
Indices: 13159598--13159716 Score: 123
Period size: 38 Copynumber: 2.9 Consensus size: 39
13159588 TTCTTTTCTT
* **
13159598 ATTTTCATTTCCATTTTGAGAAAACCACATT-ATTTCTT
1 ATTTCCATTTCCATTTTGAGAAAACCACATTCATTTCAA
*
13159636 ATTTTCATTTCCATTTTGAGAAAACCACATTCATTTCCAA
1 ATTTCCATTTCCATTTTGAGAAAACCACATTCATTT-CAA
* *
13159676 ATGATTCCATTTCTCCATTTTGGAGAAAACCATAATCATTT
1 AT--TTCCA-TT-TCCATTTT-GAGAAAACCACATTCATTT
13159717 TTGAATGTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
38 31 0.45
39 4 0.06
40 3 0.04
42 4 0.06
43 2 0.03
44 8 0.12
45 17 0.25
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (39 bp):
ATTTCCATTTCCATTTTGAGAAAACCACATTCATTTCAA
Found at i:13170386 original size:41 final size:41
Alignment explanation
Indices: 13170341--13170446 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 41
13170331 CGGCATAAAA
* *
13170341 CCTGCTAGGCTCAAGCCTGATAAAAACTCACCGGCACTAGG
1 CCTGCTAGGCTCAAGCCTGATAAAAACACACCGGCACAAGG
* * * *
13170382 CCTGCAAGGCTTATAGCCTGAT-ATATCACACCGGCACAAGG
1 CCTGCTAGGCTCA-AGCCTGATAAAAACACACCGGCACAAGG
* *
13170423 CCTGCTAGGCACGAAGCCCGATAA
1 CCTGCTAGGCTC-AAGCCTGATAA
13170447 TCACTAATAC
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 42 0.81
42 10 0.19
ACGTcount: A:0.29, C:0.31, G:0.23, T:0.17
Consensus pattern (41 bp):
CCTGCTAGGCTCAAGCCTGATAAAAACACACCGGCACAAGG
Found at i:13176672 original size:26 final size:26
Alignment explanation
Indices: 13176635--13176719 Score: 86
Period size: 26 Copynumber: 3.3 Consensus size: 26
13176625 GGTGTATATT
13176635 TTTAGCAAGCTTTGAGCTAGTGATTA
1 TTTAGCAAGCTTTGAGCTAGTGATTA
* *
13176661 TTTAG-AAGGCTTTAAG-TCGGTG-TGTA
1 TTTAGCAA-GCTTTGAGCT-AGTGAT-TA
* *
13176687 TTTAGCAAGCTTTGACCCAGTGATTA
1 TTTAGCAAGCTTTGAGCTAGTGATTA
13176713 TTTAGCA
1 TTTAGCA
13176720 GGTACCACGT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
25 4 0.09
26 40 0.85
27 3 0.06
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (26 bp):
TTTAGCAAGCTTTGAGCTAGTGATTA
Found at i:13176711 original size:52 final size:53
Alignment explanation
Indices: 13176604--13176717 Score: 158
Period size: 52 Copynumber: 2.2 Consensus size: 53
13176594 GTGATGTACT
* * * *
13176604 TTATTTAGTAGGCCTTGAGTCGGTGTATATTTTTAGCAAGCTTTGAGCTAGTGA
1 TTATTTAGAAGGCCTTAAGTCGGTGTATA-TTTTAGCAAGCTTTGACCCAGTGA
* *
13176658 TTATTTAGAAGGCTTTAAGTCGGTGTGTA-TTTAGCAAGCTTTGACCCAGTGA
1 TTATTTAGAAGGCCTTAAGTCGGTGTATATTTTAGCAAGCTTTGACCCAGTGA
13176710 TTATTTAG
1 TTATTTAG
13176718 CAGGTACCAC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 29 0.54
54 25 0.46
ACGTcount: A:0.24, C:0.11, G:0.25, T:0.40
Consensus pattern (53 bp):
TTATTTAGAAGGCCTTAAGTCGGTGTATATTTTAGCAAGCTTTGACCCAGTGA
Found at i:13193751 original size:26 final size:22
Alignment explanation
Indices: 13193722--13193769 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
13193712 AGTTGTAGAG
13193722 AGAAAATTCTCTTGAGAGATTATTTT
1 AGAAAATT-TC-T-AGAGA-TATTTT
13193748 AGAAAATTTCTAGAGATATTTT
1 AGAAAATTTCTAGAGATATTTT
13193770 TCTAATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
24 1 0.05
25 2 0.09
26 8 0.36
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (22 bp):
AGAAAATTTCTAGAGATATTTT
Found at i:13198342 original size:15 final size:15
Alignment explanation
Indices: 13198322--13198352 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13198312 ATGTATTTAG
13198322 TTAATGTACATGCAT
1 TTAATGTACATGCAT
*
13198337 TTAATGTACATTCAT
1 TTAATGTACATGCAT
13198352 T
1 T
13198353 CATGCACGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (15 bp):
TTAATGTACATGCAT
Found at i:13205363 original size:21 final size:21
Alignment explanation
Indices: 13205333--13205373 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13205323 CGTTACTTTG
*
13205333 GTTTAATGATTTTGA-AAATC
1 GTTTAATGATATTGAGAAATC
13205353 GTTTATATGATATTGAGAAAT
1 GTTTA-ATGATATTGAGAAAT
13205374 GGTCTAATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (21 bp):
GTTTAATGATATTGAGAAATC
Found at i:13205479 original size:47 final size:49
Alignment explanation
Indices: 13205412--13205540 Score: 154
Period size: 52 Copynumber: 2.6 Consensus size: 49
13205402 GAGAATTATG
* *
13205412 AATGATATTGAGAAATAGTATAATCTTGATTT-AATGATATTGAGAATT
1 AATGATTTTTAGAAATAGTATAATCTTGATTTAAATGATATTGAGAATT
* * * * *
13205460 -ATGGTTTTTAGAAATAGTATAATCTTGATTTTTAGAATTATGTTGTGATTT
1 AATGATTTTTAGAAATAGTATAATCTTGA--TTTA-AATGATATTGAGAATT
13205511 AATGATTTTTAGAAATAGTATAATCTTGAT
1 AATGATTTTTAGAAATAGTATAATCTTGAT
13205541 ATTGAAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
47 25 0.37
49 3 0.04
50 1 0.01
51 12 0.18
52 27 0.40
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (49 bp):
AATGATTTTTAGAAATAGTATAATCTTGATTTAAATGATATTGAGAATT
Found at i:13208246 original size:6 final size:6
Alignment explanation
Indices: 13208235--13208267 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
13208225 AAAATTTTTA
*
13208235 TTATTT TTATTT TTAATT TTATTT TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTA
13208268 ATTTGATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:13208256 original size:18 final size:18
Alignment explanation
Indices: 13208235--13208271 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13208225 AAAATTTTTA
13208235 TTATTTTTATTTTTAATT
1 TTATTTTTATTTTTAATT
13208253 TTATTTTTATTTTTAATT
1 TTATTTTTATTTTTAATT
13208271 T
1 T
13208272 GATAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTTTTATTTTTAATT
Found at i:13208280 original size:18 final size:18
Alignment explanation
Indices: 13208241--13208282 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13208231 TTTATTATTT
* **
13208241 TTATTTTTAATTTTATTT
1 TTATTTTTAATTTGATAA
13208259 TTATTTTTAATTTGATAA
1 TTATTTTTAATTTGATAA
13208277 TTATTT
1 TTATTT
13208283 CTCTAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTATTTTTAATTTGATAA
Found at i:13210162 original size:2 final size:2
Alignment explanation
Indices: 13210155--13210179 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13210145 ATGTATGGTG
13210155 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 T
13210180 GTCTAGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13218531 original size:24 final size:24
Alignment explanation
Indices: 13218498--13218555 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
13218488 AGAAAGTAAT
* *
13218498 AAAACACAAACCCATAAATCAATA
1 AAAACGCAAACCCACAAATCAATA
* *
13218522 AAAATGCAAACTCACAAATCAATA
1 AAAACGCAAACCCACAAATCAATA
*
13218546 GAAACGCAAA
1 AAAACGCAAA
13218556 ATCACAAACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.60, C:0.22, G:0.05, T:0.12
Consensus pattern (24 bp):
AAAACGCAAACCCACAAATCAATA
Found at i:13218560 original size:24 final size:24
Alignment explanation
Indices: 13218513--13218563 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
13218503 ACAAACCCAT
* *
13218513 AAATCAATAAAAATGCAAACTCAC
1 AAATCAATAAAAACGCAAAATCAC
*
13218537 AAATCAATAGAAACGCAAAATCAC
1 AAATCAATAAAAACGCAAAATCAC
13218561 AAA
1 AAA
13218564 CCTTGAAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.61, C:0.20, G:0.06, T:0.14
Consensus pattern (24 bp):
AAATCAATAAAAACGCAAAATCAC
Found at i:13220889 original size:24 final size:23
Alignment explanation
Indices: 13220836--13220896 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
13220826 AATAAATATG
**
13220836 TTATTTTTATATTTTTAATTAGTAT
1 TTATTTTT-TA-TTTTAATTACAAT
*
13220861 ATATTTTTTATTTTAATTAACAAT
1 TTATTTTTTATTTTAATT-ACAAT
13220885 TTATTTATTTAT
1 TTATTT-TTTAT
13220897 ATACATAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 8 0.27
24 10 0.33
25 12 0.40
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TTATTTTTTATTTTAATTACAAT
Found at i:13221104 original size:12 final size:12
Alignment explanation
Indices: 13221089--13221113 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13221079 ATAAAAGATT
13221089 ATATATCAAAAA
1 ATATATCAAAAA
13221101 ATATATCAAAAA
1 ATATATCAAAAA
13221113 A
1 A
13221114 ATTAATTGAT
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:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
ATATATCAAAAA
Found at i:13221169 original size:56 final size:55
Alignment explanation
Indices: 13221100--13221223 Score: 178
Period size: 55 Copynumber: 2.2 Consensus size: 55
13221090 TATATCAAAA
*
13221100 AATATATCAAAAAAATTAATTGATGT-TTTTAAAAAATAAAATATATTTGACATAAT
1 AATATAT-AAAAAAATTAATTGATGTATTTTAAAAAAT-AAATATATTTAACATAAT
* * *
13221156 AATATATAGAAAAATTAGTTGATGTATTTTAAAAAATAAATATATTTAATATAAT
1 AATATATAAAAAAATTAATTGATGTATTTTAAAAAATAAATATATTTAACATAAT
*
13221211 CATATATAAAAAA
1 AATATATAAAAAA
13221224 TATTTTTATT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
55 43 0.70
56 18 0.30
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (55 bp):
AATATATAAAAAAATTAATTGATGTATTTTAAAAAATAAATATATTTAACATAAT
Found at i:13227982 original size:2 final size:2
Alignment explanation
Indices: 13227975--13228000 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13227965 GGTTTAAGAA
13227975 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
13228001 TAAGTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13231370 original size:34 final size:34
Alignment explanation
Indices: 13231332--13231455 Score: 158
Period size: 34 Copynumber: 3.6 Consensus size: 34
13231322 TTCTAATCTG
* *
13231332 ATATGACATTCTGATATGATATATGTTTCTGAAA
1 ATATGACATTCTAATATGATATATGTTTCTGGAA
* * *
13231366 ATATGACATTCTGATCTGGTATATGTTTCTGGAA
1 ATATGACATTCTAATATGATATATGTTTCTGGAA
* * * *
13231400 ATATGACATTCTAATTTAATATATATTTCTGGTA
1 ATATGACATTCTAATATGATATATGTTTCTGGAA
*
13231434 ATGTGACATTCTAATATGATAT
1 ATATGACATTCTAATATGATAT
13231456 TTGTATATGT
Statistics
Matches: 78, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 78 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (34 bp):
ATATGACATTCTAATATGATATATGTTTCTGGAA
Found at i:13233975 original size:3 final size:3
Alignment explanation
Indices: 13233956--13234020 Score: 114
Period size: 3 Copynumber: 21.7 Consensus size: 3
13233946 GTGCAATTTG
13233956 TAA TAA -AA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13234001 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
13234021 GAAAAAACAA
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 55 0.92
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:13235407 original size:18 final size:19
Alignment explanation
Indices: 13235381--13235416 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13235371 ACATTTGTAC
13235381 TTGGACTATT-TTATTATT
1 TTGGACTATTATTATTATT
*
13235399 TTGGTCTATTATTATTAT
1 TTGGACTATTATTATTAT
13235417 GATGGGCCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (19 bp):
TTGGACTATTATTATTATT
Found at i:13235784 original size:22 final size:22
Alignment explanation
Indices: 13235756--13235800 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
