Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 205 of 208
Found at i:63204768 original size:29 final size:29
Alignment explanation
Indices: 63204736--63204791 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
63204726 TCATCTTCTT
*
63204736 TAACCCTTAAACTTATATTGTTTATCAAA
1 TAACCCTTAAACTTACATTGTTTATCAAA
*
63204765 TAACCCTTAAACTTGCATTGTTTATCA
1 TAACCCTTAAACTTACATTGTTTATCA
63204792 GATGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (29 bp):
TAACCCTTAAACTTACATTGTTTATCAAA
Found at i:63205946 original size:3 final size:3
Alignment explanation
Indices: 63205938--63205999 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
63205928 ATTGTTAATC
63205938 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
63205986 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
63206000 GCACCACTTC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:63213407 original size:21 final size:21
Alignment explanation
Indices: 63213375--63213415 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
63213365 GAACATTTGG
63213375 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
63213396 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
63213416 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:63215183 original size:72 final size:72
Alignment explanation
Indices: 63215123--63215308 Score: 241
Period size: 72 Copynumber: 2.6 Consensus size: 72
63215113 AGAATTGACA
* * *
63215123 ATGGAATTTGTCCACTCAATTTGTTCCAT-C-CCAAGTGTAAATGAGTGAGTTGCAAGAGGTTCC
1 ATGGAATTTGTCCACTCAATTGGTT-C-TGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCC
**
63215186 CTAATGAAC
64 AGAATGAAC
* * **
63215195 TTGGAATTTGTCCACTCCATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
1 ATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCAG
63215260 AATGAAC
66 AATGAAC
* *
63215267 TTGGAATTTGTCCACTCAATTGGTTCTACGACAAGTCTAAAT
1 ATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAAT
63215309 CAATGTTTGA
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
70 1 0.01
71 2 0.02
72 101 0.97
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (72 bp):
ATGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCAG
AATGAAC
Found at i:63217157 original size:72 final size:71
Alignment explanation
Indices: 63217098--63217318 Score: 329
Period size: 72 Copynumber: 3.1 Consensus size: 71
63217088 GAATTGACGA
* **
63217098 TGGAATTTGTCCACTCAATTTGTTCC-CTCCCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCCAC-AACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
*
63217162 AATGATTT
65 AATGA-CT
63217170 TGGAATTTGTCCACTCAATTGGTTCCACAACAAG-CTTAAATGAGTGAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCCACAACAAGTC-TAAATGAGTGAGTTGCAAGAGGTTCCCC
63217234 AATGATCT
65 AATGA-CT
*
63217242 TGGAATTTGTCCACTCAATTGGTTCCACGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCCACAACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63217307 GTGATCT
66 ATGA-CT
63217314 TGGAA
1 TGGAA
63217319 CCATTCCTGA
Statistics
Matches: 140, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
71 1 0.01
72 137 0.98
73 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (71 bp):
TGGAATTTGTCCACTCAATTGGTTCCACAACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
ATGACT
Found at i:63217266 original size:36 final size:36
Alignment explanation
Indices: 63217154--63217267 Score: 88
Period size: 36 Copynumber: 3.2 Consensus size: 36
63217144 AGTTGCAAGA
*
63217154 GGTTCCCCAATGATTTTGGAATTTGTCCACTCAATT
1 GGTTCCCCAATGATCTTGGAATTTGTCCACTCAATT
* ** * * ** * * **
63217190 GGTTCCACAACAAGCTT-AAATGAGT-GAGTTGCAAGA
1 GGTTCCCCAATGATCTTGGAATTTGTCCA-CT-CAATT
63217226 GGTTCCCCAATGATCTTGGAATTTGTCCACTCAATT
1 GGTTCCCCAATGATCTTGGAATTTGTCCACTCAATT
63217262 GGTTCC
1 GGTTCC
63217268 ACGACAAGTC
Statistics
Matches: 51, Mismatches: 23, Indels: 8
0.62 0.28 0.10
Matches are distributed among these distances:
34 1 0.02
35 6 0.12
36 37 0.73
37 6 0.12
38 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.32
Consensus pattern (36 bp):
GGTTCCCCAATGATCTTGGAATTTGTCCACTCAATT
Found at i:63220393 original size:166 final size:165
Alignment explanation
Indices: 63220121--63220456 Score: 620
Period size: 166 Copynumber: 2.0 Consensus size: 165
63220111 ACCATACCAT
*
63220121 ATGCAACTCAAACTTGAATAATTGAATCTTTGGTAATTCTACATGTATTTTTTTAATGGTGAGCA
1 ATGCAACTCAAACTTGAATAATTGAATCTTTGGTAATTCTACATGCATTTTTTTAATGGTGAGCA
63220186 GTATAATGTTTACTAAAAATTGAAATTCAAGAAAGAAGACATACATAGTTGCACCATACAAGATG
66 GTATAATGTTTACTAAAAATTGAAATTCAAGAAAGAAGACATACATAGTTGCACCATACAAGATG
63220251 TTACACTCGAACTAAACCCTTAC-AATAGTACAAA
131 TTACACTCGAACTAAACCCTTACAAATAGTACAAA
* *
63220285 ATGCAACTCAAACTTGAATGATTGAATCTTTTGTAATTCTACATGCATTTTTTTATTATGGTGAG
1 ATGCAACTCAAACTTGAATAATTGAATCTTTGGTAATTCTACATGCATTTTTTTA--ATGGTGAG
63220350 CAGTATAATGTTTACTAAAAATTGAAATTCAAGAAAGAAGACATACATAGTTGCACCATACAAGA
64 CAGTATAATGTTTACTAAAAATTGAAATTCAAGAAAGAAGACATACATAGTTGCACCATACAAGA
63220415 TGTTACACTCGAACTAAACCCTTACAAATAGTACAAA
129 TGTTACACTCGAACTAAACCCTTACAAATAGTACAAA
63220452 ATGCA
1 ATGCA
63220457 GTGAAATACA
Statistics
Matches: 166, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
164 52 0.31
166 98 0.59
167 16 0.10
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (165 bp):
ATGCAACTCAAACTTGAATAATTGAATCTTTGGTAATTCTACATGCATTTTTTTAATGGTGAGCA
GTATAATGTTTACTAAAAATTGAAATTCAAGAAAGAAGACATACATAGTTGCACCATACAAGATG
TTACACTCGAACTAAACCCTTACAAATAGTACAAA
Found at i:63222933 original size:19 final size:18
Alignment explanation
Indices: 63222896--63222934 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
63222886 CTATTATTAG
*
63222896 TTTATATATTTACTTATT
1 TTTATATATGTACTTATT
*
63222914 TTTATGTATGTACATTATT
1 TTTATATATGTAC-TTATT
63222933 TT
1 TT
63222935 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (18 bp):
TTTATATATGTACTTATT
Found at i:63223129 original size:17 final size:16
Alignment explanation
Indices: 63223096--63223131 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
63223086 TTTAAAAATC
63223096 AATAATATTTTTATAT
1 AATAATATTTTTATAT
*
63223112 AATACTATTTTATATAT
1 AATAATATTTT-TATAT
63223129 AAT
1 AAT
63223132 TTGTATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
AATAATATTTTTATAT
Found at i:63223347 original size:17 final size:17
Alignment explanation
Indices: 63223322--63223354 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63223312 TGTGTATTGT
*
63223322 ATTGCTTATTTGTATTA
1 ATTGATTATTTGTATTA
63223339 ATTGATTATTTGTATT
1 ATTGATTATTTGTATT
63223355 CATTAGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGATTATTTGTATTA
Found at i:63226536 original size:50 final size:52
Alignment explanation
Indices: 63226477--63226605 Score: 156
Period size: 50 Copynumber: 2.4 Consensus size: 52
63226467 AAAAGAATAT
* * * *
63226477 AGACTATCAATTGTCTATTGACTATACTTTTAAC-T-CCACAAAAAG-GGCTA
1 AGACTATCAATTGTCTATTGACTACAC-TTTAACTTGACAAAAAAAGAGACTA
63226527 AGACTATCAATTGTCTATTGACTACACTTTAACTTGACAAAAAAAGACTAAGACTA
1 AGACTATCAATTGTCTATTGACTACACTTTAACTTGACAAAAAAAG----AGACTA
63226583 AGACTATCAATTGTCTATTGACT
1 AGACTATCAATTGTCTATTGACT
63226606 TCACACTTGC
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
49 6 0.09
50 27 0.40
51 8 0.12
56 27 0.40
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.32
Consensus pattern (52 bp):
AGACTATCAATTGTCTATTGACTACACTTTAACTTGACAAAAAAAGAGACTA
Found at i:63228251 original size:86 final size:86
Alignment explanation
Indices: 63228154--63228314 Score: 259
Period size: 86 Copynumber: 1.9 Consensus size: 86
63228144 TAATAAGAGT
*
63228154 AGGGACTTAATTGCTTTTTTGAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAATAC
1 AGGGACTTAATTGCTTTTTTGAAAAAAATTAAGACCTTTTTGATGCATTATGAAAGTTCAAATAC
63228219 CCAATTGAGTGGGAAAATAGC
66 CCAATTGAGTGGGAAAATAGC
* * * * *
63228240 AGGGGCTTAATTTCTTTTTTGAAAAAAATTAAGATCTTTTTGATGTATTATGAAAGTTCAAGTAC
1 AGGGACTTAATTGCTTTTTTGAAAAAAATTAAGACCTTTTTGATGCATTATGAAAGTTCAAATAC
*
63228305 CCCATTGAGT
66 CCAATTGAGT
63228315 AGAAAAAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (86 bp):
AGGGACTTAATTGCTTTTTTGAAAAAAATTAAGACCTTTTTGATGCATTATGAAAGTTCAAATAC
CCAATTGAGTGGGAAAATAGC
Found at i:63228348 original size:86 final size:86
Alignment explanation
Indices: 63228159--63228344 Score: 257
Period size: 86 Copynumber: 2.2 Consensus size: 86
63228149 AGAGTAGGGA
*
63228159 CTTAATTGCTTTTTTGAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAATACCCAAT
1 CTTAATTGCTTTTTTGAAAAAAATTAAGACCTTTTTGATGCATTATGAAAGTTCAAATACCCAAT
* * * *
63228224 TGAGTGGGAAAATAGCAGGGG
66 TGAGTGAGAAAAAAACAGGAG
* * * * *
63228245 CTTAATTTCTTTTTTGAAAAAAATTAAGATCTTTTTGATGTATTATGAAAGTTCAAGTACCCCAT
1 CTTAATTGCTTTTTTGAAAAAAATTAAGACCTTTTTGATGCATTATGAAAGTTCAAATACCCAAT
*
63228310 TGAGT-AGAAAAAAATAGGAG
66 TGAGTGAGAAAAAAACAGGAG
*
63228330 TTTAATTGCTTTTTT
1 CTTAATTGCTTTTTT
63228345 TGAAGAAGTT
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 23 0.26
86 64 0.74
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (86 bp):
CTTAATTGCTTTTTTGAAAAAAATTAAGACCTTTTTGATGCATTATGAAAGTTCAAATACCCAAT
TGAGTGAGAAAAAAACAGGAG
Found at i:63229006 original size:21 final size:20
Alignment explanation
Indices: 63228964--63229023 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
63228954 AGCTTATTTA
* **
63228964 TATTTTAATTAATCATGTTT
1 TATTTTAATTAATCTTAATT
63228984 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
* *
63229005 TA-CTTAATTAAGCTTAATT
1 TATTTTAATTAATCTTAATT
63229024 GTTACTTTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 17 0.50
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:63237085 original size:89 final size:87
Alignment explanation
Indices: 63236931--63237096 Score: 201
Period size: 89 Copynumber: 1.9 Consensus size: 87
63236921 AACATGATGA
*
63236931 AAAAGTTCAAGTACCCAATTGAGTGGAAAAGAAAATAACGGTTTAATTACTTTTTCTGAAGAATT
1 AAAAGTTCAAGTACCCAATTGAGTGGAAAAGAAAATAACGGTTTAATTACTTTTTCTGAA-AAAT
63236996 TTGAGAGTATTTTTTATGCAATTT
65 TTGAGAGT-TTTTTTATGCAATTT
* * * * * * * *
63237020 AAAAGTTTAAGTGCTCAATTGAGTGTAAAA-AAAATGAGGGATTTAATT-TTTTTTTTGAAAAAA
1 AAAAGTTCAAGTACCCAATTGAGTGGAAAAGAAAATAACGG-TTTAATTACTTTTTCTG-AAAAA
63237083 TTTGAGAGTTTTTT
64 TTTGAGAGTTTTTT
63237097 ACACTCTTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
87 5 0.08
88 26 0.39
89 35 0.53
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.39
Consensus pattern (87 bp):
AAAAGTTCAAGTACCCAATTGAGTGGAAAAGAAAATAACGGTTTAATTACTTTTTCTGAAAAATT
TGAGAGTTTTTTTATGCAATTT
Found at i:63244843 original size:59 final size:59
Alignment explanation
Indices: 63244751--63244870 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
63244741 CAAGATCTAG
63244751 CACTTCCAGACCTCTACAATTAAGGATGGATGGTGTCAAAGGCCCTTCTAACAGATTTC
1 CACTTCCAGACCTCTACAATTAAGGATGGATGGTGTCAAAGGCCCTTCTAACAGATTTC
63244810 CACTTCCAGACCTCTACAATTAAGGATGGATGGTGTCAAAGGCCCTTCTAACAGATTTC
1 CACTTCCAGACCTCTACAATTAAGGATGGATGGTGTCAAAGGCCCTTCTAACAGATTTC
63244869 CA
1 CA
63244871 TTTAAGTTGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (59 bp):
CACTTCCAGACCTCTACAATTAAGGATGGATGGTGTCAAAGGCCCTTCTAACAGATTTC
Found at i:63245951 original size:72 final size:72
Alignment explanation
Indices: 63245847--63246205 Score: 517
Period size: 72 Copynumber: 5.0 Consensus size: 72
63245837 ATTGACAATG
* *
63245847 GAATTTGTCCACTCAATTTGTTCCAT-C-CCAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 GAATTTGTCCACTCAATTGGTT-C-TGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63245910 ATGATCTTA
64 ATGATCTTA
*
63245919 GAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCGAAT
1 GAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAAT
*
63245984 GATCTTG
66 GATCTTA
* * * * *
63245991 GAATTTGTCCATTCAATTGGTTCTGCCG-CAAGTTTAAATAAGTAAGTTGCAAGATGTTCCCCAA
1 GAATTTGTCCACTCAATTGGTTCTG-CGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAA
*
63246055 TGATCTTG
65 TGATCTTA
* * *
63246063 GAATTTGTCCGCTCAATTGGTTCTGCCAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAAT
1 GAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAAT
63246128 GATCTTA
66 GATCTTA
** * *
63246135 GAATTTGTCCACTCAATTGGTTCACCGACAAGTCTAAATAAGTGAGTTGCAAGAGGTTTCCCAAT
1 GAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAAT
63246200 GATCTT
66 GATCTT
63246206 GGAACCTGTC
Statistics
Matches: 257, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
70 1 0.00
71 3 0.01
72 251 0.98
73 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (72 bp):
GAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAAT
GATCTTA
Found at i:63253143 original size:12 final size:12
Alignment explanation
Indices: 63253126--63253152 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
63253116 CATGATAGAG
63253126 CCACGCCATCAC
1 CCACGCCATCAC
63253138 CCACGCCATCAC
1 CCACGCCATCAC
63253150 CCA
1 CCA
63253153 TTGATGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.59, G:0.07, T:0.07
Consensus pattern (12 bp):
CCACGCCATCAC
Found at i:63253603 original size:150 final size:150
Alignment explanation
Indices: 63253430--63253730 Score: 602
Period size: 150 Copynumber: 2.0 Consensus size: 150
63253420 ATTTTTCATT
63253430 CATAAAATTGATTACTTTTTTTTACCAAAGAAGTAAAATAATTAACATTCCTGAGATTACAAAGT
1 CATAAAATTGATTACTTTTTTTTACCAAAGAAGTAAAATAATTAACATTCCTGAGATTACAAAGT
63253495 CTTATTCCTTATAACACGTCAAGTTTGGTCCCAAATAAATTTCCACACAAAAGAATAAAGAGGAA
66 CTTATTCCTTATAACACGTCAAGTTTGGTCCCAAATAAATTTCCACACAAAAGAATAAAGAGGAA
63253560 GAAGACTGCTACAAATTTAA
131 GAAGACTGCTACAAATTTAA
63253580 CATAAAATTGATTACTTTTTTTTACCAAAGAAGTAAAATAATTAACATTCCTGAGATTACAAAGT
1 CATAAAATTGATTACTTTTTTTTACCAAAGAAGTAAAATAATTAACATTCCTGAGATTACAAAGT
63253645 CTTATTCCTTATAACACGTCAAGTTTGGTCCCAAATAAATTTCCACACAAAAGAATAAAGAGGAA
66 CTTATTCCTTATAACACGTCAAGTTTGGTCCCAAATAAATTTCCACACAAAAGAATAAAGAGGAA
63253710 GAAGACTGCTACAAATTTAA
131 GAAGACTGCTACAAATTTAA
63253730 C
1 C
63253731 TATCGATTCT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (150 bp):
CATAAAATTGATTACTTTTTTTTACCAAAGAAGTAAAATAATTAACATTCCTGAGATTACAAAGT
CTTATTCCTTATAACACGTCAAGTTTGGTCCCAAATAAATTTCCACACAAAAGAATAAAGAGGAA
GAAGACTGCTACAAATTTAA
Found at i:63256096 original size:87 final size:88
Alignment explanation
Indices: 63255916--63256108 Score: 255
Period size: 87 Copynumber: 2.2 Consensus size: 88
63255906 TTTAAGGGTG
* * * *
63255916 CAAAAA-GTCCTCAAACTTTTTCAAAAATAGCAACTAAACCCCTATTTTTTTTTTGCACTCATTT
1 CAAAAAGGCCCTCAAACCTTTTCAAAAAAAGCAACTAAACCCC--TTTTTTTTTTGCACTCAATT
*
63255980 GGATATTTGAACTTTCAAAATACAA
64 GGATACTTGAACTTTCAAAATACAA
* *
63256005 CAAAAAGGCCCTCAAACCTTTTCAAAAAAAGCAATTAAGCCCC-TTTTTTTTTGCACTCAATTGG
1 CAAAAAGGCCCTCAAACCTTTTCAAAAAAAGCAACTAAACCCCTTTTTTTTTTGCACTCAATTGG
* * *
63256069 GTACTTGAACTTTCAAAATGCAT
66 ATACTTGAACTTTCAAAATACAA
*
63256092 CAAAAAGACCCTCAAAC
1 CAAAAAGGCCCTCAAAC
63256109 TTAAAAAAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
87 55 0.60
89 6 0.07
90 31 0.34
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (88 bp):
CAAAAAGGCCCTCAAACCTTTTCAAAAAAAGCAACTAAACCCCTTTTTTTTTTGCACTCAATTGG
ATACTTGAACTTTCAAAATACAA
Found at i:63256119 original size:87 final size:89
Alignment explanation
Indices: 63255961--63256137 Score: 243
Period size: 87 Copynumber: 2.0 Consensus size: 89
63255951 AAACCCCTAT
* * *
63255961 TTTTTTTTTGCACTCATTTGGATATTTGAACTTTCAAAATACAACAAAAAGGCCCTCAAACCTT-
1 TTTTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAATACAACAAAAAGACCCTCAAACCTTA
***
63256025 TTCAAAAA-AAGCAATTAAGCCCC
66 AAAAAAAAGAAGCAATTAAGCCCC
* * *
63256048 TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAA-CTTA
1 TTTTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAATACAACAAAAAGACCCTCAAACCTT-
63256112 AAAAAAAAAGAAGCAATTAAGCCCC
65 AAAAAAAAAGAAGCAATTAAGCCCC
63256137 T
1 T
63256138 ACTTTTATTA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
86 3 0.04
87 54 0.69
88 5 0.06
89 16 0.21
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (89 bp):
TTTTTTTTTGCACTCAATTGGATACTTGAACTTTCAAAATACAACAAAAAGACCCTCAAACCTTA
AAAAAAAAGAAGCAATTAAGCCCC
Found at i:63256227 original size:11 final size:11
Alignment explanation
Indices: 63256213--63256245 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
63256203 AAAAATCAAA
63256213 TATTAAAAATT
1 TATTAAAAATT
*
63256224 TATTAAAAATA
1 TATTAAAAATT
63256235 TA-TAAAAATT
1 TATTAAAAATT
63256245 T
1 T
63256246 GTAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TATTAAAAATT
Found at i:63256250 original size:20 final size:20
Alignment explanation
Indices: 63256210--63256251 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
63256200 AATAAAAATC
*
63256210 AAATATTAAAAATTTATTAA
1 AAATATTAAAAATTTAGTAA
63256230 AAATATATAAAAATTT-GTAA
1 AAATAT-TAAAAATTTAGTAA
63256250 AA
1 AA
63256252 TTTTACCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAATATTAAAAATTTAGTAA
Found at i:63256790 original size:86 final size:85
Alignment explanation
Indices: 63256557--63256824 Score: 245
Period size: 85 Copynumber: 3.1 Consensus size: 85
63256547 TAATAAGAGT
* ** ***
63256557 AGGGACTTAATTGCTTTTT-TGAAAAACTTTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTA
1 AGGGGCTTAATT-CTTTTTCTGAAAAAAATTAAGATATTTTTGATGCATTATGAAAGTTCAAGTA
*
63256621 CCC-ATTGAGTGGGAAAAAAAC
65 CCCAATTGAGT-AGAAAAAAAC
* * *
63256642 AGGGGCTTAATTGTTTTTTTGAAAAAAATTAAGATATTTTTGATGGATTATGAAAGTTCAAGTAC
1 AGGGGCTTAATTCTTTTTCTGAAAAAAATTAAGATATTTTTGATGCATTATGAAAGTTCAAGTAC
* *
63256707 CCAATTAAGTAGAAAAAAAT
66 CCAATTGAGTAGAAAAAAAC
* * * * * * * *
63256727 AGGGGTTTAATTACTTTTTCT-AAAGAAGTATGAGGTATTTTTGATACATTTTAAAAGTTCAAGT
1 AGGGGCTTAATT-CTTTTTCTGAAAAAAAT-TAAGATATTTTTGATGCATTATGAAAGTTCAAGT
* * * **
63256791 GCTCAATTGAGTATAAAAAATG
64 ACCCAATTGAGTAGAAAAAAAC
*
63256813 AGGGACTTAATT
1 AGGGGCTTAATT
63256825 TTTATTTTTA
Statistics
Matches: 149, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
84 5 0.03
85 78 0.52
86 66 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (85 bp):
AGGGGCTTAATTCTTTTTCTGAAAAAAATTAAGATATTTTTGATGCATTATGAAAGTTCAAGTAC
CCAATTGAGTAGAAAAAAAC
Found at i:63257523 original size:21 final size:20
Alignment explanation
Indices: 63257481--63257540 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
63257471 AACTTATATA
* *
63257481 TATTTTAATTAATCATATTT
1 TATTTTAATTAATCTTAATT
63257501 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
* *
63257522 TA-CTTAATTAAGCTTAATT
1 TATTTTAATTAATCTTAATT
63257541 ATTAATTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 15 0.43
20 2 0.06
21 18 0.51
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:63262157 original size:72 final size:72
Alignment explanation
Indices: 63262081--63262229 Score: 262
Period size: 72 Copynumber: 2.1 Consensus size: 72
63262071 GAATTGACAA
*
63262081 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGATTCCCCA
63262146 ATGATCT
66 ATGATCT
* *
63262153 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGATTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGATTCCCCA
*
63262218 GTGATCT
66 ATGATCT
63262225 TGGAA
1 TGGAA
63262230 CCGGTCCTGA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGATTCCCCA
ATGATCT
Found at i:63264446 original size:51 final size:51
Alignment explanation
Indices: 63264368--63264547 Score: 261
Period size: 51 Copynumber: 3.4 Consensus size: 51
63264358 TACAGATTTA
* *
63264368 ACTATCAATTGTCTATTGACTATACTTTTAACTCCACAAACAAAGACTAAG
1 ACTATCAATTGTCTATTGACTACACTTTTAACTCCACAAAAAAAGACTAAG
*
63264419 ACTATCAATTGCCTATTGACTACACTTTTAACTCCACAAAAAAAGACTAAG
1 ACTATCAATTGTCTATTGACTACACTTTTAACTCCACAAAAAAAGACTAAG
* *
63264470 ACTATCAATAGTTTATTGACTACACTTTTAACTCCACAAAAAAAGACCAAGACTAAG
1 ACTATCAATTGTCTATTGACTACACTTTTAACTCCAC---AAAA-A--AAGACTAAG
63264527 ACTATCAATTGTCTATTGACT
1 ACTATCAATTGTCTATTGACT
63264548 TCACACTTGC
Statistics
Matches: 115, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
51 82 0.71
54 4 0.03
55 1 0.01
57 28 0.24
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (51 bp):
ACTATCAATTGTCTATTGACTACACTTTTAACTCCACAAAAAAAGACTAAG
Found at i:63269159 original size:23 final size:23
Alignment explanation
Indices: 63269132--63269185 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
63269122 TTTTTCATGT
63269132 TTGAAGT-GTTAAAGTGTT-TCAAA
1 TTGAAGTAGTTAAA-TGTTGT-AAA
*
63269155 TTGAAGTATTTAAATGTTGTAAA
1 TTGAAGTAGTTAAATGTTGTAAA
63269178 TTGAAGTA
1 TTGAAGTA
63269186 TTTTAAGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (23 bp):
TTGAAGTAGTTAAATGTTGTAAA
Found at i:63269634 original size:58 final size:58
Alignment explanation
Indices: 63269566--63269702 Score: 179
Period size: 58 Copynumber: 2.4 Consensus size: 58
63269556 GTAAATTCAT
* *
63269566 ATAATAATTATATTAAGAATTTTATTAAATTATATATTA-TTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATTTGATTAAATTATATATTATTTTTATCAAATTATATTTA
* * * * *
63269624 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATCAAATTATTTTTA
1 ATAATAATTATATTAAAATTTGATTAAATTATATATTATTTTTATCAAATTATATTTA
63269682 ATAATAATCT-TATTAAAATTT
1 ATAATAAT-TATATTAAAATTT
63269703 AATAACAATA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
57 18 0.26
58 49 0.72
59 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (58 bp):
ATAATAATTATATTAAAATTTGATTAAATTATATATTATTTTTATCAAATTATATTTA
Found at i:63269903 original size:16 final size:16
Alignment explanation
Indices: 63269865--63269903 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
63269855 TGAATTACAG
* *
63269865 ATTACAACTTTATTCC
1 ATTACAGCTCTATTCC
*
63269881 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
63269897 ATTACAG
1 ATTACAG
63269904 TGAACTAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:63271363 original size:29 final size:26
Alignment explanation
Indices: 63271313--63271371 Score: 64
Period size: 29 Copynumber: 2.2 Consensus size: 26
63271303 GATTTCACGG
*
63271313 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGG-AAA-ATTTAA
* *
63271341 AAAACTGGCCTATTTCGGAAAATTTAA
1 AAAA-TGGCCCATTCCGGAAAATTTAA
63271368 AAAA
1 AAAA
63271372 AGGGCTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.33
28 7 0.26
29 11 0.41
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (26 bp):
AAAATGGCCCATTCCGGAAAATTTAA
Found at i:63276756 original size:19 final size:18
Alignment explanation
Indices: 63276721--63276756 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
63276711 GAAGCAAGCT
*
63276721 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
63276739 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
63276757 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:63279572 original size:72 final size:72
Alignment explanation
Indices: 63279487--63279848 Score: 625
Period size: 72 Copynumber: 5.0 Consensus size: 72
63279477 TTGACAATGA
*
63279487 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGTAAGAGGTTCCCCAATG
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
63279552 ATCTTGG
66 ATCTTGG
* * * *
63279559 AATTGGTCCACTCAATTGGTTCTGTGACAAGTCTAAATGAGTGAGTTGCGAGAGTTTCCCCAATG
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
*
63279624 ATCTTAG
66 ATCTTGG
*
63279631 AATTTGTCCACACAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
63279696 ATCTTGG
66 ATCTTGG
63279703 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