13235746 GCTAAGAATG
*
13235756 GTTTGCATAAAGTCTGAAGCAT
1 GTTTGCACAAAGTCTGAAGCAT
13235778 GTTTGCACAAAGTCTGAAGCAT
1 GTTTGCACAAAGTCTGAAGCAT
13235800 G
1 G
13235801 AGTACCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (22 bp):
GTTTGCACAAAGTCTGAAGCAT
Found at i:13235812 original size:22 final size:22
Alignment explanation
Indices: 13235764--13235805 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13235754 TGGTTTGCAT
** *
13235764 AAAGTCTGAAGCATGTTTGCAC
1 AAAGTCTGAAGCATGAGTACAC
13235786 AAAGTCTGAAGCATGAGTAC
1 AAAGTCTGAAGCATGAGTAC
13235806 CATAAGTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.24
Consensus pattern (22 bp):
AAAGTCTGAAGCATGAGTACAC
Found at i:13239092 original size:14 final size:14
Alignment explanation
Indices: 13239073--13239099 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13239063 GCGACCATTT
13239073 TACTATTATGTTGC
1 TACTATTATGTTGC
13239087 TACTATTATGTTG
1 TACTATTATGTTG
13239100 TTATTGTTTG
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:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:13240923 original size:19 final size:19
Alignment explanation
Indices: 13240899--13240936 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
13240889 TTTTAAAGCT
13240899 TTTGCTGAAATA-AAAAATA
1 TTTGCT-AAATACAAAAATA
*
13240918 TTTGCTTAATACAAAAATA
1 TTTGCTAAATACAAAAATA
13240937 GTAATTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.34
Consensus pattern (19 bp):
TTTGCTAAATACAAAAATA
Found at i:13246002 original size:24 final size:24
Alignment explanation
Indices: 13245975--13246078 Score: 74
Period size: 24 Copynumber: 4.4 Consensus size: 24
13245965 TTTGATCATG
13245975 TAAAATTAATTTAATCAAATTAAT
1 TAAAATTAATTTAATCAAATTAAT
* * *
13245999 TAAAATTAA--T-ATGATATT-TT
1 TAAAATTAATTTAATCAAATTAAT
* *** *
13246019 TAGAAATTAAATTAATTTTGA-TCAT
1 TA-AAATTAATTTAA-TCAAATTAAT
13246044 GTAAAATTAATTTAATCAAATTAAT
1 -TAAAATTAATTTAATCAAATTAAT
13246069 TAAAATTAAT
1 TAAAATTAAT
13246079 ATGATATTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
20 3 0.05
21 13 0.22
22 1 0.02
23 1 0.02
24 23 0.38
25 17 0.28
26 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (24 bp):
TAAAATTAATTTAATCAAATTAAT
Found at i:13246038 original size:70 final size:70
Alignment explanation
Indices: 13245957--13246098 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
13245947 ATTTTTGGGA
13245957 AAATTAATTTTGATCATGTAAAATTAATTTAATCAAATTAATTAAAATTAATATGATATTTTTAG
1 AAATTAATTTTGATCATGTAAAATTAATTTAATCAAATTAATTAAAATTAATATGATATTTTTAG
13246022 AAATT
66 AAATT
13246027 AAATTAATTTTGATCATGTAAAATTAATTTAATCAAATTAATTAAAATTAATATGATATTTTTAG
1 AAATTAATTTTGATCATGTAAAATTAATTTAATCAAATTAATTAAAATTAATATGATATTTTTAG
13246092 AAATT
66 AAATT
13246097 AA
1 AA
13246099 TTTTCAAGGC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (70 bp):
AAATTAATTTTGATCATGTAAAATTAATTTAATCAAATTAATTAAAATTAATATGATATTTTTAG
AAATT
Found at i:13246530 original size:17 final size:17
Alignment explanation
Indices: 13246508--13246578 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 17
13246498 ATTTTAATAG
13246508 TTTAATATTTAATTTAA
1 TTTAATATTTAATTTAA
*
13246525 TTTAATACTT-ATCTTAA
1 TTTAATATTTAAT-TTAA
* *
13246542 --TAGTATTTTA-TTAA
1 TTTAATATTTAATTTAA
*
13246556 TTTAATATTAAATTTAA
1 TTTAATATTTAATTTAA
13246573 TTTAAT
1 TTTAAT
13246579 GTTTTTCTAC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
14 4 0.09
15 6 0.14
16 10 0.23
17 23 0.53
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (17 bp):
TTTAATATTTAATTTAA
Found at i:13246543 original size:37 final size:36
Alignment explanation
Indices: 13246491--13246566 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
13246481 ATTCCAAAAA
*
13246491 TAATATTATTTTAATAGT-TTAATATTTAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATA-TTAATTTAATAT
*
13246527 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAATAT
13246564 TAA
1 TAA
13246567 ATTTAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 15 0.43
37 18 0.51
38 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATAT
Found at i:13246631 original size:11 final size:11
Alignment explanation
Indices: 13246602--13246639 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
13246592 ATAAACATTT
*
13246602 TATTATTTTAA
1 TATTAATTTAA
*
13246613 TAAT-ATTTAA
1 TATTAATTTAA
13246623 TATTAATTTAA
1 TATTAATTTAA
13246634 TATTAA
1 TATTAA
13246640 AGTGATTGAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:13252737 original size:27 final size:28
Alignment explanation
Indices: 13252690--13252750 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
13252680 TAAATAAAAA
*
13252690 TTCTATTACCATACGAATTATAAC-TATT
1 TTCTTTTACCATACGAATTAT-ACTTATT
*
13252718 TTCTTTTACC-TACGGATTATACTTATT
1 TTCTTTTACCATACGAATTATACTTATT
13252745 TTCTTT
1 TTCTTT
13252751 CTCTTAGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 19 0.63
28 9 0.30
ACGTcount: A:0.26, C:0.18, G:0.05, T:0.51
Consensus pattern (28 bp):
TTCTTTTACCATACGAATTATACTTATT
Found at i:13260812 original size:11 final size:10
Alignment explanation
Indices: 13260768--13260814 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
13260758 ATGGAGTTTT
13260768 AAATCTATATA
1 AAAT-TATATA
*
13260779 TAA-TATATA
1 AAATTATATA
13260788 TAAATTATATA
1 -AAATTATATA
13260799 AAATTATACTA
1 AAATTATA-TA
13260810 AAATT
1 AAATT
13260815 TAGCACATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 6 0.19