63279768 ATCTTGG
66 ATCTTGG
* * * *
63279775 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAACGAGTGAGTTGCAAGAGGTTTCCTAGTG
1 AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
63279840 ATCTTGG
66 ATCTTGG
63279847 AA
1 AA
63279849 CCGGTCCTAA
Statistics
Matches: 273, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 273 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (72 bp):
AATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
ATCTTGG
Found at i:63281472 original size:45 final size:45
Alignment explanation
Indices: 63281422--63281512 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
63281412 TTTTTAATCA
63281422 AGTAAAAAATTAAAATCTAAAACCTCATTATTTGTTGACGTGTTT
1 AGTAAAAAATTAAAATCTAAAACCTCATTATTTGTTGACGTGTTT
63281467 AGTAAAAAATTAAAATCTAAAACCTCATTATTTGTTGACGTGTTT
1 AGTAAAAAATTAAAATCTAAAACCTCATTATTTGTTGACGTGTTT
63281512 A
1 A
63281513 CTTTTATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (45 bp):
AGTAAAAAATTAAAATCTAAAACCTCATTATTTGTTGACGTGTTT
Found at i:63286762 original size:48 final size:48
Alignment explanation
Indices: 63286691--63286795 Score: 201
Period size: 48 Copynumber: 2.2 Consensus size: 48
63286681 AGTGGAGTTA
63286691 GGTATATGTTTACGTAACATTTTCTTATTTTTGACCAGCTGATTGCTT
1 GGTATATGTTTACGTAACATTTTCTTATTTTTGACCAGCTGATTGCTT
*
63286739 GGTATATGTTTAGGTAACATTTTCTTATTTTTGACCAGCTGATTGCTT
1 GGTATATGTTTACGTAACATTTTCTTATTTTTGACCAGCTGATTGCTT
63286787 GGTATATGT
1 GGTATATGT
63286796 AATGGCATTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (48 bp):
GGTATATGTTTACGTAACATTTTCTTATTTTTGACCAGCTGATTGCTT
Found at i:63291189 original size:19 final size:18
Alignment explanation
Indices: 63291154--63291189 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
63291144 GAAGCAAGCT
*
63291154 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
63291172 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
63291190 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:63293688 original size:51 final size:51
Alignment explanation
Indices: 63293611--63293711 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
63293601 TAAGTAAGTT
63293611 AAAGAGCCATTCCCCACCTCTCGCATCCACTGTCGAATCTTGCCTTCAATC
1 AAAGAGCCATTCCCCACCTCTCGCATCCACTGTCGAATCTTGCCTTCAATC
* *
63293662 AAAGAGCCATTCCCCACCTCTTGCATCCACTGTGGAATCTTGCCTTCAAT
1 AAAGAGCCATTCCCCACCTCTCGCATCCACTGTCGAATCTTGCCTTCAAT
63293712 TTTGTTGCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.24, C:0.37, G:0.13, T:0.27
Consensus pattern (51 bp):
AAAGAGCCATTCCCCACCTCTCGCATCCACTGTCGAATCTTGCCTTCAATC
Found at i:63294286 original size:72 final size:70
Alignment explanation
Indices: 63294201--63294493 Score: 372
Period size: 72 Copynumber: 4.1 Consensus size: 70
63294191 GAATTGACAA
* * * * *
63294201 TGGAATTTGTCCACTCAATTTGCTCCATCC-CAAGTCTAAATCAGTGAGTTGCGAGAGGTTCCCT
1 TGGAATTTGTCCACTCAA-TTGGTTC-TCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
63294265 AATGATT
64 AATGATT
*
63294272 TAGGAATTTGTCCACTCAATTGGTTCTGCCACAAGACTAAATGAGTGAGTTGCAAGAGGTTCCCC
1 T-GGAATTTGTCCACTCAATTGGTTCT-CCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCC
*
63294337 AACGATCT
64 AATGAT-T
* * *
63294345 TGGAATTTGGCCACTCAATTGGTTCTTCGACAAGTCTAAATGAGTGAGCTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTC-TCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63294410 ATGATTT
65 ATGA-TT
* * *
63294417 TGGAATTTGTCCGCTCATTTAGTTCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTCC-ACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63294482 GTGATCT
65 ATGAT-T
63294489 TGGAA
1 TGGAA
63294494 CCGGTCCTGA
Statistics
Matches: 195, Mismatches: 19, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
70 1 0.01
71 11 0.06
72 179 0.92
73 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (70 bp):
TGGAATTTGTCCACTCAATTGGTTCTCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAA
TGATT
Found at i:63294402 original size:144 final size:144
Alignment explanation
Indices: 63294231--63294493 Score: 411
Period size: 144 Copynumber: 1.8 Consensus size: 144
63294221 TGCTCCATCC
* * * *
63294231 CAAGTCTAAATCAGTGAGTTGCGAGAGGTTCCCTAATGATTTAGGAATTTGTCCACTCAATTGGT
1 CAAGTCTAAATCAGTGAGCTGCAAGAGGTTCCCCAATGATTTAGGAATTTGTCCACTCAATTAGT
63294296 TCTGCC-ACAAGACTAAATGAGTGAGTTGCAAGAGGTTCCCCAACGATCTTGGAATTTGGCCACT
66 TCT-CCGACAAGACTAAATGAGTGAGTTGCAAGAGGTTCCCCAACGATCTTGGAATTTGGCCACT
63294360 CAATTGGTTCTTCGA
130 CAATTGGTTCTTCGA
* * * *
63294375 CAAGTCTAAATGAGTGAGCTGCAAGAGGTTCCCCAATGATTTTGGAATTTGTCCGCTCATTTAGT
1 CAAGTCTAAATCAGTGAGCTGCAAGAGGTTCCCCAATGATTTAGGAATTTGTCCACTCAATTAGT
* **
63294440 TCTCCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAGTGATCTTGGAA
66 TCTCCGACAAGACTAAATGAGTGAGTTGCAAGAGGTTCCCCAACGATCTTGGAA
63294494 CCGGTCCTGA
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
143 2 0.02
144 105 0.98
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (144 bp):
CAAGTCTAAATCAGTGAGCTGCAAGAGGTTCCCCAATGATTTAGGAATTTGTCCACTCAATTAGT
TCTCCGACAAGACTAAATGAGTGAGTTGCAAGAGGTTCCCCAACGATCTTGGAATTTGGCCACTC
AATTGGTTCTTCGA
Found at i:63294677 original size:33 final size:33
Alignment explanation
Indices: 63294640--63294717 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
63294630 CAAAGGATCA
63294640 AGATTGAGGTTTTGGTTGCCTCCAAAGCTGAGG
1 AGATTGAGGTTTTGGTTGCCTCCAAAGCTGAGG
* *
63294673 AGATTGAGGTTTTGGTTGCCTCCCAAGTTGAGG
1 AGATTGAGGTTTTGGTTGCCTCCAAAGCTGAGG
63294706 AGATTGAGGTTT
1 AGATTGAGGTTT
63294718 GGCAAATCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (33 bp):
AGATTGAGGTTTTGGTTGCCTCCAAAGCTGAGG
Found at i:63296624 original size:50 final size:51
Alignment explanation
Indices: 63296566--63296664 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 51
63296556 TACAAATTTA
* * *
63296566 ACTATCAATTGTCTATTGATTACACTT-TAACTCGACAAAAAAAGACTAGG
1 ACTATCAATTGACTATTGACTACACTTCTAACTCCACAAAAAAAGACTAGG
* *
63296616 ACTATCAATTGACTATTGACTATACTTCTAACTCCACAAGAAAAGACTA
1 ACTATCAATTGACTATTGACTACACTTCTAACTCCACAAAAAAAGACTA
63296665 AGACCTAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 24 0.56
51 19 0.44
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.29
Consensus pattern (51 bp):
ACTATCAATTGACTATTGACTACACTTCTAACTCCACAAAAAAAGACTAGG
Found at i:63296696 original size:18 final size:18
Alignment explanation
Indices: 63296673--63296959 Score: 195
Period size: 18 Copynumber: 16.3 Consensus size: 18
63296663 TAAGACCTAA
63296673 GACTATCAATTGTCTATT
1 GACTATCAATTGTCTATT
*
63296691 GACTATCAATTGTCTA-A
1 GACTATCAATTGTCTATT
63296708 GACTATCAATTGTCTATTT
1 GACTATCAATTGTCTA-TT
*
63296727 GACTATCAATTGTCTA-A
1 GACTATCAATTGTCTATT
63296744 GACTATCAATTGTCTATATTT
1 GACTATCAATTGTC--TA-TT
63296765 GACTATCAATTGTCTATT
1 GACTATCAATTGTCTATT
** *
63296783 GACTAT-ACATTAAC--TC
1 GACTATCA-ATTGTCTATT
** ** * *
63296799 GAC-AAAAAAAGACTA-A
1 GACTATCAATTGTCTATT
*
63296815 GACTATCAGTTGTCTATT
1 GACTATCAATTGTCTATT
*
63296833 GACTATCAATTGTCTA-A
1 GACTATCAATTGTCTATT
* *
63296850 GACTATCAATTATCTTTT
1 GACTATCAATTGTCTATT
** *
63296868 GACTAT-ACATTAAC--TC
1 GACTATCA-ATTGTCTATT
** ** * *
63296884 GAC-AAAAAAAGACTA-A
1 GACTATCAATTGTCTATT
*
63296900 GACTATCAGTTGTCTATT
1 GACTATCAATTGTCTATT
*
63296918 GAATATCAATTGTCTATT
1 GACTATCAATTGTCTATT
63296936 GACTATCAATTGTCTATT
1 GACTATCAATTGTCTATT
63296954 GACTAT
1 GACTAT
63296960 ACATTAACTC
Statistics
Matches: 209, Mismatches: 41, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
15 8 0.04
16 16 0.08
17 58 0.28
18 93 0.44
19 20 0.10
21 14 0.07
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (18 bp):
GACTATCAATTGTCTATT
Found at i:63296713 original size:17 final size:17
Alignment explanation
Indices: 63296669--63296860 Score: 156
Period size: 17 Copynumber: 10.9 Consensus size: 17
63296659 AGACTAAGAC
63296669 CTAAGACTATCAATTGT
1 CTAAGACTATCAATTGT
*
63296686 CTATTGACTATCAATTGT
1 CTA-AGACTATCAATTGT
63296704 CTAAGACTATCAATTGT
1 CTAAGACTATCAATTGT
*
63296721 CTATTTGACTATCAATTGT
1 CTA--AGACTATCAATTGT
63296740 CTAAGACTATCAATTGT
1 CTAAGACTATCAATTGT
63296757 CTATATTTGACTATCAATTGT
1 CTA-A---GACTATCAATTGT
* **
63296778 CTATTGACTAT-ACATTAA
1 CTA-AGACTATCA-ATTGT
* ** ** *
63296796 CT-CGAC-AAAAAAAGA
1 CTAAGACTATCAATTGT
*
63296811 CTAAGACTATCAGTTGT
1 CTAAGACTATCAATTGT
*
63296828 CTATTGACTATCAATTGT
1 CTA-AGACTATCAATTGT
63296846 CTAAGACTATCAATT
1 CTAAGACTATCAATT
63296861 ATCTTTTGAC
Statistics
Matches: 141, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
15 5 0.04
16 7 0.05
17 53 0.38
18 43 0.30
19 16 0.11
21 17 0.12
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (17 bp):
CTAAGACTATCAATTGT
Found at i:63296870 original size:85 final size:86
Alignment explanation
Indices: 63296727--63297007 Score: 451
Period size: 85 Copynumber: 3.3 Consensus size: 86
63296717 TTGTCTATTT
* *
63296727 GACTATCAATTGTCTA-AGACTATCAATTGTCTATATTTGACTATCAATTGTCTATTGACTATAC
1 GACTATCAGTTGTCTATTGACTATCAATTGTCTATA---GACTATCAATTGTCTATTGACTATAC
63296791 ATTAACTCGACAAAAAAAGACTAA
63 ATTAACTCGACAAAAAAAGACTAA
* *
63296815 GACTATCAGTTGTCTATTGACTATCAATTGTCTA-AGACTATCAATTATCTTTTGACTATACATT
1 GACTATCAGTTGTCTATTGACTATCAATTGTCTATAGACTATCAATTGTCTATTGACTATACATT
63296879 AACTCGACAAAAAAAGACTAA
66 AACTCGACAAAAAAAGACTAA
* *
63296900 GACTATCAGTTGTCTATTGAATATCAATTGTCTATTGACTATCAATTGTCTATTGACTATACATT
1 GACTATCAGTTGTCTATTGACTATCAATTGTCTATAGACTATCAATTGTCTATTGACTATACATT
63296965 AACTCGAC-AAAAAAGACTAA
66 AACTCGACAAAAAAAGACTAA
*
63296985 GACTATCAGTAGTCTATTGACTA
1 GACTATCAGTTGTCTATTGACTA
63297008 CACTTTAACT
Statistics
Matches: 181, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
85 114 0.63
86 35 0.19
88 16 0.09
89 16 0.09
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (86 bp):
GACTATCAGTTGTCTATTGACTATCAATTGTCTATAGACTATCAATTGTCTATTGACTATACATT
AACTCGACAAAAAAAGACTAA
Found at i:63296992 original size:49 final size:49
Alignment explanation
Indices: 63296936--63297038 Score: 170
Period size: 49 Copynumber: 2.1 Consensus size: 49
63296926 ATTGTCTATT
* *
63296936 GACTATCAATTGTCTATTGACTATACATTAACTCGACAAAAAAGACTAA
1 GACTATCAATAGTCTATTGACTACACATTAACTCGACAAAAAAGACTAA
* *
63296985 GACTATCAGTAGTCTATTGACTACACTTTAACTCGACAAAAAAGACTAA
1 GACTATCAATAGTCTATTGACTACACATTAACTCGACAAAAAAGACTAA
63297034 GACTA
1 GACTA
63297039 AGACTAAGAC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (49 bp):
GACTATCAATAGTCTATTGACTACACATTAACTCGACAAAAAAGACTAA
Found at i:63297037 original size:6 final size:6
Alignment explanation
Indices: 63297026--63297050 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
63297016 CTCGACAAAA
63297026 AAGACT AAGACT AAGACT AAGACT A
1 AAGACT AAGACT AAGACT AAGACT A
63297051 TCAATTGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AAGACT
Found at i:63325673 original size:262 final size:261
Alignment explanation
Indices: 63325330--63325846 Score: 836
Period size: 262 Copynumber: 2.0 Consensus size: 261
63325320 ACGATCCTAA
*
63325330 AAAAATTTCAAATAATATAGGTTGGAATTTAAGATGCTCTTGTTCCGAAAGAATATCACATCTAG
1 AAAAATTTCAAATAATATAGGTTGGAATTTAAGATGCTCTTGTTCCGAAAGAATATCACATCCAG
* * *
63325395 CACGTTAGGATACGATACTCTAAACTCTCGGAACCAAAATCACCTTATGGTTTTCAAAACCCATA
66 CACATTAGGATACGATACTCTAAACTCTCGAAACCAAAATCACCTTATGGTTTCCAAAACCCATA
* *
63325460 CTTTGAAATTTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAG
131 CTTTAAAATTTTAAGAGGATATTTGGCTATTTGATCAAACGAGAAATCGAAACCCAGCACGTTAG
* * * *
63325525 GGCACGTTTTCTCGAGTTTTCAAACGCAAAATATTGCTTTATTTAGAAAAATTTTCCTTTTTGAA
196 GCCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAAAATTTT-CTTTTTGAA
63325590 GT
260 GT
* * * *
63325592 AAAATTTTCAAATAATATGGGTTGGAATTTAAGATTCTCTTGTTCTGAAAGAATATCACATCCAG
1 AAAAATTTCAAATAATATAGGTTGGAATTTAAGATGCTCTTGTTCCGAAAGAATATCACATCCAG
* *
63325657 CACATTAGGATACGATACTTTAAACTCTCGAAACCCAAATCACCTTATGGTTTCCAAAACCCATA
66 CACATTAGGATACGATACTCTAAACTCTCGAAACCAAAATCACCTTATGGTTTCCAAAACCCATA
* *
63325722 CTTTAAAATTTTAAGAGGATATTTGGCTATTTGATCAAATGAGAAATCGAAACCCAGCATGTTAG
131 CTTTAAAATTTTAAGAGGATATTTGGCTATTTGATCAAACGAGAAATCGAAACCCAGCACGTTAG
* * *
63325787 GCCATGTTTTCTTGAATTTCCAAATGCAAAATATTGCCTTATTTAGAAAAATTTTCTTTT
196 GCCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAAAATTTTCTTTT
63325847 GATGTATAGT
Statistics
Matches: 234, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
261 5 0.02
262 229 0.98
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (261 bp):
AAAAATTTCAAATAATATAGGTTGGAATTTAAGATGCTCTTGTTCCGAAAGAATATCACATCCAG
CACATTAGGATACGATACTCTAAACTCTCGAAACCAAAATCACCTTATGGTTTCCAAAACCCATA
CTTTAAAATTTTAAGAGGATATTTGGCTATTTGATCAAACGAGAAATCGAAACCCAGCACGTTAG
GCCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTAGAAAAATTTTCTTTTTGAAG
T
Found at i:63326209 original size:3 final size:3
Alignment explanation
Indices: 63326201--63326236 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
63326191 GAAATAGAAA
63326201 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
63326237 GATGAATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:63329982 original size:36 final size:36
Alignment explanation
Indices: 63329870--63329983 Score: 85
Period size: 36 Copynumber: 3.2 Consensus size: 36
63329860 GAGTTGCAAG
63329870 AGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
1 AGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
* * ** * * *
63329906 TGGTTCTCACACAA-G-TC-T-AAATAAGT-GAGTTGCAAG
1 AGGTTC-C-C-CAATGATCTTGGAATTTGTCCA-CT-CAAT
63329942 AGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
1 AGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
63329978 AGGTTC
1 AGGTTC
63329984 TGTGACAAGT
Statistics
Matches: 54, Mismatches: 14, Indels: 20
0.61 0.16 0.23
Matches are distributed among these distances:
33 3 0.06
34 3 0.06
35 9 0.17
36 24 0.44
37 9 0.17
38 3 0.06
39 3 0.06
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (36 bp):
AGGTTCCCCAATGATCTTGGAATTTGTCCACTCAAT
Found at i:63330042 original size:72 final size:72
Alignment explanation
Indices: 63329455--63330035 Score: 984
Period size: 72 Copynumber: 8.1 Consensus size: 72
63329445 GAATTGACAA
* * *
63329455 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCTCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
63329520 ATGATCT
66 ATGATCT
* *
63329527 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTTTAAATCAGTGAGTTGCAAGAGGTTGCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
63329592 ATGATCT
66 ATGATCT
*
63329599 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
63329664 ATGATCT
66 ATGATCT
*
63329671 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGCCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
63329736 ATGATCT
66 ATGATCT
* *
63329743 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGCCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
63329808 ATGATCT
66 ATGATCT
* *
63329815 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGCCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
63329880 ATGATCT
66 ATGATCT
*
63329887 TGGAATTTGTCCACTCAATTGGTTCT-CACACAAGTCTAAATAAGTGAGTTGCAAGAGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGC-CACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCC
63329951 AATGATCT
65 AATGATCT
* ** * *
63329959 TGGAATTTGTCCACTCAATAGGTTCTGTGACAAGTCTAAATAAGCGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
*
63330024 GTGATCT
66 ATGATCT
63330031 TGGAA
1 TGGAA
63330036 CCTGTCCTGA
Statistics
Matches: 489, Mismatches: 18, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
71 1 0.00
72 488 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATCAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:63342042 original size:13 final size:13
Alignment explanation
Indices: 63342024--63342053 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
63342014 ATAATATTAC
63342024 ATAACTAAACTAA
1 ATAACTAAACTAA
*
63342037 ATAACTAAATTAA
1 ATAACTAAACTAA
63342050 ATAA
1 ATAA
63342054 TATTATAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (13 bp):
ATAACTAAACTAA
Found at i:63346060 original size:15 final size:15
Alignment explanation
Indices: 63346040--63346070 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
63346030 ATTTAAAGGT
63346040 TTGGGGTTGTAGAGC
1 TTGGGGTTGTAGAGC
63346055 TTGGGGTTGTAGAGC
1 TTGGGGTTGTAGAGC
63346070 T
1 T
63346071 ATTGTAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.06, G:0.45, T:0.35
Consensus pattern (15 bp):
TTGGGGTTGTAGAGC
Found at i:63349974 original size:3 final size:3
Alignment explanation
Indices: 63349966--63349991 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
63349956 ATTGTTAATC
63349966 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
63349992 GTTAACACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:63360877 original size:21 final size:21
Alignment explanation
Indices: 63360851--63360891 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63360841 ATCTGCTCAA
* *
63360851 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
63360872 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
63360892 TTGCTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:63367442 original size:72 final size:72
Alignment explanation
Indices: 63367330--63367550 Score: 352
Period size: 72 Copynumber: 3.1 Consensus size: 72
63367320 GAATTGATAA
* * * *
63367330 TGGAATTTGTCCACTCAATTGGTTCTGCGAGAAGAATAAATCAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGACTAAATGAGAGAGTTGCAAGAGGTTCCCCA
63367395 ATGATCT
66 ATGATCT
* * * *
63367402 TGGAATTTGCCCGCTCAATTGGTTCTGCCACAAGCCTAAATGAGAGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGACTAAATGAGAGAGTTGCAAGAGGTTCCCCA
63367467 ATGATCT
66 ATGATCT
*
63367474 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGAGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGACTAAATGAGAGAGTTGCAAGAGGTTCCCCA
*
63367539 GTGATCT
66 ATGATCT
63367546 TGGAA
1 TGGAA
63367551 CCGGTCCTGA
Statistics
Matches: 136, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 136 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTGCGACAAGACTAAATGAGAGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:63369498 original size:11 final size:11
Alignment explanation
Indices: 63369482--63369524 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
63369472 TAGAATATAT
63369482 CCCATACCTTG
1 CCCATACCTTG
*
63369493 CCCATACCTTT
1 CCCATACCTTG
*
63369504 CCCATACC-TA
1 CCCATACCTTG
63369514 CCCATACCTTG
1 CCCATACCTTG
63369525 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:63369509 original size:22 final size:21
Alignment explanation
Indices: 63369481--63369523 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
63369471 TTAGAATATA
*
63369481 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
63369503 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
63369524 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:63370078 original size:18 final size:18
Alignment explanation
Indices: 63370055--63370147 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
63370045 TACGACCGTT
63370055 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
63370073 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
63370091 TACAGTACTATTCACGTA
1 TACGGCACTATTCACGTA
63370109 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
63370127 TACAGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
63370145 TAC
1 TAC
63370148 AGTAGTTGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:63370108 original size:36 final size:36
Alignment explanation
Indices: 63370061--63370147 Score: 165
Period size: 36 Copynumber: 2.4 Consensus size: 36
63370051 CGTTTACGGC
63370061 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
63370097 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
63370133 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
63370148 AGTAGTTGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACGTATACAGT
Found at i:63373015 original size:11 final size:11
Alignment explanation
Indices: 63372999--63373041 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
63372989 TAGAATATAT
63372999 CCCATACCTTG
1 CCCATACCTTG
*
63373010 CCCATACCTTT
1 CCCATACCTTG
*
63373021 CCCATACC-TA
1 CCCATACCTTG
63373031 CCCATACCTTG
1 CCCATACCTTG
63373042 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:63373026 original size:22 final size:21
Alignment explanation
Indices: 63372998--63373040 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
63372988 TTAGAATATA
*
63372998 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
63373020 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
63373041 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:63373626 original size:56 final size:57
Alignment explanation
Indices: 63373528--63373643 Score: 173
Period size: 56 Copynumber: 2.1 Consensus size: 57
63373518 TCCGCGCAAC
63373528 ACTACACTTTAACTCGACAAAAAAAGACTTAAAACTAAGACTATCAATTGTCTATTG
1 ACTACACTTTAACTCGACAAAAAAAGACTTAAAACTAAGACTATCAATTGTCTATTG
* * * *
63373585 ACTATACTTTAACTCCG-CAAAAAAGGAC-TAAGACTAAGACTATCAATTTTCTATTG
1 ACTACACTTTAACT-CGACAAAAAAAGACTTAAAACTAAGACTATCAATTGTCTATTG
63373641 ACT
1 ACT
63373644 TCACACTTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
56 29 0.54
57 23 0.43
58 2 0.04
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.29
Consensus pattern (57 bp):
ACTACACTTTAACTCGACAAAAAAAGACTTAAAACTAAGACTATCAATTGTCTATTG
Found at i:63375681 original size:28 final size:27
Alignment explanation
Indices: 63375640--63375743 Score: 95
Period size: 29 Copynumber: 3.7 Consensus size: 27
63375630 TAAAATCAAT
*
63375640 AAAATCAATAATATTATTAAATTTTATAA
1 AAAATTAA-AATATTA-TAAATTTTATAA
* *
63375669 AAAATTAAAATATTA-AAAATTTATTA
1 AAAATTAAAATATTATAAATTTTATAA
* *
63375695 AAAATATAAAAAATTGTAAAATTTTATAA
1 AAAAT-TAAAATATTAT-AAATTTTATAA
63375724 AAAATTTTAAAA-ATTATAAA
1 AAAA--TTAAAATATTATAAA
63375744 ATATATAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 11
0.77 0.10 0.14
Matches are distributed among these distances:
26 14 0.23
27 8 0.13
28 10 0.16
29 24 0.39
30 5 0.08
31 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (27 bp):
AAAATTAAAATATTATAAATTTTATAA
Found at i:63375714 original size:10 final size:10
Alignment explanation
Indices: 63375663--63375803 Score: 61
Period size: 10 Copynumber: 15.1 Consensus size: 10
63375653 TTATTAAATT
63375663 TTATAAAAAA
1 TTATAAAAAA
*
63375673 -T-TAAAATA
1 TTATAAAAAA
*
63375681 -T-TAAAAAT
1 TTATAAAAAA
*
63375689 TTATTAAAAA
1 TTATAAAAAA
63375699 -TATAAAAAA
1 TTATAAAAAA
* **
63375708 TTGTAAAATT
1 TTATAAAAAA
63375718 TTATAAAAAA
1 TTATAAAAAA
*
63375728 TT-TTAAAAA
1 TTATAAAAAA
*
63375737 TTATAAAATA
1 TTATAAAAAA
*
63375747 -TAT-AGAAA
1 TTATAAAAAA
*
63375755 -TACAAAAAA
1 TTATAAAAAA
*
63375764 TT-T-TAAAA
1 TTATAAAAAA
* *
63375772 TTTTAAAAAG
1 TTATAAAAAA
*
63375782 TCATAAGAAAA
1 TTATAA-AAAA
*
63375793 TTATACAAAA
1 TTATAAAAAA
63375803 T
1 T
63375804 GTAAAGAAAT
Statistics
Matches: 94, Mismatches: 28, Indels: 18
0.67 0.20 0.13
Matches are distributed among these distances:
8 23 0.24
9 26 0.28
10 38 0.40
11 7 0.07
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:63375722 original size:20 final size:19
Alignment explanation