10 10 0.32
11 15 0.48
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTATATA
Found at i:13266191 original size:17 final size:15
Alignment explanation
Indices: 13266146--13266192 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
13266136 TCAAGTTCAA
* *
13266146 TTATTAAAATT-ATT
1 TTATTAAATTTAAAT
13266160 TTATTAAATTTAAAT
1 TTATTAAATTTAAAT
13266175 TTATTACAATGTTAAAT
1 TTATTA-AAT-TTAAAT
13266192 T
1 T
13266193 CAATTTTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.36
15 8 0.29
16 3 0.11
17 7 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
TTATTAAATTTAAAT
Found at i:13266212 original size:23 final size:23
Alignment explanation
Indices: 13266163--13266213 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
13266153 AATTATTTTA
* *
13266163 TTAAATTTAAATTTATTACAATG
1 TTAAATTCAAATTTACTACAATG
* * *
13266186 TTAAATTCAATTTTACTACTATT
1 TTAAATTCAAATTTACTACAATG
13266209 TTAAA
1 TTAAA
13266214 ATATCATACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (23 bp):
TTAAATTCAAATTTACTACAATG
Found at i:13275138 original size:18 final size:17
Alignment explanation
Indices: 13275115--13275152 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
13275105 TTTCATAACA
13275115 AAGAATG-GCACGTAATTC
1 AAGAATGCG-ACG-AATTC
13275133 AAGAATGCGACGAATTC
1 AAGAATGCGACGAATTC
13275150 AAG
1 AAG
13275153 GCCTTTGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 10 0.53
19 1 0.05
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (17 bp):
AAGAATGCGACGAATTC
Found at i:13275150 original size:17 final size:18
Alignment explanation
Indices: 13275115--13275152 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
13275105 TTTCATAACA
13275115 AAGAATGGCACGTAATTC
1 AAGAATGGCACGTAATTC
13275133 AAGAAT-GCGACG-AATTC
1 AAGAATGGC-ACGTAATTC
13275150 AAG
1 AAG
13275153 GCCTTTGTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.18
Consensus pattern (18 bp):
AAGAATGGCACGTAATTC
Found at i:13280874 original size:97 final size:97
Alignment explanation
Indices: 13280704--13280884 Score: 222
Period size: 97 Copynumber: 1.9 Consensus size: 97
13280694 GTATCTTAGC
* * *
13280704 AAATTTGCTATCTTGATTGATTCATTCATGTCGAGCTTTGCTCTCAATAAAATTTCCTCTTATCC
1 AAATTTGCTATCTTGATTAATTCATTCATGTCGAGCTTTGCTCTCAACAAAATTTCATCTTATCC
* *
13280769 ATTGTGATAGTATTTTTCATCTTATCTCAGTA
66 ATTATGATAATATTTTTCATCTTATCTCAGTA
* * * * *
13280801 AAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTTAT-TTCTCGACAAAATATT-ATCTTGT
1 AAATTTGCTATCTTGATTAATTCATTCATGTCGAGCTT-TGCTCTCAACAAAAT-TTCATCTTAT
* *
13280864 CTATTATGATAATCTTTTTCA
64 CCATTATGATAATATTTTTCA
13280885 AGCATTTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
97 67 0.96
98 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (97 bp):
AAATTTGCTATCTTGATTAATTCATTCATGTCGAGCTTTGCTCTCAACAAAATTTCATCTTATCC
ATTATGATAATATTTTTCATCTTATCTCAGTA
Found at i:13281379 original size:44 final size:44
Alignment explanation
Indices: 13281331--13282045 Score: 350
Period size: 44 Copynumber: 16.5 Consensus size: 44
13281321 CTACTAATCC
** *
13281331 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * ***
13281375 TATCTCTCTAAAGTTGCAGTAGAGCAGA-TCGCATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * ** * *
13281416 TATCTCCCTGAAGTTGTAGTGGAACAGACAAAAGAAGAT-ACAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAG--ATTA-AA-ATCACAGATCT
* * *
13281463 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * * *
13281507 TATCTCTCTGAAGTTACAGTAGAGCAGA-TCACATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* ** * *
13281548 TATCTCCCTGAATTTGCAGTGGAGCAGACAGAAGAAAC-CA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCACAGATCT
* * *
13281592 TATCTCCTTGAAGTTGCAGTGGAACGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * ***
13281636 TATCTCTCTGAAGTTGTAGTAGAGCAGA-TCGTATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * ** * *
13281677 TATCTCCCTGAAGTTGCAGGGGAACAGACGAAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCA-CAGATCT
* * *
13281721 TATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
** * ***
13281765 TATCTTTCTGAAGTTGCAGTAGAGCAGA-TCGCATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * ** * *
13281806 TATCTCTCT-AAGTTACAAG-GGAACAGACGAAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGC-AGTGGAGCAGATTAAA-ATCA-CAGATCT
* * * *
13281849 TATCTCCCTGAAGGTGGAGTGGAGTGGAGCGGGTTAAAACCACAGATCT
1 TATCTCCCTGAA-GT----TGCAGTGGAGCAGATTAAAATCACAGATCT
* * ***
13281898 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATCA-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * * ** * *
13281939 TATCTCCCT-AAGTTACAGGGGAACAGACGAAAGA-AACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATCA-CAGATCT
* * *
13281982 TATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
* * *
13282026 TATATCTCTAAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGT
13282046 AGAATAGATC
Statistics
Matches: 485, Mismatches: 142, Indels: 88
0.68 0.20 0.12
Matches are distributed among these distances:
40 26 0.05
41 104 0.21
42 18 0.04
43 56 0.12
44 217 0.45
45 4 0.01
46 4 0.01
47 25 0.05
48 7 0.01
49 24 0.05
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCT
Found at i:13281568 original size:85 final size:84
Alignment explanation
Indices: 13281463--13282075 Score: 269
Period size: 85 Copynumber: 7.1 Consensus size: 84
13281453 ATACAAATCC
* * *