Indices: 63375693--63375744 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
63375683 AAAAATTTAT
63375693 TAAAAA-TATAAAAAATTG
1 TAAAAATTATAAAAAATTG
* *
63375711 TAAAATTTTATAAAAAATTT
1 TAAAA-ATTATAAAAAATTG
63375731 TAAAAATTATAAAA
1 TAAAAATTATAAAA
63375745 TATATAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 5 0.17
19 8 0.28
20 16 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAATTATAAAAAATTG
Found at i:63375735 original size:8 final size:9
Alignment explanation
Indices: 63375663--63375744 Score: 53
Period size: 9 Copynumber: 8.9 Consensus size: 9
63375653 TTATTAAATT
63375663 TTATAAAAAA
1 TTAT-AAAAA
*
63375673 TTA-AAATA
1 TTATAAAAA
*
63375681 TTA-AAAAT
1 TTATAAAAA
63375689 TTATTAAAAA
1 TTA-TAAAAA
63375699 -TATAAAAAA
1 TTAT-AAAAA
* *
63375708 TTGTAAAATT
1 TTATAAAA-A
63375718 TTATAAAAAA
1 TTAT-AAAAA
*
63375728 TTTTAAAAA
1 TTATAAAAA
63375737 TTATAAAA
1 TTATAAAA
63375745 TATATAGAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
8 14 0.25
9 23 0.41
10 15 0.27
11 4 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (9 bp):
TTATAAAAA
Found at i:63375764 original size:56 final size:55
Alignment explanation
Indices: 63375658--63375780 Score: 162
Period size: 56 Copynumber: 2.2 Consensus size: 55
63375648 TAATATTATT
* *
63375658 AAATTTTATAAAAAATTAAAATATTAAAAATTTATTAAAAATATAAAAAATTGTA
1 AAATTTTATAAAAAATTAAAATATTAAAAATATATTAAAAATACAAAAAATTGTA
* *
63375713 AAATTTTATAAAAAATTTTAAAA-ATTATAAAATATA-TAGAAATACAAAAAATTTTA
1 AAATTTTATAAAAAA--TTAAAATATTA-AAAATATATTAAAAATACAAAAAATTGTA
63375769 AAATTTTA-AAAA
1 AAATTTTATAAAA
63375781 GTCATAAGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
55 19 0.31
56 29 0.48
57 13 0.21
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (55 bp):
AAATTTTATAAAAAATTAAAATATTAAAAATATATTAAAAATACAAAAAATTGTA
Found at i:63376059 original size:21 final size:21
Alignment explanation
Indices: 63376027--63376071 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
63376017 AATTTTCTAA
*
63376027 TTTATAATAATTTATTAATTT
1 TTTATAATAATTTAATAATTT
63376048 TTTATTAA-AATTTAATAATTT
1 TTTA-TAATAATTTAATAATTT
63376069 TTT
1 TTT
63376072 CTAAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATAATAATTTAATAATTT
Found at i:63376076 original size:20 final size:21
Alignment explanation
Indices: 63376027--63376083 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
63376017 AATTTTCTAA
*
63376027 TTTA-TAATAATTTATTAATTT
1 TTTACTAA-AATTTAATAATTT
*
63376048 TTTATTAAAATTTAATAATTT
1 TTTACTAAAATTTAATAATTT
*
63376069 TTT-CTAAATTTTAAT
1 TTTACTAAAATTTAAT
63376084 TTTTATGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.31
21 19 0.59
22 3 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTACTAAAATTTAATAATTT
Found at i:63376228 original size:85 final size:86
Alignment explanation
Indices: 63376133--63376313 Score: 274
Period size: 85 Copynumber: 2.1 Consensus size: 86
63376123 CTTAATTGCT
* *
63376133 TTTTTTGAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCCAATTGAGTGGGA
1 TTTTTTGAAAAAAATTAAGACCTTTTTGATACATTATGAAAGTTCAAGTACCCAATTGAGTGGGA
63376198 AAAAAACAGGGGCCTAATT-C
66 AAAAAACAGGGGCCTAATTAC
* * *
63376218 TTTTTTGAAAAAAATTAAGATCTTTTTTATACATTATGAAAGTTCAAGTACTCAATTGAGTGGGA
1 TTTTTTGAAAAAAATTAAGACCTTTTTGATACATTATGAAAGTTCAAGTACCCAATTGAGTGGGA
* **
63376283 AAAAAATAGGGGTTTAATTAC
66 AAAAAACAGGGGCCTAATTAC
63376304 TTTTTCTGAA
1 TTTTT-TGAA
63376314 GAGGTTTGAG
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 76 0.88
86 6 0.07
87 4 0.05
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (86 bp):
TTTTTTGAAAAAAATTAAGACCTTTTTGATACATTATGAAAGTTCAAGTACCCAATTGAGTGGGA
AAAAAACAGGGGCCTAATTAC
Found at i:63376364 original size:87 final size:85
Alignment explanation
Indices: 63376133--63376365 Score: 252
Period size: 85 Copynumber: 2.7 Consensus size: 85
63376123 CTTAATTGCT
*** * * *
63376133 TTTTTTGAAAAAAATTAAGGCCTTTTTGATGCATTATGAAAGTTCAAGTACCCAATTGAGTGGGA
1 TTTTTTGAAAAAAATTAAGATATTTTTGATACATTATAAAAGTTCAAGTACTCAATTGAGTGGGA
63376198 AAAAAACAGGGGCCTAATTC
66 AAAAAACAGGGGCCTAATTC
* * *
63376218 TTTTTTGAAAAAAATTAAGATCTTTTTTATACATTATGAAAGTTCAAGTACTCAATTGAGTGGGA
1 TTTTTTGAAAAAAATTAAGATATTTTTGATACATTATAAAAGTTCAAGTACTCAATTGAGTGGGA
* **
63376283 AAAAAATAGGGGTTTAATTAC
66 AAAAAACAGGGGCCTAATT-C
* *** * * * *
63376304 TTTTTCTGAAGAGGTTTGAGGTATTTTTGATACATCT-TAAAAGTTTAAGTGCTCAATTGAGT
1 TTTTT-TGAAAAAAATTAAGATATTTTTGATACAT-TATAAAAGTTCAAGTACTCAATTGAGT
63376366 ATAAAAAAAA
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
85 76 0.60
86 6 0.05
87 43 0.34
88 1 0.01
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (85 bp):
TTTTTTGAAAAAAATTAAGATATTTTTGATACATTATAAAAGTTCAAGTACTCAATTGAGTGGGA
AAAAAACAGGGGCCTAATTC
Found at i:63376968 original size:32 final size:34
Alignment explanation
Indices: 63376902--63376974 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
63376892 TGAAAAAGTT
*
63376902 AATATTTTTTTGTGTTTGAATAAATTAGTGT-AA
1 AATATTTTTTTGTGTTTGAACAAATTAGTGTAAA
*
63376935 AATATTTTTTTGTGTTTG-ACAAATT-TTGATAAA
1 AATATTTTTTTGTGTTTGAACAAATTAGTG-TAAA
63376968 AATATTT
1 AATATTT
63376975 CATAAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 2 0.06
32 7 0.19
33 27 0.75
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.52
Consensus pattern (34 bp):
AATATTTTTTTGTGTTTGAACAAATTAGTGTAAA
Found at i:63377108 original size:21 final size:20
Alignment explanation
Indices: 63377066--63377125 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
63377056 AGCTTATTTA
* **
63377066 TATTTTAATTAATCATGTTT
1 TATTTTAATTAATCTTAATT
63377086 TAGTTTTAATTAATCTTAATT
1 TA-TTTTAATTAATCTTAATT
* *
63377107 TA-CTTAATTAAGCTTAATT
1 TATTTTAATTAATCTTAATT
63377126 ATTAATTTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 15 0.44
20 2 0.06
21 17 0.50
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTTTAATTAATCTTAATT
Found at i:63383990 original size:72 final size:72
Alignment explanation
Indices: 63383887--63384176 Score: 438
Period size: 72 Copynumber: 4.0 Consensus size: 72
63383877 TTGACAATGA
* * *
63383887 AATTTGTCCACTCAAATGGTTCTGCGAGAAGTCTAAATGAGTGACTTGCAAGAGGTTTCCCAATG
1 AATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
*
63383952 ATATTGG
66 ATCTTGG
* *
63383959 AATTTGTCCACTCAATTGGTTCTGC-ATGAAGTCTAAATGAGAGAGTTGCGAGAGGTTCCCCAAT
1 AATTTGTCCACTCAATTGGTTCTGCGA-GAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAAT
63384023 GATCTTGG
65 GATCTTGG
*
63384031 AATTTATCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
1 AATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
63384096 ATCTTGG
66 ATCTTGG
* ** * * * *
63384103 AATTTGTCCACTCAATTGATTCACCGAAAAGTCTAAATAAGTGAGTTGCAAGAGATTCCCCAGTG
1 AATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
63384168 ATCTTGG
66 ATCTTGG
63384175 AA
1 AA
63384177 CCGGTCCTGA
Statistics
Matches: 199, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
71 1 0.01
72 197 0.99
73 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (72 bp):
AATTTGTCCACTCAATTGGTTCTGCGAGAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATG
ATCTTGG
Found at i:63385705 original size:9 final size:9
Alignment explanation
Indices: 63385684--63385965 Score: 235
Period size: 9 Copynumber: 30.9 Consensus size: 9
63385674 TCCACGGAAT
63385684 TTATGTCAA-
1 TTATGT-AAG
*
63385693 TTATTTAAG
1 TTATGTAAG
* *
63385702 TTATTTAAT
1 TTATGTAAG
63385711 TTATGTAAG
1 TTATGTAAG
63385720 TTATGTAAG
1 TTATGTAAG
* * *
63385729 TAATTTAAT
1 TTATGTAAG
*
63385738 TTATGCAAG
1 TTATGTAAG
63385747 TTTATGTAAG
1 -TTATGTAAG
*
63385757 TTATCTAAG
1 TTATGTAAG
* *
63385766 TTATTTAAT
1 TTATGTAAG
63385775 TTATGTAAG
1 TTATGTAAG
63385784 TTATGTAAG
1 TTATGTAAG
*
63385793 TTAT-TTAG
1 TTATGTAAG
63385801 TTTATGTAAG
1 -TTATGTAAG
* *
63385811 TTATTTAAC
1 TTATGTAAG
*
63385820 TTATGCAAG
1 TTATGTAAG
63385829 TTTATGTAAG
1 -TTATGTAAG
63385839 TTATGTAAG
1 TTATGTAAG
* * * *
63385848 TCCACGGAAT
1 T-TATGTAAG
*
63385858 TTATGTAAA
1 TTATGTAAG
*
63385867 TTATTTAAG
1 TTATGTAAG
* * *
63385876 TAATTTAAT
1 TTATGTAAG
63385885 TTATGTAAG
1 TTATGTAAG
*
63385894 TTATGTAAA
1 TTATGTAAG
* *
63385903 TTATTTAAT
1 TTATGTAAG
*
63385912 TTATGCAAG
1 TTATGTAAG
63385921 TTTATGTAAG
1 -TTATGTAAG
63385931 TTATGTAAG
1 TTATGTAAG
* *
63385940 TTATTTAAT
1 TTATGTAAG
63385949 TTATGTAAG
1 TTATGTAAG
63385958 TTATGTAA
1 TTATGTAA
63385966 CTTAATACAC
Statistics
Matches: 215, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
8 5 0.02
9 178 0.83
10 32 0.15
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:63385751 original size:64 final size:64
Alignment explanation
Indices: 63385683--63385848 Score: 212
Period size: 64 Copynumber: 2.6 Consensus size: 64
63385673 GTCCACGGAA
*
63385683 TTTATGTCAA-TTATTTAAGTTATTTAATTTATGTAAGTTATGTAAGTAATTTAATTTATGCAAG
1 TTTATGT-AAGTTATCTAAGTTATTTAATTTATGTAAGTTATGTAAGTAATTTAATTTATGCAAG
* * *
63385747 TTTATGTAAGTTATCTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAGTTTATGTAAG
1 TTTATGTAAGTTATCTAAGTTATTTAATTTATGTAAGTTATGTAAGTAATTTAATTTATGCAAG
* * * *
63385811 -TTATTTAACTTATGC-AAGTTTATGTAAGTTATGTAAGT
1 TTTATGTAAGTTAT-CTAAG-TTATTTAATTTATGTAAGT
63385849 CCACGGAATT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
63 16 0.18
64 75 0.82
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.50
Consensus pattern (64 bp):
TTTATGTAAGTTATCTAAGTTATTTAATTTATGTAAGTTATGTAAGTAATTTAATTTATGCAAG
Found at i:63385946 original size:64 final size:62
Alignment explanation
Indices: 63385693--63385965 Score: 206
Period size: 64 Copynumber: 4.1 Consensus size: 62
63385683 TTTATGTCAA
* * * * *
63385693 TTATTTAAGTTATTTAATTTATGTAAGTTATGTAAGTAATTTAATTTATGCAAGTTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAA-GTATGTAA-TTTATGTAAG
* * * * *
63385757 TTATCTAAGTTATTTAATTTATGTAAGTTATGTAAGTTAT-TTAGTTTATGTAAGTTATTTAAC
1 TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAG--TATGTAATTTATGTAAG
* * * * * *
63385820 TTATGCAAGTTTATGTAAGTTATGTAAGTCCACGGAATTTATGTAAATTATTTAAGTAATTTAAT
1 TTATGTAAG-TTATTTAATTTATGT-A----A--G---TTATGTAAGTTATGTAAGT-ATGTAAT
63385885 TTATGTAAG
54 TTATGTAAG
* * *
63385894 TTATGTAAATTATTTAATTTATGCAAGTTTATGTAAGTTATGTAAGTTATTTAATTTATGTAAG
1 TTATGTAAGTTATTTAATTTATGTAAG-TTATGTAAGTTATGTAAG-TATGTAATTTATGTAAG
63385958 TTATGTAA
1 TTATGTAA
63385966 CTTAATACAC
Statistics
Matches: 168, Mismatches: 25, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
63 16 0.10
64 98 0.58
65 2 0.01
66 1 0.01
68 1 0.01
69 1 0.01
71 1 0.01
72 1 0.01
73 13 0.08
74 31 0.18
75 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (62 bp):
TTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGTATGTAATTTATGTAAG
Found at i:63386049 original size:16 final size:16
Alignment explanation
Indices: 63386024--63386061 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
63386014 GAAAACGAAG
*
63386024 TAAA-TTTAATACTAA
1 TAAATTTTAATACAAA
63386039 TAAATTTTAATACAAA
1 TAAATTTTAATACAAA
63386055 TAAATTT
1 TAAATTT
63386062 AGAAAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTTTAATACAAA
Found at i:63386076 original size:13 final size:13
Alignment explanation
Indices: 63386058--63386085 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
63386048 ATACAAATAA
63386058 ATTTAGAAAACTT
1 ATTTAGAAAACTT
63386071 ATTTAGAAAACTT
1 ATTTAGAAAACTT
63386084 AT
1 AT
63386086 AAATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAGAAAACTT
Found at i:63386093 original size:17 final size:17
Alignment explanation
Indices: 63386054--63386103 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
63386044 TTTAATACAA
63386054 ATAAATTTAGAAAAC-T
1 ATAAATTTAGAAAACTT
63386070 -T--ATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
63386084 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
63386101 ATA
1 ATA
63386104 TACATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 2 0.07
17 16 0.53
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:63387718 original size:191 final size:191
Alignment explanation
Indices: 63387425--63387772 Score: 518
Period size: 191 Copynumber: 1.8 Consensus size: 191
63387415 TTTGTGCGAT
* * * *
63387425 CATTAGAGAAAGAAAAAATCAAACAGAAAAATGAATAGCCATATACGTATTCAACGAATAAATTA
1 CATTAGAGAAAGAAAAAATCAAACAGAAAAATGAACAGCCATATACGGAGTCAACGAAGAAATTA
* *
63387490 GGGATTTGGAAAGATTTTTACCAGTCAGCCCAGACGAGAAGC-AATATTCGATCGAAAAGAGGGG
66 GGGATTTGGAAAGATTTTTACCAGTCAGCCCAGACGAGAA-CTAATATTCAACCGAAAAGAGGGG
* ** *
63387554 AAATCGTCGTTGAAGGGGTGAATGGTCTCTGGAATTTAAAGAGAAAGGAAAAACAAAGCGGG
130 AAATCGCCGTTGAAAAGGTGAAAGGTCTCTGGAATTTAAAGAGAAAGGAAAAACAAAGCGGG
* * * * *
63387616 CATTATAGAAAGAAGAAATCGAACATAAAAATGAACAGCCATATACGGAGTCAACGGAGAAATTA
1 CATTAGAGAAAGAAAAAATCAAACAGAAAAATGAACAGCCATATACGGAGTCAACGAAGAAATTA
* * *
63387681 GGGATTTGGAAAGTTTTTTACCAGTCAGCCCAGACGAGAACTGATATTCAACCGAGAAGAGGGGA
66 GGGATTTGGAAAGATTTTTACCAGTCAGCCCAGACGAGAACTAATATTCAACCGAAAAGAGGGGA
63387746 AATCGCCGTTGAAAAGGTGAAAGGTCT
131 AATCGCCGTTGAAAAGGTGAAAGGTCT
63387773 AGGGATTTGC
Statistics
Matches: 138, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
190 1 0.01
191 137 0.99
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.20
Consensus pattern (191 bp):
CATTAGAGAAAGAAAAAATCAAACAGAAAAATGAACAGCCATATACGGAGTCAACGAAGAAATTA
GGGATTTGGAAAGATTTTTACCAGTCAGCCCAGACGAGAACTAATATTCAACCGAAAAGAGGGGA
AATCGCCGTTGAAAAGGTGAAAGGTCTCTGGAATTTAAAGAGAAAGGAAAAACAAAGCGGG
Found at i:63388439 original size:21 final size:21
Alignment explanation
Indices: 63388415--63388458 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
63388405 AACCCCTATC
* *
63388415 CCTTAATCTCCAACC-TCTAAA
1 CCTTAAACTCAAACCAT-TAAA
63388436 CCTTAAACTCAAACCATTAAA
1 CCTTAAACTCAAACCATTAAA
63388457 CC
1 CC
63388459 AAGTACCCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (21 bp):
CCTTAAACTCAAACCATTAAA
Found at i:63388619 original size:15 final size:15
Alignment explanation
Indices: 63388599--63388627 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
63388589 CCATAATCTT
63388599 TAAACCCTAAACCTA
1 TAAACCCTAAACCTA
63388614 TAAACCCTAAACCT
1 TAAACCCTAAACCT
63388628 TAACTCATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAACCCTAAACCTA
Found at i:63388675 original size:21 final size:21
Alignment explanation
Indices: 63388651--63388720 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
63388641 ATAAACTATA
*
63388651 AACCCTAAACCCCTAACCCTT
1 AACCATAAACCCCTAACCCTT
* *
63388672 AACCATTAACCCGTAACACC-T
1 AACCATAAACCCCTAAC-CCTT
63388693 ATA-CATTAAACCCC-AACCCTT
1 A-ACCA-TAAACCCCTAACCCTT
63388714 AAACCAT
1 -AACCAT
63388721 GGCCCGTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 2 0.05
21 24 0.63
22 12 0.32
ACGTcount: A:0.39, C:0.40, G:0.01, T:0.20
Consensus pattern (21 bp):
AACCATAAACCCCTAACCCTT
Found at i:63389535 original size:114 final size:114
Alignment explanation
Indices: 63389131--63390002 Score: 1214
Period size: 114 Copynumber: 7.6 Consensus size: 114
63389121 GTTTCGGTTT
* ** * * *
63389131 AAAACGATGTGTTTTGGTTAAGATTTATTCACGGCGCTTTGTATAATGCGCCACTAATGATGTAC
1 AAAACGATGCGTTTTGGTTAAGATTT-TTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGC
* ** *
63389196 TTTAGCGGCGTTT-T-AGTATAGCGCCACTAATTCTAAAATACCTCAACCA
65 TTTAGCGGCATTTATCCTTA-AGCGCCACTAATTCTAAAATACCTCAACCC
* * *
63389245 AAAACGACGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAATGGTGTTCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
*
63389310 TTAGCGGCATTTATCCTTAAGCGCCACTAAATCTATAAAATACCTCAACCC
66 TTAGCGGCATTTATCCTTAAGCGCCACT-AAT-TCTAAAATACCTCAACCC
* * *
63389361 AAAACGATACGTTTTGGTTAAGATTTTTTGCGGCGCTTTGAATAATGCGCCGCTAGTGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * *
63389426 TTAGCGGCATTTATCCGTAAGCGCCACTAATTCTAATATACCTCAACTC
66 TTAGCGGCATTTATCCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
* *
63389475 AAAACGATGCGTTTCGGTTAAGATTTTTTGCGGCGCTTTGTATGATGCGCCGCTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * * * *
63389540 TTAGCGGCTTTTTTACTGAAGCGCCACTAATTCTAAAATACATCAACCC
66 TTAGCGGCATTTATCCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
* * * *
63389589 AGAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATGATGCGCCGCTAATGGTCTACT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * *
63389654 TTAGCGGCGTTTTTACTTAAGCGCCACTAATTCTAAAATACCTCAACCC
66 TTAGCGGCATTTATCCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
* * * * *
63389703 AGAACGATGCGTTTTGGTTATGATTTTTTGCGGCGCTCTGTATAATACGCCACTAATGGTGTGCT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
* * *
63389768 TTAGCGGCATTTATCCATAAGCGCCGCTAATTCTAATATACCTCAACCC
66 TTAGCGGCATTTATCCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
* * *
63389817 AAAACGATGCGTTTCGGTTAAGATTTTTTGCGGCGCTTTGTATGATGCGCCGCTAATGGTGTACT
1 AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
*
63389882 TTAGCGGCATTT-TGCCTTAAGCGCCACTAATTCTAAAATACCTCAATCC
66 TTAGCGGCATTTAT-CCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
* * *
63389931 AGAATGAT-CTGTTTTGGTTAAGA-TTTTTGCGGCGCTTTGTATAATGTGCCGCTAATGGTGTGC
1 AAAACGATGC-GTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGC
63389994 TTTAGCGGC
65 TTTAGCGGC
63390003 GTTTGTCGAA
Statistics
Matches: 680, Mismatches: 72, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
113 92 0.14
114 476 0.70
115 8 0.01
116 104 0.15
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (114 bp):
AAAACGATGCGTTTTGGTTAAGATTTTTTGCGGCGCTTTGTATAATGCGCCGCTAATGGTGTGCT
TTAGCGGCATTTATCCTTAAGCGCCACTAATTCTAAAATACCTCAACCC
Found at i:63390228 original size:13 final size:13
Alignment explanation
Indices: 63390210--63390234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63390200 CATTCAAATC
63390210 TAAAATCTTATTA
1 TAAAATCTTATTA
63390223 TAAAATCTTATT
1 TAAAATCTTATT
63390235 TATTATAAAT
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAATCTTATTA
Found at i:63392797 original size:50 final size:50
Alignment explanation
Indices: 63392707--63392814 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 50
63392697 TATTTTAGAA
* * * * * *
63392707 TATTGACTATACTTTTAACTCCACAAGAAGGGCTAAGACTATCAATTGTC
1 TATTGACTACACTTTTAACTCAACAAAAAAGACTAAGACTATCAATGGTC
*
63392757 TATTGACTACAC-TTTAACTCAACAAAAAAAGACTAGGACTATCAATGGTC
1 TATTGACTACACTTTTAACTCAAC-AAAAAAGACTAAGACTATCAATGGTC
63392807 TATTGACT
1 TATTGACT
63392815 TCACACTTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 10 0.20
50 40 0.80
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (50 bp):
TATTGACTACACTTTTAACTCAACAAAAAAGACTAAGACTATCAATGGTC
Found at i:63396189 original size:23 final size:23
Alignment explanation
Indices: 63396149--63396204 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
63396139 TTTTTCATGT
63396149 TTGAAGTGTTAAAGTGTTGCAAA
1 TTGAAGTGTTAAAGTGTTGCAAA
* *
63396172 TTGAAGTATTTAAA-TGTTGTAAA
1 TTGAAGT-GTTAAAGTGTTGCAAA
63396195 TTGAAGTGTT
1 TTGAAGTGTT
63396205 TTATTGCTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.07
23 22 0.76
24 5 0.17
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.41
Consensus pattern (23 bp):
TTGAAGTGTTAAAGTGTTGCAAA
Found at i:63396218 original size:23 final size:23
Alignment explanation
Indices: 63396169--63396220 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
63396159 AAAGTGTTGC
* *
63396169 AAATTGAAGTATTTAAATGTTGT
1 AAATTGAAGTATTTAAATGCTGG
* * *
63396192 AAATTGAAGTGTTTTATTGCTGG
1 AAATTGAAGTATTTAAATGCTGG
63396215 AAATTG
1 AAATTG
63396221 GATGGTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (23 bp):
AAATTGAAGTATTTAAATGCTGG
Found at i:63396557 original size:57 final size:58
Alignment explanation
Indices: 63396494--63396627 Score: 166
Period size: 58 Copynumber: 2.3 Consensus size: 58
63396484 AAATTCATAT
*
63396494 AATAATTATATTAAGAATTTTATT-AATTATATATTA-TTTTATTAAATTATATTTAAC
1 AATAATTATATTAA-AATTTGATTAAATTATATATTATTTTTATTAAATTATATTTAAC
* * * * * *
63396551 AATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTAAT
1 AATAATTATATTAAAATTTGATTAAATTATATATTATTTTTATTAAATTATATTTAAC
63396609 AATAATCT-TATTAAAATTT
1 AATAAT-TATATTAAAATTT
63396628 AATAACAATA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
56 6 0.09
57 24 0.37
58 34 0.52
59 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (58 bp):
AATAATTATATTAAAATTTGATTAAATTATATATTATTTTTATTAAATTATATTTAAC
Found at i:63396814 original size:16 final size:16
Alignment explanation
Indices: 63396793--63396831 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
63396783 TGAATTACAA
*
63396793 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
63396809 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
63396825 ATTACAG
1 ATTACAG
63396832 TGAACTAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.08, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:63399672 original size:18 final size:18
Alignment explanation
Indices: 63399651--63399689 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
63399641 GATTGCGAGT
* *
63399651 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
63399669 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
63399687 GAA
1 GAA
63399690 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:63402931 original size:40 final size:40
Alignment explanation
Indices: 63402843--63402972 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 40
63402833 GGCGCTTGGA
* * * *
63402843 TAAAAAACGCCGCTAAAAATCAAGCACTAGCAGCGCTTT-
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTC
* ** *
63402882 GAAACAAACGCCGCTAAGGATCGAGTATTAGCGGCGTTTTC
1 TAAA-AAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTC
* *
63402923 TAAAAAACGTCGCTAAAAAT-GAGCATTAGCGCCGTTTTC
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTC
* *
63402962 CAAAAAGCGCC
1 TAAAAAACGCC
63402973 ACAAAAAACC
Statistics
Matches: 72, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 28 0.39
40 41 0.57
41 3 0.04
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (40 bp):
TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGTTTTC
Found at i:63409051 original size:14 final size:14
Alignment explanation
Indices: 63409030--63409063 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
63409020 TGGTATGGGT
63409030 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
63409043 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
63409057 TTATAGG
1 TTATAGG
63409064 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:63409921 original size:43 final size:43
Alignment explanation
Indices: 63409825--63410007 Score: 246
Period size: 42 Copynumber: 4.3 Consensus size: 43
63409815 AGGTTATGTT
* * ** *
63409825 TTTAGCGGCGTTTTTG-TGAGAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGAT-AAAAGCGCCGCTAAAGGTCAAGATC
*
63409867 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAACGTCAAGATC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCAAGATC
63409910 TTTAGCGGCGTTTGTGAT-AAAGCGCCGCTAAAGGTCAAGATC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCAAGATC
* * * *
63409952 TTTAGTGGCGTTTGTGATAAAAGCACCGCTAAAAGTCATGATC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCAAGATC
63409995 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
63410008 TTTCACATAA
Statistics
Matches: 126, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
42 71 0.56
43 55 0.44