13281463 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-CAGATCTTATCTCTCTGAAGTTGCAGTA
* *
13281528 GAGCAGATCACATCCAGTCT
65 GAACAGATCAAATCCAGTCT
* ** * *
13281548 TATCTCCCTGAATTTGCAGTGGAGCAGACAGAAGAAACCA-ATCCTATCTC-CTTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCCAGATCTTATCTCTC-TGAAGTTGCAG
* * *
13281611 TGGAACGGATTAAAATCACAGATCT
63 TAGAACAGA-TCAAATC-CAG-TCT
* * * *** * * **
13281636 TATCTCTCTGAAGTTGTAGTAGAGCAGA-TCGTATCCAG-TCTTATCTCCCTGAAGTTGCAGGGG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCTTATCTCTCTGAAGTTGCAGTAG
* * *
13281699 AACAGA-CGAAAGAAACCAATCC
66 AACAGATC---A-AATCCAGTCT
* * *
13281721 TATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAACCACAGATCTTATCTTTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-CAGATCTTATCTCTCTGAAGTTGCAGTA
* ** *
13281786 GAGCAGATCGCATCAAGTCT
65 GAACAGATCAAATCCAGTCT
* * * ** * * *
13281806 TATCTCTCT-AAGTTACAAG-GGAACAGACGAAAGAAACCA-ATCCTATCTCCCTGAAGGTGGAG
1 TATCTCCCTGAAGTTGC-AGTGGAGCAGA-TTAA-AACCCAGATCTTATCTCTCTGAA-GT----
* * * * * * *
13281868 TGGAGTGGAGCGGGTTAAAACCACAGATCT
58 TGCAGTAGAAC-AGATCAAATC-CAG-TCT
* * *** * * * * **
13281898 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATCAAG-TCTTATCTCCCT-AAGTTACAGGGG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCTTATCTCTCTGAAGTTGCAGTAG
* * *
13281960 AACAGA-CGAAAGAAACCAATCC
66 AACAGATC---A-AATCCAGTCT
* * * *
13281982 TATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCACAGATCTTATATCTCTAAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-CAGATCTTATCTCTCTGAAGTTGCAGTA
* **
13282047 GAATAGATCGCATCCAGTCT
65 GAACAGATCAAATCCAGTCT
13282067 TATCTCCCT
1 TATCTCCCT
13282076 AAGCAGTAGT
Statistics
Matches: 380, Mismatches: 109, Indels: 78
0.67 0.19 0.14
Matches are distributed among these distances:
83 1 0.00
84 58 0.15
85 147 0.39
86 24 0.06
87 22 0.06
88 69 0.18
89 13 0.03
90 18 0.05
91 2 0.01
92 14 0.04
93 12 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCCAGATCTTATCTCTCTGAAGTTGCAGTAG
AACAGATCAAATCCAGTCT
Found at i:13281647 original size:129 final size:129
Alignment explanation
Indices: 13281303--13282075 Score: 1104
Period size: 129 Copynumber: 5.9 Consensus size: 129
13281293 TCATGTTCCC
* * ** * *
13281303 CAGTGGAGCAGACAAAAGCTACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCA
1 CAGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
*
13281368 CAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
66 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
* * * *
13281432 TAGTGGAACAGACAAAAGAAGATACAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
1 CAGTGGAACAGACGAAAG-A-A-ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
* * *
13281497 CCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAATT
63 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGT
13281562 TG
128 TG
* * * *
13281564 CAGTGGAGCAGAC-AGAAGAAACCAATCCTATCTCCTTGAAGTTGCAGTGGAACGGATTAAAATC
1 CAGTGGAACAGACGA-AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
* *
13281628 ACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTG
65 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
* *
13281693 CAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAACCA
1 CAGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * * *
13281758 CAGATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCTCT-AAGTTA
66 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
* *
13281821 CAAG-GGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGGTGGAGTGGAGTGGAGCGGGTTA
1 C-AGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAA-GT----TGCAGTGGAGCGGATTA
*
13281885 AAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-A
60 AAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGA
*
13281949 AGTTA
125 AGTTG
* *
13281954 CAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCA
1 CAGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* * **
13282019 CAGATCTTATATCTCTAAAGTTGCAGTAGAATAGATCGCATCCAGTCTTATCTCCCT
66 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT
13282076 AAGCAGTAGT
Statistics
Matches: 586, Mismatches: 46, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
128 114 0.19
129 228 0.39
130 2 0.00
131 2 0.00
132 120 0.20
133 120 0.20
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (129 bp):
CAGTGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
Found at i:13282016 original size:261 final size:259
Alignment explanation
Indices: 13281303--13282078 Score: 1077
Period size: 261 Copynumber: 3.0 Consensus size: 259
13281293 TCATGTTCCC
* * ** * *
13281303 CAGTGGAGCAGACAAAAGCTACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGA---TTAAAA
1 CAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGGTG-AGTGGAGTGGACGGTTAAAA
*
13281365 CCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGT
65 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGT
* * * * *
13281430 TGTAGTGGAACAGACAAAAGAAGATACAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAA
130 TGCAGGGGAACAGACGAAAG-A-A-ACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA
* *
13281495 AACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAA
192 AACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCT-AA
* *
13281560 TTTG
256 GTTA
* * *
13281564 CAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCTTGAA-GT---TGCAGTGGAACGGATTAAA
1 CAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGGTGAGTGGAGTGG-ACGG-TTAAA