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCAAGATC
Found at i:63409968 original size:85 final size:83
Alignment explanation
Indices: 63409825--63410007 Score: 258
Period size: 85 Copynumber: 2.2 Consensus size: 83
63409815 AGGTTATGTT
* ** *
63409825 TTTAGCGGCGTTTTTGTGAGAAGCGCCGCTAAAGGTTTGTTCTTTAGCGGCGTTTGTGATAAAAG
1 TTTAGCGGCG--TTTGTGAAAAGCGCCGCTAAAGGTAAGATCTTTAGCGGCGTTTGTGATAAAAG
* *
63409890 CGCCGCTAAACGTCAAGATC
64 CACCGCTAAAAGTCAAGATC
*
63409910 TTTAGCGGCGTTTGTGATAAAGCGCCGCTAAAGGTCAAGATCTTTAGTGGCGTTTGTGATAAAAG
1 TTTAGCGGCGTTTGTGA-AAAGCGCCGCTAAAGGT-AAGATCTTTAGCGGCGTTTGTGATAAAAG
*
63409975 CACCGCTAAAAGTCATGATC
64 CACCGCTAAAAGTCAAGATC
63409995 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
63410008 TTTCACATAA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
83 7 0.08
84 16 0.18
85 65 0.74
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (83 bp):
TTTAGCGGCGTTTGTGAAAAGCGCCGCTAAAGGTAAGATCTTTAGCGGCGTTTGTGATAAAAGCA
CCGCTAAAAGTCAAGATC
Found at i:63413247 original size:21 final size:21
Alignment explanation
Indices: 63413222--63413264 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
63413212 TTCTGCGACA
63413222 AGTCTAAATGAGTGAGTTGCG
1 AGTCTAAATGAGTGAGTTGCG
63413243 AGTCTAAATGAGTGAGTTGCG
1 AGTCTAAATGAGTGAGTTGCG
63413264 A
1 A
63413265 TAGTTTTCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.33, T:0.28
Consensus pattern (21 bp):
AGTCTAAATGAGTGAGTTGCG
Found at i:63413276 original size:93 final size:93
Alignment explanation
Indices: 63413150--63413334 Score: 307
Period size: 93 Copynumber: 2.0 Consensus size: 93
63413140 TTCTGCGACA
63413150 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCACTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCACTCAATTGGTTC
*
63413215 TGCGACAAGTCTAAATGAGTGAGTTGCG
66 TGCGACAAGTCTAAATGAGTAAGTTGCG
* * * * *
63413243 AGTCTAAATGAGTGAGTTGCGATAGTTTTCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCACTCAATTGGTTC
*
63413308 TGTGACAAGTCTAAATGAGTAAGTTGC
66 TGCGACAAGTCTAAATGAGTAAGTTGC
63413335 AAGAGGTTCC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 85 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (93 bp):
AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTGGTCCACTCAATTGGTTC
TGCGACAAGTCTAAATGAGTAAGTTGCG
Found at i:63413360 original size:72 final size:72
Alignment explanation
Indices: 63413243--63413503 Score: 423
Period size: 72 Copynumber: 3.6 Consensus size: 72
63413233 GTGAGTTGCG
* * * *
63413243 AGTCTAAATGAGTGAGTTGCGATAGTTTTCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
*
63413308 TGTGACA
66 TGCGACA
*
63413315 AGTCTAAATGAGTAAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
*
63413380 AGCGACA
66 TGCGACA
*
63413387 AGTCTAAATGAGTGAGTTGCAAAAGGTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
1 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
63413452 TGCGACA
66 TGCGACA
* * *
63413459 AGTCTAAACGAGTGAGTTGCAAGAGGTTTCCCAGTGATCTTGGAA
1 AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAA
63413504 CCGGTCCTAA
Statistics
Matches: 175, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 175 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (72 bp):
AGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCAATGATCTTGGAATTTGTCCACTCAATTGGTTC
TGCGACA
Found at i:63420896 original size:44 final size:47
Alignment explanation
Indices: 63420833--63420939 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 47
63420823 TAAAGTCTTG
*
63420833 TTTATTTAATTATT-TTTAGATCTA-A-TATTTTAAAT-AA-ATAAATA
1 TTTATTTTATT-TTATTTAGATCTAGAGT-TTTTAAATAAATATAAATA
*
63420877 TTTATTTTATTTTATTTAGATCTAGAGTTTTTACATAAATATAAATA
1 TTTATTTTATTTTATTTAGATCTAGAGTTTTTAAATAAATATAAATA
* *
63420924 TTT-GTTTATATTATTT
1 TTTATTTTATTTTATTT
63420940 GTTCAAATCT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
43 2 0.04
44 20 0.37
45 8 0.15
46 14 0.26
47 10 0.19
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (47 bp):
TTTATTTTATTTTATTTAGATCTAGAGTTTTTAAATAAATATAAATA
Found at i:63420938 original size:46 final size:44
Alignment explanation
Indices: 63420843--63420939 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 44
63420833 TTTATTTAAT
*
63420843 TATT-TTTAGATCTAATATTTTAAATAAATAAATATTTATTTTA
1 TATTATTTAGATCTAATATTTTAAATAAATAAATATTTAGTTTA
* *
63420886 TTTTATTTAGATCTAGAGT-TTTTACATAAATATAAATATTT-GTTTA
1 TATTATTTAGATCTA-A-TATTTTAAAT-AA-ATAAATATTTAGTTTA
63420932 TATTATTT
1 TATTATTT
63420940 GTTCAAATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
43 3 0.07
44 10 0.22
45 8 0.18
46 14 0.31
47 10 0.22
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (44 bp):
TATTATTTAGATCTAATATTTTAAATAAATAAATATTTAGTTTA
Found at i:63423253 original size:21 final size:22
Alignment explanation
Indices: 63423227--63423272 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
63423217 TGTTACAAAA
63423227 AAGAATGAAGTT-T-AATTTTTG
1 AAGAAT-AAGTTATGAATTTTTG
*
63423248 AAGAATAAGTTATGGATTTTTG
1 AAGAATAAGTTATGAATTTTTG
63423270 AAG
1 AAG
63423273 GAAGAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 7 0.32
22 10 0.45
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (22 bp):
AAGAATAAGTTATGAATTTTTG
Found at i:63426458 original size:72 final size:72
Alignment explanation
Indices: 63426382--63426674 Score: 462
Period size: 72 Copynumber: 4.1 Consensus size: 72
63426372 GAATTGACAA
* * ** *
63426382 TGGAATTTGTCCACTCAATTTGTTGTGTGACAAGTCTAAATAAGTGAGTTGCGAA-AGGTTCCCC
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATGAGTGAGTTGC-AAGAGGTTCCCC
63426446 AATGATCT
65 AATGATCT
63426454 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63426519 ATGATCC
66 ATGATCT
* * *
63426526 TGGAATTTTTCCACTCAATTGGTTCTGCGACAAGTCTAAATGAGTGAGTTGCAAAAGGTTCCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
63426591 ATGATCT
66 ATGATCT
* *
63426598 TGGAATTTGTCCACTCAATTGGTTCAGCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTTCCCA
1 TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
*
63426663 GTGATCT
66 ATGATCT
63426670 TGGAA
1 TGGAA
63426675 CCGGTCCTGA
Statistics
Matches: 204, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
71 2 0.01
72 202 0.99
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (72 bp):
TGGAATTTGTCCACTCAATTGGTTCTGCCACAAGTCTAAATGAGTGAGTTGCAAGAGGTTCCCCA
ATGATCT
Found at i:63430145 original size:17 final size:17
Alignment explanation
Indices: 63430120--63430152 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63430110 TGTGTATTGT
*
63430120 ATTGCTTATTTGTATTA
1 ATTGATTATTTGTATTA
63430137 ATTGATTATTTGTATT
1 ATTGATTATTTGTATT
63430153 CATTAGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGATTATTTGTATTA
Found at i:63430562 original size:42 final size:42
Alignment explanation
Indices: 63430456--63430849 Score: 521
Period size: 42 Copynumber: 9.4 Consensus size: 42
63430446 ACGTCGCTAA
* * *
63430456 CTTTTGCGGCGCTTACATAAAAAACGCCGCTAAAGATCATCTT
1 CTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGATCATGTT
*
63430499 CTTTAGCGGCGCTTAGAAAAAAAACGCCGCTAACGATCATGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGATCATGTT
63430542 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
63430584 CTTTAGCGGCGCTTTGAAAAAAA-GCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
63430625 CTTTAGCGGCGCTTAGAAAAAAA-GCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* *
63430666 GTTTAGCGGCGCTTAGAAACAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
63430708 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
63430750 CTTTAGCGGCGCTTCGGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTT-AGAAAAAAACGCCGCTAAAGA-TCATGTT
* **
63430793 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
*
63430835 CTTTAGTGGCGCTTA
1 CTTTAGCGGCGCTTA
63430850 TTTCACAAAC
Statistics
Matches: 318, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
41 80 0.25
42 150 0.47
43 87 0.27
44 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:63430578 original size:85 final size:84
Alignment explanation
Indices: 63430456--63430849 Score: 521
Period size: 85 Copynumber: 4.7 Consensus size: 84
63430446 ACGTCGCTAA
* * *
63430456 CTTTTGCGGCGCTTACATAAAAAACGCCGCTAAAGATCATCTTCTTTAGCGGCGCTTAGAAAAAA
1 CTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AAAAA
*
63430521 AACGCCGCTAACGATCATGTT
64 AACGCCGCTAAAGATCATGTT
*
63430542 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTGAAAAAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAA
*
63430607 -GCCCCTAAAGATCATGTT
66 CGCCGCTAAAGATCATGTT
* * *
63430625 CTTTAGCGGCGCTTAGAAAAAAA-GCCCCTAAAGATCATGTTGTTTAGCGGCGCTTAGAAACAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAA
63430689 CGCCGCTAAAGATCATGTT
66 CGCCGCTAAAGATCATGTT
* * *
63430708 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTCGGAAGAAA
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAAAAAA
* *
63430773 ACGCCTCTAAA-AGTAATGTT
65 ACGCCGCTAAAGA-TCATGTT
* ** *
63430793 CTATAGCGGCGCTT-GTTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGTGGCGCTTA
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
63430850 TTTCACAAAC
Statistics
Matches: 277, Mismatches: 24, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
82 37 0.13
83 78 0.28
84 41 0.15
85 106 0.38
86 15 0.05
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (84 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAA
CGCCGCTAAAGATCATGTT
Found at i:63431306 original size:21 final size:21
Alignment explanation
Indices: 63431264--63431307 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
63431254 GCTTCTATTG
* **
63431264 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCCCTCGCTGCCACCT
63431285 CTGCTTCCCTCGCTGCCACCT
1 CTGCTTCCCTCGCTGCCACCT
63431306 CT
1 CT
63431308 ACTTTAAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.48, G:0.18, T:0.32
Consensus pattern (21 bp):
CTGCTTCCCTCGCTGCCACCT
Found at i:63436788 original size:9 final size:9
Alignment explanation
Indices: 63436774--63437036 Score: 179
Period size: 9 Copynumber: 30.0 Consensus size: 9
63436764 TTTTTATGTA
63436774 TTATGTAAG
1 TTATGTAAG
63436783 TTATGTAAG
1 TTATGTAAG
*
63436792 TTCTGT-A-
1 TTATGTAAG
63436799 TTATGT-A-
1 TTATGTAAG
*
63436806 TTATGTATG
1 TTATGTAAG
**
63436815 CCCCATGTAAG
1 --TTATGTAAG
* *
63436826 TAATTTAAG
1 TTATGTAAG
*
63436835 CTATGTAAG
1 TTATGTAAG
*
63436844 TAATGT-A-
1 TTATGTAAG
63436851 TTATGTAAG
1 TTATGTAAG
63436860 TTGA-GT-A-
1 TT-ATGTAAG
* **
63436867 CTACATAA-
1 TTATGTAAG
*
63436875 TTATGTGAG
1 TTATGTAAG
*
63436884 TTGTGTAAG
1 TTATGTAAG
* *
63436893 TTATTTAAT
1 TTATGTAAG
*
63436902 TTACT-TAAT
1 TTA-TGTAAG
63436911 TTATGTAAG
1 TTATGTAAG
63436920 TTATGTAAG
1 TTATGTAAG
* * *
63436929 ATATTTAAT
1 TTATGTAAG
63436938 TTATGTAAG
1 TTATGTAAG
63436947 TTATGTAAG
1 TTATGTAAG
* *
63436956 ATATTTAAG
1 TTATGTAAG
63436965 TTATGTAAG
1 TTATGTAAG
63436974 TTATGTAAG
1 TTATGTAAG
* *
63436983 TTATTTAAT
1 TTATGTAAG
63436992 TTATGTAAG
1 TTATGTAAG
63437001 TTATGTAAG
1 TTATGTAAG
* * *
63437010 ATATTTAAT
1 TTATGTAAG
63437019 TTATGTAAG
1 TTATGTAAG
63437028 TTATGTAAG
1 TTATGTAAG
63437037 ACATTTAATT
Statistics
Matches: 195, Mismatches: 47, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
6 1 0.01
7 19 0.10
8 10 0.05
9 157 0.81
10 2 0.01
11 6 0.03
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:63436918 original size:27 final size:27
Alignment explanation
Indices: 63436887--63437048 Score: 261
Period size: 27 Copynumber: 6.0 Consensus size: 27
63436877 ATGTGAGTTG
* ** *
63436887 TGTAAGTTATTTAATTTACTTAATTTA
1 TGTAAGTTATGTAAGATATTTAATTTA
63436914 TGTAAGTTATGTAAGATATTTAATTTA