* * *
13281625 ATCACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAG
64 ACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAG
*
13281690 TTGCAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAA
129 TTGCAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
* * *
13281755 CCACAGATCTTATCTTTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCTCTAAGTT
194 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTT
13281820 A
259 A
13281821 CAAG-GGAACAGAC-GAAAGAAACCAATCCTATCTCCCTGAAGGTGGAGTGGAGTGGAGCGGGTT
1 C-AGTGGAACAGACAG-AAGAAACCAATCCTATCTCCCTGAAGGT-GAGTGGAGTGGA-C-GGTT
*
13281884 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-
61 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTG
* *
13281948 AAGTTACAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATTA
126 AAGTTGCAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTA
* * **
13282013 AAACCACAGATCTTATATCTCTAAAGTTGCAGTAGAATAGATCGCATCCAGTCTTATCTCCCTAA
191 AAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAA
13282078 G
256 G
13282079 CAGTAGTGGA
Statistics
Matches: 460, Mismatches: 41, Indels: 28
0.87 0.08 0.05
Matches are distributed among these distances:
256 8 0.02
257 38 0.08
258 98 0.21
259 1 0.00
260 2 0.00
261 241 0.52
262 70 0.15
263 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (259 bp):
CAGTGGAACAGACAGAAGAAACCAATCCTATCTCCCTGAAGGTGAGTGGAGTGGACGGTTAAAAC
CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTT
GCAGGGGAACAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAGTTA
Found at i:13282064 original size:390 final size:390
Alignment explanation
Indices: 13281326--13282075 Score: 1118
Period size: 390 Copynumber: 1.9 Consensus size: 390
13281316 AAAAGCTACT
*
13281326 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
* **
13281391 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGTAGTGGAACAGACAAAAGAAGATA
66 CAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTCAAGTGGAACAGACAAAAGAAGATA
13281456 CAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
131 CAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
* * * * *
13281521 TACAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAATTTGCAGTGGAGCAGACAGAAGAAAC
196 TACAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTACAGGGGAACAGACAGAAGAAAC
* * * * *
13281586 CAATCCTATCTCCTTGAAGTTGCAGTGGAACGGATTAAAATCACAGATCTTATCTCTCTGAAGTT
261 CAATCCTATCTCCCTGAAGTTGCAATGGAACGGATTAAAACCACAGATCTTATATCTCTAAAGTT
* * *
13281651 GTAGTAGAGCAGATCGTATCCAGTCTTATCTCCCTGAAGTTGCAGGGGAACAGACGAAAGAAACC
326 GCAGTAGAACAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGGGGAACAGACGAAAGAAACC
* * *
13281716 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGGTTAAAACCACAGATCTTATCTTTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
* *
13281781 CAGTAGAGCAGATCGCATCAAGTCTTATCTCTCT-AAGTTACAAG-GGAACAGACGAAAG-A-A-
66 CAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTT-CAAGTGGAACAGACAAAAGAAGAT
* ** *
13281841 ACCAATCCTATCTCCCTGAAGGTGGAGTGGAGTGGAGCGGGTTAAAACCACAGATCTTATCTCTC
130 ACAAATCCTATCTCCCTGAA-GT----TACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTC
* *
13281906 TGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-AAGTTACAGGGGAACAGAC-GA
190 TGAAGTTACAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTACAGGGGAACAGACAG-
*
13281969 AAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAGCGGATTAAAACCACAGATCTTATATCTC
254 AAGAAACCAATCCTATCTCCCTGAAGTTGCAATGGAACGGATTAAAACCACAGATCTTATATCTC
*
13282034 TAAAGTTGCAGTAGAATAGATCGCATCCAGTCTTATCTCCCT
319 TAAAGTTGCAGTAGAACAGATCGCATCCAGTCTTATCTCCCT
13282076 AAGCAGTAGT
Statistics
Matches: 323, Mismatches: 30, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
386 19 0.06
387 3 0.01
388 1 0.00
389 19 0.06
390 207 0.64
391 74 0.23
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (390 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTG
CAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTGAAGTTCAAGTGGAACAGACAAAAGAAGATA
CAAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGT
TACAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTACAGGGGAACAGACAGAAGAAAC
CAATCCTATCTCCCTGAAGTTGCAATGGAACGGATTAAAACCACAGATCTTATATCTCTAAAGTT
GCAGTAGAACAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGGGGAACAGACGAAAGAAACC
Found at i:13282531 original size:55 final size:55
Alignment explanation
Indices: 13282460--13282571 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
13282450 AATATATGTA
*
13282460 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTATATTTTACATT
1 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTACATTTTACATT
13282515 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTACATTTTACATT
1 AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTACATTTTACATT
13282570 AA
1 AA
13282572 AATTTTAAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (55 bp):
AATTAAATTATAGTTATTTTTAAATGTGTCATTATAAAAAATTACATTTTACATT
Found at i:13282591 original size:14 final size:13
Alignment explanation
Indices: 13282560--13282599 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
13282550 AAAAAATTAC
*
13282560 ATTTTACATTAAA
1 ATTTTAAATTAAA
13282573 ATTTTAAATTAATA
1 ATTTTAAATTAA-A
13282587 ATTTTAAATTAAA
1 ATTTTAAATTAAA
13282600 TATTATAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTTAAATTAAA
Found at i:13283944 original size:19 final size:20
Alignment explanation
Indices: 13283922--13283960 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
13283912 AAAGTTTTCT
*
13283922 AAAATTTTAAATAT-ATTAA
1 AAAATATTAAATATAATTAA
*
13283941 AAAATATTAAGTATAATTAA
1 AAAATATTAAATATAATTAA
13283961 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATATTAAATATAATTAA
Found at i:13284073 original size:35 final size:36
Alignment explanation
Indices: 13284017--13284097 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 36
13284007 AAAAATATTT
13284017 TCTT-AATATATTTAAAATTTTAA-AAACTTAAAAAA
1 TCTTAAATATATTTAAAATTTTAATAAA-TTAAAAAA
*
13284052 -CTTAAATATA-TTAAAATTTTTAATATATTAAAAAA
1 TCTTAAATATATTTAAAA-TTTTAATAAATTAAAAAA
*
13284087 TGTTAAATATA
1 TCTTAAATATA
13284098 ACCAATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
34 9 0.22
35 20 0.50
36 11 0.28
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (36 bp):
TCTTAAATATATTTAAAATTTTAATAAATTAAAAAA
Found at i:13284096 original size:17 final size:17
Alignment explanation
Indices: 13284030--13284163 Score: 58
Period size: 17 Copynumber: 7.6 Consensus size: 17
13284020 TAATATATTT
*
13284030 AAAATTTTAAAAACTTAA
1 AAAATTTTAAATA-TTAA
* *
13284048 AAAA-CTTAAATATATTA
1 AAAATTTTAAATAT-TAA
*
13284065 AAATTTTTAATATATTAA
1 AAAATTTTAA-ATATTAA
*
13284083 AAAATGTTAAATA-TAA
1 AAAATTTTAAATATTAA
** *
13284099 CCAATTTTAAAATTTTAA
1 AAAATTTT-AAATATTAA
* * * *
13284117 TATATTTGATATATTTTAA
1 AAAATTT--TAAATATTAA
*
13284136 AAAA-TTAAATATATTAA
1 AAAATTTTAA-ATATTAA
13284153 AAAATTGTTAA
1 AAAATT-TTAA
13284164 GTATAATCAA
Statistics
Matches: 84, Mismatches: 22, Indels: 19
0.67 0.18 0.15
Matches are distributed among these distances:
16 10 0.12
17 28 0.33
18 28 0.33
19 17 0.20
20 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (17 bp):
AAAATTTTAAATATTAA
Found at i:13284214 original size:22 final size:22
Alignment explanation
Indices: 13284182--13284256 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
13284172 AATTTTAAAA
*
13284182 TTTTAATATATTCAATATAGTT
1 TTTTAAAATATTCAATATAGTT
* * ***
13284204 TTTTAAAATA-T-ATTTTAAAA
1 TTTTAAAATATTCAATATAGTT
*
13284224 TTTTAATATATTCAATATAGTT
1 TTTTAAAATATTCAATATAGTT
13284246 TTTTAAAATAT
1 TTTTAAAATAT
13284257 ATTTTAAAAT
Statistics
Matches: 38, Mismatches: 13, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
20 13 0.34
21 2 0.05
22 23 0.61
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (22 bp):
TTTTAAAATATTCAATATAGTT
Found at i:13284270 original size:41 final size:42
Alignment explanation
Indices: 13284173--13284291 Score: 215
Period size: 42 Copynumber: 2.9 Consensus size: 42
13284163 AGTATAATCA
13284173 ATTTTAAAATTTTAATATATTCAATATAGTTTTTTAAAATAT
1 ATTTTAAAATTTTAATATATTCAATATAGTTTTTTAAAATAT
13284215 ATTTTAAAATTTTAATATATTCAATATAGTTTTTTAAAATAT
1 ATTTTAAAATTTTAATATATTCAATATAGTTTTTTAAAATAT
*
13284257 ATTTTAAAA-TTTAATATATTTAATATA-TTTTTTAA
1 ATTTTAAAATTTTAATATATTCAATATAGTTTTTTAA
13284292 TAGGTAAAGA
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 8 0.11
41 17 0.22
42 51 0.67
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (42 bp):
ATTTTAAAATTTTAATATATTCAATATAGTTTTTTAAAATAT
Found at i:13286642 original size:6 final size:6
Alignment explanation
Indices: 13286631--13286686 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
13286621 TGGAGAAAGA
13286631 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
13286677 ACATGT ATAT
1 ATATGT ATAT
13286687 ATTTATACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 4 0.09
6 42 0.91
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:13296073 original size:11 final size:11
Alignment explanation
Indices: 13296057--13296096 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
13296047 TCGAGTTTTT
13296057 TACCAAAATAA
1 TACCAAAATAA
*
13296068 TACCAAAAAAA
1 TACCAAAATAA
13296079 TA--AAAA-AA
1 TACCAAAATAA
13296087 TACCAAAATA
1 TACCAAAATA
13296097 GTATAACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
8 4 0.16
9 4 0.16
10 4 0.16
11 13 0.52
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (11 bp):
TACCAAAATAA
Found at i:13296133 original size:18 final size:19
Alignment explanation
Indices: 13296110--13296200 Score: 69
Period size: 17 Copynumber: 5.2 Consensus size: 19
13296100 TAACTTTTTT
13296110 GTATAATTATT-TTAGTTA
1 GTATAATTATTGTTAGTTA
13296128 GTATAATTATTGTTAG-T-
1 GTATAATTATTGTTAGTTA
13296145 -TAT--TT-TTGTATAAGTTTA
1 GTATAATTATTGT-T-AG-TTA
13296163 GT-T-ATTATTGTTAGTTA
1 GTATAATTATTGTTAGTTA
*
13296180 --ATAATTATTGTTACTTA
1 GTATAATTATTGTTAGTTA
13296197 GTAT
1 GTAT
13296201 TATTGTTAGT
Statistics
Matches: 59, Mismatches: 1, Indels: 25
0.69 0.01 0.29
Matches are distributed among these distances:
13 4 0.07
14 3 0.05
15 2 0.03
16 4 0.07
17 17 0.29
18 15 0.25
19 10 0.17
20 4 0.07
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (19 bp):
GTATAATTATTGTTAGTTA
Found at i:13296383 original size:37 final size:35
Alignment explanation
Indices: 13296303--13296383 Score: 83
Period size: 37 Copynumber: 2.2 Consensus size: 35
13296293 TTTTACATTA
* *
13296303 TATTATTGTTAGTTATTATTTTTAGTAAAACCCTAAT
1 TATTATTGTTAGTTATTATTTTTAGTAAAA--CAAAC
*
13296340 TGTTATTGTTAGTTAGTAATATTTTTAGTAAAA-AAAC
1 TATTATTGTTAGTTA-T--TATTTTTAGTAAAACAAAC
13296377 TATTATT
1 TATTATT
13296384 ATTAATATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
37 22 0.59
38 1 0.03
40 14 0.38