1 TGTAAGTTATGTAAGATATTTAATTTA
*
63436941 TGTAAGTTATGTAAGATATTTAAGTTA
1 TGTAAGTTATGTAAGATATTTAATTTA
*
63436968 TGTAAGTTATGTAAGTTATTTAATTTA
1 TGTAAGTTATGTAAGATATTTAATTTA
63436995 TGTAAGTTATGTAAGATATTTAATTTA
1 TGTAAGTTATGTAAGATATTTAATTTA
*
63437022 TGTAAGTTATGTAAGACATTTAATTTA
1 TGTAAGTTATGTAAGATATTTAATTTA
63437049 AATGTCATAA
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (27 bp):
TGTAAGTTATGTAAGATATTTAATTTA
Found at i:63437279 original size:23 final size:24
Alignment explanation
Indices: 63437239--63437299 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
63437229 ATATTAATTT
*
63437239 TAAA-AAATTAATAAAATTTAAGG
1 TAAATAAATTAATAAAATTCAAGG
*
63437262 TAAATAAATT-ATATAATTCAAGG
1 TAAATAAATTAATAAAATTCAAGG
63437285 TAAATAAAATTAATA
1 TAAAT-AAATTAATA
63437300 TTGGAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 20 0.61
24 10 0.30
25 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (24 bp):
TAAATAAATTAATAAAATTCAAGG
Found at i:63437294 original size:28 final size:31
Alignment explanation
Indices: 63437263--63437328 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 31
63437253 AATTTAAGGT
63437263 AAATAA-ATT-ATA-TAATTCAAGGTAAATA
1 AAATAATATTGATATTAATTCAAGGTAAATA
63437291 AAATTAATATTGGAATATTAATTCAAGGTAAATA
1 AAA-TAATATT-G-ATATTAATTCAAGGTAAATA
63437325 AAAT
1 AAAT
63437329 TTTATTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
28 3 0.09
29 3 0.09
30 3 0.09
33 4 0.12
34 19 0.59
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (31 bp):
AAATAATATTGATATTAATTCAAGGTAAATA
Found at i:63437318 original size:34 final size:33
Alignment explanation
Indices: 63437275--63437478 Score: 203
Period size: 34 Copynumber: 5.8 Consensus size: 33
63437265 ATAAATTATA
63437275 TAATTCAAGGTAAATAAAATTAATATTGGAATAT
1 TAATTCAAGGTAAATAAAATTAATATT-GAATAT
*
63437309 TAATTCAAGGTAAATAAAATTTTATTAATTATATAAATTAT
1 TAATTCAAGGTAAAT-AAA----ATTAA-TAT-TGAA-TAT
* *
63437350 ATAAATTTAAGGTAAATAAAATTAATATCAGAATAT
1 -T-AATTCAAGGTAAATAAAATTAATAT-TGAATAT
*
63437386 TAATTCAAGGTAAATAAAATTAATAAATT-TATAT
1 TAATTCAAGGTAAATAAAATTAAT--ATTGAATAT
* * *
63437420 AAATTTAAGGTAAATAAAATTAATATCGGAATAT
1 TAATTCAAGGTAAATAAAATTAATAT-TGAATAT
63437454 TAATTCAAGGTAAATAAAATTAATA
1 TAATTCAAGGTAAATAAAATTAATA
63437479 AAATTATATA
Statistics
Matches: 142, Mismatches: 14, Indels: 28
0.77 0.08 0.15
Matches are distributed among these distances:
32 2 0.01
34 90 0.63
35 4 0.03
36 5 0.04
37 5 0.04
38 5 0.04
39 5 0.04
40 5 0.04
41 4 0.03
42 4 0.03
43 13 0.09
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.36
Consensus pattern (33 bp):
TAATTCAAGGTAAATAAAATTAATATTGAATAT
Found at i:63437384 original size:77 final size:75
Alignment explanation
Indices: 63437265--63437536 Score: 364
Period size: 68 Copynumber: 3.6 Consensus size: 75
63437255 TTTAAGGTAA
* *
63437265 ATAAATTATAT-AATTCAAGGTAAATAAAATTAATATTGGAATATTAATTCAAGGTAAATAAAAT
1 ATAAATTATATAAATTTAAGGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAA-
63437329 TTTATTAATTAT
65 -TTATTAATTAT
*
63437341 ATAAATTATATAAATTTAAGGTAAATAAAATTAATATCAGAATATTAATTCAAGGTAAAT-AAA-
1 ATAAATTATATAAATTTAAGGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAAT
63437404 -ATT-A--AT
66 TATTAATTAT
*
63437410 A-AATTTATATAAATTTAAGGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAAT
1 ATAAATTATATAAATTTAAGGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAAT
*
63437474 TAATAAAATTAT
66 T-AT-TAATTAT
63437486 ATAAATT-TAAGGTAAAATTTAAGGTAAATAAAATTAATATCGGAATATTAA
1 ATAAATTAT-A--T-AAATTTAAGGTAAATAAAATTAATATCGGAATATTAA
63437537 ACAAAAACCA
Statistics
Matches: 175, Mismatches: 7, Indels: 24
0.85 0.03 0.12
Matches are distributed among these distances:
68 56 0.32
69 6 0.03
71 1 0.01
72 5 0.03
74 1 0.01
76 18 0.10
77 50 0.29
79 1 0.01
80 37 0.21
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (75 bp):
ATAAATTATATAAATTTAAGGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAAT
TATTAATTAT
Found at i:63437498 original size:34 final size:34
Alignment explanation
Indices: 63437335--63437501 Score: 192
Period size: 34 Copynumber: 4.9 Consensus size: 34
63437325 AAATTTTATT
63437335 AATT-ATATAAATTATATAAATTTAAGGTAAATAA
1 AATTAATA-AAATTATATAAATTTAAGGTAAATAA
** ** * *
63437369 AATTAATATCAGAATATTAATTCAAGGTAAATAA
1 AATTAATAAAATTATATAAATTTAAGGTAAATAA
*
63437403 AATTAATAAATTTATATAAATTTAAGGTAAATAA
1 AATTAATAAAATTATATAAATTTAAGGTAAATAA
***** * *
63437437 AATTAATATCGGAATATTAATTCAAGGTAAATAA
1 AATTAATAAAATTATATAAATTTAAGGTAAATAA
63437471 AATTAATAAAATTATATAAATTTAAGGTAAA
1 AATTAATAAAATTATATAAATTTAAGGTAAA
63437502 ATTTAAGGTA
Statistics
Matches: 105, Mismatches: 27, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
34 102 0.97
35 3 0.03
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (34 bp):
AATTAATAAAATTATATAAATTTAAGGTAAATAA
Found at i:63437505 original size:12 final size:12
Alignment explanation
Indices: 63437488--63437513 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
63437478 AAAATTATAT
63437488 AAATTTAAGGTA
1 AAATTTAAGGTA
63437500 AAATTTAAGGTA
1 AAATTTAAGGTA
63437512 AA
1 AA
63437514 TAAAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (12 bp):
AAATTTAAGGTA
Found at i:63437562 original size:145 final size:141
Alignment explanation
Indices: 63437265--63437540 Score: 378
Period size: 145 Copynumber: 1.9 Consensus size: 141
63437255 TTTAAGGTAA
* *
63437265 ATAAATTATATAATTCAAGGTAAATAAAATTAATATTGGAATATTAATTCAAGGTAAATAAAATT
1 ATAATTTATATAATTCAAGGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAATT
* * *
63437330 TTATTAATTATATAAATTATATAAATTTAAGGTAAATAAAATTAATATCAGAATATTAATTCAAG
66 ATATAAATTATATAAATTATATAAATTTAAGGTAAATAAAATTAATATCAGAATATTAATACAA-
*
63437395 GTAAATAAAATT
130 GAAAATAAAATT
*
63437407 AATAAATTTATATAAATTTAAGGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAA
1 -AT-AATTTATAT-AATTCAAGGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAA
*
63437472 ATTA-ATAAAATTATATAAATT-TAAGGTAAAATTTAAGGTAAATAAAATTAATATCGGAATATT
63 ATTATAT-AAATTATATAAATTAT-A--T-AAATTTAAGGTAAATAAAATTAATATCAGAATATT
63437535 AA-ACAA
123 AATACAA
63437541 AAACCATTCA
Statistics
Matches: 119, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
143 2 0.02
144 11 0.09
145 66 0.55
147 4 0.03
148 36 0.30
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (141 bp):
ATAATTTATATAATTCAAGGTAAATAAAATTAATATCGGAATATTAATTCAAGGTAAATAAAATT
ATATAAATTATATAAATTATATAAATTTAAGGTAAATAAAATTAATATCAGAATATTAATACAAG
AAAATAAAATT
Found at i:63439860 original size:261 final size:261
Alignment explanation
Indices: 63439389--63440182 Score: 1333
Period size: 261 Copynumber: 3.0 Consensus size: 261
63439379 AGAGTAAAAA
*
63439389 CGCCACTAATAACACA-GACAAAACGGCATCGTCATAAGATAACATTAAACATTTTTGCGGCGCT
1 CGCCACTAATAACA-AGGACAAAACGGCATCGTTATAAGATAACATTAAACATTTTTGCGGCGCT
*
63439453 TCAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAATAAATATTT
65 TTAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAATAAATATTT
* *
63439518 GTGGCATTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCCTTACAGTTAA
130 GTGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCATTACAGTTAA
63439583 AGGAAATTTGTGGCGTTTCTTCGTAAAACACCGGTAATATATCACCTTTTGCGGCGATTTTCAAA
195 AGGAAATTTGTGGCGTTTCTTCGTAAAACACCGGTAATATATCACCTTTTGCGGCGATTTTCAAA
63439648 TG
260 TG
* *
63439650 CGCCACTAATATCAAGGACAAAACGGCACCGTTATAAGATAACATTAAACATTTTTGCGGCGCTT
1 CGCCACTAATAACAAGGACAAAACGGCATCGTTATAAGATAACATTAAACATTTTTGCGGCGCTT
*
63439715 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGATGCCGTTTCCTCAGCTCGTAATAAATATTTG
66 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAATAAATATTTG
63439780 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCATTACAGTTAAA
131 TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCATTACAGTTAAA
* * **
63439845 GGAAATTTATGGCGTTTCTCCGTAAAACACCGGTAATATATCACCTTTTGCGTTGATTTTCAAAT
196 GGAAATTTGTGGCGTTTCTTCGTAAAACACCGGTAATATATCACCTTTTGCGGCGATTTTCAAAT
63439910 G
261 G
*
63439911 CGCCACTAATAACAAGGACAAAATGGCATCGTTATAAGATAACATTAAACATTTTTGCGGCGCTT
1 CGCCACTAATAACAAGGACAAAACGGCATCGTTATAAGATAACATTAAACATTTTTGCGGCGCTT
* ***
63439976 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTGATTTGTGAATT
66 TAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAATAAAT--ATT
* *
63440041 TGTGGCGTTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTA
129 TGTGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCATTACAGTTA
* * *
63440106 AAGGTAATTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCA-CTTTTAGCGGC-ATTTTTT
194 AAGGAAATTTGTGGCGTTTCTTCGTAAAACACCGGTAATATATCACCTTTT-GCGGCGA-TTTTC
63440169 AAATG
257 AAATG
63440174 CGCCACTAA
1 CGCCACTAA
63440183 AAGAAAACAA
Statistics
Matches: 500, Mismatches: 28, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
260 1 0.00
261 365 0.73
262 6 0.01
263 128 0.26
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (261 bp):
CGCCACTAATAACAAGGACAAAACGGCATCGTTATAAGATAACATTAAACATTTTTGCGGCGCTT
TAGCTAAAGCGCCACTAATAAAAATAGGAAACGACGCCGTTTCCTCAGCTCGTAATAAATATTTG
TGGCGTTTTTAAAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCATTACAGTTAAA
GGAAATTTGTGGCGTTTCTTCGTAAAACACCGGTAATATATCACCTTTTGCGGCGATTTTCAAAT
G
Found at i:63440250 original size:115 final size:116
Alignment explanation
Indices: 63440048--63440282 Score: 373
Period size: 115 Copynumber: 2.0 Consensus size: 116
63440038 ATTTGTGGCG
* *
63440048 TTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTTACAGTTAAAGGTAA
1 TTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTCACAGTTAAAGGAAA
* ** **
63440113 TTTGTGGCGTTTCTTCGTAAAACGCCGGTAATATATCACTTTTAGCGGCAT
66 TTTGCGGCGTTTCTTCACAAAACGCCGGTAATATATCACCATTAGCGGCAT
*
63440164 TTTTTA-AATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTTGTCACAGTTAAAGGAAA
1 TTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTCACAGTTAAAGGAAA
* *
63440228 TTTGCGGCGTTTCTTCACAAAACGCCGGTAATATATGACCATTAGCGGCGT
66 TTTGCGGCGTTTCTTCACAAAACGCCGGTAATATATCACCATTAGCGGCAT
63440279 TTTT
1 TTTT
63440283 CTGAAGCGCC
Statistics
Matches: 109, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
115 103 0.94
116 6 0.06
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (116 bp):
TTTTTATAATGCGCCACTAAAAGAAAACAACAAAACGGCACCGTCTTCGTCACAGTTAAAGGAAA
TTTGCGGCGTTTCTTCACAAAACGCCGGTAATATATCACCATTAGCGGCAT
Found at i:63440802 original size:20 final size:20
Alignment explanation
Indices: 63440738--63440810 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
63440728 ATATATACCA
*
63440738 TAAACCTTAAATCTTAAATCC
1 TAAACC-TAAATCTTAAACCC
* * *
63440759 TAAACCCCAAATCTAAAACTC
1 TAAA-CCTAAATCTTAAACCC
63440780 TAAACTCTAAA-CTTAAACCC
1 TAAAC-CTAAATCTTAAACCC
63440800 TAAACCATAAA
1 TAAACC-TAAA
63440811 CCTAAACCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.02
20 17 0.40
21 22 0.52
22 2 0.05
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAACCTAAATCTTAAACCC
Found at i:63440818 original size:13 final size:13
Alignment explanation
Indices: 63440734--63440821 Score: 54
Period size: 14 Copynumber: 6.5 Consensus size: 13
63440724 CAATATATAT
63440734 ACCATAAACCTTAA
1 ACCATAAACC-TAA
* *
63440748 ATCTTAAATCCTAA
1 ACCATAAA-CCTAA
** *
63440762 ACCCCAAATCTAAA
1 ACCATAAACCT-AA
63440776 ACTC-TAAACTCTAA
1 AC-CATAAAC-CTAA
*
63440790 A-CTTAAACCCTAA
1 ACCATAAA-CCTAA
63440803 ACCATAAACCTAA
1 ACCATAAACCTAA
63440816 ACCATA
1 ACCATA
63440822 TTTTTGGGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
12 1 0.02
13 22 0.38
14 30 0.52
15 5 0.09
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.23
Consensus pattern (13 bp):
ACCATAAACCTAA
Done.