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.51
Consensus pattern (35 bp):
TATTATTGTTAGTTATTATTTTTAGTAAAACAAAC
Found at i:13296395 original size:76 final size:76
Alignment explanation
Indices: 13296178--13296395 Score: 174
Period size: 76 Copynumber: 2.8 Consensus size: 76
13296168 TATTGTTAGT
* * * *
13296178 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTAATATTGTTAGTAAAAAACT-ATATTATTA--AT-ATTA-TTAT
13296243 TAGGATTAGTAAAAACCC
61 T--GATTAGTAAAAACCC
*** * * **
13296261 TAATTATTATT-TTAGTTAGT-ATGATTGTTAGTTTTTACATTATATTATTGTTAGTTATTATT-
1 TAATTATTATTGTTAGTTAGTAAT-ATTGTTAG-TAAAAAACTATATTATTAATA-TTATTATTG
*
13296323 TTTAGT-AAAACCC
63 ATTAGTAAAAACCC
* *
13296336 TAATTGTTATTGTTAGTTAGTAATATTTTTAGTAAAAAAACTATTATTATTAATATTATT
1 TAATTATTATTGTTAGTTAGTAATATTGTTAGT-AAAAAACTA-TATTATTAATATTATT
13296396 GTGTTAGTTA
Statistics
Matches: 107, Mismatches: 21, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
75 18 0.17
76 30 0.28
77 11 0.10
79 5 0.05
80 4 0.04
81 1 0.01
82 24 0.22
83 14 0.13
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.50
Consensus pattern (76 bp):
TAATTATTATTGTTAGTTAGTAATATTGTTAGTAAAAAACTATATTATTAATATTATTATTGATT
AGTAAAAACCC
Found at i:13301844 original size:157 final size:159
Alignment explanation
Indices: 13301558--13302126 Score: 888
Period size: 158 Copynumber: 3.6 Consensus size: 159
13301548 ACTTCAAAAG
* *
13301558 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTTGTATTTTTCTTTTTTCTCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* *
13301623 ACTTTCCAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTT-TTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
13301687 AATGTATACATTTAGTGTG-TTTTTAAAT
131 AATGTATACATTTAGTGTGTTTTTTAAAT
* *
13301715 AAATTTAGTAAAAAACTCTTATTTCT-GCCATTTGTTCGTATTTTTCTTTTTTCCCGGATTTTAT
1 AAATTTAGTAAAAAACCCTTATTT-TGGCCATTTGTTCGTATTTTTCTTTTTTCCCGAATTTTAT
* *
13301779 TAC-TTAAAAAAAAATACTATTTTCATATTTTCA-TATTTTATATTATTTTACTACATTATGTTT
65 TACTTTCAAAAAATATACTATTTTCATATTTT-ATTATTTTATATTATTTTACTACATTATGTTT
13301842 GAAATGTATACATTTAGTGTGTTTTTTAAAT
129 GAAATGTATACATTTAGTGTGTTTTTTAAAT
* *
13301873 AAATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTATTTTTC-TTTTTCCCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
* * **
13301937 ACTTTCAAAAAATTTTCTATTTTTTTATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
66 ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
13302002 AATGTATACATTTAGTGTGTTTTTTTAAAT
131 AATGTATACATTTAGTGTG-TTTTTTAAAT
* * *
13302032 AAATTTAGTAAAAAACCCTTATTTTGGCC----CTTCGTATTTTTCTTTTTTCCCGGATTTTTTT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
13302093 ACTTTCAAAAAATATACTATTTTCATATTTTATT
66 ACTTTCAAAAAATATACTATTTTCATATTTTATT
13302127 TCTTTTCATA
Statistics
Matches: 377, Mismatches: 26, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
155 12 0.03
156 87 0.23
157 115 0.31
158 125 0.33
159 38 0.10
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.53
Consensus pattern (159 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTTTTTCCCGAATTTTATT
ACTTTCAAAAAATATACTATTTTCATATTTTATTATTTTATATTATTTTACTACATTATGTTTGA
AATGTATACATTTAGTGTGTTTTTTAAAT
Found at i:13302175 original size:16 final size:15
Alignment explanation
Indices: 13302112--13302178 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 15
13302102 AAATATACTA
13302112 TTTTCATATTTTATTT
1 TTTTCATATTTTA-TT
13302128 CTTTTCATATTTTATT
1 -TTTTCATATTTTATT
* *
13302144 TTTTCATAAATATATT
1 TTTTCAT-ATTTTATT
13302160 TTTTCAGTATTTTATT
1 TTTTCA-TATTTTATT
13302176 TTT
1 TTT
13302179 AATGCTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
15 7 0.16
16 23 0.52
17 14 0.32
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.69
Consensus pattern (15 bp):
TTTTCATATTTTATT
Found at i:13302178 original size:17 final size:16
Alignment explanation
Indices: 13302112--13302178 Score: 75
Period size: 17 Copynumber: 4.1 Consensus size: 16
13302102 AAATATACTA
13302112 TTTTCATATTTTATTT
1 TTTTCATATTTTATTT
13302128 CTTTTCATATTTTA-TT
1 -TTTTCATATTTTATTT
**
13302144 TTTTCATA-AATATATT
1 TTTTCATATTTTAT-TT
13302160 TTTTCAGTATTTTATTT
1 TTTTCA-TATTTTATTT
13302177 TT
1 TT
13302179 AATGCTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 2 0.05
15 8 0.19
16 10 0.24
17 19 0.45
18 3 0.07
ACGTcount: A:0.22, C:0.07, G:0.01, T:0.69
Consensus pattern (16 bp):
TTTTCATATTTTATTT
Found at i:13302410 original size:4 final size:4
Alignment explanation
Indices: 13302397--13302427 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
13302387 AAAAAATTAC
13302397 CTTT -TTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
13302428 TTCCTTCCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
CTTT
Found at i:13302501 original size:43 final size:41
Alignment explanation
Indices: 13302410--13302512 Score: 102
Period size: 43 Copynumber: 2.4 Consensus size: 41
13302400 TTTTCTTTCT
* *
13302410 TTCTT-TCTTTCTTTCTTTTTCCTTCCCTCCCTCTTCTTATTC
1 TTCTTCTCTTTC--TCTTTTTCCTGCCCTCCCTCTTCCTATTC
* * *
13302452 TCCTTCTCTTTCTCTTTTTCCTGCGCCTCCTTCCTTCCTCTTC
1 TTCTTCTCTTTCTCTTTTTCCTGC-CCTCCCT-CTTCCTATTC
13302495 TTCTTCTCCTTTC-CTTTT
1 TTCTTCT-CTTTCTCTTTT
13302513 CTTTATTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
41 11 0.22
42 10 0.20
43 25 0.49
44 5 0.10
ACGTcount: A:0.01, C:0.39, G:0.02, T:0.58
Consensus pattern (41 bp):
TTCTTCTCTTTCTCTTTTTCCTGCCCTCCCTCTTCCTATTC
Done.